mspire 0.2.4 → 0.3.0

data/test_files/toppred.small.out

@@ -0,0 +1,416 @@
+Algorithm specific parameters: 
+
+Full window size : 21
+Core window size : 11
+Wedge window size: 5
+Using hydrophobicity file: GES-scale
+
+Cutoff for certain transmembrane segments: 1.00
+Cutoff for putative transmembrane segments: 0.60
+Critical distance between 2 transmembrane segments: 2
+
+Critical loop length:  60
+
+Kingdom: eucaryote
+
+Using cyt/ext file: CYTEXT-scale
+
+
+Sequence : YAL001C  (1160 res)
+MVLTIYPDELVQIVSDKIASNKGKITLNQLWDISGKYFDLSDKKVKQFVLSCVILKKDIE
+VYCDGAITTKNVTDIIGDANHSYSVGITEDSLWTLLTGYTKKESTIGNSAFELLLEVAKS
+GEKGINTMDLAQVTGQDPRSVTGRIKKINHLLTSSQLIYKGHVVKQLKLKKFSHDGVDSN
+PYINIRDHLATIVEVVKRSKNGIRQIIDLKRELKFDKEKRLSKAFIAAIAWLDEKEYLKK
+VLVVSPKNPAIKIRCVKYVKDIPDSKGSPSFEYDSNSADEDSVSDSKAAFEDEDLVEGLD
+NFNATDLLQNQGLVMEEKEDAVKNEVLLNRFYPLQNQTYDIADKSGLKGISTMDVVNRIT
+GKEFQRAFTKSSEYYLESVDKQKENTGGYRLFRIYDFEGKKKFFRLFTAQNFQKLTNAED
+EISVPKGFDELGKSRTDLKTLNEDNFVALNNTVRFTTDSDGQDIFFWHGELKIPPNSKKT
+PNKNKRKRQVKNSTNASVAGNISNPKRIKLEQHVSTAQEPKSAEDSPSSNGGTVVKGKVV
+NFGGFSARSLRSLQRQRAILKVMNTIGGVAYLREQFYESVSKYMGSTTTLDKKTVRGDVD
+LMVESEKLGARTEPVSGRKIIFLPTVGEDAIQRYILKEKDSKKATFTDVIHDTEIYFFDQ
+TEKNRFHRGKKSVERIRKFQNRQKNAKIKASDDAISKKSTSVNVSDGKIKRRDKKVSAGR
+TTVVVENTKEDKTVYHAGTKDGVQALIRAVVVTKSIKNEIMWDKITKLFPNNSLDNLKKK
+WTARRVRMGHSGWRAYVDKWKKMLVLAIKSEKISLRDVEELDLIKLLDIWTSFDEKEIKR
+PLFLYKNYEENRKKFTLVRDDTLTHSGNDLAMSSMIQREISSLKKTYTRKISASTKDLSK
+SQSDDYIRTVIRSILIESPSTTRNEIEALKNVGNESIDNVIMDMAKEKQIYLHGSKLECT
+DTLPDILENRGNYKDFGVAFQYRCKVNELLEAGNAIVINQEPSDISSWVLIDLISGELLN
+MDVIPMVRNVRPLTYTSRRFEIRTLTPPLIIYANSQTKLNTARKSAVKVPLGKPFSRLWV
+NGSGSIRPNIWKQVVTMVVNEIIFHPGITLSRLQSRCREVLSLHEISEICKWLLERQVLI
+TTDFDGYWVNHNWYSIYEST
+
+Found: 0 segments
+
+
+Sequence : YAL002W  (1274 res)
+MEQNGLDHDSRSSIDTTINDTQKTFLEFRSYTQLSEKLASSSSYTAPPLNEDGPKGVASA
+VSQGSESVVSWTTLTHVYSILGAYGGPTCLYPTATYFLMGTSKGCVLIFNYNEHLQTILV
+PTLSEDPSIHSIRSPVKSIVICSDGTHVAASYETGNICIWNLNVGYRVKPTSEPTNGMTP
+TPALPAVLHIDDHVNKEITGLDFFGARHTALIVSDRTGKVSLYNGYRRGFWQLVYNSKKI
+LDVNSSKEKLIRSKLSPLISREKISTNLLSVLTTTHFALILLSPHVSLMFQETVEPSVQN
+SLVVNSSISWTQNCSRVAYSVNNKISVISISSSDFNVQSASHSPEFAESILSIQWIDQLL
+LGVLTISHQFLVLHPQHDFKILLRLDFLIHDLMIPPNKYFVISRRSFYLLTNYSFKIGKF
+VSWSDITLRHILKGDYLGALEFIESLLQPYCPLANLLKLDNNTEERTKQLMEPFYNLSLA
+ALRFLIKKDNADYNRVYQLLMVVVRVLQQSSKKLDSIPSLDVFLEQGLEFFELKDNAVYF
+EVVANIVAQGSVTSISPVLFRSIIDYYAKEENLKVIEDLIIMLNPTTLDVDLAVKLCQKY
