Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 4 of 10
Found at i:458608 original size:52 final size:51
Alignment explanation
Indices: 458475--458615 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
458465 GAAAATTTAT
458475 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
458527 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
458579 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
458616 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:458622 original size:13 final size:13
Alignment explanation
Indices: 458604--458628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
458594 CAAAGATCAG
458604 TGTATCGATACAA
1 TGTATCGATACAA
458617 TGTATCGATACA
1 TGTATCGATACA
458629 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:458711 original size:13 final size:13
Alignment explanation
Indices: 458693--458717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
458683 CAAAAAAATA
458693 TGTATCGATACAT
1 TGTATCGATACAT
458706 TGTATCGATACA
1 TGTATCGATACA
458718 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:458728 original size:33 final size:33
Alignment explanation
Indices: 458671--458737 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
458661 AGTAGCTTAA
*
458671 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCAATAC
* ***
458704 ATTGTATCGATACAACATTTTATGTATCAATAC
1 ATTGTATCGATACAAAAAAATATGTATCAATAC
458737 A
1 A
458738 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCAATAC
Found at i:462900 original size:15 final size:17
Alignment explanation
Indices: 462875--462908 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
462865 AAACTACAGA
462875 GAGAGAAT-AAAAATTT
1 GAGAGAATAAAAAATTT
462891 GAGA-AATAAAAAATTT
1 GAGAGAATAAAAAATTT
462907 GA
1 GA
462909 AAAGAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
GAGAGAATAAAAAATTT
Found at i:464330 original size:11 final size:11
Alignment explanation
Indices: 464305--464349 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
464295 TTAACATTTT
*
464305 ATATTTATT-A
1 ATATTTTTTAA
464315 ATATTTTTTAA
1 ATATTTTTTAA
464326 ATATTTTTTAA
1 ATATTTTTTAA
464337 ATATTTTTTAA
1 ATATTTTTTAA
464348 AT
1 AT
464350 CTATATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTTTTTAA
Found at i:464364 original size:22 final size:22
Alignment explanation
Indices: 464314--464358 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
464304 TATATTTATT
*
464314 AATATTTTTTAAATATTTTTTA
1 AATATTTTTTAAATATTATTTA
*
464336 AATATTTTTTAAATCTATATTTA
1 AATATTTTTTAAATAT-TATTTA
464359 TAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
AATATTTTTTAAATATTATTTA
Found at i:464484 original size:25 final size:21
Alignment explanation
Indices: 464441--464494 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 21
464431 TATGTTTATA
464441 TATAAATATAAATTTAAAAAT
1 TATAAATATAAATTTAAAAAT
464462 TATAAATATTCAATATTTAAAAATT
1 TATAAATA-T-AA-ATTTAAAAA-T
464487 TATAAATA
1 TATAAATA
464495 AATATAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.28
22 1 0.03
23 2 0.07
24 9 0.31
25 9 0.31
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAAATATAAATTTAAAAAT
Found at i:465089 original size:22 final size:21
Alignment explanation
Indices: 465059--465110 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
465049 AATTATTTTG
* *
465059 ATATGAATATAATAAAATATAA
1 ATATAAATATAA-AAAATAAAA
*
465081 ATATAAATATTAAAAATAAAA
1 ATATAAATATAAAAAATAAAA
465102 ATATTAAAT
1 ATA-TAAAT
465111 TTATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATATAAATATAAAAAATAAAA
Found at i:465103 original size:15 final size:15
Alignment explanation
Indices: 465079--465153 Score: 57
Period size: 15 Copynumber: 5.2 Consensus size: 15
465069 AATAAAATAT
*
465079 AAATATAAATATTAA
1 AAATAAAAATATTAA
465094 AAATAAAAATATTAA
1 AAATAAAAATATTAA
** * * *
465109 ATTTATATATATCAA
1 AAATAAAAATATTAA
*
465124 AAAGAAAAA-A-TAA
1 AAATAAAAATATTAA
*
465137 AAAT-AAAATATGAA
1 AAATAAAAATATTAA
465151 AAA
1 AAA
465154 AATACTTTAA
Statistics
Matches: 44, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 6 0.14
15 28 0.64
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (15 bp):
AAATAAAAATATTAA
Found at i:466005 original size:3 final size:3
Alignment explanation
Indices: 465999--466040 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
465989 CGTGTTGTTG
465999 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
466041 GTATAAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:466260 original size:18 final size:17
Alignment explanation
Indices: 466234--466267 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
466224 CAACTCTTTG
466234 TTTTCTTTCTTCTTTTTT
1 TTTTCTTTCTT-TTTTTT
*
466252 TTTTTTTTCTTTTTTT
1 TTTTCTTTCTTTTTTT
466268 GTTTCTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTCTTTCTTTTTTTT
Found at i:466261 original size:15 final size:15
Alignment explanation
Indices: 466228--466274 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
466218 TTTATTCAAC
466228 TCTTTGTTTTCTTTCT
1 TCTTT-TTTTCTTTCT
* *
466244 TCTTTTTTTTTTTTT
1 TCTTTTTTTCTTTCT
*
466259 TCTTTTTTTGTTTCT
1 TCTTTTTTTCTTTCT
466274 T
1 T
466275 TGTGTGCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (15 bp):
TCTTTTTTTCTTTCT
Found at i:467242 original size:57 final size:57
Alignment explanation
Indices: 467130--467250 Score: 188
Period size: 57 Copynumber: 2.1 Consensus size: 57
467120 TATTATTTGG
**
467130 TTATTTTTTAAATAGCAATATTGATATAAAATTAAATTATTTTTTAAAAAAATATTA
1 TTATTTTTTAAATAGCAATATTGATATAAAATTAAATTATTAATTAAAAAAATATTA
** *
467187 TTATTTTTTAAATAGCAATATTGATATAAAATTAAATTATTAATTATTAAGATATTA
1 TTATTTTTTAAATAGCAATATTGATATAAAATTAAATTATTAATTAAAAAAATATTA
*
467244 ATATTTT
1 TTATTTT
467251 AATATTAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (57 bp):
TTATTTTTTAAATAGCAATATTGATATAAAATTAAATTATTAATTAAAAAAATATTA
Found at i:467255 original size:14 final size:14
Alignment explanation
Indices: 467238--467316 Score: 83
Period size: 14 Copynumber: 5.8 Consensus size: 14
467228 AATTATTAAG
467238 ATATTAATATTTTA
1 ATATTAATATTTTA
*
467252 ATATTAATATTTCAA
1 ATATTAATATTT-TA
*
467267 ATAGTAATATTTTA
1 ATATTAATATTTTA
*
467281 ATAATAATA-TTTA
1 ATATTAATATTTTA
* *
467294 ATACTAA-ATATT-
1 ATATTAATATTTTA
467306 ATATTAATATT
1 ATATTAATATT
467317 AAATAATTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 7 0.13
13 14 0.26
14 21 0.39
15 12 0.22
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (14 bp):
ATATTAATATTTTA
Found at i:467257 original size:29 final size:30
Alignment explanation
Indices: 467224--467292 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
467214 AAAATTAAAT
*
467224 TATTAATTA-TT-AAGATATTAATATTTTAA
1 TATTAATTATTTCAA-ATAGTAATATTTTAA
467253 TATTAA-TATTTCAAATAGTAATATTTTAA
1 TATTAATTATTTCAAATAGTAATATTTTAA
*
467282 TAATAA-TATTT
1 TATTAATTATTT
467293 AATACTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 32 0.89
30 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (30 bp):
TATTAATTATTTCAAATAGTAATATTTTAA
Found at i:467314 original size:18 final size:18
Alignment explanation
Indices: 467291--467336 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
467281 ATAATAATAT
467291 TTAATACTAAAT-ATTATA
1 TTAATACTAAATAATTA-A
*
467309 TTAATATTAAATAATTAA
1 TTAATACTAAATAATTAA
*
467327 ATAATACTAA
1 TTAATACTAA
467337 GAATATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAATACTAAATAATTAA
Found at i:467325 original size:19 final size:20
Alignment explanation
Indices: 467280--467325 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
467270 GTAATATTTT
*
467280 AATAATAATATTTAATACTA
1 AATAATTATATTTAATACTA
*
467300 AAT-ATTATA-TTAATATTA
1 AATAATTATATTTAATACTA
467318 AATAATTA
1 AATAATTA
467326 AATAATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 11 0.48
19 9 0.39
20 3 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATTATATTTAATACTA
Found at i:468356 original size:5 final size:5
Alignment explanation
Indices: 468346--468385 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
468336 CAAAAGATTG
468346 TTCTT TTCTT TTCTT TTCTT TT-TT CTT-TT TTCTT TT-TT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT -TTCTT TTCTT TTCTT TT
468386 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTCTT
Found at i:468371 original size:7 final size:7
Alignment explanation
Indices: 468346--468388 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
468336 CAAAAGATTG
468346 TTCTTTT
1 TTCTTTT
468353 CTT-TTCTT
1 -TTCTT-TT
468361 TTCTTTT
1 TTCTTTT
468368 TTCTTTT
1 TTCTTTT
468375 TTCTTTT
1 TTCTTTT
468382 TT-TTTT
1 TTCTTTT
468388 T
1 T
468389 ATTTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.15
7 22 0.67
8 6 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTCTTTT
Found at i:468378 original size:19 final size:19
Alignment explanation
Indices: 468354--468395 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
468344 TGTTCTTTTC
*
468354 TTTTCTTTTCTTTTTTCTT
1 TTTTCTTTTCTTTTTTATT
*
468373 TTTTCTTTTTTTTTTTATT
1 TTTTCTTTTCTTTTTTATT
468392 TTTT
1 TTTT
468396 TAATGACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTTATT
Found at i:469663 original size:23 final size:23
Alignment explanation
Indices: 469627--469682 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
469617 GTTCATGAAC
* *
469627 AAGCTCCTTT-ATAAATTATTTA
1 AAGCTCATTTAATAAATCATTTA
*
469649 AAGTTCATTTAATAAATCATTTA
1 AAGCTCATTTAATAAATCATTTA
469672 AAGCTCATTTA
1 AAGCTCATTTA
469683 TTGTTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (23 bp):
AAGCTCATTTAATAAATCATTTA
Found at i:469872 original size:23 final size:24
Alignment explanation
Indices: 469824--469874 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
469814 CTTGTTCGCT
*
469824 AATATGTTTGATTATATATTCTTG
1 AATATGTTTGATTATATATTCATG
469848 AATATGTTTG-TT-TAGTATTCATG
1 AATATGTTTGATTATA-TATTCATG
469871 AATA
1 AATA
