Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold127
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: 4281254
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 26 of 26
Found at i:4078089 original size:29 final size:29
Alignment explanation
Indices: 4077974--4078090 Score: 69
Period size: 30 Copynumber: 4.0 Consensus size: 29
4077964 GTTATGATAG
*
4077974 TAAATACAA-TTTTAAAAATTAA-GGATGAA
1 TAAATACAATTTTTAAAAA-TAATAGATG-A
** * * *
4078003 TAAATGTAACTTTTAAAAATTATAAAT-A
1 TAAATACAATTTTTAAAAATAATAGATGA
* * * **
4078031 AAAATAAAATATTTGTAAAGATTGTAGATGA
1 TAAATACAAT-TTT-TAAAAATAATAGATGA
*
4078062 TAAATACAATTTTTAAAAATAATGGATGA
1 TAAATACAATTTTTAAAAATAATAGATGA
4078091 ATGAAACATT
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
28 7 0.11
29 24 0.37
30 25 0.38
31 9 0.14
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (29 bp):
TAAATACAATTTTTAAAAATAATAGATGA
Found at i:4078625 original size:17 final size:17
Alignment explanation
Indices: 4078591--4078637 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
4078581 ATTTTATTAA
*
4078591 TTATTTTT-AGCT-TTT
1 TTATTTTTAAGTTATTT
4078606 TTATTTTTAAGTTATTT
1 TTATTTTTAAGTTATTT
*
4078623 TTATTTTTAAATTAT
1 TTATTTTTAAGTTAT
4078638 ATATTTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.29
16 3 0.11
17 17 0.61
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (17 bp):
TTATTTTTAAGTTATTT
Found at i:4079671 original size:32 final size:30
Alignment explanation
Indices: 4079605--4079683 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 30
4079595 TTGAAATTAA
*
4079605 AAAATTAAAAAATAATTT-TTAATAAAATT
1 AAAATTTAAAAATAATTTATTAATAAAATT
* *
4079634 -TAATTTAAAAATAATTTATTATTAATTAATT
1 AAAATTTAAAAATAATTTATTAATAA--AATT
* *
4079665 AAAATTTTAAAAGAATTTA
1 AAAATTTAAAAATAATTTA
4079684 AAACCCTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 15 0.38
29 6 0.15
31 4 0.10
32 15 0.38
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
AAAATTTAAAAATAATTTATTAATAAAATT
Found at i:4080582 original size:27 final size:27
Alignment explanation
Indices: 4080531--4080583 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
4080521 TGTCATGTTA
** *
4080531 TTTTATTTTTTATGTTGTATTAAATTT
1 TTTTATTTTTTATCATGTATAAAATTT
*
4080558 TTTTATTTTTTATCATGTCTAAAATT
1 TTTTATTTTTTATCATGTATAAAATT
4080584 ATCAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.66
Consensus pattern (27 bp):
TTTTATTTTTTATCATGTATAAAATTT
Found at i:4082140 original size:14 final size:16
Alignment explanation
Indices: 4082112--4082153 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
4082102 GGGGCAATTG
4082112 GAGAGAGAAAGAAAAT
1 GAGAGAGAAAGAAAAT
* *
4082128 GAGAG-GAAAAAAAAA
1 GAGAGAGAAAGAAAAT
*
4082143 GATAGAGAAAG
1 GAGAGAGAAAG
4082154 CCTAGTGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (16 bp):
GAGAGAGAAAGAAAAT
Found at i:4083601 original size:3 final size:3
Alignment explanation
Indices: 4083593--4083620 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4083583 TTTGTTTTTC
4083593 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4083621 TGGATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4085113 original size:28 final size:28
Alignment explanation
Indices: 4085080--4085134 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
4085070 ATTAATAAGA
4085080 TAGATAATTTGGATTAGTTGTGGTGAAC
1 TAGATAATTTGGATTAGTTGTGGTGAAC
4085108 TAGATAATTTGGATTAGTTGTGGTGAA
1 TAGATAATTTGGATTAGTTGTGGTGAA
4085135 ATCGAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.40
Consensus pattern (28 bp):
TAGATAATTTGGATTAGTTGTGGTGAAC
Found at i:4085496 original size:14 final size:14
Alignment explanation
Indices: 4085470--4085529 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
4085460 GAAAGGTGAA
4085470 AAAAAAAAGAAAAAG
1 AAAAAAAA-AAAAAG
* *
4085485 AAGAAGAAAAAAAG
1 AAAAAAAAAAAAAG
4085499 AAAAAAAAAATAAAG
1 AAAAAAAAAA-AAAG
4085514 AACAATAAAAACAAAA
1 AA-AA-AAAAA-AAAA
4085530 AACTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
14 14 0.38
15 12 0.32
16 2 0.05
17 8 0.22
18 1 0.03
ACGTcount: A:0.83, C:0.03, G:0.10, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:4085514 original size:23 final size:23
Alignment explanation
Indices: 4085467--4085530 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
4085457 CCCGAAAGGT
*
4085467 GAAAAAAAAAAGAAAAAGAAGAA
1 GAAAAAAAAAAGAAAAAGAAAAA
4085490 GAAAAAAAGAAA-AAAAA-AATAAA
1 GAAAAAAA-AAAGAAAAAGAA-AAA
* *
4085513 GAACAATAAAAACAAAAA
1 GAA-AAAAAAAAGAAAAA
4085531 ACTTATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 2 0.06
23 21 0.60
24 12 0.34
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (23 bp):
GAAAAAAAAAAGAAAAAGAAAAA
Found at i:4085514 original size:26 final size:24
Alignment explanation
Indices: 4085468--4085531 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
4085458 CCGAAAGGTG
* * *
4085468 AAAAAAAAAAGAAAAAGAAGAAGA
1 AAAAAAAAAAAAAAAAAAAGAACA
4085492 AAAAAAGAAAAAAAAAATAAAGAACA
1 AAAAAA-AAAAAAAAAA-AAAGAACA
* *
4085518 ATAAAAACAAAAAA
1 AAAAAAAAAAAAAA
4085532 CTTATTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 6 0.18
25 16 0.48
26 11 0.33
ACGTcount: A:0.84, C:0.03, G:0.09, T:0.03
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAAAGAACA
Found at i:4086532 original size:17 final size:17
Alignment explanation
Indices: 4086482--4086522 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
4086472 TCTAAATTTC
*
4086482 AAATGATTCAAAA-TAA
1 AAATAATTCAAAACTAA
4086498 AAATAATTCAAAACTAA
1 AAATAATTCAAAACTAA
4086515 AAATAATT
1 AAATAATT
4086523 TAAACTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAATTCAAAACTAA
Found at i:4094769 original size:19 final size:18
Alignment explanation
Indices: 4094747--4094793 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
4094737 AAAACTATAC
4094747 ATTAAAATATATAATTAAT
1 ATTAAAATATAT-ATTAAT
4094766 ATTAATAATATATATTAAT
1 ATTAA-AATATATATTAAT
*
4094785 ATCAAAATA
1 ATTAAAATA
4094794 AAAATAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAAATATATATTAAT
Found at i:4095589 original size:2 final size:2
Alignment explanation
Indices: 4095582--4095606 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4095572 TATCTAAACA
4095582 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4095607 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4095611 original size:2 final size:2
Alignment explanation
Indices: 4095606--4095634 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4095596 ATATATATAT
4095606 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4095635 CTGGGAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4097436 original size:17 final size:18
Alignment explanation
Indices: 4097414--4097447 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4097404 TTGCGATATA
4097414 AAATTTA-AAAAAATTAG
1 AAATTTATAAAAAATTAG
*
4097431 AAATTTATAAATAATTA
1 AAATTTATAAAAAATTA
4097448 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATTTATAAAAAATTAG
Found at i:4097487 original size:21 final size:22
Alignment explanation