+NLFDLLIYIWNKIFDDYQTPVVDLIYRISNQSEKCVIFNGPQVPPETTIFDYVTYILTGR
+QYPQNLSISPSDKCSKIQRELSAFIFSGFSIKWPSNSNHKLYICENPEEEPAFPYFHLLL
+KSNPSRFLAMLNEVFEASLFNDDNDMVASVGEAELVSRQYVIDLLLDAMKDTGNSDNIRV
+LVAIFIATSISKYPQFIKVSNQALDCVVNTICSSRVQGIYEISQIALESLLPYYHSRTTE
+NFILELKEKNFNKVLFHIYKSENKYASALSLILETKDIEKEYNTDIVSITDYILKKCPPG
+SLECGKVTEVIETNFDLLLSRIGIEKCVTIFSDFDYNLHQEILEVKNEETQQKYLDKLFS
+TPNINNKVDKRLRNLHIELNCKYKSKREMILWLNGTVLSNAESLQILDLLNQDSNFEAAA
+IIHERLESFNLAVRDLLSFIEQCLNEGKTNISTLLESLRRAFDDCNSAGTEKKSCWILLI
+TFLITLYGKYPSHDERKDLCNKLLQEAFLGLVRSKSSSQKDSGGEFWEIMSSVLEHQDVI
+LMKVQDLKQLLLNVFNTYKLERSLSELIQKIIEDSSQDLVQQYRKFLSEGWSIHTDDCEI
+CGKKIWGAGLDPLLFLAWENVQRHQDMISVDLKTPLVIFKCHHGFHQTCLENLAQKPDEY
+SCLICQTESNPKIV
+
+Found: 5 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1    82 - 102   1.209 Certain
+     2   266 - 286   1.527 Certain
+     3   356 - 376   0.930 Putative
+     4   540 - 560   0.810 Putative
+     5  1072 - 1092  1.210 Certain
+
+Total of 4 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00         0.00     0.67      0.00     0.33
+TOPOLOGY                                      ?    N-out         ?
+    LOOP      1     81     81           (  5.00)    0.91
+TRANSMEM     82    102     21 1.00 1.21
+    LOOP    103    265    163           ( 19.00)    1.05
+TRANSMEM    266    286     21 1.00 1.53
+    LOOP    287   1071    785           ( 75.00)    0.50
+TRANSMEM   1072   1092     21 1.00 1.21
+    LOOP   1093   1274    182           ( 21.00)   -0.31
+//
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   2                  0.83         0.00     0.57      0.00     0.33
+TOPOLOGY                                      ?    N-out         ?
+    LOOP      1     81     81           (  5.00)    0.91
+TRANSMEM     82    102     21 1.00 1.21
+    LOOP    103    265    163           ( 19.00)    1.05
+TRANSMEM    266    286     21 1.00 1.53
+    LOOP    287    355     69           (  2.00)    1.31
+TRANSMEM    356    376     21 0.83 0.93
+    LOOP    377   1071    695           ( 73.00)    0.29
+TRANSMEM   1072   1092     21 1.00 1.21
+    LOOP   1093   1274    182           ( 21.00)   -0.31
+//
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   3                  0.53         0.00     0.31      0.00     0.33
+TOPOLOGY                                      ?    N-out         ?
