Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 99 of 335
Found at i:31537300 original size:31 final size:31
Alignment explanation
Indices: 31537259--31537326 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
31537249 TACAAAATAA
*
31537259 TCACTGAACTATTTGAAAA-TTTTCATTTAAG
1 TCACTAAACTATTT-AAAAGTTTTCATTTAAG
*
31537290 TCACTAAACTATTTAAAAGTTTTTATTTAAG
1 TCACTAAACTATTTAAAAGTTTTCATTTAAG
31537321 TCACTA
1 TCACTA
31537327 GAATGTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (31 bp):
TCACTAAACTATTTAAAAGTTTTCATTTAAG
Found at i:31540001 original size:20 final size:20
Alignment explanation
Indices: 31539976--31540014 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31539966 TTAACAAGTA
31539976 TCCTT-AAAATATTTGATATC
1 TCCTTAAAAAT-TTTGATATC
31539996 TCCTTAAAAATTTTGATAT
1 TCCTTAAAAATTTTGATAT
31540015 ATACCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (20 bp):
TCCTTAAAAATTTTGATATC
Found at i:31541334 original size:20 final size:20
Alignment explanation
Indices: 31541309--31541349 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31541299 TATATTTCAT
31541309 ATATTAAAATATTAACAACA
1 ATATTAAAATATTAACAACA
31541329 ATATTAAAATATTAACAACA
1 ATATTAAAATATTAACAACA
31541349 A
1 A
31541350 GTTATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
ATATTAAAATATTAACAACA
Found at i:31542017 original size:44 final size:43
Alignment explanation
Indices: 31541968--31542055 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
31541958 TTTAGGCATC
* * *
31541968 TAGCAGCCCTTATATTCGCCCCAACTTACATCAATATTTTAATA
1 TAGCAGCCCCTATA-TCCCCCCAACATACATCAATATTTTAATA
** *
31542012 TAGCAGCCCCTATATCCCCCCTGCATCCATCAATATTTTAATA
1 TAGCAGCCCCTATATCCCCCCAACATACATCAATATTTTAATA
31542055 T
1 T
31542056 GTTAGTGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
43 25 0.66
44 13 0.34
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.33
Consensus pattern (43 bp):
TAGCAGCCCCTATATCCCCCCAACATACATCAATATTTTAATA
Found at i:31546160 original size:16 final size:16
Alignment explanation
Indices: 31546139--31546173 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31546129 TTTTGGTGGA
31546139 GAAATTCAAAAACAAG
1 GAAATTCAAAAACAAG
31546155 GAAATTCAAAAACAAG
1 GAAATTCAAAAACAAG
31546171 GAA
1 GAA
31546174 GGAAATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.14, T:0.11
Consensus pattern (16 bp):
GAAATTCAAAAACAAG
Found at i:31549696 original size:68 final size:68
Alignment explanation
Indices: 31549588--31549850 Score: 372
Period size: 68 Copynumber: 3.9 Consensus size: 68
31549578 ATTCGGTCAT
* * *
31549588 GCACTTAATCCAACC-GA-TTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTTAACAAG
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
*
31549651 ATA
66 ACA
*
31549654 GCACTTAATTCAACCAAATTTGTCTTCAAAA-TTTCACGTTGGACAGCATGTATAACCTCAACAA
1 GCACTTAATTCAACCAAATTTGTCTT-AAAATTTTCACATTGGACAGCATGTATAACCTCAACAA
31549718 GACA
65 GACA
* **
31549722 GCACTTAATTCAACCAAATTTGTCTTAACATTTTCGTATTCGG-CAGCATGTATAACCTCAACAA
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATT-GGACAGCATGTATAACCTCAACAA
31549786 GACA
65 GACA
* * * *
31549790 ACACTTAATTCAACCAAATTTGTCTTAAAATTTTCATATTGGACAGTATGTAAAACCTCAA
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAA
31549851 TCGGACATAC
Statistics
Matches: 177, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
66 14 0.08
67 6 0.03
68 151 0.85
69 6 0.03
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (68 bp):
GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
ACA
Found at i:31549825 original size:136 final size:134
Alignment explanation
Indices: 31549554--31549850 Score: 375
Period size: 136 Copynumber: 2.2 Consensus size: 134
31549544 ATTTTTTTTT
* * * * *
31549554 ACATTGGACAGCATGTAAAACCACATTC-GGTCATGCACTTAATCCAACCGATTGTCTTAAAATT
1 ACATTGGACAGCATGTAAAACCTCA-ACAAGACA-GCACTTAATCCAACCAATTGTCTTAAAATT
* * *
31549618 TTCACATTGGACAGCATGTATAACCTTAACAAGATAGCACTTAATTCAACCAAATTTGTCTTCAA
64 TTCACATTGGACAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTTCAA
31549683 AATTTC
129 AATTTC
* * * *
31549689 ACGTTGGACAGCATGTATAACCTCAACAAGACAGCACTTAATTCAACCAAATTTGTCTTAACATT
1 ACATTGGACAGCATGTAAAACCTCAACAAGACAGCACTTAATCCAACC-AA-TTGTCTTAAAATT
**
31549754 TTCGTATTCGG-CAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTT-A
64 TTCACATT-GGACAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTTCA
31549817 AAATTTTC
128 AAA-TTTC
* *
31549825 ATATTGGACAGTATGTAAAACCTCAA
1 ACATTGGACAGCATGTAAAACCTCAA
31549851 TCGGACATAC
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
134 15 0.11
135 30 0.22
136 92 0.66
137 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (134 bp):
ACATTGGACAGCATGTAAAACCTCAACAAGACAGCACTTAATCCAACCAATTGTCTTAAAATTTT
CACATTGGACAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTTCAAAA
TTTC
Found at i:31550743 original size:24 final size:24
Alignment explanation
Indices: 31550716--31550779 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 24
31550706 ATATTTTTAA
31550716 TTCTCTTTCTTTTTTTTAC-ATTAT
1 TTCTCTTTCTTTTTTTTACAATT-T
* *
31550740 TTCTTTCTTTATTTTTTTTCCTAATTT
1 TTC--TCTTTCTTTTTTTTAC-AATTT
31550767 TT-TCTTTCTTTTT
1 TTCTCTTTCTTTTT
31550780 CTTCTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
24 13 0.39
26 14 0.42
27 3 0.09
28 3 0.09
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTCTTTCTTTTTTTTACAATTT
Found at i:31550747 original size:28 final size:27
Alignment explanation
Indices: 31550716--31550778 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
31550706 ATATTTTTAA
31550716 TTCTCTTTCTTTTTTT-TACATTATTTCT
1 TTCT-TTTCTTTTTTTCTA-ATTATTTCT
*
31550744 TTCTTTAT-TTTTTTTCCTAATTTTTTCT
1 TTCTTT-TCTTTTTTT-CTAATTATTTCT
31550772 TTCTTTT