Indices: 4097437--4097479 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4097427 TTAGAAATTT
*
4097437 ATAAATAATTATTTTTAAAAAA
1 ATAAAAAATTATTTTTAAAAAA
4097459 ATAAAAAATTATTTTTAAAAA
1 ATAAAAAATTATTTTTAAAAA
4097480 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAAAATTATTTTTAAAAAA
Found at i:4097487 original size:22 final size:22
Alignment explanation
Indices: 4097431--4097489 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
4097421 AAAAAATTAG
4097431 AAATTTATAAATAATTATTTTTAA
1 AAATTT-TAAA-AATTATTTTTAA
** *
4097455 AAAAATAAAAAATTATTTTTAA
1 AAATTTTAAAAATTATTTTTAA
4097477 AAATTTTAAAAAT
1 AAATTTTAAAAAT
4097490 AAAAAATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 22 0.76
23 3 0.10
24 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTTAAAAATTATTTTTAA
Found at i:4110444 original size:17 final size:17
Alignment explanation
Indices: 4110422--4110463 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4110412 GACGCAACAG
*
4110422 AAGTCACAT-GAGAGTTT
1 AAGTCACATAG-GAGTTC
*
4110439 AAGTCAGATAGGAGTTC
1 AAGTCACATAGGAGTTC
4110456 AAGTCACA
1 AAGTCACA
4110464 AGGTAAGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (17 bp):
AAGTCACATAGGAGTTC
Found at i:4112370 original size:2 final size:2
Alignment explanation
Indices: 4112363--4112398 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4112353 AGCAACCATT
4112363 TA TA TA TA 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 TA TA TA TA
4112399 GCTCTAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4125356 original size:28 final size:28
Alignment explanation
Indices: 4125324--4125395 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
4125314 TTAAGGAGTA
4125324 GCAGAAATCATGCATTGCATAAAAGATT
1 GCAGAAATCATGCATTGCATAAAAGATT
4125352 GCAGAAATCATGCATTGCATAAAAGATT
1 GCAGAAATCATGCATTGCATAAAAGATT
* *
4125380 ACAGAAATCATCCATT
1 GCAGAAATCATGCATT
4125396 TAGAGAAGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (28 bp):
GCAGAAATCATGCATTGCATAAAAGATT
Found at i:4125370 original size:16 final size:16
Alignment explanation
Indices: 4125324--4125370 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
4125314 TTAAGGAGTA
4125324 GCAGAAATCATGCATT
1 GCAGAAATCATGCATT
*
4125340 GCATAAA--A-G-ATT
1 GCAGAAATCATGCATT
4125352 GCAGAAATCATGCATT
1 GCAGAAATCATGCATT
4125368 GCA
1 GCA
4125371 TAAAAGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 9 0.36
13 1 0.04
14 2 0.08
15 1 0.04
16 12 0.48
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (16 bp):
GCAGAAATCATGCATT
Found at i:4128106 original size:54 final size:54
Alignment explanation
Indices: 4128024--4128132 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
4128014 AAAGAGAGAA
4128024 AAAAATAAAGAACTTTATTTATAATATATACAAATAAACATAAAAAATAAATTC
1 AAAAATAAAGAACTTTATTTATAATATATACAAATAAACATAAAAAATAAATTC
* * *
4128078 AAAAATGAAA-AACTTTATTTCTAATATATACCAATAAACATAAAAATTAAATTC
1 AAAAAT-AAAGAACTTTATTTATAATATATACAAATAAACATAAAAAATAAATTC
4128132 A
1 A
4128133 TTATATTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 48 0.94
55 3 0.06
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (54 bp):
AAAAATAAAGAACTTTATTTATAATATATACAAATAAACATAAAAAATAAATTC
Found at i:4128380 original size:16 final size:16
Alignment explanation
Indices: 4128361--4128391 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4128351 GGTGTTTCGA
4128361 ATTCAAGTAATTTCAG
1 ATTCAAGTAATTTCAG
*
4128377 ATTCAAGTCATTTCA
1 ATTCAAGTAATTTCA
4128392 AATTGTTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTCAAGTAATTTCAG
Found at i:4139714 original size:21 final size:23
Alignment explanation
Indices: 4139676--4139728 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4139666 TTAAATATGG
* *
4139676 TTTTTTTAATTATAAATTTTATA
1 TTTTTATAATTATAAATTATATA
4139699 TTTTTATAATT-T-AATTATATA
1 TTTTTATAATTATAAATTATATA
4139720 -TTTTATAAT
1 TTTTTATAAT
4139729 AATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 1 0.04
23 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTATAATTATAAATTATATA
Found at i:4139728 original size:15 final size:15
Alignment explanation
Indices: 4139677--4139735 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
4139667 TAAATATGGT
* *
4139677 TTTTTTAATTATAAA
1 TTTTATAATTATATA
* *
4139692 TTTTATATTTTTATA
1 TTTTATAATTATATA
*
4139707 -ATT-TAATTATATA
1 TTTTATAATTATATA
*
4139720 TTTTATAATAATATA
1 TTTTATAATTATATA
4139735 T
1 T
4139736 ATAATTTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 21 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATAATTATATA
Found at i:4139734 original size:28 final size:28
Alignment explanation
Indices: 4139680--4139783 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 28
4139670 ATATGGTTTT
* * **
4139680 TTTAATTATAAATTTTATATTTTTATAA
1 TTTAATTATATATTTTATAATAATATAA
4139708 TTTAATTATATATTTTATAATAATAT-A
1 TTTAATTATATATTTTATAATAATATAA
* *
4139735 TATAA-T-T-TATTTTATTAATTAT-TAA
1 TTTAATTATATATTTTA-TAATAATATAA
*
4139760 TTT-ATTAAAATATTTTTATAATAA
1 TTTAATT-ATATA-TTTTATAATAA
4139784 AAATCATACT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
24 9 0.15
25 11 0.18
26 1 0.02
27 5 0.08
28 29 0.48
29 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTAATTATATATTTTATAATAATATAA
Found at i:4139736 original size:19 final size:19
Alignment explanation
Indices: 4139694--4139744 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
4139684 ATTATAAATT
4139694 TTATAT-TTTTATAATTTAA
1 TTATATATTTTATAA-TTAA
4139713 TTATATATTTTATAA-TAA
1 TTATATATTTTATAATTAA
*
4139731 TATATATAATTTAT
1 T-TATATATTTTAT
4139745 TTTATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATATTTTATAATTAA
Found at i:4139760 original size:20 final size:23
Alignment explanation
Indices: 4139697--4139765 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 23
4139687 ATAAATTTTA
* * *
4139697 TATTTT-TATAATTTA-ATTATA
1 TATTTTATATAATATATATAATT
4139718 TATTTTATAATAATATATATAATT
1 TATTTTAT-ATAATATATATAATT
4139742 TATTTTAT-TAAT-TAT-TAATT
1 TATTTTATATAATATATATAATT
4139762 TATT
1 TATT
4139766 AAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.21
21 9 0.21
22 5 0.12
23 7 0.17
24 12 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTATATAATATATATAATT
Found at i:4139884 original size:31 final size:30
Alignment explanation
Indices: 4139820--4139891 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
4139810 AATATTAACA
* ****
4139820 AAAAATTTATTAAAAATATATTTAATTTTT
1 AAAAATTAATTAAAAATATATTTAAAAAAT
4139850 AAAAATTAAATTAAAAATATATTTAAAAAAT
1 AAAAATT-AATTAAAAATATATTTAAAAAAT
4139881 AAAAATATAAT
1 AAAAAT-TAAT
4139892 ATGATTAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 7 0.20
31 27 0.77
32 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAAATTAATTAAAAATATATTTAAAAAAT
Found at i:4140086 original size:24 final size:24
Alignment explanation
Indices: 4140053--4140138 Score: 106
Period size: 24 Copynumber: 3.6 Consensus size: 24
4140043 TAAATTCAAA
4140053 ATAATTCTAATATATCTATACGTAT
1 ATAATTCTAATATATCTATAC-TAT
* * *
4140078 ATAA-TCTAATATAT-TTTTCAAT
