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test-aln.txt
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test-aln.txt
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Alignment of variant sequences against their main parental sequence - single parent
239 251 262 271 381 443 449 458 491 498 506 587 699 703 707 729
AAV2 VIT TYN SQS HYF NNG YYL NTPSGTT SRLQF TSADN SEYSWTG TKY N----------R QYT NYN SVN RYL
LI-A ... ... .A. ... ... .F. .SEGSL. .S.G. .DGE. .DF.... ... .----------. ... ... ... ...
LI-C ... ... .A. ... ... ... ....... ..... ..... ..F..P. .T. .----------. ... ... ... ...
S14 ... .F. ... .F. ... .F. ....... ..... ..... ..F.... ... .----------. .F. .F. ... .F.
7m8 .T. ... ... ... ... ... ....... ..... ..... ....... ... .LALGETTRPA. ... ... .I. ...
rAAV2-retro ... ... ... ... .D. ... ....... ..... ..... ....... ... .LADQDYTKTA. ... ... .I. ...
588
AAV9 Q-------A
AAV-F .FVVGQSY.
AAV-PHP.B .TLAVPFK.
Alignment of variant sequences against their main parental sequence - multiple parents
124 134 161 167 178 187 197 204 232 261 270 309 326 339 371 409 448 455 464 531
AAV2 RVL EPVK KAG ARK DADS PLGQP GLGTNT ATGSG STWMG S-SQS-GAS NHY KRLNF NDGTTT TVQ MVP FTFSY TNTPSG TTQSRLQF QAGASDIRDQSRN EKF
AAV2i8 ... .... ... ... .... ..... ...... ..... ..... .-...-... ... ..... ...... ... ... ..... ...... ........ ............. ...
AAV-DJ .L. .AA. ... ... .... .I.E. .V.SL. .A.G. ..... .N.T.G.S. .A. ...S. .E..K. .I. .I. .Q.T. .Q.TG. .NTQT.G. .G.PNTMAN.AK. ...
NP84 ... .... .T. .K. .SE. ...E. ...... ..... .Q.L. .-...-... ... .K.S. ...... ... ... ..... ...... ........ ............. .E.
584 655 661 704 712
AAV2 QRGNRQAA ANPST FSAAKFAS YNKSVNV FTVDTNG
AAV2i8 .QQ.TAP. ..... ........ ....... .......
AAV-DJ ........ .D.P. .NQS.LN. .Y..TS. .A.N.E.
NP84 .G...... ..... ........ ....... .......
1 12 29 33 49 54 59 65 75 101 114 580
AAV5 MSFVDHPP E-EVGEGLREFLGLEAG PKP PNQQHQDQAR YNY PGN DRG NRADEVARE DISYNEQLEAG EKLADD GKA PAT
AAV2.5T .AADGYL. .DTLS..I.QWWK.KP. .P. .AER.K.DS. .K. .F. .K. .E..AA.L. .KA.DR..DS. .R.KE. .R. .T.
13 20 28 66 80 91 104 124 134 147 151 157 162 168 179 188 200 205 211 233 342 532 726 736
AAV8 DNL REWWAL GAPKPKANQQKQDDGR NAA DQQLQAG LRY LQE RVL EGA EPS QRSP STG KKG ARK DSE PLG GPNT AAG PMA STW TIQ DEE PRP RNL
OLIG001 .T. .Q..K. .P.P..PAERHK..S. .E. .R..DS. .K. .K. .L. .A. .Q. .-E. .S. .T. .K. .T. .I. .SL. .S. .V. .Q. .V. .K. .H. .P.
23 30 37 55 91 104 124 313 326 341 415 448 482 490 500 514
AAV9 WAL PQP QHQDNAR PGN LKY LKE RLL LNF TDNNGVK TVQ YEFENV SKTINGSG-QNQQTLKFSVAGPSNMAVQGRNYIP PSY STTVTQN EFAWPGASSWAL RNSLMN
SCH2 .D. .K. .K..DG. .F. .R. .Q. .V. .S. .Q.E.T. .I. .T..D. .R.NTP..TTT.SR.Q..Q..A.DIRD.S..WL. .C. .K.SAD. .YS.T..TKYH. .D..V.
SCH9 .D. .K. .K..DG. .F. .R. .Q. .V. .S. .Q.E.T. .I. ...... ........-......................WL. .C. .K.SAD. .YS.T..TKYH. .D..V.
528 536 547 554 561 566 575
AAV9 KEGEDRF PLSGSL GTGRDN DADK TNE IKT ESYGQVATNHQSAQAQAQTGWVQNQGIL
SCH2 .DD.EK. .Q..V. .SEKT. .IE. .D. .R. .Q..S.S..L.RGNR..A.AD.NT..V.
SCH9 .DD.EK. .Q..V. .SEKT. .IE. .D. .R. .Q..S.S..L.RGNR..A.AD.NT..V.