469875 AGTTCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 2 0.08
23 13 0.52
24 10 0.40
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (24 bp):
AATATGTTTGATTATATATTCATG
Found at i:472509 original size:24 final size:24
Alignment explanation
Indices: 472489--472542 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
472479 TTGAAAGTCT
472489 TTTTTTAAAAAAAGTAAAAAGTTA
1 TTTTTTAAAAAAAGTAAAAAGTTA
* *
472513 TTTTTTAAATAAA--AATAAG-TA
1 TTTTTTAAAAAAAGTAAAAAGTTA
472534 TTTTTTAAA
1 TTTTTTAAA
472543 TTAAATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 5 0.18
24 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TTTTTTAAAAAAAGTAAAAAGTTA
Found at i:473061 original size:17 final size:16
Alignment explanation
Indices: 473039--473072 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
473029 TGAGCTTGAA
473039 TAAATATAATTTTATTT
1 TAAATAT-ATTTTATTT
*
473056 TAAATATTTTTTATTT
1 TAAATATATTTTATTT
473072 T
1 T
473073 TTACTTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAAATATATTTTATTT
Found at i:474230 original size:23 final size:23
Alignment explanation
Indices: 474196--474250 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
474186 AACTTGCAAG
*
474196 GGGATTAAATGATTAGCCAAAGA
1 GGGATTAGATGATTAGCCAAAGA
474219 GGGATTAGATGATTAGCCAAAGA
1 GGGATTAGATGATTAGCCAAAGA
*
474242 GAGATTAGA
1 GGGATTAGA
474251 AACACCTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (23 bp):
GGGATTAGATGATTAGCCAAAGA
Found at i:474340 original size:21 final size:21
Alignment explanation
Indices: 474314--474354 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
474304 AACTGAAAAG
* *
474314 AAAAAATAGAGCAAAAAAGAA
1 AAAAAAAAGAGAAAAAAAGAA
474335 AAAAAAAAGAGAAAAAAAGA
1 AAAAAAAAGAGAAAAAAAGA
474355 CCAATAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAGAAAAAAAGAA
Found at i:479750 original size:17 final size:18
Alignment explanation
Indices: 479728--479764 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
479718 AATATTCAAA
479728 TTAAATTTAGTAAA-TAT
1 TTAAATTTAGTAAATTAT
*
479745 TTAAATTTATTAAATTAT
1 TTAAATTTAGTAAATTAT
479763 TT
1 TT
479765 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATTTAGTAAATTAT
Found at i:479976 original size:15 final size:15
Alignment explanation
Indices: 479956--479985 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
479946 TGAATAGTAA
*
479956 ATATAATATTTAAAT
1 ATATAATATTCAAAT
479971 ATATAATATTCAAAT
1 ATATAATATTCAAAT
479986 TTAAAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATAATATTCAAAT
Found at i:480538 original size:15 final size:15
Alignment explanation
Indices: 480518--480560 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
480508 CAAATATATA
480518 TTTTTATTAATTATT
1 TTTTTATTAATTATT
480533 TTTTTATTTAA-TATT
1 TTTTTA-TTAATTATT
480548 TATTTT-TTAATTA
1 T-TTTTATTAATTA
480561 AACAGGCCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.16
15 13 0.52
16 8 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTATTAATTATT
Found at i:481842 original size:26 final size:26
Alignment explanation
Indices: 481802--481851 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
481792 AATTATAATC
481802 ATTTTTTTAAATATTATAA-AATTAT
1 ATTTTTTTAAATATTATAATAATTAT
* *
481827 ATTTATTTTATATATTTTAATAATT
1 ATTT-TTTTAAATATTATAATAATT
481852 TTTTATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 13 0.62
27 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTTTAAATATTATAATAATTAT
Found at i:481857 original size:20 final size:19
Alignment explanation
Indices: 481834--481901 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
481824 TATATTTATT
*
481834 TTATATATTTTAATAATTTT
1 TTATATATTTTAAT-ATTTA
*
481854 TTATATAATTT-ATATTTA
1 TTATATATTTTAATATTTA
481872 TT-TA-A-TTTAATCATTATA
1 TTATATATTTTAAT-ATT-TA
481890 TTATATATTTTA
1 TTATATATTTTA
481902 TTAACGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 3 0.08
16 3 0.08
17 5 0.12
18 10 0.25
19 4 0.10
20 11 0.28
21 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATATTTTAATATTTA
Found at i:482629 original size:2 final size:2
Alignment explanation
Indices: 482609--482647 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
482599 TGTTTTTTTA
* *
482609 AT AT AC AT AT -T AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
482648 TAAAAGATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:483414 original size:28 final size:28
Alignment explanation
Indices: 483374--483449 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
483364 GTTCACGAGA
483374 ATCCCTTGAACTTGAAGCATTAAAAACC
1 ATCCCTTGAACTTGAAGCATTAAAAACC
483402 ATCCCTTGAACTTGAAGCATTAAAAACC
1 ATCCCTTGAACTTGAAGCATTAAAAACC
*
483430 ATCCCTTGACCTTGAAGCAT
1 ATCCCTTGAACTTGAAGCAT
483450 CAGAAAGCGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (28 bp):
ATCCCTTGAACTTGAAGCATTAAAAACC
Found at i:485870 original size:14 final size:14
Alignment explanation
Indices: 485853--485896 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
485843 TGAAAATCAT
485853 AAATTTTAAATTTA
1 AAATTTTAAATTTA
* *
485867 AAATTTTAAAATTC
1 AAATTTTAAATTTA
* *
485881 AAATTCTAAATCTA
1 AAATTTTAAATTTA
485895 AA
1 AA
485897 TTTAAGTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTTTAAATTTA
Found at i:486367 original size:17 final size:17
Alignment explanation
Indices: 486347--486410 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
486337 AATATATTAT
486347 ATATTTATATATTTTTG
1 ATATTTATATATTTTTG
*
486364 ATATTT-TA-ATAATTT-
1 ATATTTATATAT-TTTTG
*
486379 AT-TTTATATAAATTTTG
1 ATATTTATAT-ATTTTTG
486396 ATATATTATATATTT
1 ATAT-TTATATATTT
486411 ATATTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 13
0.68 0.08 0.25
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 8 0.22
17 9 0.25
18 4 0.11
19 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTATATATTTTTG
Found at i:486411 original size:32 final size:31
Alignment explanation
Indices: 486338--486419 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 31
486328 ATCGTATTTA
* *
486338 ATATATTATATATTTATATATTTTTGATATTTT
1 ATATATT-TAT-TTTATATAATTTTGATATATT
486371 A-ATAATTTATTTTATATAAATTTTGATATATT
1 ATAT-ATTTATTTTATAT-AATTTTGATATATT
*
486403 ATATATTTATATTATAT
1 ATATATTTATTTTATAT
486420 TTTTAATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 7 0.16
32 30 0.70
33 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
ATATATTTATTTTATATAATTTTGATATATT
Found at i:486415 original size:13 final size:13
Alignment explanation
Indices: 486397--486441 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
486387 TAAATTTTGA
486397 TATATTATATATT
1 TATATTATATATT
*
486410 TATATTATATTTT
1 TATATTATATATT
*
486423 TAATATT-TTTATT
1 T-ATATTATATATT
486436 TATATT
1 TATATT
486442 TTAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATATTATATATT
Found at i:486421 original size:39 final size:34
Alignment explanation
Indices: 486373--486458 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 34
486363 GATATTTTAA
486373 TAATT-TATTTTATATAAATTTTGATATATTATATATT
1 TAATTATATTTTATATAAATTTT--TAT-TTATAT-TT
*
486410 TATATTATATTTT-TA-ATATTTTTATTTATATTT
1 TA-ATTATATTTTATATAAATTTTTATTTATATTT
*
486443 TAATTATTTTTTATAT
1 TAATTATATTTTATAT
486459 CAGATAAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
32 9 0.21
33 6 0.14
34 6 0.14
35 3 0.07
37 8 0.19
38 5 0.12
39 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (34 bp):
TAATTATATTTTATATAAATTTTTATTTATATTT
Found at i:486428 original size:20 final size:21
Alignment explanation
Indices: 486405--486451 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
486395 GATATATTAT
486405 ATATTTATA-TTATATTTTTA
1 ATATTTATATTTATATTTTTA
*
486425 ATATTTTTATTTATA-TTTTA
1 ATATTTATATTTATATTTTTA
486445 ATTATTT
1 A-TATTT
486452 TTTATATCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATTTATATTTATATTTTTA
Found at i:486449 original size:11 final size:11
Alignment explanation
Indices: 486400--486455 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
486390 ATTTTGATAT
486400 ATTATATATTTA
1 ATTATAT-TTTA
486412 TATTATATTTTTA
1 -ATTATA-TTTTA
486425 A-TAT-TTTTA
1 ATTATATTTTA
*
486434 TTTATATTTTA
1 ATTATATTTTA
*
486445 ATTATTTTTTA
1 ATTATATTTTA
486456 TATCAGATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
11 17 0.46
12 1 0.03
13 10 0.27
14 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATATTTTA
Found at i:486452 original size:20 final size:22
Alignment explanation
Indices: 486403--486458 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
486393 TTGATATATT
*
486403 ATATATTTATATTATATTTTTA
1 ATATTTTTATATTATATTTTTA
486425 ATATTTTTAT-TTATA-TTTTA
1 ATATTTTTATATTATATTTTTA
486445 ATTATTTTTTATAT
1 A-TA-TTTTTATAT
486459 CAGATAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.20
21 7 0.23
22 16 0.53
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATATTTTTATATTATATTTTTA
Found at i:486953 original size:11 final size:12
Alignment explanation
Indices: 486916--486953 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
486906 TTTATGAGTC
486916 TATGAATATAAA
1 TATGAATATAAA
*
486928 TTATGAATATTAA
1 -TATGAATATAAA
486941 TAT-AATATAAA
1 TATGAATATAAA
486952 TA
1 TA
486954 AATTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (12 bp):
TATGAATATAAA
Found at i:487004 original size:22 final size:24
Alignment explanation
Indices: 486976--487022 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
486966 GATATCTATC
*
486976 ATATTTTT-TACATA-TAAGATAT
1 ATATTTTTGTACATATTAAAATAT
486998 ATATTTTTGTACATATTAAAATAT
1 ATATTTTTGTACATATTAAAATAT
487022 A
1 A
487023 AAATACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 6 0.27
24 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTTTGTACATATTAAAATAT
Found at i:487317 original size:2 final size:2
Alignment explanation
Indices: 487310--487337 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
487300 AATAAACAAT
487310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