1 ATAATTCTAATATATCTATACTAT
4140100 ATAATTCTAATATATCTATACCTAT
1 ATAATTCTAATATATCTATA-CTAT
4140125 ATAA-TCTAATATAT
1 ATAATTCTAATATAT
4140139 TTTTTCACTC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
22 6 0.12
23 13 0.25
24 22 0.42
25 11 0.21
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (24 bp):
ATAATTCTAATATATCTATACTAT
Found at i:4140104 original size:47 final size:47
Alignment explanation
Indices: 4140047--4140142 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
4140037 TGTGAATAAA
*
4140047 TTCAAAATAATTCTAATATATCTATACGTATATAATCTAATATATTT
1 TTCAAAATAATTCTAATATATCTATACCTATATAATCTAATATATTT
*
4140094 TTCAATATAATTCTAATATATCTATACCTATATAATCTAATATATTT
1 TTCAAAATAATTCTAATATATCTATACCTATATAATCTAATATATTT
4140141 TT
1 TT
4140143 TCACTCCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.41, C:0.11, G:0.01, T:0.47
Consensus pattern (47 bp):
TTCAAAATAATTCTAATATATCTATACCTATATAATCTAATATATTT
Found at i:4140153 original size:25 final size:23
Alignment explanation
Indices: 4140077--4140147 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
4140067 TCTATACGTA
*
4140077 TATAATCTAATATA-TTTTTCAA
1 TATAATCTAATATATTTTTTCAC
* * *
4140099 TATAATTCTAATATATCTATAC-C
1 TATAA-TCTAATATATTTTTTCAC
4140122 TATATAATCTAATATATTTTTTCAC
1 --TATAATCTAATATATTTTTTCAC
4140147 T
1 T
4140148 CCATAATTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 5 0.14
23 10 0.27
24 16 0.43
25 6 0.16
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (23 bp):
TATAATCTAATATATTTTTTCAC
Found at i:4140272 original size:22 final size:22
Alignment explanation
Indices: 4140232--4140274 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4140222 AATTTAAATT
*
4140232 ATTATTTATAAATTAATAAAAA
1 ATTATTTATAAACTAATAAAAA
* *
4140254 ATTATTTTTAAACTCATAAAA
1 ATTATTTATAAACTAATAAAA
4140275 TATAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTATTTATAAACTAATAAAAA
Found at i:4140372 original size:2 final size:2
Alignment explanation
Indices: 4140365--4140418 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4140355 ATAGAAATGC
4140365 AT AT AT AT AT AT AT AT 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 AT
4140407 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4140419 TGGAGAAGGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4141758 original size:47 final size:47
Alignment explanation
Indices: 4141702--4141797 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
4141692 ATCTTCTAGC
*
4141702 AAAAGAGTAAGCCAGTTTGATAGCTAAAACTTATGCAACCTCTACAG
1 AAAAAAGTAAGCCAGTTTGATAGCTAAAACTTATGCAACCTCTACAG
*
4141749 AAAAAAGTAAGCCAGTTTGATAGCTAAAGCTTATGCAACCTCTACAG
1 AAAAAAGTAAGCCAGTTTGATAGCTAAAACTTATGCAACCTCTACAG
4141796 AA
1 AA
4141798 TCAACATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (47 bp):
AAAAAAGTAAGCCAGTTTGATAGCTAAAACTTATGCAACCTCTACAG
Found at i:4142863 original size:23 final size:23
Alignment explanation
Indices: 4142837--4142880 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4142827 TAACGTATTC
4142837 AAAAACATGTTCTTAAATAATTG
1 AAAAACATGTTCTTAAATAATTG
*
4142860 AAAAACATGTTTTTAAATAAT
1 AAAAACATGTTCTTAAATAAT
4142881 ACAAGAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (23 bp):
AAAAACATGTTCTTAAATAATTG
Found at i:4143234 original size:12 final size:12
Alignment explanation
Indices: 4143217--4143241 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4143207 TATCAATATC
4143217 AATAGTAACATT
1 AATAGTAACATT
4143229 AATAGTAACATT
1 AATAGTAACATT
4143241 A
1 A
4143242 GTATGAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AATAGTAACATT
Found at i:4145043 original size:17 final size:17
Alignment explanation
Indices: 4145017--4145069 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
4145007 TGATCTAATT
*
4145017 TTATAATTATTAAATAA
1 TTATATTTATTAAATAA
*
4145034 TTATATTTATTAGATAA
1 TTATATTTATTAAATAA
*
4145051 ATATTATTTATTGAAATAA
1 TTA-TATTTATT-AAATAA
4145070 ATATGGAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 17 0.57
18 8 0.27
19 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TTATATTTATTAAATAA
Found at i:4149443 original size:17 final size:16
Alignment explanation
Indices: 4149423--4149458 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4149413 GGTTTTCAGC
*
4149423 TTTTTTAAGTTTAGAT
1 TTTTTTAAGCTTAGAT
*
4149439 TTTTTTGAGCTTAGAT
1 TTTTTTAAGCTTAGAT
4149455 TTTT
1 TTTT
4149459 ATTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.64
Consensus pattern (16 bp):
TTTTTTAAGCTTAGAT
Found at i:4150255 original size:26 final size:27
Alignment explanation
Indices: 4150222--4150290 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
4150212 TTAGAACATT
4150222 ATTTAAATATTTAAATATTTTTTAA-A
1 ATTTAAATATTTAAATATTTTTTAATA
4150248 ATTTAAATA--T-AATAATTTTTTAATA
1 ATTTAAATATTTAAAT-ATTTTTTAATA
*
4150273 TTTTAATATATTTAAATA
1 ATTTAA-ATATTTAAATA
4150291 AATAATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 3 0.08
24 10 0.28
25 6 0.17
26 12 0.33
28 2 0.06
29 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTTAAATATTTAAATATTTTTTAATA
Found at i:4151542 original size:31 final size:31
Alignment explanation
Indices: 4151507--4151570 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
4151497 GCCTGCATGG
4151507 TTAAGATGGTTTTGCCACCCAGCATAGAATT
1 TTAAGATGGTTTTGCCACCCAGCATAGAATT
4151538 TTAAGATGGTTTTGCCACCCAGCATAGAATT
1 TTAAGATGGTTTTGCCACCCAGCATAGAATT
4151569 TT
1 TT
4151571 CTTCTCCGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
TTAAGATGGTTTTGCCACCCAGCATAGAATT
Found at i:4158779 original size:13 final size:13
Alignment explanation
Indices: 4158761--4158785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4158751 TTATACCTTT
4158761 TTTTTAATTTTTG
1 TTTTTAATTTTTG
4158774 TTTTTAATTTTT
1 TTTTTAATTTTT
4158786 TTTGACTTTC
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:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTTAATTTTTG
Found at i:4161151 original size:22 final size:23
Alignment explanation
Indices: 4161109--4161152 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4161099 TATAAATGAT
* *
4161109 CTTAATATGCATGATTTTTTAGG
1 CTTAATATGCATAATTATTTAGG
4161132 CTTAAT-TGCATAATTATTTAG
1 CTTAATATGCATAATTATTTAG
4161153 TTAATTAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.48
Consensus pattern (23 bp):
CTTAATATGCATAATTATTTAGG
Found at i:4162095 original size:20 final size:17
Alignment explanation
Indices: 4162052--4162106 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
4162042 TGAAAATTGT
4162052 TAAATAATATTTTAAAA
1 TAAATAATATTTTAAAA
4162069 TAAATAATATTTTAATAA
1 TAAATAATATTTTAA-AA
* *
4162087 TTATTATAATCTTTTAAAA
1 -TA-AATAATATTTTAAAA
4162106 T
1 T
4162107 GTTTAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 15 0.45
18 3 0.09
19 4 0.12
20 11 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATAATATTTTAAAA
Found at i:4162623 original size:18 final size:17
Alignment explanation
Indices: 4162602--4162635 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4162592 TAAATTAAAA
*
4162602 ATTAATATTAAATATTTT