1 TTCTTTT
31550779 TCTTCTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 10 0.32
28 19 0.61
29 2 0.06
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (27 bp):
TTCTTTTCTTTTTTTCTAATTATTTCT
Found at i:31550792 original size:28 final size:28
Alignment explanation
Indices: 31550739--31550792 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
31550729 TTTTACATTA
* **
31550739 TTTCTTTCTTTATTTTTTTTCCTAATTT
1 TTTCTTTCTTTATTTTCTTTAATAATTT
31550767 TTTCTTTCTTT-TTCTTCTTTAATAAT
1 TTTCTTTCTTTATT-TTCTTTAATAAT
31550793 GTCCGGTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTCTTTCTTTATTTTCTTTAATAATTT
Found at i:31551455 original size:145 final size:143
Alignment explanation
Indices: 31551260--31551519 Score: 346
Period size: 145 Copynumber: 1.8 Consensus size: 143
31551250 AACGATTAAG
* ** * *
31551260 CTAATAGAGGTACCAACTTGGGAAAAAATATAATTAGGTACCATTTGTGA-CAA-AAAAATGTTT
1 CTAACAGAGGTACCAACTTAAGAAAAAATATAATTAGATACCACTTGTGACCAAGAAAAA--TTT
*
31551323 AGGTACCAAAATAGGAAAAGAAAATATAGTTTAGGTACCAATTTGTGGGTTAAGCATTTCTTTAA
64 AGGTACCAAAATAGGAAAAG--AATATAGTTTAGGTACCAATTTGTGAGTTAAGCATTTCTTTAA
31551388 ATAAACTTAAAGTTTGA
127 ATAAACTTAAAGTTTGA
* *
31551405 CTAACAGAGGTACCAACTTAAGAAAAAA-ATAATTTAGATACTACTTGTGACCAAGAGAAATTTA
1 CTAACAGAGGTACCAACTTAAGAAAAAATATAA-TTAGATACCACTTGTGACCAAGAAAAATTTA
* ** *
31551469 GGTACCAAGATAGGAAAAGGCTATAGTTTAGGTACCGATTTGTGAGTTAAG
65 GGTACCAAAATAGGAAAAGAATATAGTTTAGGTACCAATTTGTGAGTTAAG
31551520 ACTTAAATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
143 28 0.28
144 4 0.04
145 61 0.61
146 3 0.03
147 4 0.04
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (143 bp):
CTAACAGAGGTACCAACTTAAGAAAAAATATAATTAGATACCACTTGTGACCAAGAAAAATTTAG
GTACCAAAATAGGAAAAGAATATAGTTTAGGTACCAATTTGTGAGTTAAGCATTTCTTTAAATAA
ACTTAAAGTTTGA
Found at i:31556363 original size:4 final size:4
Alignment explanation
Indices: 31556354--31556378 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
31556344 AAAGAAGTAA
31556354 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
31556379 CGCACACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:31556388 original size:2 final size:2
Alignment explanation
Indices: 31556376--31556430 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
31556366 ATACATACAT
*
31556376 AC AC GC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
31556418 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
31556431 TATGTATATC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.49, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:31556775 original size:7 final size:7
Alignment explanation
Indices: 31556763--31556794 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
31556753 AAAAGATCAT
31556763 CCCCCTC
1 CCCCCTC
31556770 CCCCCTC
1 CCCCCTC
31556777 CCCCCTC
1 CCCCCTC
31556784 CCCCCTC
1 CCCCCTC
31556791 CCCC
1 CCCC
31556795 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.88, G:0.00, T:0.12
Consensus pattern (7 bp):
CCCCCTC
Found at i:31557528 original size:17 final size:17
Alignment explanation
Indices: 31557497--31557541 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
31557487 AATAGGTTAA
*
31557497 TTATTTTTAAATATTTT
1 TTATTTTTATATATTTT
*
31557514 TTATTTTTATGTATTTT
1 TTATTTTTATATATTTT
*
31557531 TAATATTTTAT
1 TTAT-TTTTAT
31557542 CTAATTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTTATATATTTT
Found at i:31557700 original size:28 final size:27
Alignment explanation
Indices: 31557669--31557729 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 27
31557659 CTCATGACAA
*
31557669 TTTTAAAGATTTTTTAATTGTTTATCTT
1 TTTTAAAGAATTTTTAATTGTTTAT-TT
31557697 TTTTAAAGAATTTTTAATTGTTTATTT
1 TTTTAAAGAATTTTTAATTGTTTATTT
31557724 TTTTAA
1 TTTTAA
31557730 TAAACTTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (27 bp):
TTTTAAAGAATTTTTAATTGTTTATTT
Found at i:31558177 original size:28 final size:29
Alignment explanation
Indices: 31558140--31558209 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
31558130 TGTGACAATT
* *
31558140 AAAATAAAAACATTA-AAT-TTAAATTTTA
1 AAAATAAAAA-ACTATAATATTAAATATTA
31558168 AAAATAAAAAACTATAATATTAAATATTA
1 AAAATAAAAAACTATAATATTAAATATTA
31558197 AAATATTAAAAAA
1 AAA-A-TAAAAAA
31558210 TAGTTTTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 3 0.08
28 13 0.36
29 12 0.33
30 1 0.03
31 7 0.19
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAATAAAAAACTATAATATTAAATATTA
Found at i:31559211 original size:17 final size:16
Alignment explanation
Indices: 31559168--31559212 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
31559158 AAAAAATCAC
*
31559168 ATTTTTTACATTTAAT
1 ATTTTTTAAATTTAAT
31559184 ATTTTTT-AATTTAAT
1 ATTTTTTAAATTTAAT
31559199 ATATTTTTAAATTT
1 AT-TTTTTAAATTT
31559213 TAAAATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 12 0.46
17 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTTAAATTTAAT
Found at i:31566770 original size:46 final size:44
Alignment explanation
Indices: 31566666--31566773 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
31566656 TGTCTTTGAC
** * * *
31566666 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
31566710 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
31566756 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
31566774 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:31574028 original size:43 final size:45
Alignment explanation
Indices: 31573981--31574082 Score: 118
Period size: 43 Copynumber: 2.3 Consensus size: 45
31573971 TGTCTTTGAC
* * *
31573981 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TAT-AT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** * *
31574024 ATGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