487338 ATGCAAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:487474 original size:20 final size:17
Alignment explanation
Indices: 487449--487487 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 17
487439 TCGTGTCTTA
487449 AATTAATTAAATATTAATTT
1 AATTAA-TAAA-ATT-ATTT
487469 AATTAATAAAATTATTT
1 AATTAATAAAATTATTT
487486 AA
1 AA
487488 AAATTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 4 0.21
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAATAAAATTATTT
Found at i:492811 original size:21 final size:22
Alignment explanation
Indices: 492782--492827 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
492772 TATTCAGACA
** *
492782 AGTAGTACTCCGTAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
492804 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
492825 AGT
1 AGT
492828 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:494736 original size:27 final size:26
Alignment explanation
Indices: 494709--494805 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 26
494699 CCACCTTTTG
494709 TGTTTGTCAAAAATGGTGGTTCCTTT
1 TGTTTGTCAAAAATGGTGGTTCCTTT
*
494735 GTATTTGTCAAAAATGGTGGTTTCCTTT
1 -TGTTTGTCAAAAATGGTGG-TTCCTTT
494763 TGTTTGTCAAAAATGGTGG---CTTAT
1 TGTTTGTCAAAAATGGTGGTTCCTT-T
*
494787 TGTTTGTCAAAATTGGTGG
1 TGTTTGTCAAAAATGGTGG
494806 CTAATTTTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.05
24 19 0.29
27 36 0.55
28 7 0.11
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.44
Consensus pattern (26 bp):
TGTTTGTCAAAAATGGTGGTTCCTTT
Found at i:497082 original size:32 final size:33
Alignment explanation
Indices: 497046--497124 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
497036 TTCTAAGGAT
497046 GAGTTGTTCTGAACAT-ATGCTATTTTGAA-TAA
1 GAGTTGTTCTGAACATGA-GCTATTTTGAAGTAA
* *
497078 GAGTTGCTCTAAACATGAGCTATTTTGAATGTAA
1 GAGTTGTTCTGAACATGAGCTATTTTGAA-GTAA
497112 -A-TTGTTCTGAACA
1 GAGTTGTTCTGAACA
497125 AAAGTTGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 35 0.88
33 2 0.05
34 3 0.08
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (33 bp):
GAGTTGTTCTGAACATGAGCTATTTTGAAGTAA
Found at i:497132 original size:16 final size:16
Alignment explanation
Indices: 497110--497159 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
497100 TTTTGAATGT
*
497110 AAATTGTTCTGAACAA
1 AAATTGTTCTAAACAA
* *
497126 AAGTTGTTCTAAATAA
1 AAATTGTTCTAAACAA
* *
497142 AAATTGTTTTAAATAA
1 AAATTGTTCTAAACAA
497158 AA
1 AA
497160 GATGTTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (16 bp):
AAATTGTTCTAAACAA
Found at i:497165 original size:16 final size:16
Alignment explanation
Indices: 497124--497167 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
497114 TGTTCTGAAC
* *
497124 AAAAGTTGTTCTAAAT
1 AAAAGATGTTTTAAAT
497140 AAAA-ATTGTTTTAAAT
1 AAAAGA-TGTTTTAAAT
497156 AAAAGATGTTTT
1 AAAAGATGTTTT
497168 GAGCACTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (16 bp):
AAAAGATGTTTTAAAT
Found at i:497906 original size:37 final size:37
Alignment explanation
Indices: 497854--497929 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
497844 TTTCGATATA
*
497854 GCTAAATAAGTTAAGTTTTGCTTTCCATGAAAATGAG
1 GCTAAATAAGGTAAGTTTTGCTTTCCATGAAAATGAG
497891 GCTAAATAAGGTAAGTTTTGCTTTCCATGAAAATGAG
1 GCTAAATAAGGTAAGTTTTGCTTTCCATGAAAATGAG
497928 GC
1 GC
497930 ATAAGGACCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (37 bp):
GCTAAATAAGGTAAGTTTTGCTTTCCATGAAAATGAG
Found at i:501163 original size:19 final size:19
Alignment explanation
Indices: 501122--501169 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
501112 TTTGTTCATT
*
501122 TATCGATACAATAAATATA
1 TATCGATACAATAAACATA
* * *
501141 TATCTATACAATGAACATG
1 TATCGATACAATAAACATA
501160 TATCGATACA
1 TATCGATACA
501170 TTTGAAAGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (19 bp):
TATCGATACAATAAACATA
Found at i:501768 original size:26 final size:27
Alignment explanation
Indices: 501717--501766 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
501707 ATAATTAAGA
*
501717 CCCTCGTTTTTCAAAAATTTTATTTCT
1 CCCTCGTTTGTCAAAAATTTTATTTCT
*
501744 CCCTC-TTTGTCAAGAA-TTTATTT
1 CCCTCGTTTGTCAAAAATTTTATTT
501767 TCAAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (27 bp):
CCCTCGTTTGTCAAAAATTTTATTTCT
Found at i:502116 original size:33 final size:33
Alignment explanation
Indices: 502074--502140 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
502064 AAGAAAACTA
* *
502074 AAGTTCTCATCCATGCGTTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
502107 AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
502140 A
1 A
502141 TCAACTCTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGCGCTGCGAAAGTGAAGTG
Found at i:503510 original size:11 final size:11
Alignment explanation
Indices: 503492--503529 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
503482 GAAATTGAAG
503492 AAATTTGAGAA
1 AAATTTGAGAA
*
503503 AGATTTGA-AA
1 AAATTTGAGAA
503513 AAATTTGATGAA
1 AAATTTGA-GAA
503525 AAATT
1 AAATT
503530 GTTAGGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 9 0.39
11 7 0.30
12 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
AAATTTGAGAA
Found at i:505733 original size:18 final size:18
Alignment explanation
Indices: 505710--505746 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
505700 AATTTCTTTT
505710 GGAGCTTCTTCATTTTGA
1 GGAGCTTCTTCATTTTGA
505728 GGAGCTTCTTCATTTTGA
1 GGAGCTTCTTCATTTTGA
505746 G
1 G
505747 CATTTTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (18 bp):
GGAGCTTCTTCATTTTGA
Found at i:505747 original size:15 final size:16
Alignment explanation
Indices: 505706--505744 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 16
505696 CAACAATTTC
505706 TTTTGGAGCTTCTTCA
1 TTTTGGAGCTTCTTCA
505722 TTTTGAGGAGCTTCTTCA
1 TTTT--GGAGCTTCTTCA
505740 TTTTG
1 TTTTG
505745 AGCATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.24
18 16 0.76
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTTGGAGCTTCTTCA
Found at i:526932 original size:42 final size:41
Alignment explanation
Indices: 526827--526934 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 41
526817 TAAGGAACTC
* * *
526827 ACCTTTGACCCTTTTGAACCCCTTCTAAAGCTCACTTTTAA
1 ACCTTTGACCCTTTTGAACCCTTTCTAAAGCTCACCTCTAA
* *
526868 ACCTTCTGACCCTTTTAAACCCTTTGTAAAGCTCACCTCTAA
1 ACCTT-TGACCCTTTTGAACCCTTTCTAAAGCTCACCTCTAA
*
526910 ACCTTGTGAACCTTTTGAACCCTTT
1 ACCTT-TGACCCTTTTGAACCCTTT
526935 TTAGAAACCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 5 0.09
42 53 0.91
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.36
Consensus pattern (41 bp):
ACCTTTGACCCTTTTGAACCCTTTCTAAAGCTCACCTCTAA
Found at i:530443 original size:13 final size:13
Alignment explanation
Indices: 530422--530454 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
530412 TTAATTGCTA
*
530422 TTAGCTACTGAAG
1 TTAGTTACTGAAG
530435 TTAGTTACTGAAG
1 TTAGTTACTGAAG
530448 TTAGTTA
1 TTAGTTA
530455 AGCTGGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (13 bp):
TTAGTTACTGAAG
Found at i:538263 original size:17 final size:15
Alignment explanation
Indices: 538204--538254 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
538194 TTCCTTTTTT
538204 AAAAATTAT-AAATA
1 AAAAATTATAAAATA
* ***
538218 AAAAATTGTTTCA-A
1 AAAAATTATAAAATA
538232 AAAAATTATAAAATA
1 AAAAATTATAAAATA
538247 AAAAATTA
1 AAAAATTA
538255 GTTAAAATAC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATTATAAAATA
Found at i:539527 original size:19 final size:19
Alignment explanation
Indices: 539503--539568 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
539493 TGTCAACGAT
539503 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
539522 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
539536 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
539554 TTGTATCGATACATA
1 TTGTATCGATACATA
539569 TGAAGGTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:539540 original size:32 final size:32
Alignment explanation
Indices: 539504--539566 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
539494 GTCAACGATT
539504 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
539536 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
539567 TATGAAGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:539541 original size:13 final size:13
Alignment explanation
Indices: 539523--539547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
539513 ACATAAGTGT
539523 TGTATCGATACAA
1 TGTATCGATACAA
539536 TGTATCGATACA
1 TGTATCGATACA
539548 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:539628 original size:13 final size:13
Alignment explanation
Indices: 539610--539637 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
539600 ATCACTCAAA
539610 TGTATCGATACAT
1 TGTATCGATACAT
539623 TGTATCGATACAT
1 TGTATCGATACAT
539636 TG
1 TG
539638 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:539699 original size:52 final size:53
Alignment explanation
Indices: 539643--539769 Score: 229
Period size: 53 Copynumber: 2.4 Consensus size: 53
539633 CATTGATCTT
* *
539643 TGTATCGATACATGCAGGCAAATTTGCCCAGAT-GTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATAGTATCGATACACTATAAAA
539695 TGTATCGATACATGCAGGCAAATTTACCCAGATAGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATAGTATCGATACACTATAAAA
539748 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
539770 ATTTCATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 32 0.44
53 40 0.56
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATAGTATCGATACACTATAAAA
Found at i:540661 original size:20 final size:20
Alignment explanation
Indices: 540624--540662 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
540614 TAAACCTTGA
** *
540624 TCATGCATTTTTACTATGTT
1 TCATGCATTTACAATATGTT
540644 TCATGCATTTACAATATGT
1 TCATGCATTTACAATATGT
540663 CCAGCACCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TCATGCATTTACAATATGTT