1 ATTAATAGT-AATATTTT
4162620 ATTAATAGTAATATTT
1 ATTAATAGTAATATTT
4162636 GTCTCGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTAATAGTAATATTTT
Found at i:4163229 original size:25 final size:25
Alignment explanation
Indices: 4163194--4163241 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4163184 TTTTTTATTT
**
4163194 TCTTTTATTTTTTATTTATTTTTCA
1 TCTTTTATTTTAAATTTATTTTTCA
*
4163219 TCTTTTTTTTTAAATTTATTTTT
1 TCTTTTATTTTAAATTTATTTTT
4163242 GTTTGATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (25 bp):
TCTTTTATTTTAAATTTATTTTTCA
Found at i:4168173 original size:36 final size:37
Alignment explanation
Indices: 4168126--4168218 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 37
4168116 AAATAACAAA
* * *
4168126 TTTTAGCAATCATAAATTTTCTAAGAA-TATTAGAGT
1 TTTTAGAAATCACAAATTTTCTAAGAATTATTAAAGT
* * *
4168162 TTTTAGAAATCACAGATTTTTTAAGAATTATTAAATT
1 TTTTAGAAATCACAAATTTTCTAAGAATTATTAAAGT
*
4168199 TTTTA-AGAATCACATATTTT
1 TTTTAGA-AATCACAAATTTT
4168219 TTTAAAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 24 0.50
37 24 0.50
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTTAGAAATCACAAATTTTCTAAGAATTATTAAAGT
Found at i:4168183 original size:19 final size:18
Alignment explanation
Indices: 4168161--4168220 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
4168151 AATATTAGAG
4168161 TTTTT-AGAAATCACAGAT
1 TTTTTAAGAAATCACA-AT
*
4168179 TTTTTAAGAATTATTA-AAT
1 TTTTTAAGAA--ATCACAAT
4168198 TTTTTAAG-AATCACATAT
1 TTTTTAAGAAATCACA-AT
4168216 TTTTT
1 TTTTT
4168221 TAAAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 13 0.37
19 14 0.40
20 1 0.03
21 3 0.09
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (18 bp):
TTTTTAAGAAATCACAAT
Found at i:4168203 original size:37 final size:36
Alignment explanation
Indices: 4168126--4168220 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 36
4168116 AAATAACAAA
* * * *
4168126 TTTTAGCAATCATAAATTTTCTAAGAATATTAGAGT
1 TTTTAGAAATCACAAATTTTTTAAGAATATTAAAGT
* *
4168162 TTTTAGAAATCACAGATTTTTTAAGAATTATTAAATT
1 TTTTAGAAATCACAAATTTTTTAAGAA-TATTAAAGT
*
4168199 TTTTA-AGAATCACATATTTTTT
1 TTTTAGA-AATCACAAATTTTTT
4168221 TAAAATAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 24 0.48
37 26 0.52
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (36 bp):
TTTTAGAAATCACAAATTTTTTAAGAATATTAAAGT
Found at i:4168217 original size:18 final size:18
Alignment explanation
Indices: 4168169--4168220 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
4168159 AGTTTTTAGA
*
4168169 AATCACAGATTTTTTAAG
1 AATCACAAATTTTTTAAG
* *
4168187 AATTATTAAATTTTTTAAG
1 AATCA-CAAATTTTTTAAG
*
4168206 AATCACATATTTTTT
1 AATCACAAATTTTTT
4168221 TAAAATAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (18 bp):
AATCACAAATTTTTTAAG
Found at i:4171095 original size:37 final size:37
Alignment explanation
Indices: 4171046--4171118 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
4171036 TAGCAATCAC
*
4171046 AGATTTTTTAAGAATCACAGATTTTTCAAAAATCATT
1 AGATTTTCTAAGAATCACAGATTTTTCAAAAATCATT
*
4171083 AGATTTTCTAAGAATCACAGATTTTTTAAAAATCAT
1 AGATTTTCTAAGAATCACAGATTTTTCAAAAATCAT
4171119 AAATTTATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (37 bp):
AGATTTTCTAAGAATCACAGATTTTTCAAAAATCATT
Found at i:4171124 original size:18 final size:18
Alignment explanation
Indices: 4171040--4171117 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
4171030 AAATTTTAGC
*
4171040 AATCACAGATTTTTTAAG
1 AATCACAGATTTTTTAAA
*
4171058 AATCACAGATTTTTCAAA
1 AATCACAGATTTTTTAAA
* * *
4171076 AATCATTAGATTTTCTAAG
1 AATCA-CAGATTTTTTAAA
4171095 AATCACAGATTTTTTAAA
1 AATCACAGATTTTTTAAA
4171113 AATCA
1 AATCA
4171118 TAAATTTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
18 36 0.72
19 14 0.28
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (18 bp):
AATCACAGATTTTTTAAA
Found at i:4174374 original size:66 final size:66
Alignment explanation
Indices: 4174268--4174399 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
4174258 TTAACTAATT
* *
4174268 TCTCTCTTCATTGTATTCCAAAAAGTTGAGTCATATATGCATAATAGATAGTTGAATATAGTTAT
1 TCTCTCTTCATCGTATTCCAAAAAGTTGAGTCATATATGCACAATAGATAGTTGAATATAGTTAT
4174333 A
66 A
* *
4174334 TCTCTCTTCATCGTGTTCCAAAAAGTTGAGTCATATATGCACAGTAGATAGTTGAATATAGTTAT
1 TCTCTCTTCATCGTATTCCAAAAAGTTGAGTCATATATGCACAATAGATAGTTGAATATAGTTAT
4174399 A
66 A
4174400 GGACTTTGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (66 bp):
TCTCTCTTCATCGTATTCCAAAAAGTTGAGTCATATATGCACAATAGATAGTTGAATATAGTTAT
A
Found at i:4181338 original size:23 final size:25
Alignment explanation
Indices: 4181292--4181346 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
4181282 TTTGCGTGTG
*
4181292 AATTATTTAAAATATAAATATTA-T
1 AATTAATTAAAATATAAATATTATT
* *
4181316 AATTAATTACAATA-AAATTTTATT
1 AATTAATTAAAATATAAATATTATT
4181340 AA-TAATT
1 AATTAATT
4181347 TTTAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTAATTAAAATATAAATATTATT
Found at i:4182104 original size:22 final size:21
Alignment explanation
Indices: 4182055--4182125 Score: 97
Period size: 22 Copynumber: 3.3 Consensus size: 21
4182045 TTTTATTTTG
* *
4182055 TTATTAATCATTTACTACTAT
1 TTATCAATCATTTATTACTAT
*
4182076 TTATCAATCATTTATTATTAT
1 TTATCAATCATTTATTACTAT
4182097 ATTATCAATCATTTATTACTATT
1 -TTATCAATCATTTATTACTA-T
4182120 TTATCA
1 TTATCA
4182126 GTGGTTTACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 18 0.41
22 25 0.57
23 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATCAATCATTTATTACTAT
Found at i:4183296 original size:3 final size:3
Alignment explanation
Indices: 4183288--4183316 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4183278 ATTTATTTAT
4183288 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4183317 TTGCAATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4185068 original size:22 final size:23
Alignment explanation
Indices: 4185023--4185070 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
4185013 TAAATTTAAA
4185023 TAAATTAATAAAAATTAAATATT
1 TAAATTAATAAAAATTAAATATT
*
4185046 TAAA-TAA-AAAAATTAATTAATT
1 TAAATTAATAAAAATTAAAT-ATT
4185068 TAA
1 TAA
4185071 CAATTATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATTAATAAAAATTAAATATT
Found at i:4187151 original size:2 final size:2
Alignment explanation
Indices: 4187144--4187192 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4187134 CTAAATCTGT
4187144 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
4187186 TA TA TA T
1 TA TA TA T
4187193 CAGATGGCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4192249 original size:22 final size:22
Alignment explanation
Indices: 4192209--4192250 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4192199 CGCAAAAAAA
**
4192209 AAGGAAAGAAAAGTTAAAGGCT
1 AAGGAAAGAAAAGAAAAAGGCT
*
4192231 AAGGAAGGAAAAGAAAAAGG
1 AAGGAAAGAAAAGAAAAAGG
4192251 AACAAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.02, G:0.31, T:0.07
Consensus pattern (22 bp):
AAGGAAAGAAAAGAAAAAGGCT
Found at i:4192703 original size:21 final size:20
Alignment explanation