31574070 ATGGACTTACATG
1 ATGGACTTACATG
31574083 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.65
45 2 0.04
46 15 0.31
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:31575441 original size:13 final size:13
Alignment explanation
Indices: 31575423--31575447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31575413 AACATGGCCG
31575423 TGTGGACAGCCCA
1 TGTGGACAGCCCA
31575436 TGTGGACAGCCC
1 TGTGGACAGCCC
31575448 GTGTAACTTT
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:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
TGTGGACAGCCCA
Found at i:31577962 original size:26 final size:26
Alignment explanation
Indices: 31577928--31577977 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
31577918 AAGTTAATAA
*
31577928 AAAAATAAT-ATTATAATTTAATATTT
1 AAAAATAATAATT-TAATATAATATTT
31577954 AAAAATAATAATTTAATATAATAT
1 AAAAATAATAATTTAATATAATAT
31577978 CAACAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAAATAATAATTTAATATAATATTT
Found at i:31581296 original size:5 final size:5
Alignment explanation
Indices: 31581286--31581312 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31581276 TGATTGACAA
31581286 AGGCT AGGCT AGGCT AGGCT AGGCT AG
1 AGGCT AGGCT AGGCT AGGCT AGGCT AG
31581313 ATTTGGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.41, T:0.19
Consensus pattern (5 bp):
AGGCT
Found at i:31581953 original size:154 final size:153
Alignment explanation
Indices: 31581681--31582006 Score: 564
Period size: 154 Copynumber: 2.1 Consensus size: 153
31581671 TATAAAATCT
* *
31581681 AGATCCGAAAATTTTAAAAATACAAATAAAAGGATAAAATTAGGGTTATTTACTAAATTAATATA
1 AGATCCGAAAATTTTAAAAATACAAACAAAAGGACAAAATTAGGGTTATTTACTAAATTAATATA
*
31581746 AAAAAATACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAGAATAAAATAG
66 AAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA-AATAAAATAG
31581811 GAAAATAATATATTTTAAAAAATA
130 GAAAATAATATATTTTAAAAAATA
* *
31581835 AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGGGTTATTTACTAAATTAATATA
1 AGATCCGAAAATTTTAAAAATACAAACAAAAGGACAAAATTAGGGTTATTTACTAAATTAATATA
*
31581900 AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATATG
66 AAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAGG
*
31581964 AAAATAGTATATTTTAAAAAATA
131 AAAATAATATATTTTAAAAAATA
*
31581987 AAATCCGAAAATTTTAAAAA
1 AGATCCGAAAATTTTAAAAA
31582007 CTTTAAAAAT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
152 50 0.31
153 46 0.28
154 67 0.41
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (153 bp):
AGATCCGAAAATTTTAAAAATACAAACAAAAGGACAAAATTAGGGTTATTTACTAAATTAATATA
AAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAGG
AAAATAATATATTTTAAAAAATA
Found at i:31582559 original size:18 final size:18
Alignment explanation
Indices: 31582517--31582571 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
31582507 CCATACAATC
31582517 CTTTTTTTTCAGCTTTTTAA
1 CTTTTTTTTCA--TTTTTAA
31582537 --TTTTTTTCATTTTTAA
1 CTTTTTTTTCATTTTTAA
31582553 CTATTTTTTTC-TTTTTAA
1 CT-TTTTTTTCATTTTTAA
31582571 C
1 C
31582572 AGAAAATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.22
18 17 0.53
19 8 0.25
ACGTcount: A:0.16, C:0.13, G:0.02, T:0.69
Consensus pattern (18 bp):
CTTTTTTTTCATTTTTAA
Found at i:31583775 original size:2 final size:2
Alignment explanation
Indices: 31583768--31583795 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
31583758 CAATTTGACA
31583768 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
31583796 TTAGGTACTA
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):
AT
Found at i:31584448 original size:2 final size:2
Alignment explanation
Indices: 31584443--31584476 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31584433 AAAAATTGTC
31584443 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
31584477 TTTAAATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31589445 original size:25 final size:25
Alignment explanation
Indices: 31589397--31589445 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31589387 CATAACTAAA
* * *
31589397 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
31589422 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
31589446 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:31596980 original size:15 final size:15
Alignment explanation
Indices: 31596944--31596972 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31596934 GAGAAACCTC
31596944 TGACTGATATATTTT
1 TGACTGATATATTTT
31596959 TGACTGATATATTT
1 TGACTGATATATTT
31596973 CTTTCTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (15 bp):
TGACTGATATATTTT
Found at i:31597807 original size:22 final size:23
Alignment explanation
Indices: 31597781--31597826 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31597771 CAACCAAACC
31597781 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31597803 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31597826 A
1 A
31597827 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31597832 original size:23 final size:23
Alignment explanation
Indices: 31597788--31597832 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31597778 ACCAATTCAA
*
31597788 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
31597811 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
31597833 CACATACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:31601971 original size:92 final size:92
Alignment explanation
Indices: 31601855--31602039 Score: 352
Period size: 92 Copynumber: 2.0 Consensus size: 92
31601845 AGTGGAAGAC
31601855 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
1 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
31601920 GATTGTCATGACCTGCCCCTACATATT
66 GATTGTCATGACCTGCCCCTACATATT