Found at i:544389 original size:11 final size:11
Alignment explanation
Indices: 544373--544402 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
544363 TTTTTCTATG
544373 TTCCATGCATT
1 TTCCATGCATT
544384 TTCCATGCATT
1 TTCCATGCATT
544395 TTCCATGC
1 TTCCATGC
544403 TTCATACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.10, T:0.43
Consensus pattern (11 bp):
TTCCATGCATT
Found at i:549307 original size:28 final size:29
Alignment explanation
Indices: 549258--549331 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
549248 ATAAAGCCAA
* **
549258 GGTTGGAGTATCCCC-TTGGAAATAATGG
1 GGTTGGAGTATCCCCGATGGAAATAACAG
549286 GGTTGGAGTATCCCCGAT-GAAATAACAG
1 GGTTGGAGTATCCCCGATGGAAATAACAG
* *
549314 GGCTAGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
549332 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCGATGGAAATAACAG
Found at i:549379 original size:51 final size:51
Alignment explanation
Indices: 549319--549430 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
549309 AACAGGGCTA
*
549319 GAGTATCCCCGATTGTGAAAAATTACTATTTTGGAAATAAAA-TCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAATTACTATTTTAGAAATAAAACT-GGAGTTG
* * * * *
549370 GAGTATCCCCGATTGTGGAGAATTAGTGTTTTAGAAATAAAACTGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTACTATTTTAGAAATAAAACTGGAGTTG
549421 GAGTATCCCC
1 GAGTATCCCC
549431 TCGAAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 53 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTACTATTTTAGAAATAAAACTGGAGTTG
Found at i:549450 original size:79 final size:79
Alignment explanation
Indices: 549367--549540 Score: 260
Period size: 79 Copynumber: 2.2 Consensus size: 79
549357 AAAATCGGAG
* * * * *
549367 TTGGAGTATCCCCGATTGTG-GAGAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAGA-AATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
549431 TCGAAAATAACGGGA
65 TCGAAAATAACGGGA
*
549446 TTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCT
549511 CGAAAATAACGGGA
66 CGAAAATAACGGGA
* *
549525 TGGGAGTATCCTCGAT
1 TTGGAGTATCCCCGAT
549541 GAAATAACGG
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 84 0.98
80 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCT
CGAAAATAACGGGA
Found at i:549568 original size:28 final size:30
Alignment explanation
Indices: 549492--549568 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
549482 GAAATAAAGC
*
549492 CGGGGTTAGAGTATCCCC--TCGAAAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
* * *
549520 CGGGATGGGAGTATCCTCGAT-G-AAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
549548 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
549569 TATGAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 38 0.95
29 1 0.03
30 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCGATCGAAAATAA
Found at i:549577 original size:237 final size:239
Alignment explanation
Indices: 549176--549666 Score: 725
Period size: 237 Copynumber: 2.1 Consensus size: 239
549166 AGATCATAAC
* * * *
549176 GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATCAATATT
* * * * * *
549241 TCAGAAAATAAAGCCAAGGTTGGAGTATCCCCTTGGAAATAATGGGGTTGGAGTATCCCCGATGA
66 TCAGAAAATAAAGCCAAGGTTAGAGTATCCCCTCGAAAATAACGGGATGGGAGTATCCCCGATGA
*
549306 AATAACAGGGCTAGAGTATCCCCGATTGTGAAAAATTACTATTTTGGAAATAAAATCGGAGTTGG
131 AATAACAGGGCTAGAGTATCCCCGATTATGAAAAATTACTATTTTGGAAATAAAATCGGAGTTGG
* *
549371 AGTATCCCCGATTGTGGAG-AATTAGTGTTTTAGAAATAAAACT
196 AGTATCCCCGATTGCGGAGAAATGAGTGTTTTAGAAATAAAACT
* *
549414 GGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATCAATATT
* ** *
549479 TTAG-AAATAAAGCCGGGGTTAGAGTATCCCCTCGAAAATAACGGGATGGGAGTATCCTCGATGA
66 TCAGAAAATAAAGCCAAGGTTAGAGTATCCCCTCGAAAATAACGGGATGGGAGTATCCCCGATGA
* * * *
549543 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGGAGTTGG
131 AATAACAGGGCTAGAGTATCCCCGATTATGAAAAATTACTATTTTGGAAATAAAATCGGAGTTGG
* * *
549608 AGTATCCCCGATTGCGGGGAAATGGGTGTTTTAGAAATAAAATT
196 AGTATCCCCGATTGCGGAGAAATGAGTGTTTTAGAAATAAAACT
*
549652 GGAGTTGGAGTATCC
1 GGGGTTGGAGTATCC
549667 TCGATTGAGA
Statistics
Matches: 225, Mismatches: 27, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
237 128 0.57
238 97 0.43
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (239 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATCAATATT
TCAGAAAATAAAGCCAAGGTTAGAGTATCCCCTCGAAAATAACGGGATGGGAGTATCCCCGATGA
AATAACAGGGCTAGAGTATCCCCGATTATGAAAAATTACTATTTTGGAAATAAAATCGGAGTTGG
AGTATCCCCGATTGCGGAGAAATGAGTGTTTTAGAAATAAAACT
Found at i:549610 original size:51 final size:51
Alignment explanation
Indices: 549552--549731 Score: 190
Period size: 51 Copynumber: 3.5 Consensus size: 51
549542 AAATAACGGG
*
549552 GTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGATGAAAAATT-GTGTTTTGGAAATAAAATCGGA
** ** * * *
549603 GTTGGAGTATCCCCGATTGCGGGGAAATGGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGATGAAAAAT-TGTGTTTTGGAAATAAAATCGGA
* * *
549655 GTTGGAGTATCCTCGATTGA-GAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTGATGAAAAATTG-TGTTTTGGAAATAAAATCGGA
549705 GATTGGAGTATCCCCGA--GATGAAAAAT
1 G-TTGGAGTATCCCCGATTGATGAAAAAT
549732 CTAGAAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
49 2 0.02
50 9 0.08
51 53 0.50
52 42 0.40
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGATGAAAAATTGTGTTTTGGAAATAAAATCGGA
Found at i:550232 original size:20 final size:19
Alignment explanation
Indices: 550203--550241 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
550193 AGGTCAAAAC
550203 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
550222 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
550242 GAATGAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:550290 original size:20 final size:21
Alignment explanation
Indices: 550265--550315 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
550255 CGATACATTA
*
550265 TATCGATACATG-ACCA-AATG
1 TATCGATACATGCA-AAGAATG
*
550285 TATCGATACTTGCAAAGAATG
1 TATCGATACATGCAAAGAATG
550306 TATCGATACA
1 TATCGATACA
550316 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGCAAAGAATG
Found at i:550381 original size:19 final size:20
Alignment explanation
Indices: 550357--550407 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
550347 CTAAACTGTT
* *
550357 TGTATCGATACA-CATAATA
1 TGTATCGATACATCACAAAA
* *
550376 TGTATCAATACATCCCAAAA
1 TGTATCGATACATCACAAAA
550396 TGTATCGATACA
1 TGTATCGATACA
550408 GTTGGCTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:558940 original size:20 final size:19
Alignment explanation
Indices: 558911--558949 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
558901 AGGTCAAAAC
558911 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
558930 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
558950 GAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:558977 original size:13 final size:13
Alignment explanation
Indices: 558959--558983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
558949 AGAATGCACA
558959 GTATCGATACATT
1 GTATCGATACATT
558972 GTATCGATACAT
1 GTATCGATACAT
558984 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:562949 original size:42 final size:43
Alignment explanation
Indices: 562892--562992 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
562882 CCCGTTTCTA
* * * *
562892 AGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTACTCTTTG
1 AGGATAAAAGAAAAAGGGAAAAGAAAGTACATCCTACTCTTTG
* * * *
562934 AGGATAAAAGAAAAA-GGAAAATAAAGTGCATCCTGCTTTTTG
1 AGGATAAAAGAAAAAGGGAAAAGAAAGTACATCCTACTCTTTG
562976 AGGATAAAAGAGAAAAG
1 AGGATAAAAGA-AAAAG
562993 AAGGGAAGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 8 0.17
42 36 0.75
43 4 0.08
ACGTcount: A:0.48, C:0.11, G:0.24, T:0.18
Consensus pattern (43 bp):
AGGATAAAAGAAAAAGGGAAAAGAAAGTACATCCTACTCTTTG
Found at i:563163 original size:122 final size:121
Alignment explanation
Indices: 563017--563237 Score: 354
Period size: 122 Copynumber: 1.8 Consensus size: 121
563007 TATCCCGCTA
563017 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCGTCCAGCCCTTT
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCAGCCCTTT
*
563081 AAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCATGCTC
65 AAGGACTA-AAGATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGCATCATGCTC
* * * * *
563139 TTTGAGGGCTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTG
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCAGCCCTTTA
*
563204 AGGACTAAAGGTGCCACCAACTTATGTGGGCTTT
66 AGGACTAAAGATGCCACCAACTTATGTGGGCTTT
563238 AAAAGAAAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
121 29 0.32
122 62 0.68
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (121 bp):
TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCAGCCCTTTA
AGGACTAAAGATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGCATCATGCTC
Found at i:563250 original size:60 final size:62
Alignment explanation
Indices: 563017--563250 Score: 293
Period size: 61 Copynumber: 3.9 Consensus size: 62
563007 TATCCCGCTA
* *
563017 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAGGCGTCCAGCCC
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTC
* * * * *
563078 TTTAAGGACT-AGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCATCATGCTC
1 TTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAGAAAAAGGCGTCCTGCTC
* * *
563139 TTTGAGGGCTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTGCTC
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTC
* *
563200 TTTGAGGACT-AAAGGTGCCACCAACTTATGTGGGCTTT-AAAAGAAAAAGGC
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
563251 TGAAAGGAGA
Statistics
Matches: 147, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
59 4 0.03
60 43 0.29
61 89 0.61
62 11 0.07
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (62 bp):
TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTC
Found at i:563416 original size:196 final size:200
Alignment explanation