Indices: 4192670--4192709 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4192660 TTCTAACTTT
* *
4192670 TTAAATTTGTTTATTTATTA
1 TTAAAATTGTTTAGTTATTA
4192690 TTAAAATTGTTTTAGTTATT
1 TTAAAATTG-TTTAGTTATT
4192710 TTGAATCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTAAAATTGTTTAGTTATTA
Found at i:4192973 original size:4 final size:4
Alignment explanation
Indices: 4192959--4192990 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
4192949 AAAATCCACT
4192959 ATAA A-AA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
4192991 ACAGGCTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:4195442 original size:6 final size:6
Alignment explanation
Indices: 4195431--4195507 Score: 90
Period size: 6 Copynumber: 13.3 Consensus size: 6
4195421 AATGCAATAT
* *
4195431 ATATAC ATATAC ATAT-- ATATAC ATATAT ATATAC ATATAC ATATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
4195477 ATATAC ATAT-- ATATAT ATATAC ATAATAC AT
1 ATATAC ATATAC ATATAC ATATAC AT-ATAC AT
4195508 CTATGAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
4 8 0.13
6 47 0.77
7 6 0.10
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAC
Found at i:4195448 original size:16 final size:16
Alignment explanation
Indices: 4195427--4195507 Score: 98
Period size: 16 Copynumber: 5.1 Consensus size: 16
4195417 CAACAATGCA
4195427 ATATATATACATATAC
1 ATATATATACATATAC
4195443 ATATATATAC--AT--
1 ATATATATACATATAC
4195455 ATATATATACATATAC
1 ATATATATACATATAC
*
4195471 ATATATATATACATATAT
1 --ATATATATACATATAC
4195489 ATATATATACATAATAC
1 ATATATATACAT-ATAC
4195506 AT
1 AT
4195508 CTATGAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
12 10 0.18
14 4 0.07
16 22 0.39
17 5 0.09
18 15 0.27
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATATATACATATAC
Found at i:4212493 original size:51 final size:51
Alignment explanation
Indices: 4212417--4212520 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
4212407 ATAGATGCAA
* *
4212417 GAAAATGGGTTTGTGAAATATGCATGTTCTGGAGTGATTACTAGCCCAAAG
1 GAAAAGGGGTTTGTGAAATATGCATGCTCTGGAGTGATTACTAGCCCAAAG
* * *
4212468 GAAAAGGGGTTTGTGAAGTATGCATGCTCTGGAGTGATTATTAGCCTAAAG
1 GAAAAGGGGTTTGTGAAATATGCATGCTCTGGAGTGATTACTAGCCCAAAG
4212519 GA
1 GA
4212521 TCTCCAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.29
Consensus pattern (51 bp):
GAAAAGGGGTTTGTGAAATATGCATGCTCTGGAGTGATTACTAGCCCAAAG
Found at i:4217765 original size:22 final size:23
Alignment explanation
Indices: 4217713--4217765 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
4217703 ATAATTTTTT
*
4217713 ATTTAAAT-TTAATTATAAAAAT
1 ATTTAAATATTAATTATAAAAAA
*
4217735 ATATAAATATTAA-TATAAAAAA
1 ATTTAAATATTAATTATAAAAAA
*
4217757 ATTTTAATA
1 ATTTAAATA
4217766 GTGTCATGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAAATATTAATTATAAAAAA
Found at i:4218375 original size:18 final size:19
Alignment explanation
Indices: 4218335--4218377 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4218325 TTCAAAAACT
* *
4218335 ATATTTATTTTTTTCTTTA
1 ATATTTATTTTTATCTGTA
*
4218354 ATATTTATTTTTAT-TGTG
1 ATATTTATTTTTATCTGTA
4218372 ATATTT
1 ATATTT
4218378 GTTACTTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (19 bp):
ATATTTATTTTTATCTGTA
Found at i:4221011 original size:22 final size:21
Alignment explanation
Indices: 4220986--4221026 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4220976 TACAAGATTG
*
4220986 ACACTGATTGTTTTCTTTTTCT
1 ACACTGA-TATTTTCTTTTTCT
*
4221008 ACACTTATATTTTCTTTTT
1 ACACTGATATTTTCTTTTT
4221027 TTCTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.61
Consensus pattern (21 bp):
ACACTGATATTTTCTTTTTCT
Found at i:4222161 original size:87 final size:87
Alignment explanation
Indices: 4222015--4222188 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
4222005 ATAAGTAGGT
4222015 AAGTTAACAATTATCAAAGCATGTTTGCTACTATTGTTGATTTATTTTTCAACAACTTTATTTTG
1 AAGTTAACAATTATCAAAGCATGTTTGCTACTATTGTTGATTTATTTTTCAACAACTTTATTTTG
4222080 CTTCTTGTTTGGACACGCCAAA
66 CTTCTTGTTTGGACACGCCAAA
4222102 AAGTTAACAATTATCAAAGCATGTTTGCTACTATTGTTGATTTATTTTTCAACAACTTTATTTTG
1 AAGTTAACAATTATCAAAGCATGTTTGCTACTATTGTTGATTTATTTTTCAACAACTTTATTTTG
*
4222167 CTTCTTGTTTTGACACGCCAAA
66 CTTCTTGTTTGGACACGCCAAA
4222189 TGATGATGGT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (87 bp):
AAGTTAACAATTATCAAAGCATGTTTGCTACTATTGTTGATTTATTTTTCAACAACTTTATTTTG
CTTCTTGTTTGGACACGCCAAA
Found at i:4230528 original size:19 final size:20
Alignment explanation
Indices: 4230504--4230543 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
4230494 TAAAAAATAA
4230504 TATAATAATTATA-TATTTT
1 TATAATAATTATATTATTTT
4230523 TATAATAATTATATTATTTT
1 TATAATAATTATATTATTTT
4230543 T
1 T
4230544 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATAATAATTATATTATTTT
Found at i:4231904 original size:31 final size:28
Alignment explanation
Indices: 4231833--4231906 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
4231823 ATCTGTACTC
* *
4231833 AATTTTAATT-ATAAAATATAAATACAT
1 AATTTTTATTAATAAAATATAAATAAAT
*
4231860 AATTATTATTTAATAAAATATAATATAAACT
1 AATTTTTA-TTAATAAAATATAA-ATAAA-T
4231891 AATTTTTTATTAATAA
1 AA-TTTTTATTAATAA
4231907 TTAACTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 6 0.16
28 2 0.05
29 11 0.29
30 4 0.11
31 10 0.26
32 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
AATTTTTATTAATAAAATATAAATAAAT
Found at i:4232193 original size:19 final size:19
Alignment explanation
Indices: 4232165--4232229 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
4232155 CTTTTTTACA
*
4232165 ATTATCTAATATATATTAT
1 ATTATATAATATATATTAT
* *
4232184 ATTATATAATTTATATCAT
1 ATTATATAATATATATTAT
*
4232203 A-TAAATAAATATATATGTATT
1 ATTATAT-AATATATAT-TA-T
4232224 ATTATA
1 ATTATA
4232230 GTTTAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 4 0.11
19 25 0.71
20 1 0.03
21 2 0.06
22 3 0.09
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTATATAATATATATTAT
Found at i:4232269 original size:34 final size:34
Alignment explanation
Indices: 4232221--4232285 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
4232211 ATATATATGT
*
4232221 ATTATTATAGTTTAAAAATTAA-AAATATATTAA
1 ATTATTATAGTTTAAAAATTAATAAAAATATTAA
* *
4232254 ATTATTAATATTTTAAAATTTAATAAAAATAT
1 ATTATT-ATAGTTTAAAAATTAATAAAAATAT
4232286 GTTTTTCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 14 0.52
35 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (34 bp):
ATTATTATAGTTTAAAAATTAATAAAAATATTAA
Found at i:4232928 original size:23 final size:23
Alignment explanation
Indices: 4232902--4232956 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4232892 AAACAAAAGG
* *
4232902 TAATTATTAATGTTTT-TTTAAAA
1 TAATTAATAATATTTTATTT-AAA
*
4232925 TAATTAATACTATTTTATTTAAA
1 TAATTAATAATATTTTATTTAAA
4232948 TAATTAATA
1 TAATTAATA
4232957 TAAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATTAATAATATTTTATTTAAA
Found at i:4233196 original size:38 final size:38
Alignment explanation
Indices: 4233117--4233213 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 38
4233107 TAATAACAAC