31601947 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
1 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
* *
31602012 GATTGTCGTGACTTGCCCCTACATATT
66 GATTGTCATGACCTGCCCCTACATATT
31602039 T
1 T
31602040 TAATGTTATT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (92 bp):
TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
GATTGTCATGACCTGCCCCTACATATT
Found at i:31608225 original size:21 final size:22
Alignment explanation
Indices: 31608199--31608253 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
31608189 ACGACCTCCA
*
31608199 ACACGGGCATGTCCCAAGG-TC
1 ACACGGGCATGTCCCAAGGACC
* **
31608220 ACACGGGCGTGTCCCTTGGACC
1 ACACGGGCATGTCCCAAGGACC
31608242 ACACGGGCATGT
1 ACACGGGCATGT
31608254 GAGCCTTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (22 bp):
ACACGGGCATGTCCCAAGGACC
Found at i:31618078 original size:40 final size:40
Alignment explanation
Indices: 31618032--31618112 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
31618022 ATTATTTTAT
* * *
31618032 AAAATGATTGATTTTCGGTAATTCTTTAAGTTGGGACACA
1 AAAATGATTAAATTTCGGTAATTCTTCAAGTTGGGACACA
31618072 AAAATGATTAAATTTCGGTAATTCTTCAAGTTGGGACACA
1 AAAATGATTAAATTTCGGTAATTCTTCAAGTTGGGACACA
31618112 A
1 A
31618113 TTGAAGATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (40 bp):
AAAATGATTAAATTTCGGTAATTCTTCAAGTTGGGACACA
Found at i:31621115 original size:21 final size:21
Alignment explanation
Indices: 31621070--31621115 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
31621060 TGTTATATAT
*
31621070 ATTA-TTTATTTTAAGATTGC
1 ATTATTTTATTTTAAGATTAC
31621090 ATTATTTTATTTTTAA-ATTAC
1 ATTATTTTA-TTTTAAGATTAC
*
31621111 TTTAT
1 ATTAT
31621116 GTATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTATTTTATTTTAAGATTAC
Found at i:31621364 original size:42 final size:42
Alignment explanation
Indices: 31621312--31621434 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
31621302 TTTGTTTGAA
*
31621312 AAAAATGCCACTAAAGATCATGACTTTTAGCGGCGCTTTTTT
1 AAAAACGCCACTAAAGATCATGACTTTTAGCGGCGCTTTTTT
* * * *
31621354 AAAAACGCCACTAAAGGTCCCTGTC-TTTAGCAGCGC-TTTTT
1 AAAAACGCCACTAAAGAT-CATGACTTTTAGCGGCGCTTTTTT
* *
31621395 ATAAAACGCCACTAAAGACCAAGACTTTTAGCGGCGCTTT
1 A-AAAACGCCACTAAAGATCATGACTTTTAGCGGCGCTTT
31621435 GCCCAAAAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 9 0.14
42 51 0.77
43 6 0.09
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
AAAAACGCCACTAAAGATCATGACTTTTAGCGGCGCTTTTTT
Found at i:31625820 original size:21 final size:21
Alignment explanation
Indices: 31625794--31625836 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31625784 GGAAACTTAT
31625794 ACAAAATTTTTAAATAATTTA
1 ACAAAATTTTTAAATAATTTA
31625815 ACAAAATTTTTAAATAATTTA
1 ACAAAATTTTTAAATAATTTA
31625836 A
1 A
31625837 TAACTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ACAAAATTTTTAAATAATTTA
Found at i:31627221 original size:40 final size:40
Alignment explanation
Indices: 31627176--31627286 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 40
31627166 CGATGTAAAG
* ** *
31627176 TTTTTTGCGGCATTTTTACAAAAACGCCACTGTATCTCAA
1 TTTTTTGCGGCGTTTTTACAAAAACGCCACCATAGCTCAA
* * *
31627216 TTTTTTGTGGTGTTTTTATTAAAAACGCCACCATAGCTCAA
1 TTTTTTGCGGCGTTTTTA-CAAAAACGCCACCATAGCTCAA
* * *
31627257 CTTTTTACGGCGTTTTCACTAAAAACGCCA
1 TTTTTTGCGGCGTTTTTAC-AAAAACGCCA
31627287 TTATTGTTCA
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
40 15 0.27
41 41 0.73
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (40 bp):
TTTTTTGCGGCGTTTTTACAAAAACGCCACCATAGCTCAA
Found at i:31627461 original size:8 final size:8
Alignment explanation
Indices: 31627450--31627485 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
31627440 AATATTAAAA
31627450 TTTTAAGT
1 TTTTAAGT
31627458 TTTTAAGT
1 TTTTAAGT
31627466 TTTTAAGT
1 TTTTAAGT
31627474 TTTTAA-T
1 TTTTAAGT
31627481 TTTTA
1 TTTTA
31627486 TTTTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (8 bp):
TTTTAAGT
Found at i:31627488 original size:6 final size:7
Alignment explanation
Indices: 31627450--31627527 Score: 68
Period size: 7 Copynumber: 10.6 Consensus size: 7
31627440 AATATTAAAA
31627450 TTTTAAGT
1 TTTTAA-T
31627458 TTTTAAGT
1 TTTTAA-T
31627466 TTTTAAGT
1 TTTTAA-T
31627474 TTTTAAT
1 TTTTAAT
*
31627481 TTTTATT
1 TTTTAAT
*
31627488 TTTTTAT
1 TTTTAAT
31627495 TTTTCAA-
1 TTTT-AAT
*
31627502 TTTTCAT
1 TTTTAAT
31627509 TTTTCAAT
1 TTTT-AAT
*
31627517 TTTCAAT
1 TTTTAAT
31627524 TTTT
1 TTTT
31627528 TTAAAGATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
6 1 0.02
7 30 0.51
8 28 0.47
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (7 bp):
TTTTAAT
Found at i:31627490 original size:14 final size:14
Alignment explanation
Indices: 31627450--31627519 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 14
31627440 AATATTAAAA
*
31627450 TTTTAAGTTTTTAAGT
1 TTTTAA-TTTTT-ATT
*
31627466 TTTTAAGTTTTTAAT
1 TTTTAA-TTTTTATT
*
31627481 TTTTATTTTTTTATT
1 TTTTA-ATTTTTATT
* *
31627496 TTTCAATTTTCATT
1 TTTTAATTTTTATT
*
31627510 TTTCAATTTT
1 TTTTAATTTT
31627520 CAATTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 17 0.36
15 18 0.38
16 12 0.26
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTTAATTTTTATT
Found at i:31628188 original size:6 final size:6
Alignment explanation
Indices: 31628179--31628209 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
31628169 TTTCAAAACC
*
31628179 AAAGGG AAAGGG AAAGGG AAAGGG GAAGGG A
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG A
31628210 TCATATGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:31629067 original size:18 final size:18
Alignment explanation
Indices: 31629043--31629081 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
31629033 TCCATATGAT
* *
31629043 GTTTTTTAGTGTTT-AGG