Indices: 563067--563567 Score: 656
Period size: 196 Copynumber: 2.4 Consensus size: 200
563057 AAAAGAAAAG
* * * * *
563067 GCGTCCAGCCCTTTAAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTAGAAG-TGCCACCAACTTGTGTGGG-TTTGTAAAAAAAAAGCAT
* *
563132 CATGCTCTTTGAGGGCTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
64 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
563197 CTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTT-AAA-A-G-AA-A-AAGGCTGAAA
129 CTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGACGTAAGACAAGGCTGAAA
563256 GGAGAGA
194 GGAGAGA
563263 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGTTTTGTAAAAAAAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGG-TTTGTAAAAAAAAAGCAT
*
563328 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTG
64 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
* *
563393 CTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCATCTCGCTCTTTAAGGA
129 CTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAA-G-A---CG-----TAA-GA
*
563458 CTGAAGGGTGAAAGGAGAGA
183 C--AAGGCTGAAAGGAGAGA
* *
563478 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGGAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGTTTGTAAAA--AAAAAGCA
563542 TCCTGCTCTTTGAGGACTGAAAAGTG
63 TCCTGCTCTTTGAGGACTGAAAAGTG
563568 GAAGGAGAAG
Statistics
Matches: 268, Mismatches: 14, Indels: 27
0.87 0.05 0.09
Matches are distributed among these distances:
196 155 0.58
197 7 0.03
200 1 0.00
204 1 0.00
210 2 0.01
212 1 0.00
213 5 0.02
214 5 0.02
215 91 0.34
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (200 bp):
GCGTCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGTTTGTAAAAAAAAAGCATCC
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGACGTAAGACAAGGCTGAAAGG
AGAGA
Found at i:563435 original size:60 final size:59
Alignment explanation
Indices: 563253--563439 Score: 216
Period size: 61 Copynumber: 3.1 Consensus size: 59
563243 AAAAAGGCTG
* * *
563253 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGTTTTGTA
1 AAAGGAAAAAGCGTCCTGCTCTTTGAGGACT--GAAGTGCCACCAACTTGTGTGGG-CTT-TA
*
563316 AAA--AAAAAGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAAGCGTCCTGCTCTTTGAGGACTG--AAGTGCCACCAACTTGTGTGGGCTTTA
* * * * *
563375 AAAGGAGAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTA
1 AAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAA-GTGCCACCAACTTGTGTGGGCTTTA
563435 AAAGG
1 AAAGG
563440 CATCTCGCTC
Statistics
Matches: 109, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
59 8 0.07
60 30 0.28
61 68 0.62
63 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (59 bp):
AAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:564547 original size:1 final size:1
Alignment explanation
Indices: 564541--564621 Score: 54
Period size: 1 Copynumber: 81.0 Consensus size: 1
564531 TTCTTTTCTC
* * * * * * ** * *
564541 TTTTTTTTTTCTTTTCTTTTTTCTTTGTTTTGTTTTTTATTTTTAATTTTTTTTGTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
564606 TTTTGTTGTTTTTTTT
1 TTTTTTTTTTTTTTTT
564622 AAAAAGAATG
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:564560 original size:12 final size:12
Alignment explanation
Indices: 564531--564566 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
564521 CTTAAGCAGA
*
564531 TTCTTTTCTCTT
1 TTCTTTTTTCTT
564543 TT-TTTTTTCTT
1 TTCTTTTTTCTT
564554 TTCTTTTTTCTT
1 TTCTTTTTTCTT
564566 T
1 T
564567 GTTTTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:564565 original size:23 final size:22
Alignment explanation
Indices: 564531--564621 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 22
564521 CTTAAGCAGA
*
564531 TTCTTTTCTCTTTTTTTTTTCTT
1 TTCTTTTTTCTTTTTTTTTT-TT
*
564554 TTCTTTTTTCTTTGTTTTGTTTT
1 TTCTTTTTTCTTT-TTTTTTTTT
* **
564577 TTATTTTTAATTTTTTTTGTTTT
1 TTCTTTTTTCTTTTTTTT-TTTT
* * *
564600 TTGTTTTTT-TGTTGTTTTTTT
1 TTCTTTTTTCTTTTTTTTTTTT
564621 T
1 T
564622 AAAAAGAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.09
22 10 0.18
23 35 0.62
24 6 0.11
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.84
Consensus pattern (22 bp):
TTCTTTTTTCTTTTTTTTTTTT
Found at i:564601 original size:18 final size:17
Alignment explanation
Indices: 564541--564621 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
564531 TTCTTTTCTC
* *
564541 TTTTTTTTTTCTT-TTC
1 TTTTTTTTTTTTTGTTG
*
564557 TTTTTTCTTTGTTTTGTTT
1 TTTTTT-TTT-TTTTGTTG
*
564576 TTTATTTTTAATTTTTTTTG
1 TTT-TTTTT--TTTTTGTTG
564596 TTTTTTGTTTTTTTGTTG
1 TTTTTT-TTTTTTTGTTG
564614 TTTTTTTT
1 TTTTTTTT
564622 AAAAAGAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
16 6 0.11
17 5 0.09
18 17 0.32
19 10 0.19
20 14 0.26
21 1 0.02
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTTTTTGTTG
Found at i:574472 original size:4 final size:4
Alignment explanation
Indices: 574463--574495 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
574453 AAAATAAAAC
574463 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
574496 CCTCAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:579501 original size:17 final size:17
Alignment explanation
Indices: 579465--579517 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
579455 CCTTCTTTTT
* *
579465 AAAAAAATA-AAAAAAT
1 AAAAAAAAAGAAAAAAG
* *
579481 AAAAAACAA-AACAAAG
1 AAAAAAAAAGAAAAAAG
579497 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
579514 AAAA
1 AAAA
579518 GAATCTGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 20 0.67
17 10 0.33
ACGTcount: A:0.87, C:0.04, G:0.06, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:580816 original size:62 final size:61
Alignment explanation
Indices: 580594--581123 Score: 663
Period size: 61 Copynumber: 8.5 Consensus size: 61
580584 TTTCACCCTT
* * * *
580594 TAGTCCTCAAAGAGCAAGATGCCTTTT-CTTTTAAAGGCCTACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA-GCCCACACAAGTTGGTGGCACTTTC
* *
580655 CAGTCCTCAAAGAGCAGGACGCTCTCTTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 TAGTCCTCAAAGAGCAGGACG----C--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
580720 TC
60 TC
* *
580722 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
580784 TAGTCTTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
580845 TAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
* *
580907 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACTTT-
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * ** ** * * *
580967 TCAGTCCTTAAAGAGTAGGGTG-CTTTCTCCTTGCAAAGCTCACATAAGTTGGTGACAACTTTC
1 T-AGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC-ACTTTC
* * *
581030 TAGTCCTCAAAGAGCAGGACACCTTTT-CTTTTCAAAACCCACACAAGTTGGTGGCACTTTT
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTC
*
581091 TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
581124 CTTATTTGTC
Statistics
Matches: 407, Mismatches: 46, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
60 4 0.01
61 186 0.46
62 156 0.38
63 6 0.01
65 1 0.00
67 46 0.11
68 8 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (61 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:580844 original size:123 final size:122
Alignment explanation
Indices: 580590--581123 Score: 691
Period size: 123 Copynumber: 4.3 Consensus size: 122
580580 CTCCTTTCAC
* *
580590 CCTT-TAGTCCTCAAAGAGCAAGATGCCTTTT-CTTTTAAAGGCCTACACAAGTTGGTGGCACTT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA-GCCCACACAAGTTGGTGGCACTT
*
580653 CCCAGTCCTCAAAGAGCAGGACGCTCTCTTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 TCCAGTCCTCAAAGAGCAGGACG----C--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
580717 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
* * *
580782 TCTAGTCTTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
65 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
580840 CCTTCTAGTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TT
*
580905 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
65 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** * * *
580963 -CTTTTCAGTCCTTAAAGAGTAGGGTG-CTTTCTCCTTGCAAAGCTCACATAAGTTGGTGACAAC
1 CCTTCT-AGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC-AC
* * *
581026 TTTCTAGTCCTCAAAGAGCAGGACACCTTTT-CTTTTCAAAACCCACACAAGTTGGTGGCA
63 TTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
581086 CTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
581124 CTTATTTGTC
Statistics
Matches: 364, Mismatches: 33, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
122 13 0.04
123 261 0.72
124 10 0.03
125 1 0.00
127 4 0.01
128 45 0.12
129 30 0.08
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (122 bp):
CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:581311 original size:41 final size:41
Alignment explanation
Indices: 581087--581367 Score: 147
Period size: 41 Copynumber: 6.8 Consensus size: 41
581077 TTGGTGGCAC
* *
581087 TTTTTAGTCCTCAAAGAGCAGGACGC-C-TT-TTT-CTTTT
1 TTTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTT
* * * *
581124 CTTATTTGTCCTAAAAAAACAAGGA--CACATTTCATTTCCTTCCTT
1 -TTTTTTGTCCTCAAAGAGC-AGGATGCAC-TTT-ATTTCCTT--TT
* * *
581169 TCCTTTTTGTCCTCAAAGAGTAGTATAC-CTTT-TTT-CTTTT
1 T--TTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTT
* * * *
581209 TTCCTTTGTCCTTAAGGAGCAGGATGCACTTCATTTCCTTCTT
1 TT-TTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTT-TT
* *
581252 TTCCCTTCTAGTTCTCAAAGAGCAGGATGCACTTTA-TTCTCTTTT
1 TT---TT-TTGTCCTCAAAGAGCAGGATGCACTTTATTTC-CTTTT
* *
581297 TTTTTTGTCCTCAAAAAGCAAGA--CACATTTAATTTCCTTTT
1 TTTTTTGTCCTCAAAGAGCAGGATGCAC-TTT-ATTTCCTTTT
* *
581338 TCTTTTGTCTTCAAAGAGCAGGATGC-CTTT
1 TTTTTTGTCCTCAAAGAGCAGGATGCACTTT
581368 TCTTTTCAAA
Statistics
Matches: 184, Mismatches: 32, Indels: 51
0.69 0.12 0.19
Matches are distributed among these distances:
37 1 0.01
38 16 0.09
39 25 0.14
40 11 0.06
41 46 0.25
42 15 0.08
43 11 0.06
44 1 0.01
45 17 0.09
46 40 0.22
47 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.43