+    LOOP      1     81     81           (  5.00)    0.91
+TRANSMEM     82    102     21 1.00 1.21
+    LOOP    103    265    163           ( 19.00)    1.05
+TRANSMEM    266    286     21 1.00 1.53
+    LOOP    287    539    253           ( 22.00)    0.88
+TRANSMEM    540    560     21 0.53 0.81
+    LOOP    561   1071    511           ( 53.00)    0.12
+TRANSMEM   1072   1092     21 1.00 1.21
+    LOOP   1093   1274    182           ( 21.00)   -0.31
+//
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   4                  0.53         0.00     1.30      0.00     0.33
+TOPOLOGY                                      ?    N-out         ?
+    LOOP      1     81     81           (  5.00)    0.91
+TRANSMEM     82    102     21 1.00 1.21
+    LOOP    103    265    163           ( 19.00)    1.05
+TRANSMEM    266    286     21 1.00 1.53
+    LOOP    287    355     69           (  2.00)    1.31
+TRANSMEM    356    376     21 0.83 0.93
+    LOOP    377    539    163           ( 20.00)    0.29
+TRANSMEM    540    560     21 0.53 0.81
+    LOOP    561   1071    511           ( 53.00)    0.12
+TRANSMEM   1072   1092     21 1.00 1.21
+    LOOP   1093   1274    182           ( 21.00)   -0.31
+//
+
+Sequence : YAL003W  (206 res)
+MASTDFSKIETLKQLNASLADKSYIEGTAVSQADVTVFKAFQSAYPEFSRWFNHIASKAD
+EFDSFPAASAAAAEEEEDDDVDLFGSDDEEADAEAEKLKAERIAAYNAKKAAKPAKPAAK
+SIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDKVS
+LDDLQQSIEEDEDHVQSTDIAAMQKL
+
+Found: 0 segments
+
+
+Sequence : YAL004W  (215 res)
+MGVTSGGLNFKDTVFNEQQRDIESTTTQVENQDVFFLTLLVQTVSNGSGGRFVNNTQDIQ
+TSNGTSILGSLSLRIVEVSWDSDDSVIDLGSQVRFGSFLHLTQDHGGDLFWGKVLGFTLK
+FNLNLRLTVNIDQLEWEVLHVSLHFWVVEVSTDQTLSVENGIRRIHSSLILSSITNQSFS
+VSESDKRWSGSVTLIVGNNVHTIISKVSNTRVCCT
+
+Found: 1 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1    32 - 52    0.624 Putative
+
+Total of 2 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  0.06         3.00    -0.90     -4.00     0.43
+TOPOLOGY                                   N-in     N-in     N-out
+CYT_LOOP      1     31     31              2.00  (  0.28)
+TRANSMEM     32     52     21 0.06 0.62
+EXT_LOOP     53    215    163           ( 12.00)    0.90
+//
+
+Sequence : YAL005C  (642 res)
+MSKAVGIDLGTTYSCVAHFANDRVDIIANDQGNRTTPSFVAFTDTERLIGDAAKNQAAMN
+PSNTVFDAKRLIGRNFNDPEVQADMKHFPFKLIDVDGKPQIQVEFKGETKNFTPEQISSM
+VLGKMKETAESYLGAKVNDAVVTVPAYFNDSQRQATKDAGTIAGLNVLRIINEPTAAAIA
+YGLDKKGKEEHVLIFDLGGGTFDVSLLFIEDGIFEVKATAGDTHLGGEDFDNRLVNHFIQ
+EFKRKNKKDLSTNQRALRRLRTACERAKRTLSSSAQTSVEIDSLFEGIDFYTSITRARFE
+ELCADLFRSTLDPVEKVLRDAKLDKSQVDEIVLVGGSTRIPKVQKLVTDYFNGKEPNRSI
+NPDEAVAYGAAVQAAILTGDESSKTQDLLLLDVAPLSLGIETAGGVMTKLIPRNSTISTK
+KFEIFSTYADNQPGVLIQVFEGERAKTKDNNLLGKFELSGIPPAPRGVPQIEVTFDVDSN
+GILNVSAVEKGTGKSNKITITNDKGRLSKEDIEKMVAEAEKFKEEDEKESQRIASKNQLE
+SIAYSLKNTISEAGDKLEQADKDTVTKKAEETISWLDSNTTASKEEFDDKLKELQDIANP
+IMSKLYQAGGAPGGAAGGAPGGFPGGAPPAPEAEGPTVEEVD
+
+Found: 2 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1   388 - 408   0.627 Putative
+     2   608 - 628   1.113 Certain
+
+Total of 2 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00         0.00     0.01      4.00     0.09