1 GTTTTTTTGGGTTTAAGG
31629060 GTTTTTTTGGGTTTAAGG
1 GTTTTTTTGGGTTTAAGG
31629078 GTTT
1 GTTT
31629082 AGGGTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (18 bp):
GTTTTTTTGGGTTTAAGG
Found at i:31629290 original size:40 final size:41
Alignment explanation
Indices: 31629154--31629306 Score: 209
Period size: 41 Copynumber: 3.8 Consensus size: 41
31629144 GTTATATGAC
* *
31629154 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGTT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTT
* * *
31629195 TTTTAGTGGCGCTTTGACAAAAATGCCGCTATTGCTCTGTT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTT
* * * *
31629236 TTTTAGTGGCGCTTTGCCAAAAATGCCGCTATTACTCT-AT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTT
*
31629276 TTTTAGCGGCGCTTTTCCAAAAACGCCGCTA
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTA
31629307 AAAACGCCGC
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 29 0.29
41 72 0.71
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTT
Found at i:31629309 original size:12 final size:12
Alignment explanation
Indices: 31629294--31629320 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31629284 GCGCTTTTCC
31629294 AAAAACGCCGCT
1 AAAAACGCCGCT
31629306 AAAAACGCCGCT
1 AAAAACGCCGCT
31629318 AAA
1 AAA
31629321 GCCCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:31630803 original size:15 final size:16
Alignment explanation
Indices: 31630783--31630816 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
31630773 TTTTATATCT
31630783 TATTATATA-ATAATA
1 TATTATATACATAATA
31630798 TATTATATATCATAATA
1 TATTATATA-CATAATA
31630815 TA
1 TA
31630817 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATATACATAATA
Found at i:31631611 original size:2 final size:2
Alignment explanation
Indices: 31631604--31631633 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31631594 CTCTCCATGC
31631604 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
31631634 GCGTCAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31633191 original size:23 final size:24
Alignment explanation
Indices: 31633158--31633214 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
31633148 CACTACCTGT
* *
31633158 AAAGAAAAAAATGC-AAA-AATAGC
1 AAAGAACAAAA-GCAAAATAATAGA
31633181 AAAGAACAAAAGCAAAATAATAGA
1 AAAGAACAAAAGCAAAATAATAGA
31633205 AAAG-ACAAAA
1 AAAGAACAAAA
31633215 AAAAAGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.07
23 19 0.63
24 9 0.30
ACGTcount: A:0.72, C:0.09, G:0.12, T:0.07
Consensus pattern (24 bp):
AAAGAACAAAAGCAAAATAATAGA
Found at i:31633215 original size:24 final size:22
Alignment explanation
Indices: 31633158--31633215 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
31633148 CACTACCTGT
*
31633158 AAAGAAAAAAATGCAAAAATAGC
1 AAAG-AAAAAATGCAAAAATAGA
31633181 AAAGAACAAAA-GCAAAATAATAGA
1 AAAGAA-AAAATGC-AAA-AATAGA
31633205 AAAGACAAAAA
1 AAAGA-AAAAA
31633216 AAAAGGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.13
23 11 0.37
24 14 0.47
25 1 0.03
ACGTcount: A:0.72, C:0.09, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAGAAAAAATGCAAAAATAGA
Found at i:31634214 original size:34 final size:34
Alignment explanation
Indices: 31634176--31634340 Score: 285
Period size: 34 Copynumber: 4.9 Consensus size: 34
31634166 AAATATGCAG
*
31634176 TAGGGCCTTAGCCCATCATAGTATCAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
31634210 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
* *
31634244 TAGGGTCTTAGCCCATCACAGTATTAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
* *
31634278 TAGGGTCTTAGCCCACCACAGTATCAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
31634312 TAGGGCCTTAGCCCATCACAGTATCAGTA
1 TAGGGCCTTAGCCCATCACAGTATCAGTA
31634341 GCAATCATGC
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 124 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (34 bp):
TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
Found at i:31636551 original size:60 final size:60
Alignment explanation
Indices: 31636465--31636587 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 60
31636455 TGTCCTGGGT
* * *
31636465 TTTGGGATATTTTCCCATTTATCCCCTGTTATTTTTCACGTATTATATTTTAGTCCTTTA
1 TTTGGGATATTCTCCCATTTAGCCCCTGTTATTTTTCACATATTATATTTTAGTCCTTTA
*
31636525 TTTGGGAATATTCT-CCATTTAGCCCCTGTTATTTTTCACATGTTATATTTTAGTCCTTTA
1 TTTGGG-ATATTCTCCCATTTAGCCCCTGTTATTTTTCACATATTATATTTTAGTCCTTTA
31636585 TTT
1 TTT
31636588 ACTTATTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 52 0.90
61 6 0.10
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.53
Consensus pattern (60 bp):
TTTGGGATATTCTCCCATTTAGCCCCTGTTATTTTTCACATATTATATTTTAGTCCTTTA
Found at i:31636777 original size:3 final size:3
Alignment explanation
Indices: 31636769--31636824 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
31636759 TTTTTCACCC
*
31636769 TTA TTA TTA TTG 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 TTA TTA
31636817 TTA TTA TT
1 TTA TTA TT
31636825 CATGTTAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31642234 original size:42 final size:41
Alignment explanation
Indices: 31642130--31642277 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 41
31642120 TGATACATTG
* * *
31642130 TGTAAGACCGTGTCTGGGACATAGGCCTCGGT-TGAGATTT-A
1 TGTAAGACCCTGTCTGGGACATAGGCATC-GTAT-TGATTTCA
* * *
31642171 TGTATAAGACCATGTATGGGACATCGGCATCGTATCTGATTTCA
1 TG--TAAGACCCTGTCTGGGACATAGGCATCGTAT-TGATTTCA
* *
31642215 TGTAAGACCCTGTCTGGGACAGAGGTATCGATATTGAATTTCA
1 TGTAAGACCCTGTCTGGGACATAGGCATCG-TATTG-ATTTCA
31642258 TGTAAGACCAC-GTCTGGGAC
1 TGTAAGACC-CTGTCTGGGAC
31642278 GTCGGTATTG
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 56 0.63
44 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTAAGACCCTGTCTGGGACATAGGCATCGTATTGATTTCA