Consensus pattern (41 bp):
TTTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTT
Found at i:581453 original size:37 final size:38
Alignment explanation
Indices: 581406--581479 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
581396 CACTTTTTAG
* * * *
581406 TCCTCGAAGAGCATGACACCTTTCATTTTC-TCCTTTT
1 TCCTCAAAGAGCAGGACACATTTCATTTCCTTCCTTTT
*
581443 TCCTCAAAGAGTAGGACACATTTCATTTCCTTCCTTT
1 TCCTCAAAGAGCAGGACACATTTCATTTCCTTCCTTT
581480 CCTTTTTGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (38 bp):
TCCTCAAAGAGCAGGACACATTTCATTTCCTTCCTTTT
Found at i:581552 original size:84 final size:87
Alignment explanation
Indices: 581426--581722 Score: 320
Period size: 84 Copynumber: 3.5 Consensus size: 87
581416 GCATGACACC
* * * *
581426 TTTCATTTTCTCCTTTTTCCTCAAAGAGTAGGACACATTTCATTTCCTTCCTTTCCTTTTTGTCC
1 TTTCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCTTTTTGTCC
*
581491 TCAAAGAGCATGATGC-CTTT-
66 TCAAAGAGCATGATGCATTTTA
* * * * * *
581511 TTTC-TTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTCTTTTCGTTTCTAGTT
1 TTTCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCTTT-TTGTC
*
581575 CTCAAAGAGCAAGATGCATTTTA
65 CTCAAAGAGCATGATGCATTTTA
* * * *
581598 TTCTCCTTTTTTTCTTTGTCCTCAAAAAGCAGGACACATTTAATTT-CTT-TTTTCC--TTTGTC
1 TT-TCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCTTTTTGTC
* * *
581659 TTCAATGGGCATGATGCATTTTA
65 CTCAAAGAGCATGATGCATTTTA
* * *
581682 TTTCATTTTTTTCCTTTTTCCTCAAGGAGCAGGACCCATTT
1 TTTCA-TTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTT
581723 TATTCTCTTT
Statistics
Matches: 175, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
83 2 0.01
84 100 0.57
85 24 0.14
86 3 0.02
87 7 0.04
88 5 0.03
89 34 0.19
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.45
Consensus pattern (87 bp):
TTTCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCTTTTTGTCC
TCAAAGAGCATGATGCATTTTA
Found at i:581600 original size:310 final size:313
Alignment explanation
Indices: 581036--581663 Score: 978
Period size: 310 Copynumber: 2.0 Consensus size: 313
581026 TTTCTAGTCC
581036 TCAAAGAGCAGGACACCTTTTCTTTTCAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTCAA
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTCAA
* *
581101 AGAGCAGGACGCCTTTTTCTTTTCTTATTTGTCCTAAAAAAACAAGGACACATTTCATTTCCTTC
66 AGAGCAGGACACC-TTTTCTTTTCTCATTTGTCCTAAAAAAACAAGGACACATTTCATTTCCTTC
* *
581166 CTTTCCTTTTTGTCCTCAAAGAGTAGTATACCTTTTTTCTTTTTTCCTTTGTCCTTAAGGAGCAG
130 CTTTCCTTTTTGTCCTCAAAGAGCAGTATACCTTTTTTCTTTTTTCCTTTGTCCTCAAGGAGCAG
* *
581231 GATGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGATGCACTTTATTCT-CTT
195 GACGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAAGATGCACTTTATTCTCCTT
*
581295 TTTTT-TTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCTTTTGTCT
260 TTTTTCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCCTTTGTCT
** * *
581348 TCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCGA
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTCAA
* * * * * **
581413 AGAGCATGACACC-TTTCATTTTCTCCTTTTTCCT-CAAAGAGTAGGACACATTTCATTTCCTTC
66 AGAGCAGGACACCTTTTC-TTTTCTCATTTGTCCTAAAAAAACAAGGACACATTTCATTTCCTTC
*
581476 CTTTCCTTTTTGTCCTCAAAGAGCA-TGATGCCTTTTTTCTTTTTTCCTTTGTCCTCAAGGAGCA
130 CTTTCCTTTTTGTCCTCAAAGAGCAGT-ATACCTTTTTTCTTTTTTCCTTTGTCCTCAAGGAGCA
** *
581540 GGACGCACTTCATTTCCTTCTTTTCGTTTCTAGTTCTCAAAGAGCAAGATGCATTTTATTCTCCT
194 GGACGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAAGATGCACTTTATTCTCCT
* *
581605 TTTTTTCTTTGTCCTCAAAAAGCAGGACACATTTAATTTCTTTTTTCCTTTGTCT
259 TTTTTTCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCCTTTGTCT
581660 TCAA
1 TCAA
581664 TGGGCATGAT
Statistics
Matches: 288, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
309 1 0.00
310 145 0.50
311 21 0.07
312 121 0.42
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (313 bp):
TCAAAGAGCAGGACACCTTTTCTTTTCAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTCAA
AGAGCAGGACACCTTTTCTTTTCTCATTTGTCCTAAAAAAACAAGGACACATTTCATTTCCTTCC
TTTCCTTTTTGTCCTCAAAGAGCAGTATACCTTTTTTCTTTTTTCCTTTGTCCTCAAGGAGCAGG
ACGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAAGATGCACTTTATTCTCCTTT
TTTTCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCCTTTGTCT
Found at i:581638 original size:43 final size:42
Alignment explanation
Indices: 581426--581756 Score: 242
Period size: 41 Copynumber: 7.8 Consensus size: 42
581416 GCATGACACC
* * * * * *
581426 TTTCATTTTCTCCTTTTTCCTCAAAGAGTAGGACACATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTA
* * * *
581468 TTTCCTTCCTTTCCTTTTTGTCCTCAAAGAGCATGATGC-CTTT-
1 TTTCCTT-TTTTCC--TTTGTCCTCAAAGAGCAGGACGCATTTTA
* * *
581511 TTT-CTTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTA
* * * *
581552 TTTCCTTCTTTTCGTTTCTAGTTCTCAAAGAGCAAGATGCATTTTA
1 TTTCCTT-TTTTC-CTT-T-GTCCTCAAAGAGCAGGACGCATTTTA
* * * *
581598 TTCTCCTTTTTTTCTTTGTCCTCAAAAAGCAGGACACATTTAA
1 TT-TCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTA
* * * * *
581641 TTT-CTTTTTTCCTTTGTCTTCAATGGGCATGATGCATTTTA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTA
* * * *
581682 TTTCATTTTTTTCCTTTTTCCTCAAGGAGCAGGACCCATTTTA
1 TTTC-CTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTA
**
581725 -TT-CTCTTTTTCCTTAATCCTCAAAGAGCAGGA
1 TTTCCT-TTTTTCCTTTGTCCTCAAAGAGCAGGA
581757 TGCCTTATTC
Statistics
Matches: 224, Mismatches: 51, Indels: 29
0.74 0.17 0.10
Matches are distributed among these distances:
39 20 0.09
40 4 0.02
41 64 0.29
42 15 0.07
43 64 0.29
44 5 0.02
45 21 0.09
46 26 0.12
47 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.44
Consensus pattern (42 bp):
TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTA
Found at i:581734 original size:84 final size:84
Alignment explanation
Indices: 581426--581759 Score: 295
Period size: 84 Copynumber: 3.9 Consensus size: 84
581416 GCATGACACC
* * * * *
581426 TTTCATTTTCTCCTTTTTCCTCAAAGAGTAGGACACATTTCATTTCCTTCCTTTCCTTTTTGTCC
1 TTTCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT-TTTTCC--TTTGTCT
*
581491 TCAAAGAGCATGATGC-CTTT-
63 TCAAAGAGCATGATGCATTTTA
* * * *
581511 TTTC-TTTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCTTCTTTTCGTTTCTAGT-
1 TTTCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT-TTTTC-CTT-T-GTC
*
581574 TCTCAAAGAGCAAGATGCATTTTA
62 T-TCAAAGAGCATGATGCATTTTA
* * * *
581598 TTCTCCTTTTTTTCTTTGTCCTCAAAAAGCAGGACACATTTAATTT-CTTTTTTCCTTTGTCTTC
1 TT-TCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTTTTTCCTTTGTCTTC
* *
581662 AATGGGCATGATGCATTTTA
65 AAAGAGCATGATGCATTTTA
* * * * ** *
581682 TTTCATTTTTTTCCTTTTTCCTCAAGGAGCAGGACCCATTTTA-TT-CTCTTTTTCCTTAATCCT
1 TTTCA-TTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCT-TTTTTCCTTTGTCTT
*
581745 CAAAGAGCAGGATGC
64 CAAAGAGCATGATGC
581760 CTTATTCTTT
Statistics
Matches: 204, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
83 8 0.04
84 122 0.60
85 23 0.11
86 5 0.02
87 7 0.03
88 5 0.02
89 34 0.17
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (84 bp):
TTTCATTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTTTTTCCTTTGTCTTCA
AAGAGCATGATGCATTTTA
Found at i:584490 original size:51 final size:51
Alignment explanation
Indices: 584425--584546 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
584415 ATTTTTCATC
*
584425 TCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACCAATTTTCCACAA
1 TCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCACAA
* * * *
584476 TCGGAGATATTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAA
1 TCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACAA
*
584527 TCGGGGATACTCTAACCCCG
1 TCGGGGATACTCCAACCCCG
584547 TTATTTCATT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 57 0.93
52 4 0.07
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
TCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCACAA
Found at i:584689 original size:78 final size:77
Alignment explanation
Indices: 584589--584737 Score: 183
Period size: 77 Copynumber: 1.9 Consensus size: 77
584579 TTCTGAGGGA
* * * *
584589 ATACTCCAACCCCAACTTTATTTCTAAAATATTGACTTCT-CACAATCGGGGATACTCTAACCCC
1 ATACTCCAACCCCAACCTTATTT-TAAAACATT-AATTCTCCACAATCAGGGATACTCTAACCCC
584653 GTTATTTTTACGGG
64 GTTATTTTTACGGG
** * * * *
584667 ATACTCCAACCCCGGCCTTATTTTAAAGCATTAATTTTCCGCAATCAGGGATACTCTAACTCCGT
1 ATACTCCAACCCCAACCTTATTTTAAAACATTAATTCTCCACAATCAGGGATACTCTAACCCCGT
584732 TATTTT
66 TATTTT
584738 CGAGGGGATA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 4 0.07
77 36 0.60
78 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (77 bp):
ATACTCCAACCCCAACCTTATTTTAAAACATTAATTCTCCACAATCAGGGATACTCTAACCCCGT
TATTTTTACGGG
Found at i:584814 original size:79 final size:79
Alignment explanation
Indices: 584699--584887 Score: 186
Period size: 79 Copynumber: 2.4 Consensus size: 79
584689 TTAAAGCATT
** * * * *
584699 AATTTTCCGCAATCAGGGATACTCTAACTCC-GTTATTT-TCGAGGGGATACTT-AAACTCCGAT
1 AATTTTCCATAATCAGGGATACTCCAAC-CCTATTATTTCT-AAGGGGATA-TTCAAACCCCGAT
* * *
584761 TTTATTTTCAAAATATC
63 TTTATTTCCAAAACACC
* ** *
584778 GATTTTTTATAATCAGGGATACTCCAACCCTATTATTTCTAAGGGGATATTCTAACCCCGATTTT
1 AATTTTCCATAATCAGGGATACTCCAACCCTATTATTTCTAAGGGGATATTCAAACCCCGATTTT
*
584843 ATTTCCAGAACACC
66 ATTTCCAAAACACC
* *
584857 AATTTTCCATAATCGGGGATACTCCAGCCCT
1 AATTTTCCATAATCAGGGATACTCCAACCCT
584888 GTTGTTATCC
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
78 4 0.05
79 83 0.94
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
AATTTTCCATAATCAGGGATACTCCAACCCTATTATTTCTAAGGGGATATTCAAACCCCGATTTT
ATTTCCAAAACACC
Found at i:586893 original size:328 final size:328
Alignment explanation
Indices: 586270--586920 Score: 957
Period size: 328 Copynumber: 2.0 Consensus size: 328
586260 CACATGAAGG
* * *
586270 AAAATGTGTGTCAAAGTTTGAAAAATCACCCAGACTCATTTGGCATCGAAAAATTACAAACGATA
1 AAAATGTGTGTAAAACTTTGAAAAATCACCCAAACTCATTTGGCATCGAAAAATTACAAACGATA