+TOPOLOGY                                      ?    N-out      N-in
+    LOOP      1    607    607           ( 79.00)    0.01
+TRANSMEM    608    628     21 1.00 1.11
+    LOOP    629    642     14              0.00  (  0.23)
+//
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   2                  0.07         0.00     0.20     -7.00     0.08
+TOPOLOGY                                      ?    N-out     N-out
+    LOOP      1    387    387           ( 49.00)    0.09
+TRANSMEM    388    408     21 0.07 0.63
+    LOOP    409    607    199           ( 30.00)   -0.10
+TRANSMEM    608    628     21 1.00 1.11
+    LOOP    629    642     14              0.00  (  0.23)
+//
+
+Sequence : YAL007C  (215 res)
+MIKSTIALPSFFIVLILALVNSVAASSSYAPVAISLPAFSKECLYYDMVTEDDSLAVGYQ
+VLTGGNFEIDFDITAPDGSVITSEKQKKYSDFLLKSFGVGKYTFCFSNNYGTALKKVEIT
+LEKEKTLTDEHEADVNNDDIIANNAVEEIDRNLNKITKTLNYLRAREWRNMSTVNSTESR
+LTWLSILIIIIIAVISIAQVLLIQFLFTGRQKNYV
+
+Found: 2 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1     4 - 24    2.028 Certain
+     2   181 - 201   2.276 Certain
+
+Total of 1 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00         4.00    -0.47      1.00    -1.00
+TOPOLOGY                                   N-in     N-in      N-in
+CYT_LOOP      1      3      3              1.00  ( -0.18)
+TRANSMEM      4     24     21 1.00 2.03
+EXT_LOOP     25    180    156           ( 17.00)    0.47
+TRANSMEM    181    201     21 1.00 2.28
+CYT_LOOP    202    215     14              2.00  (  0.42)
+//
+
+Sequence : YAL008W  (198 res)
+MTLAFNMQRLVFRNLNVGKRMFKNVPLWRFNVANKLGKPLTRSVGLGGAGIVAGGFYLMN
+RQPSKLIFNDSLGAAVKQQGPLEPTVGNSTAITEERRNKISSHKQMFLGSLFGVVLGVTV
+AKISILFMYVGITSMLLCEWLRYKGWIRINLKNIKSVIVLKDVDLKKLLIDGLLGTEYMG
+FKVFFTLSFVLASLNANK
+
+Found: 3 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1    40 - 60    1.208 Certain
+     2   121 - 141   1.652 Certain
+     3   176 - 196   1.289 Certain
+
+Total of 1 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00         9.00     0.00      3.00    -1.00
+TOPOLOGY                                   N-in        ?      N-in
+CYT_LOOP      1     39     39              9.00  (  0.67)
+TRANSMEM     40     60     21 1.00 1.21
+EXT_LOOP     61    120     60              8.00  (  1.24)
+TRANSMEM    121    141     21 1.00 1.65
+CYT_LOOP    142    175     34              8.00  (  0.06)
+TRANSMEM    176    196     21 1.00 1.29
+EXT_LOOP    197    198      2              1.00  (  0.33)
+//
+
+Sequence : YAL009W  (259 res)
+MEPESIGDVGNHAQDDSASIVSGPRRRSTSKTSSAKNIRNSSNISPASMIFRNLLILEDD
+LRRQAHEQKILKWQFTLFLASMAGVGAFTFYELYFTSDYVKGLHRVILQFTLSFISITVV
+LFHISGQYRRTIVIPRRFFTSTNKGIRQFNVKLVKVQSTWDEKYTDSVRFVSRTIAYCNI
+YCLKKFLWLKDDNAIVKFWKSVTIQSQPRIGAVDVKLVLNPRAFSAEIREGWEIYRDEFW
+AREGARRRKQAHELRPKSE
+
+Found: 2 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1    73 - 93    1.774 Certain
+     2   106 - 126   1.907 Certain
+
+Total of 1 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00        -2.00     0.28      0.00    -0.10
+TOPOLOGY                                  N-out    N-out         ?