Found at i:31642851 original size:16 final size:16
Alignment explanation
Indices: 31642830--31642862 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31642820 AGTTTTGGCG
31642830 TATGTTTGTAATGTGT
1 TATGTTTGTAATGTGT
31642846 TATGTTTGTAATGTGT
1 TATGTTTGTAATGTGT
31642862 T
1 T
31642863 TTGGTCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (16 bp):
TATGTTTGTAATGTGT
Found at i:31644334 original size:47 final size:47
Alignment explanation
Indices: 31644270--31644380 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
31644260 GACATTGAGT
*
31644270 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
31644317 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
31644364 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
31644381 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:31648481 original size:10 final size:10
Alignment explanation
Indices: 31648453--31648482 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
31648443 TAATTTTAGC
*
31648453 ATTTATCTCT
1 ATTTATCTTT
31648463 ATTTATCTTT
1 ATTTATCTTT
31648473 ATTTATCTTT
1 ATTTATCTTT
31648483 TAGAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:31657254 original size:44 final size:44
Alignment explanation
Indices: 31657204--31657700 Score: 581
Period size: 44 Copynumber: 11.3 Consensus size: 44
31657194 CCTATACCCT
* * *
31657204 TGAAGTTGCAGT-GAGTCGGATTAAAGCTGCAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAG-CAGATTAAAGCTACAAATCTTATCTCCC
* * * *
31657248 TGAAGTTGTAGTGGAGCAGATTAAAACCACAAATCTAATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * *
31657292 TGAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATTTTATCTCCC
1 TG-AAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * *
31657337 TGAAGTTTCAGTGGAGCAGATTAAAG---CGAACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * **
31657378 TGAAGTTTCAGTGGAGCAGATTAAAGCTACTAATCTTATCTCAT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * *
31657422 TGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCTTATTTCCT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* *
31657466 TGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTAATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * * * *
31657510 TAAAGTTGCAGCGGAGCAGATTGAAGTTACAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * * * *
31657554 TGAAGTTGCAGTAGAGCAAATTGAAGCTACGAATTTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
*
31657598 TGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
* * * * **
31657642 TGAAGTTGCAGTGGAGCAGATTGAAGCGATAAATCCTATAC-CTT
1 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTAT-CTCCC
31657686 TGAAGTTGCAGTGGA
1 TGAAGTTGCAGTGGA
31657701 TTAGAATGAA
Statistics
Matches: 392, Mismatches: 55, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
41 38 0.10
44 313 0.80
45 41 0.10
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCC
Found at i:31658853 original size:13 final size:14
Alignment explanation
Indices: 31658832--31658860 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31658822 TGAAAAATGA
31658832 ATTAGAAAATATTT
1 ATTAGAAAATATTT
31658846 ATTA-AAAATATTT
1 ATTAGAAAATATTT
31658859 AT
1 AT
31658861 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:31660384 original size:15 final size:15
Alignment explanation
Indices: 31660361--31660404 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
31660351 TATCAAATTT
31660361 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
31660376 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
31660391 ATATTGATTGAAAT
1 ATATTGATTGAAAT
31660405 ATAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:31660806 original size:23 final size:23
Alignment explanation
Indices: 31660779--31660836 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
31660769 TAATATTCCG
*
31660779 GGTGTGTTTGGGTTGGATATTTT
1 GGTGTGTTTGGGTTGGATATTCT
31660802 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
*
31660825 GGTGTGCTTGGG
1 GGTGTGTTTGGG
31660837 AGGAATCCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.07, C:0.03, G:0.43, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:31660964 original size:18 final size:19
Alignment explanation
Indices: 31660941--31660981 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
31660931 AATGAAATGA
31660941 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
31660959 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
31660978 GAAA
1 GAAA
31660982 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:31660979 original size:13 final size:13
Alignment explanation
Indices: 31660929--31660968 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
31660919 TTGAGCTATT
31660929 AGAA-TGAAA-TG
1 AGAATTGAAATTG
31660940 AGAAATTG-AATTG
1 AG-AATTGAAATTG
31660953 AGAATTGAAATTG
1 AGAATTGAAATTG
31660966 AGA
1 AGA
31660969 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:31669838 original size:22 final size:22
Alignment explanation
Indices: 31669810--31669851 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31669800 CAGTTGGATA
*
31669810 GATTTTTATAAT-TTTTATTTTT
1 GATTTTT-TAATAATTTATTTTT
31669832 GATTTTTTAATAATTTATTT
1 GATTTTTTAATAATTTATTT
31669852 ACTTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
GATTTTTTAATAATTTATTTTT
Found at i:31670082 original size:27 final size:26
Alignment explanation
Indices: 31670052--31670103 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
31670042 GATAATAATG
31670052 AATC-TTTGGATTTTTTTATATTTTTAA
1 AATCATTTGGA-TTTTTTAT-TTTTTAA
**
31670079 AATCATTTTTATTTTTTATTTTTTA
1 AATCATTTGGATTTTTTATTTTTTA
31670104 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.27
27 12 0.55
28 4 0.18