*
586335 CCTTTTCAAAAATGAAATTTCATGAGATTTTTATGAAAAATGTTGAGAAAATTTGGAAAAACCAT
66 CCTTTTCAAAAATGAAATTTCATGAGATTTTTAGGAAAAATGTTGAGAAAATTTGGAAAAACCAT
* * * * *
586400 CTGGTGGGCCTGAATGGCCTAACCAGAATGCATTTTGCTGATTCCAAGGGTTCTGGACAACTTGG
131 CTGCTGGGCCTGAATGCCCAAACCAGAACGCATTTTGCTGATTCCAAGGGTTCTAGACAACTTGG
* * * *
586465 GTTCAAAAAATCATAACTCCTTCATCCGGACTGGTCTAGGGGCAAACAAGATATTGTTAGAAAGA
196 GTTCAAAAAATCATAACTCCCTCATCCGGACTGGTCTAGGGGCAAACAAGACACTGCTAGAAAGA
* * *
586530 TATTTTGACACACTTTACAGGAAAAATAATAACAAA-TCAAAAAAAATTGTTTAGGATTTTAAAT
261 TATTTTGACACACTTTACAAGAAAAATAATAACAAATTC-AAAAAAATCGTTTAGAATTTTAAAT
586594 TGAT
325 TGAT
* *
586598 AAAA-GTGTGTAAAACTTTGAAAAATCACCCAAACTCATTTGGTATCGAAAAATTGCAAACGATA
1 AAAATGTGTGTAAAACTTTGAAAAATCACCCAAACTCATTTGGCATCGAAAAATTACAAACGATA
** * ***
586662 CCTTTTTGAAAATGTAATTTCATGAGATTTTTAGGAAAAATGTTGAGAAAATTTGGAAAAATTGT
66 CCTTTTCAAAAATGAAATTTCATGAGATTTTTAGGAAAAATGTTGAGAAAATTTGGAAAAACCAT
* * * *
586727 TTGCTGGGCCTGAATGACCCAAACCAGAACGCATTTTGCTGATTCTAGGGGTTCTAGATC-GCTT
131 CTGCTGGGCCTGAATG-CCCAAACCAGAACGCATTTTGCTGATTCCAAGGGTTCTAGA-CAACTT
* *
586791 GGGTTCAAAAAATCATAACTCCCTCATCCGGACTGGTTTAGGGGCAAACAAGACACTGCTAGAGA
194 GGGTTCAAAAAATCATAACTCCCTCATCCGGACTGGTCTAGGGGCAAACAAGACACTGCTAGAAA
* * *
586856 GATATTTTGACACATTTTACAAGAAAAATACTAACAAATTCTAAAAAATCGTTTAGAATTTTAAA
259 GATATTTTGACACACTTTACAAGAAAAATAATAACAAATTCAAAAAAATCGTTTAGAATTTTAAA
586921 ATATTTTTTT
Statistics
Matches: 287, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
327 127 0.44
328 157 0.55
329 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (328 bp):
AAAATGTGTGTAAAACTTTGAAAAATCACCCAAACTCATTTGGCATCGAAAAATTACAAACGATA
CCTTTTCAAAAATGAAATTTCATGAGATTTTTAGGAAAAATGTTGAGAAAATTTGGAAAAACCAT
CTGCTGGGCCTGAATGCCCAAACCAGAACGCATTTTGCTGATTCCAAGGGTTCTAGACAACTTGG
GTTCAAAAAATCATAACTCCCTCATCCGGACTGGTCTAGGGGCAAACAAGACACTGCTAGAAAGA
TATTTTGACACACTTTACAAGAAAAATAATAACAAATTCAAAAAAATCGTTTAGAATTTTAAATT
GAT
Found at i:588259 original size:15 final size:15
Alignment explanation
Indices: 588239--588282 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
588229 TTTTACGCAG
*
588239 ATGTATCCATACATT
1 ATGTATCGATACATT
588254 ATGTATCGATACATT
1 ATGTATCGATACATT
588269 ATGTATCGATACAT
1 ATGTATCGATACAT
588283 CTAGTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
ATGTATCGATACATT
Found at i:594071 original size:13 final size:13
Alignment explanation
Indices: 594053--594078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
594043 TACACAAAGT
594053 ATGTATCGATACA
1 ATGTATCGATACA
594066 ATGTATCGATACA
1 ATGTATCGATACA
594079 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:594076 original size:32 final size:33
Alignment explanation
Indices: 594035--594098 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
594025 TAGCCAAACT
**
594035 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
594067 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
594099 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:600265 original size:13 final size:13
Alignment explanation
Indices: 600243--600280 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
600233 CATTTTTCTT
600243 TGTATCGATACAA
1 TGTATCGATACAA
* *
600256 TGTATTGATACAC
1 TGTATCGATACAA
600269 TGTATCGATACA
1 TGTATCGATACA
600281 TGGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:600435 original size:20 final size:20
Alignment explanation
Indices: 600392--600437 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
600382 AAATCTTTTG
600392 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
600413 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
600433 CAAAA
1 CAAAA
600438 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:602160 original size:39 final size:40
Alignment explanation
Indices: 602093--602183 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 40
602083 GGAGATTTTT
* * *
602093 TTTAGTAAAAGGGGAGAATGCGTAAATTTGCTAAAATTA-
1 TTTAGTTAAGGGGGAGAATGCATAAATTTGCTAAAATTAC
* * * *
602132 TCTTA-TTAAGGGGGAGAATGTATGAATTTGTTAAACTTAC
1 T-TTAGTTAAGGGGGAGAATGCATAAATTTGCTAAAATTAC
602172 TTTAGTTAAGGG
1 TTTAGTTAAGGG
602184 AGAAAGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
39 31 0.74
40 11 0.26
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (40 bp):
TTTAGTTAAGGGGGAGAATGCATAAATTTGCTAAAATTAC
Found at i:602845 original size:13 final size:13
Alignment explanation
Indices: 602827--602852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
602817 TACACAAAGT
602827 ATGTATCGATACA
1 ATGTATCGATACA
602840 ATGTATCGATACA
1 ATGTATCGATACA
602853 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:602850 original size:32 final size:33
Alignment explanation
Indices: 602809--602872 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
602799 TAGCCAAACT
**
602809 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
602841 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
602873 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:615630 original size:7 final size:8
Alignment explanation
Indices: 615601--615637 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
615591 GCATCCTTCA
615601 AAAAAAAT
1 AAAAAAAT
615609 AAAAGGAAAT
1 AAAA--AAAT
615619 AAAAAAAT
1 AAAAAAAT
615627 AAAAAAAT
1 AAAAAAAT
615635 AAA
1 AAA
615638 TCATAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:616917 original size:28 final size:28
Alignment explanation
Indices: 616883--617384 Score: 438
Period size: 28 Copynumber: 17.5 Consensus size: 28
616873 ATACGACCTT
*
616883 TTTCAAAGCCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
616911 TTTCAAAGCCTACATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
616939 TTTCAAAGCCCACATGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
616967 TTTCAAAGCCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
616995 TTTCAAAGCCCACATGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
617022 ATTTCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
617051 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
617080 TTTCAAAGCCCACACAAGTCGGTGGTAACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCATCC
* * *
617110 TCTCTCAAAGCTCACAAGTCAGTGACACCC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
* * * *
617140 CTT-AAAGCCCACACAAGTCGGTGGTAGCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCATCC
* * *
617169 TCTCTCAAAGCTCACAAGTTAGTGGCACCC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
* * *
617199 CTT-AAAGCCCACACAAGTCGGTGGCAACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCATCC
* * * * *
617228 TCTCTTAAAGCCCATAAGTTAGTGGTACCC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
617258 TTTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * **
617285 TTTTCGAAGCCCACAAGTTAGTCCCA-CC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
617313 TTTTCGAAGCCCACAAGTCAATGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
617342 TTTCGAAGTCCACAAGTCAATGGCAACC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
617370 CTTCTAAAGCTCACA
1 TTTC-AAAGCCCACA
617385 TAAGTTGGTG
Statistics
Matches: 398, Mismatches: 57, Indels: 37
0.81 0.12 0.08
Matches are distributed among these distances:
27 12 0.03
28 232 0.58
29 73 0.18
30 60 0.15
31 7 0.02
32 14 0.04
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:617214 original size:118 final size:119
Alignment explanation
Indices: 616885--617302 Score: 432
Period size: 118 Copynumber: 3.6 Consensus size: 119
616875 ACGACCTTTT
* * * * * *
616885 TCAAAGCCCACATGTCAGTGGCATCCTTTCAAAG-CC-TACATGTTAGTGGCATCCTT-TCAAAG
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAGCCTTCTCAAAG
* * ** * * *
616947 CCCACATGTCAGTGGCATCTTTTCAAAG-CC-CACATGTCAGTGGCATCCT-T-
66 CCCACAAGTCAGTGGCACCCCTTCAAAGCCCACACAAGTCGGTGGCAACCTCTC
* * * *
616997 TCAAAGCCCACATGTCAGTGGCACCATTTCAAAG-CC-CACAAGTCAGTGGCATCCTTTTCAAAG
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAGCCTTCTCAAAG
* * *
617060 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCGGTGGTAACCTCTC
66 CCCACAAGTCAGTGGCACCCCTTCAAAGCCCACACAAGTCGGTGGCAACCTCTC
* * * * *
617114 TCAAAGCTCACAAGTCAGTGACACCCCTT-AAAGCCCACACAAGTCGGTGGTAGCCTCTCTCAAA
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAGCCT-TCTCAAA
* *
617178 GCTCACAAGTTAGTGGCACCCCTT-AAAGCCCACACAAGTCGGTGGCAACCTCTC
65 GCCCACAAGTCAGTGGCACCCCTTCAAAGCCCACACAAGTCGGTGGCAACCTCTC
* * * * * *
617232 TTAAAGCCCATAAGTTAGTGGTACCCTTTCAAAG-CC-CACAAGTCAGTGGCA-CCTTTTCGAAG
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAGCCTTCTCAAAG
617294 CCCACAAGT
66 CCCACAAGT
617303 TAGTCCCACC
Statistics
Matches: 260, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
112 51 0.20
113 32 0.12
114 2 0.01
115 29 0.11
116 8 0.03
117 39 0.15
118 69 0.27
119 30 0.12
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (119 bp):
TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAGCCTTCTCAAAG
CCCACAAGTCAGTGGCACCCCTTCAAAGCCCACACAAGTCGGTGGCAACCTCTC
Found at i:618419 original size:51 final size:51
Alignment explanation
Indices: 618343--618482 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 51
618333 AAAAGTCACA
*
618343 TTTTTACCTAGATGTATTGATACATTTTTCAATGTATCAATACATTCTATC
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAATACATTCTATC
* ** * * *
618394 TTTTTACCTAGATGTATCGATACATTTTTCAATATATTGATACATTTTGTT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAATACATTCTATC
* * * *
618445 TTTTTACCCAAATGTATCAATACATTTTGCAATGTATC
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATC
618483 GATATATCGA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 76 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (51 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAATACATTCTATC
Found at i:619393 original size:19 final size:19
Alignment explanation
Indices: 619359--619397 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
619349 CCATGTACTT
*
619359 TTTTTACTATGTTCCATGCA