+EXT_LOOP      1     72     72           ( 11.00)    0.04
+TRANSMEM     73     93     21 1.00 1.77
+CYT_LOOP     94    105     12              2.00  (  0.89)
+TRANSMEM    106    126     21 1.00 1.91
+EXT_LOOP    127    259    133           ( 28.00)    0.24
+//
+
+Sequence : YAL010C  (493 res)
+MLPYMDQVLRAFYQSTHWSTQNSYEDITATSRTLLDFRIPSAIHLQISNKSTPNTFNSLD
+FSTRSRINGSLSYLYSDAQQLEKFMRNSTDIPLQDATETYRQLQPNLNFSVSSANTLSSD
+NTTVDNDKKLLHDSKFVKKSLYYGRMYYPSSDLEAMIIKRLSPQTQFMLKGVSSFKESLN
+VLTCYFQRDSHRNLQEWIFSTSDLLCGYRVLHNFLTTPSKFNTSLYNNSSLSLGAEFWLG
+LVSLSPGCSTTLRYYTHSTNTGRPLTLTLSWQPLFGHISSTYSAKTGTNSTFCAKYDFNL
+YSIESNLSFGCEFWQKKHHLLETNKNNNDKLEPISDELVDINPNSRATKLLHENVPDLNS
+AVNDIPSTLDIPVHKQKLLNDLTYAFSSSLRKIDEERSTIEKFDNKINSSIFTSVWKLST
+SLRDKTLKLLWEGKWRGFLISAGTELVFTRGFQESLSDDEKNDNAISISATDTENGNIPV
+FPAKFGIQFQYST
+
+Found: 2 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1   232 - 252   1.181 Certain
+     2   264 - 284   0.936 Putative
+
+Total of 2 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  0.84        -2.00     0.80     -2.00    -0.07
+TOPOLOGY                                  N-out    N-out     N-out
+EXT_LOOP      1    231    231           ( 23.00)    0.57
+TRANSMEM    232    252     21 1.00 1.18
+CYT_LOOP    253    263     11              2.00  (  0.31)
+TRANSMEM    264    284     21 0.84 0.94
+EXT_LOOP    285    493    209           ( 24.00)    0.23
+//
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   2                  1.00         0.00     0.21     -2.00    -0.07
+TOPOLOGY                                      ?    N-out     N-out
+    LOOP      1    231    231           ( 23.00)    0.57
+TRANSMEM    232    252     21 1.00 1.18
+    LOOP    253    493    241           ( 26.00)    0.35
+//
+
+Sequence : YAL011W  (625 res)
+MPAVLRTRSKESSIEQKPASRTRTRSRRGKRGRDDDDDDDDEESDDAYDEVGNDYDEYAS
+RAKLATNRPFEIVAGLPASVELPNYNSSLTHPQSIKNSGVLYDSLVSSRRTWVQGEMFEL
+YWRRPKKIVSESTPAATESPTSGTIPLIRDKMQKMCDCVMSGGPHTFKVRLFILKNDKIE
+QKWQDEQELKKKEKELKRKNDAEAKRLRMEERKRQQMQKKIAKEQKLQLQKENKAKQKLE
+QEALKLKRKEEMKKLKEQNKNKQGSPSSSMHDPRMIMNLNLMAQEDPKLNTLMETVAKGL
+ANNSQLEEFKKFIEIAKKRSLEENPVNKRPSVTTTRPAPPSKAKDVAEDHRLNSITLVKS
+SKTAATEPEPKKADDENAEKQQSKEAKTTAESTQVDVKKEEEDVKEKGVKSEDTQKKEDN
+QVVPKRKRRKNAIKEDKDMQLTAFQQKYVQGAEIILEYLEFTHSRYYLPKKSVVEFLEDT
+DEIIISWIVIHNSKEIEKFKTKKIKAKLKADQKLNKEDAKPGSDVEKEVSFNPLFEADCP
+TPLYTPMTMKLSGIHKRFNQIIRNSVSPMEEVVKEMEKILQIGTRLSGYNLWYQLDGYDD
+EALSESLRFELNEWEHAMRSRRHKR
+
+Found: 0 segments
+
+
+Sequence : YAL012W  (394 res)
+MTLQESDKFATKAIHAGEHVDVHGSVIEPISLSTTFKQSSPANPIGTYEYSRSQNPNREN