4233117 ATATAA-AAATATTTATAT-AATATATTACATATTATTA
1 ATATAATAAA-ATTTATATAAATATATTACATATTATTA
*
4233154 ATATAATAAAATTTATATAAATGTATTA-ATAATTA-TA
1 ATATAATAAAATTTATATAAATATATTACAT-ATTATTA
*
4233191 TATATAATAAAATTAATATAAAT
1 -ATATAATAAAATTTATATAAAT
4233214 TCGAAATTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
37 18 0.33
38 36 0.67
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (38 bp):
ATATAATAAAATTTATATAAATATATTACATATTATTA
Found at i:4236428 original size:13 final size:15
Alignment explanation
Indices: 4236404--4236435 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4236394 CTTTATGCTG
4236404 TTTTTTCATTTA-TA
1 TTTTTTCATTTATTA
4236418 TTTTTTC-TTTATTA
1 TTTTTTCATTTATTA
4236432 TTTT
1 TTTT
4236436 AAAATATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCATTTATTA
Found at i:4242527 original size:20 final size:20
Alignment explanation
Indices: 4242502--4242560 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
4242492 AAATTTATTT
*
4242502 TTAAAATATTTTTTAATAAA
1 TTAAAAAATTTTTTAATAAA
*
4242522 TTAAAAAATTATTT-ATAAA
1 TTAAAAAATTTTTTAATAAA
4242541 TTAAATAAATTTTATTAATA
1 TTAAA-AAATTTT-TTAATA
4242561 TAAAAATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 10 0.30
20 18 0.55
21 2 0.06
22 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAAAATTTTTTAATAAA
Found at i:4242993 original size:18 final size:17
Alignment explanation
Indices: 4242970--4243019 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
4242960 ATTTATACTA
4242970 ATTATTTATTAAATTAAT
1 ATTATTTATTAAA-TAAT
*
4242988 ATTATTAATTAAATAAT
1 ATTATTTATTAAATAAT
4243005 ATTAATTTAATTAAA
1 ATT-ATTT-ATTAAA
4243020 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 15 0.54
19 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTATTTATTAAATAAT
Found at i:4248604 original size:829 final size:830
Alignment explanation
Indices: 4246239--4248731 Score: 4943
Period size: 831 Copynumber: 3.0 Consensus size: 830
4246229 GATATGACTC
4246239 CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
1 CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
4246304 ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
66 ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
4246369 ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTCTTTTT
131 ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTCTTTTT
4246434 TTTTTTAAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGAG
196 TTTTTTAAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGAG
4246499 TGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATGA
261 TGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATGA
4246564 GCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTTG
326 GCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTTG
4246629 GGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCAT
391 GGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCAT
4246694 GGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTTA
456 GGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTTA
4246759 TTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTAT
521 TTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTAT
4246824 TTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATGCTGGTGCAG
586 TTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATGCTGGTGCAG
4246889 TTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCAGGTTTTGCTTTTCTTGC
651 TTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCAGGTTTTGCTTTTCTTGC
4246954 TTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTTAAAAAAAAAACAGG
716 TTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTTAAAAAAAAAACAGG
4247019 AATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
781 AATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
4247069 CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
1 CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
4247134 ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
66 ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
4247199 ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTCTTTTT
131 ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTCTTTTT
4247264 TTTTTTAAAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGA
196 TTTTTT-AAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGA
4247329 GTGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATG
260 GTGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATG
4247394 AGCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTT
325 AGCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTT
4247459 GGGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCA
390 GGGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCA
4247524 TGGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTT
455 TGGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTT
4247589 ATTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTA
520 ATTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTA
4247654 TTTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATGCTGGTGCA
585 TTTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATGCTGGTGCA
4247719 GTTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCAGGTTTTGCTTTTCTTG
650 GTTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCAGGTTTTGCTTTTCTTG
4247784 CTTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTTAAAAAAAAAACAG
715 CTTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTTAAAAAAAAAACAG
4247849 GAATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
780 GAATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
4247900 CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
1 CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
4247965 ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
66 ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
4248030 ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTC-TTTT
131 ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTCTTTTT
4248094 TTTTTTAAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGAG
196 TTTTTTAAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGAG
4248159 TGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATGA
261 TGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATGA
4248224 GCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTTG
326 GCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTTG
4248289 GGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCAT
391 GGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCAT
4248354 GGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTTA
456 GGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTTA
4248419 TTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTAT
521 TTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTAT
*
4248484 TTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATACTGGTGCAG
586 TTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATGCTGGTGCAG
*
4248549 TTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCTGGTTTTGCTTTTCTTGC
651 TTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCAGGTTTTGCTTTTCTTGC
4248614 TTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTTAAAAAAAAAAACAG
716 TTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTT-AAAAAAAAAACAG
4248679 GAATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
780 GAATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
4248730 CA
1 CA
4248732 CTGCTGGAAA
Statistics
Matches: 1659, Mismatches: 2, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
829 563 0.34
830 277 0.17
831 819 0.49
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (830 bp):
CAAGTTGTCTTTTGAATGCATGTGCTTATATGAACAGTATATGCCATTTCTTTGTTAGATGTATC
ATCTGTAGATATTTAGATTTTATTCCTAGTTGTCTCTCAAATACGTGTTCTTATATGAACAATAT
ATGTGGCAATAGAGTTTCTTTTGGCAATGGACATGCCTAGGTTAGTATTGTTTTGTCTTCTTTTT
TTTTTTAAAAAAAAAAGAGAAGAAAAGAGGTGGTTGTGCTATGGTGGTTTGCTTATTATATCGAG
TGAGGTTAAGCCGTTAAAGCTTTCAGTTCCTGTACAATCAAGTACAGGAGGCTCTGTAATCATGA
GCTAATATACTTTTCTCAGTCTTCCATTCCCTTTCTTGTTTCATGGTCCTTGATATTCAGTCTTG
GGCATATAGGAATAAAATCATATTAACAGTTCATCCTGACCTTAATCACTAAACCCTACTGCCAT
GGCATTACTATGAGCTCCTAAACAAAATGACAGAGCTGCGTGGTAGAAAGGTTATGATCTTCTTA
TTACCTTTTTCATAAAAATTTTTGTGGGGTCTGTTGTTCTTTATTTGCTTCTTGGTAATACTTAT
TTCACTTCCTCGCCTTGCTTTGCATTAGAAATCAAAATACAAGGAGGGAAGTCATGCTGGTGCAG
TTCTTGGTCTAGCTTGGAACAGGGAATACAGGTTATTTTGATCTATCAGGTTTTGCTTTTCTTGC
TTTAATGGAAATTTATGAGGAAATTAGTTCTTCTCATAGATCTTTTCATTTAAAAAAAAAACAGG
AATATCCTTGCTAGTGCAAGTGCTGACAAACAAGTTAAGATTTGGGACGT
Found at i:4254172 original size:16 final size:16
Alignment explanation
Indices: 4254151--4254184 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4254141 CATATGAGTG
4254151 TAATTATTATTAAATT
1 TAATTATTATTAAATT
4254167 TAATTATTATTAAATT
1 TAATTATTATTAAATT
4254183 TA
1 TA
4254185 GTGATCCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTATTATTAAATT
Found at i:4255343 original size:50 final size:50
Alignment explanation
Indices: 4255285--4255386 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
4255275 TATAAGTATC
* *
4255285 CATTCCTCATTTGTGCAGCGCAAGCTAAAAGTAGCCAGACTTAGAGTCAA
1 CATTCCTCATCTGTGCAGCGCAAGCTAAAAGTAGCCAGACTTACAGTCAA
* *
4255335 CATTCCTCATCTGTGCAGTGCAAGCTAAAAGTAGCCAGACTTACAGTGAA
1 CATTCCTCATCTGTGCAGCGCAAGCTAAAAGTAGCCAGACTTACAGTCAA
4255385 CA
1 CA
4255387 GCCTAAAGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (50 bp):
CATTCCTCATCTGTGCAGCGCAAGCTAAAAGTAGCCAGACTTACAGTCAA
Found at i:4258939 original size:7 final size:7
Alignment explanation
Indices: 4258921--4258971 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
4258911 TAAATTTAGA
4258921 TTTAAA-
1 TTTAAAT
4258927 TTTAAAT
1 TTTAAAT
4258934 TTTAAAAT
1 TTT-AAAT
*
4258942 TTTAGAT
1 TTTAAAT
4258949 TTTAAAT
1 TTTAAAT
*
4258956 TTATGAAT
1 TT-TAAAT
*
4258964 TTAAAAT
1 TTTAAAT
4258971 T
1 T
4258972 CTTTATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.16
7 18 0.49
8 13 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (7 bp):
TTTAAAT
Found at i:4260735 original size:21 final size:23
Alignment explanation
Indices: 4260705--4260754 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4260695 AAAATGAATT
*
4260705 TATATAAATTT-T-TATATGTTAA
1 TATATTAATTTATCTATAT-TTAA
4260727 T-TATTAATTTATCTATATTTAA
1 TATATTAATTTATCTATATTTAA
4260749 TATATT
1 TATATT
4260755 CATATATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATTAATTTATCTATATTTAA
Found at i:4261037 original size:16 final size:15
Alignment explanation
Indices: 4261010--4261047 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
4261000 ATTTTTAAAT
4261010 AAATTTTATTAATTA
1 AAATTTTATTAATTA
*
4261025 TAATTTTATTTAATTA
1 AAATTTTA-TTAATTA
4261041 AAATTTT
1 AAATTTT
4261048 TAAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATTTTATTAATTA
Found at i:4261728 original size:24 final size:24
Alignment explanation
Indices: 4261684--4261729 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4261674 GTGATTTGTA
** *
4261684 AATTTAAAATATATTTTATTTTTT
1 AATTTAAAATATAGCTAATTTTTT
4261708 AATTTAAAATATAGCTAATTTT
1 AATTTAAAATATAGCTAATTTT
4261730 GTTTTGCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
AATTTAAAATATAGCTAATTTTTT
Found at i:4261820 original size:2 final size:2
Alignment explanation
Indices: 4261813--4261881 Score: 58
Period size: 2 Copynumber: 37.0 Consensus size: 2
4261803 CCGGTTATGC
* *
4261813 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TT TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4261853 T- TA TA TT TA -A TG TA T- TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4261882 AATTTTAATT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
1 5 0.09
2 48 0.91
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4262351 original size:33 final size:33
Alignment explanation
Indices: 4262314--4262379 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
4262304 GTATCTCTTA
4262314 AGAGACAACATTCATTCTCAAAACTATTAAATT
1 AGAGACAACATTCATTCTCAAAACTATTAAATT
* * * * * *
4262347 AGAGACGATATTTATTTTTAAGACTATTAAATT
1 AGAGACAACATTCATTCTCAAAACTATTAAATT
4262380 TAATATAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (33 bp):
AGAGACAACATTCATTCTCAAAACTATTAAATT
Found at i:4263248 original size:150 final size:150
Alignment explanation
Indices: 4263025--4263332 Score: 564
Period size: 150 Copynumber: 2.1 Consensus size: 150
4263015 CATAATTTTT
*
4263025 ATATTATTAAATCTTTAAGTAGCTTTTAGTATTATTTTAATATCATCATAGTAATCTATTCATTA
1 ATATTATTAAATCTTTAAGTAGCTTTTAGTATTATTTTAATATCATCATAGTAATCTAATCATTA
4263090 AGGTAATTTTATCATTAGAATTTGATTTA-TAATTATTAATTTTTAAAAATTTAATATCATTTCA
66 AGGTAATTTTATCATTAGAATTTGA-TTAGTAATTATTAATTTTTAAAAATTTAATATCATTTCA
4263154 TTTGATATTATCAAAAATTAA
130 TTTGATATTATCAAAAATTAA
4263175 ATATTATTAAATCTTTAAGTAGCTTTTAGTATTATTTTAATATCATCATAGTAATCTAATCATTA
1 ATATTATTAAATCTTTAAGTAGCTTTTAGTATTATTTTAATATCATCATAGTAATCTAATCATTA
**
4263240 AGGTAATTTTATCATTAGAATTTGATTAGTAATTATTAATTTTTAAAAATTTAATATCATTTTGT
66 AGGTAATTTTATCATTAGAATTTGATTAGTAATTATTAATTTTTAAAAATTTAATATCATTTCAT
*
4263305 TTGATATTATTAAAAATTAA
131 TTGATATTATCAAAAATTAA
4263325 ATATTATT
1 ATATTATT
4263333 TTATTTAAAA
Statistics
Matches: 153, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 3 0.02
150 150 0.98
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (150 bp):
ATATTATTAAATCTTTAAGTAGCTTTTAGTATTATTTTAATATCATCATAGTAATCTAATCATTA
AGGTAATTTTATCATTAGAATTTGATTAGTAATTATTAATTTTTAAAAATTTAATATCATTTCAT
TTGATATTATCAAAAATTAA
Found at i:4264440 original size:15 final size:16
Alignment explanation
Indices: 4264420--4264449 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4264410 ATTAGTTTTC
4264420 AAATTAT-TTTTAATT
1 AAATTATATTTTAATT
4264435 AAATTATATTTTAAT
1 AAATTATATTTTAAT
4264450 ACATGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATTATATTTTAATT
Found at i:4265881 original size:13 final size:14
Alignment explanation
Indices: 4265834--4265881 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
4265824 AGGGAGACTG
4265834 AGAAAAGAAAG-AAA
1 AGAAAA-AAAGAAAA
*
4265848 AGAAAAAAAGAGAA