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (26 bp):
AATCATTTGGATTTTTTATTTTTTAA
Found at i:31670094 original size:7 final size:7
Alignment explanation
Indices: 31670084--31670116 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
31670074 TTTAAAATCA
31670084 TTTTTAT
1 TTTTTAT
31670091 TTTTTAT
1 TTTTTAT
31670098 TTTTTAT
1 TTTTTAT
31670105 TTTTTAT
1 TTTTTAT
31670112 TTTTT
1 TTTTT
31670117 GAATTTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:31670123 original size:21 final size:21
Alignment explanation
Indices: 31670084--31670124 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31670074 TTTAAAATCA
*
31670084 TTTTTATTTTTTATTTTTTAT
1 TTTTTATTTTTTATATTTTAT
31670105 TTTTTATTTTTTGA-ATTTTA
1 TTTTTATTTTTT-ATATTTTA
31670125 AGGATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTATTTTTTATATTTTAT
Found at i:31670175 original size:6 final size:6
Alignment explanation
Indices: 31670164--31670188 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31670154 ATTTTGTAAA
31670164 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
31670189 TTTATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:31673944 original size:20 final size:20
Alignment explanation
Indices: 31673921--31673960 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31673911 AAATTTTAGG
31673921 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
31673941 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
31673961 TAGAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:31674887 original size:12 final size:12
Alignment explanation
Indices: 31674870--31674902 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
31674860 CTACTTCCCC
*
31674870 TTTACTATTATT
1 TTTACTATTAAT
31674882 TTTACTATTAAT
1 TTTACTATTAAT
31674894 TTTACTATT
1 TTTACTATT
31674903 TTACAGGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTACTATTAAT
Found at i:31681175 original size:16 final size:16
Alignment explanation
Indices: 31681156--31681187 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31681146 ATTTATATAT
31681156 ATACACATTTGTCAAC
1 ATACACATTTGTCAAC
31681172 ATACACATTTGTCAAC
1 ATACACATTTGTCAAC
31681188 TTTAAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
ATACACATTTGTCAAC
Found at i:31681931 original size:131 final size:128
Alignment explanation
Indices: 31681696--31682025 Score: 459
Period size: 131 Copynumber: 2.5 Consensus size: 128
31681686 CTAGTCATTC
31681696 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTG
* * *
31681761 CTGGATTGCAATATCTCGTTTGTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTT
64 CTGGGTTGCAATATCTCGTTTGTCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGT-TT
31681826 T
128 T
* *
31681827 AAAAATTCTTCAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGAGAATCGTGCCCTATCGTG
1 AAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTCGG-GAATCGTGCCCTATCGTG
* *
31681892 TTGGGTTGCAATTTCTCGTTTG-CTCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTT
64 CTGGGTTGCAATATCTCGTTTGTC-CAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTT
31681956 T
128 T
** * * * *
31681957 CTAAATTC-TAAAA-TAAGGCAATGTTCAATGTTTGGAAATTCAGGGAATCGTGCCCTACCGTGC
1 AAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTGC
31682020 TGGGTT
65 TGGGTT
31682026 TCGATTTTTC
Statistics
Matches: 179, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
127 46 0.26
128 6 0.03
129 1 0.01
130 14 0.08
131 112 0.63
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (128 bp):
AAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCT
GGGTTGCAATATCTCGTTTGTCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTTT
Found at i:31684637 original size:53 final size:53
Alignment explanation
Indices: 31684565--31684701 Score: 195
Period size: 53 Copynumber: 2.6 Consensus size: 53
31684555 TTTACATATC
* * *
31684565 ATACCGAAGCCATATCCCAGAC-ATGGTCTTTTACGGAATCACATTATCACATT
1 ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATT
*
31684618 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATT
1 ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATT
** *
31684671 GCACCGATGTCATAGCCCAGCTATGGTCTTA
1 ATACCGATGCCATAGCCCAGCTATGGTCTTA
31684702 AACAGGCGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 1 0.01
53 75 0.99
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (53 bp):
ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATT
Found at i:31691642 original size:53 final size:53
Alignment explanation
Indices: 31691561--31691711 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
31691551 CTTACACGGT
* *
31691561 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
31691616 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
31691669 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
31691712 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:31702957 original size:175 final size:176
Alignment explanation
Indices: 31702656--31703479 Score: 720
Period size: 176 Copynumber: 4.7 Consensus size: 176
31702646 CGATGAATTC
* ** * *
31702656 ACAGATCTTGTCTCC-CTAAAGTTGCAGTGGAACAGATCAAAGACGAAAAGCCTTAACCCCCTAA
1 ACAGACCTTGTCTCCTC-AAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTAA
* *
31702720 GTAGTAGGGTAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAA
65 GTAGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAACAAATCGAA
* *
31702785 GAAACAAGCCTTAACCCCCAAAGTAGCAGGGTAACAGGCTGAATATT
130 GAAACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATATT
* * *
31702832 ACAGGCCTTGTCTCTTCAAAGTTGCAGTGGAACAGATCAAAGACGGTGAG-CTTGACCCTCTAAG
1 ACAGACCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTAAG
* * * *
31702896 CAGTAGGGTAACAGGTTGCAGATTATAGATCTTGTCTCCCTAAACAGTAGTGGATCAAATCGAAG