+LERAVAALENAQYGLAFSSGSATTATILQSLPQGSHAVSIGDVYGGTHRYFTKVANAHGV
+ETSFTNDLLNDLPQLIKENTKLVWIETPTNPTLKVTDIQKVADLIKKHAAGQDVILVVDN
+TFLSPYISNPLNFGADIVVHSATKYINGHSDVVLGVLATNNKPLYERLQFLQNAIGAIPS
+PFDAWLTHRGLKTLHLRVRQAALSANKIAEFLAADKENVVAVNYPGLKTHPNYDVVLKQH
+RDALGGGMISFRIKGGAEAASKFASSTRLFTLAESLGGIESLLEVPAVMTHGGIPKEARE
+ASGVFDDLVRISVGIEDTDDLLEDIKQALKQATN
+
+Found: 1 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1    72 - 92    1.249 Certain
+
+Total of 1 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00         0.00    -0.17      0.00     0.20
+TOPOLOGY                                      ?     N-in         ?
+    LOOP      1     71     71           (  6.00)    0.83
+TRANSMEM     72     92     21 1.00 1.25
+    LOOP     93    394    302           ( 29.00)    0.99
+//
+
+Sequence : YAL013W  (420 res)
+MSQQTPQESEQTTAKEQDLDQESVLSNIDFNTDLNHNLNLSEYCISSDAGTEKMDSDEEK
+SLANLPELKYAPKLSSLVKQETLTESLKRPHEDEKEAIDEAKKMKVPGENEDESKEEEKS
+QELEEAIDSKEKSTDARDEQGDEGDNEEENNEEDNENENEHTAPPALVMPSPIEMEEQRM
+TALKEITDIEYKFAQLRQKLYDNQLVRLQTELQMCLEGSHPELQVYYSKIAAIRDYKLHR
+AYQRQKYELSCINTETIATRTFIHQDFHKKVTDLRARLLNRTTQTWYDINKERRDMDIVI
+PDVNYHVPIKLDNKTLSCITGYASAAQLCYPGEPVAEDLACESIEYRYRANPVDKLEVIV
+DRMRLNNEISDLEGLRKYFHSFPGAPELNPLRDSEINDDFHQWAQCDRHTGPHTTSFCYS
+
+
+Found: 1 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1   314 - 334   0.632 Putative
+
+Total of 2 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  0.08         0.00    -0.49      4.00     0.29
+TOPOLOGY                                      ?     N-in      N-in
+    LOOP      1    313    313           ( 40.00)   -0.83
+TRANSMEM    314    334     21 0.08 0.63
+    LOOP    335    420     86           (  9.00)   -0.34
+//
+
+Sequence : YAL014C  (255 res)
+MDVLKLGYELDQLSDLVEERTRLVSVLKLAPTSNDNVTLKRQLGSILELLQKCAPNDELI
+SRYNTILDKIPDTAVDKELYRFQQQVARNTDEVSKESLKKVRFKNDDELTVMYKDDDEQD
+EESPLPSTHTPYKDEPLQSQLQSQSQPQPPQPMVSNQELFINQQQQLLEQDSHLGALSQS
+IGRTHDISLDLNNEIVSQNDSLLVDLENLIDNNGRNLNRASRSMHGFNNSRFKDNGNCVI
+ILVLIVVLLLLLLVL
+
+Found: 1 segments
+
+Candidate membrane-spanning segments:
+
+ Helix Begin - End   Score Certainity
+     1   235 - 255   2.417 Certain
+
+Total of 1 structures are to be tested
+
+HEADER    START   STOP    LEN PROB   HP  DARGLYS  DCYTEXT DNCHARGE DNNEGPOS
+TOPOLOGY   1                  1.00         0.00    -0.09      2.00     0.23
+TOPOLOGY                                      ?     N-in      N-in
+    LOOP      1    234    234           ( 25.00)   -0.09
+TRANSMEM    235    255     21 1.00 2.42
+//