1 AGAAAAAAAGAAAA
*
4265862 GGAAAAAAAGAAAA
1 AGAAAAAAAGAAAA
4265876 AGAAAA
1 AGAAAA
4265882 GGTATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 4 0.14
14 25 0.86
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAGAAAA
Found at i:4265890 original size:20 final size:20
Alignment explanation
Indices: 4265834--4265883 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
4265824 AGGGAGACTG
4265834 AGAAAA-GAAAGAAAAGAAAAAA
1 AGAAAAGGAAA-AAAAG--AAAA
*
4265856 AGAGAAGGAAAAAAAGAAAA
1 AGAAAAGGAAAAAAAGAAAA
4265876 AGAAAAGG
1 AGAAAAGG
4265884 TATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AGAAAAGGAAAAAAAGAAAA
Found at i:4265928 original size:17 final size:18
Alignment explanation
Indices: 4265906--4265939 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4265896 GATAAAATTT
4265906 TTATTTTTATAT-TTTTG
1 TTATTTTTATATGTTTTG
4265923 TTATTTTTATATGTTTT
1 TTATTTTTATATGTTTT
4265940 ATGTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (18 bp):
TTATTTTTATATGTTTTG
Found at i:4265977 original size:10 final size:11
Alignment explanation
Indices: 4265959--4266017 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
4265949 TATAAGTAAA
4265959 TATATTTATAT
1 TATATTTATAT
4265970 TATA-TTATAT
1 TATATTTATAT
*
4265980 TATTTTTA-AT
1 TATATTTATAT
* *
4265990 TAAATTTTTAT
1 TATATTTATAT
*
4266001 ATATATCTATAT
1 -TATATTTATAT
*
4266013 CATAT
1 TATAT
4266018 ATTAACTCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
10 16 0.43
11 13 0.35
12 8 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTTATAT
Found at i:4265984 original size:35 final size:33
Alignment explanation
Indices: 4265945--4266012 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
4265935 GTTTTATGTA
4265945 TATTTATAAGTAAATATATTTATATTATAT-TATAT
1 TATTTATAAGTAAAT-T-TTTATA-TATATCTATAT
* *
4265980 TATTTTTAATTAAATTTTTATATATATCTATAT
1 TATTTATAAGTAAATTTTTATATATATCTATAT
4266013 CATATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 5 0.17
33 11 0.37
34 1 0.03
35 13 0.43
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
TATTTATAAGTAAATTTTTATATATATCTATAT
Found at i:4266306 original size:11 final size:11
Alignment explanation
Indices: 4266279--4266313 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
4266269 TTTTTACATC
4266279 ATATTA-TTTT
1 ATATTATTTTT
4266289 A-ATTATTTTT
1 ATATTATTTTT
4266299 ATATTATTTTT
1 ATATTATTTTT
4266310 ATAT
1 ATAT
4266314 CGTTTCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 6 0.26
11 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:4268864 original size:20 final size:18
Alignment explanation
Indices: 4268821--4268865 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
4268811 TATATATAAT
*
4268821 TTATTAATTTTGTGAAAA
1 TTATTAATTTTGTAAAAA
*
4268839 TAATTAATTTAATGTAAAAA
1 TTATTAATTT--TGTAAAAA
4268859 TTATTAA
1 TTATTAA
4268866 AAAAAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
TTATTAATTTTGTAAAAA
Found at i:4268983 original size:56 final size:56
Alignment explanation
Indices: 4268905--4269013 Score: 134
Period size: 56 Copynumber: 1.9 Consensus size: 56
4268895 ATCTCAAGAT
* *
4268905 TTATTATTAAATCTAAATAA-TTTATTA-TATTATTTTTATTTTATAATATATTTAAC
1 TTATTATTAAATATAAATAATTTTATTATTA-TA-TTATATTTTATAATATATTTAAC
* *
4268961 TTATTATATAATTATAAA-AATTTTATTATTATATTATATTTTATATTATATTT
1 TTATTAT-TAAATATAAATAATTTTATTATTATATTATATTTTATAATATATTT
4269014 TATTTATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 27 0.59
57 17 0.37
58 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (56 bp):
TTATTATTAAATATAAATAATTTTATTATTATATTATATTTTATAATATATTTAAC
Found at i:4269007 original size:17 final size:18
Alignment explanation
Indices: 4268926--4269035 Score: 75
Period size: 17 Copynumber: 5.9 Consensus size: 18
4268916 TCTAAATAAT
4268926 TTATTATATTAT-TTTTA
1 TTATTATATTATATTTTA
* *
4268943 TT-TTATAATATATTTAA
1 TTATTATATTATATTTTA
4268960 CTTATTATATAATTATAAAAATTTTA
1 -TTA-T-TAT-ATTAT----ATTTTA
4268986 TTATTATATTATATTTTA
1 TTATTATATTATATTTTA
*
4269004 -TATTATATTTTA-TTTA
1 TTATTATATTATATTTTA
* *
4269020 TTTTTATATTACATTT
1 TTATTATATTATATTT
4269036 ACATAATATA
Statistics
Matches: 73, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
16 12 0.16
17 26 0.36
18 10 0.14
20 1 0.01
21 3 0.04
22 9 0.12
23 3 0.04
24 1 0.01
25 3 0.04
26 5 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATATTATATTTTA
Found at i:4269652 original size:19 final size:19
Alignment explanation
Indices: 4269617--4269669 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
4269607 ACTAGGCACA
*
4269617 TGAT-TTTTTAAGTTATT-
1 TGATATTTTTAATTTATTG
4269634 TGATATTTTTAATTATATTG
1 TGATATTTTTAATT-TATTG
*
4269654 TAATATTTTTAATTTA
1 TGATATTTTTAATTTA
4269670 AAATATATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 4 0.13
18 8 0.26
19 6 0.19
20 13 0.42
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TGATATTTTTAATTTATTG
Found at i:4270324 original size:3 final size:3
Alignment explanation
Indices: 4270310--4270355 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
4270300 TCAAATCTCC
* *
4270310 TCT TCC TCT TCT TCT TCT TCT TCT TCT TCT TCG TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4270356 AATCTTAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:4274142 original size:16 final size:17
Alignment explanation
Indices: 4274109--4274142 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4274099 CCCTTTCTTC
4274109 TTTCTCTGATGATTTTTA
1 TTTCTCTGAT-ATTTTTA
4274127 TTTCTCTGAT-TTTTTA
1 TTTCTCTGATATTTTTA
4274143 GCTTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.65
Consensus pattern (17 bp):
TTTCTCTGATATTTTTA
Found at i:4276682 original size:36 final size:36
Alignment explanation
Indices: 4276610--4276682 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
4276600 TCTGTCACTG
* **
4276610 CCACATTCCGAGTCTCAAAACCAAGCTAAGTTATTA
1 CCACAATCCGAGTCTCAAAACCAAGCTAAGCGATTA
* * * *
4276646 CCACAATCTGAGTCTCAAAACCAGGTTGAGCGATTA
1 CCACAATCCGAGTCTCAAAACCAAGCTAAGCGATTA
4276682 C
1 C
4276683 TTTTGTCCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (36 bp):
CCACAATCCGAGTCTCAAAACCAAGCTAAGCGATTA
Found at i:4280841 original size:38 final size:39
Alignment explanation
Indices: 4280761--4280845 Score: 170
Period size: 39 Copynumber: 2.2 Consensus size: 39
4280751 AAAAGGATAA
4280761 TTTTTTTCCTTTTAAAATTTTGGAGATAACTGACGAATT
1 TTTTTTTCCTTTTAAAATTTTGGAGATAACTGACGAATT
4280800 TTTTTTTCCTTTTAAAATTTTGGAGATAACTGACGAATT
1 TTTTTTTCCTTTTAAAATTTTGGAGATAACTGACGAATT
4280839 TTTTTTT
1 TTTTTTT
4280846 ACTAATCCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (39 bp):
TTTTTTTCCTTTTAAAATTTTGGAGATAACTGACGAATT
Found at i:4280867 original size:22 final size:22
Alignment explanation
Indices: 4280842--4280886 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4280832 ACGAATTTTT
4280842 TTTTACTAATCCCTAACTTCTC
1 TTTTACTAATCCCTAACTTCTC
*
4280864 TTTTACTAATCCCTAATTTCTC
1 TTTTACTAATCCCTAACTTCTC
4280886 T
1 T
4280887 GCTGTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTACTAATCCCTAACTTCTC
Done.