1 TTTTTAATATGTTCCA-GCA
619379 TTTTTAATATG-TCCAGCA
1 TTTTTAATATGTTCCAGCA
619397 T
1 T
619398 CTTATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (19 bp):
TTTTTAATATGTTCCAGCA
Found at i:625585 original size:20 final size:20
Alignment explanation
Indices: 625556--625612 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
625546 GTAAAAAGAC
* *
625556 AGAATGTATCAATACATTGA
1 AGAATATATCGATACATTGA
625576 AGAATATATCGATACATTGA
1 AGAATATATCGATACATTGA
* *
625596 AAAATACATCGATACAT
1 AGAATATATCGATACAT
625613 CTCGGTACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
AGAATATATCGATACATTGA
Found at i:626800 original size:84 final size:83
Alignment explanation
Indices: 626554--627034 Score: 526
Period size: 85 Copynumber: 5.6 Consensus size: 83
626544 CGTGTAGGCA
* *
626554 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTAAAAG
1 TTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAA-
*
626618 GATGCCACTAACTTGTGGGCT
64 G-TGCCACTGACTTGTGGGCT
* * * *
626639 TTGAAAAGAATGCCACTGACTTGTAGGCTTT-AAAAGGGTGTCACTGACTTTTGGGCTTTGAAAA
1 TTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAA
626703 GGTGCCACTGACTTGTGGGCT
64 -GTGCCACTGACTTGTGGGCT
* * * *
626724 TTGAAAGGATGCCACTGACTCAGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTAAAA
1 TTGAAAGGATGCCACTGACT-TGTGGGCTTTGAAAAG-GGTGCCACTGACTTGTGGGCTTTAAAA
626789 G-GCCACTGACTTGTGGGCT
64 GTGCCACTGACTTGTGGGCT
* *
626808 TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAG
1 TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT--AAA-
*
626872 AGTTGCCACCGACTCGTGTGGGCT
63 AG-TGCCACTGACT--TGTGGGCT
* *
626896 TTGGAAA-GAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCATTGACTTGTGGACTTTGAAA
1 TT-GAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTT-AAA
* * *
626959 GGATACCA-TCAACTTGTGGGCT
63 AG-TGCCACT-GACTTGTGGGCT
* * * *
626981 TTGAAAGGGTGCCACTGACTTGTGGGCTTCGAAATGGGTTGCCACCGACTTGTG
1 TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGG-TGCCACTGACTTGTG
627035 TGTGCTTTGA
Statistics
Matches: 340, Mismatches: 36, Indels: 39
0.82 0.09 0.09
Matches are distributed among these distances:
81 20 0.06
83 17 0.05
84 80 0.24
85 93 0.27
86 41 0.12
87 26 0.08
88 17 0.05
89 46 0.14
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (83 bp):
TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGT
GCCACTGACTTGTGGGCT
Found at i:627047 original size:32 final size:29
Alignment explanation
Indices: 626514--627308 Score: 602
Period size: 28 Copynumber: 26.8 Consensus size: 29
626504 CACTAACTTG
* *
626514 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAGGGTTGCCACTGACT
* * *
626544 CGTGTAGGCATTGAAAAGAG-TGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTTGCCACTGACT
*
626575 TGTGGGCTTTGAAAGGG-TGCCACTAACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* * *
626603 TGTGGGCTTT-AAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* **
626631 TGTGGGCTTTGAAAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* * *
626660 TGTAGGCTTTAAAAGGG-TGTCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* *
626688 TTTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
*
626716 TGTGGGCTTTGAAA-GGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* * *
626744 CAGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 -TGTGGGCTTTG-AAAGGGTTGCCACTGACT
* *
626775 CGTGGGCTTT-AAA-AG--GCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
626800 TGTGGGCTTTGAAAGGG-TGCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* *
626828 TGTGGGCTTTGAAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* *
626856 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAGGGTTGCCACTGACT
*
626886 CGTGTGGGCTTTGGAAAGAG-TGCCACTGACT
1 --TGTGGGCTTT-GAAAGGGTTGCCACTGACT
*
626917 TGTGGGCTTTGAAAGGG-TGCCATTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* * * *
626945 TGTGGACTTTGAAA-GGATACCA-TCAACT
1 TGTGGGCTTTGAAAGGGTTGCCACT-GACT
626973 TGTGGGCTTTGAAAGGG-TGCCACTGACT
1 TGTGGGCTTTGAAAGGGTTGCCACTGACT
* *
627001 TGTGGGCTTCGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA-GGGTTGCCACTGACT
* * **
627031 TGTGTGTGCTTTGAAATGTGTTACCACCAACTT
1 TGTG-G-GCTTTGAAA-GGGTTGCCACTGAC-T
**
627064 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGGTTGCCACTGAC-T
* * * *
627096 GTGTGGGCTTTCAAATGAGTTGCCGCCGACTT
1 -TGTGGGCTTTGAAA-GGGTTGCCACTGAC-T
* * **
627128 GTGTGGGCTTTGAAATTGGTTGCAACCAACTT
1 -TGTGGGCTTTGAAA-GGGTTGCCACTGAC-T
* * *
627160 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA-GGGTTGCCACTGACT
* * *
627191 TGTGTAGGCTTTGAAA-TGATGCCACTAACT
1 TGTG--GGCTTTGAAAGGGTTGCCACTGACT
627221 TGTGGGCTTTGAAATGGGTTGCCA-TAGACTT
1 TGTGGGCTTTGAAA-GGGTTGCCACT-GAC-T
* **
627252 GTGTGGGCTTTAAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GGGTTGCCACTGAC-T
627284 GTGTGGGCTTTGAAATGGGTTGCCA
1 -TGTGGGCTTTGAAA-GGGTTGCCA
627309 GCAACTTATG
Statistics
Matches: 654, Mismatches: 76, Indels: 66
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.03
26 3 0.00
27 14 0.02
28 231 0.35
29 68 0.10
30 64 0.10
31 34 0.05
32 215 0.33
33 3 0.00
34 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGGTTGCCACTGACT
Found at i:627079 original size:64 final size:64
Alignment explanation
Indices: 626503--627350 Score: 454
Period size: 64 Copynumber: 14.2 Consensus size: 64
626493 TAAAAAAATA
* * * * * * * *
626503 CCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTAGGCATTGAAAAGAG-TG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
** * * * *
626566 CCACTGAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTAAC-T-TGTGGGCTTT-AAA-AGGATG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* * * ** * *
626622 CCACTAAC-T-TGTGGGCTTTGAAAAGA-ATGCCACTGAC-T-TGTAGGCTTT-AAAAGGG-TG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* ** * ** *
626679 TCACTGACTT-T-TGGGCTTTGAAA--AGGTGCCACTGAC-T-TGTGGGCTTTGAAA--GGATG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
** ** * * * *
626735 CCACTGAC-TCAGTGGGCTTTGAAAAGAGTTGCCACCGAC-T-CGTGGGCTTT-AAA--AG--G
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
** * ** * *
626791 CCACTGAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-TGTGGGCTTTGAAA--AGATG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
** * * * *
626847 CCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGGAAA-GAG-TG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTT-GAAATGGGTTG
** * *** * * *
626908 CCACTGAC-T-TGTGGGCTTTGAAA-G-GGTGCCATTGAC-T-TGTGGACTTTGAAA--GGATA
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* * ** *
626964 CCATCAAC-T-TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-TGTGGGCTTCGAAATGGGTTG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* * * *
627022 CCACCGACTTGTGTGTGCTTTGAAATGTGTTACCACCAACTTGTGTGGGCTTTGAAATGGGTTG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* * * *
627086 CCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCGCCGACTTGTGTGGGCTTTGAAATTGGTTG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* * * * *
627150 CAACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTAGGCTTTGAAAT--GATG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
* * * *
627212 CCACTAAC-T-TGTGGGCTTTGAAATGGGTTGCCA-TAGACTTGTGTGGGCTTTAAAATGGGTTG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCA-ACTTGTGTGGGCTTTGAAATGGGTTG
* * * * **
627274 CCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCAGCAACTTATGTGGGCTTTCAAATAAGTTG
1 CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
*
627338 CCACCGACTTGTG
1 CCACCAACTTGTG
627351 GCTTGATGGT
Statistics
Matches: 667, Mismatches: 82, Indels: 71
0.81 0.10 0.09
Matches are distributed among these distances:
53 20 0.03
54 6 0.01
55 19 0.03
56 140 0.21
57 76 0.11
58 27 0.04
59 40 0.06
60 65 0.10
61 45 0.07
62 30 0.04
63 9 0.01
64 189 0.28
65 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (64 bp):
CCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTG
Found at i:627314 original size:32 final size:32
Alignment explanation
Indices: 626800--627350 Score: 458
Period size: 32 Copynumber: 18.1 Consensus size: 32
626790 GCCACTGACT
**
626800 TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * **
626828 TGTGGGCTTTGAAA--AGATGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * *
626856 TGTGGGCTTTGAAAAGAGTTGCCACCGACTCG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* **
626888 TGTGGGCTTTGGAAA-GAG-TGCCACTGAC-T-
1 TGTGGGCTTT-GAAATGGGTTGCCACCAACTTG
***
626917 TGTGGGCTTTGAAA-GGG-TGCCATTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * *
626945 TGTGGACTTTGAAA--GGATACCATCAAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
**
626973 TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
627001 TGTGGGCTTCGAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
627033 TGTGTGCTTTGAAATGTGTTACCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
627065 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * *
627097 TGTGGGCTTTCAAATGAGTTGCCGCCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
627129 TGTGGGCTTTGAAATTGGTTGCAACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
627161 TGTGGGCTTTCAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
627193 TGTAGGCTTTGAAAT--GATGCCACTAAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
627221 TGTGGGCTTTGAAATGGGTTGCCA-TAGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCA-ACTTG
*
627253 TGTGGGCTTTAAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
627285 TGTGGGCTTTGAAATGGGTTGCCAGCAACTTA
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* ** *
627317 TGTGGGCTTTCAAATAAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
627349 TG
1 TG
627351 GCTTGATGGT
Statistics
Matches: 445, Mismatches: 60, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.01
28 123 0.28
29 18 0.04
30 37 0.08
31 11 0.02
32 248 0.56
33 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
Done.