66 TAGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAACAAATCGAAG
* ** *
31702961 AAGCAAGCCTTAACCCCCTAAGTAGTAAAGTAACAGGCTGAAGATT
131 AAACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATATT
** * *
31703007 GTAGATCTTGTCTCCTCGAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTAAG
1 ACAGACCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTAAG
* * *** * *
31703072 TAGTAGGGTAACAGGCTAAAGATTGTAGATCTTGT-TGCCCTGAAGTTGCAGTGGAACAGATC-A
66 TAGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCT-CCCT-AAACAGTAGTGGAACAAATCGA
*
31703135 A-AAATGGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATATT
129 AGAAA---CAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATATT
** * * * * * * * * *
31703185 GTAGATCTTGTCTCCCTAAACAG-T--AGTGGAGCAAATCGAAGA-AGCAAGCCTTAACCCCCTA
1 ACAGACCTTGTCT-CCTCAA-AGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTA
* * * * * *
31703246 AGTAGTAGGGTAACATGCTGAAGATTGCAGATCTTGT-TTCCTCAA-AGTTGCAGTGGAACAGAT
64 AGTAGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAG-T--AGTGGAACAAAT
* **** * *
31703309 CAAAGATGGTGAGCCTTGACTCCCCTAAGTAGTAGGGTAACAGGCTGAAGATT
126 CGAAGA-AACAAGCCTTAAC-CCCCTAAGTAGTAGGGTAACAGGCTGAATATT
** * * * ** * * * * * * *
31703362 GTAGATCTTGTCGCC-CTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAA-CCTTAACCCCCTAA
1 ACAGACCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGACGGT-AAGCCTTGACCCTCTAA
* ** * ** * * *
31703425 GCAGTAGGGTAACAGCCTGAAAATTACAGATCCTATCTCCCTAAGCAGTAGTGGA
65 GTAGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGA
31703480 GCAGACTGAA
Statistics
Matches: 544, Mismatches: 81, Indels: 45
0.81 0.12 0.07
Matches are distributed among these distances:
173 1 0.00
174 3 0.01
175 162 0.30
176 166 0.31
177 97 0.18
178 98 0.18
179 13 0.02
180 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (176 bp):
ACAGACCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTAAG
TAGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAACAAATCGAAG
AAACAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAATATT
Found at i:31703084 original size:89 final size:88
Alignment explanation
Indices: 31702658--31703469 Score: 799
Period size: 89 Copynumber: 9.2 Consensus size: 88
31702648 ATGAATTCAC
**
31702658 AGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCAAAGACGAAAAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCT-AAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTA
* *
31702723 GTAGGGTAATAGGTTGAAGATTGT
65 GTAGGGTAACAGGCTGAAGATTGT
*** * * * * *** *
31702747 AGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGA-AACAAGCCTTAACCCCCAAAGTAG
1 AGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTAG
* * **
31702811 CAGGGTAACAGGCTGAATATTAC
66 TAGGGTAACAGGCTGAAGATTGT
** * * * * * *
31702834 AGGCCTTGTCTCTTCAAAGTTGCAGTGGAACAGATCAAAGACGGTGAG-CTTGACCCTCTAAGCA
1 AGATCTTGTCTC-CCTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTA
* * *
31702898 GTAGGGTAACAGGTTGCAGATTAT
65 GTAGGGTAACAGGCTGAAGATTGT
*** * * * * * *
31702922 AGATCTTGTCTCCCTAAACAGTAGTGGATCAAATCGAAGA-AGCAAGCCTTAACCCCCTAAGTAG
1 AGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTAG
**
31702986 TAAAGTAACAGGCTGAAGATTGT
66 TAGGGTAACAGGCTGAAGATTGT
* * *
31703009 AGATCTTGTCTCCTCGAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTGACCCTCTAAGTA
1 AGATCTTGTCTCC-CTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTA
*
31703074 GTAGGGTAACAGGCTAAAGATTGT
65 GTAGGGTAACAGGCTGAAGATTGT
* *
31703098 AGATCTTGT-TGCCCTGAAGTTGCAGTGGAACAGATCAAAAATGGTAAGCCTTAACCCCCTAAGT
1 AGATCTTGTCT-CCCT-AAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGT
*
31703162 AGTAGGGTAACAGGCTGAATATTGT
64 AGTAGGGTAACAGGCTGAAGATTGT
*** * * * * * *
31703187 AGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGA-AGCAAGCCTTAACCCCCTAAGTAG
1 AGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTAG
* *
31703251 TAGGGTAACATGCTGAAGATTGC
66 TAGGGTAACAGGCTGAAGATTGT
* * * * *
31703274 AGATCTTGTTTCCTCAAAGTTGCAGTGGAACAGATCAAAGATGGTGAGCCTTGACTCCCCTAAGT
1 AGATCTTGTCTCC-CTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAAC-CCCCTAAGT
31703339 AGTAGGGTAACAGGCTGAAGATTGT
64 AGTAGGGTAACAGGCTGAAGATTGT
* ** * * * * * *
31703364 AGATCTTGTCGCCCTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAA-CCTTAACCCCCTAAGCA
1 AGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCAAAGACGGT-AAGCCTTAACCCCCTAAGTA
* * **
31703428 GTAGGGTAACAGCCTGAAAATTAC
65 GTAGGGTAACAGGCTGAAGATTGT
* *
31703452 AGATCCTATCTCCCTAAG
1 AGATCTTGTCTCCCTAAG
31703470 CAGTAGTGGA
Statistics
Matches: 578, Mismatches: 133, Indels: 25
0.79 0.18 0.03
Matches are distributed among these distances:
86 3 0.01
87 166 0.29
88 179 0.31
89 185 0.32
90 45 0.08
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (88 bp):
AGATCTTGTCTCCCTAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGTAG
TAGGGTAACAGGCTGAAGATTGT
Found at i:31703222 original size:265 final size:263
Alignment explanation
Indices: 31702658--31703482 Score: 960
Period size: 265 Copynumber: 3.1 Consensus size: 263
31702648 ATGAATTCAC
** * * * * * *
31702658 AGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCAAAGACGAAAAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTAAA-CAGTAGTGGAGCAAATCGAAGAAG-CAAGCCTTAACCCCCTAAGTA
* * * * * *
31702723 GTAGGGTAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAG-T--AGTGGAGCAAATCGAA
64 GTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCT-CCTCAA-AGTTGCAGTGGAACAGATCAAA
*** * * * * ** ** *
31702785 GAAACAAGCCTTAACCCCCAAAGTAGCAGGGTAACAGGCTGAATATTACAGGCCTTGTCT-CTTC
127 GAGGTAAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGT-TGC-CC
* * * * *
31702849 AAAGTTGCAGTGGAACAGATCAAAGACGGTGAG-CTTGACCCTCTAAGCAGTAGGGTAACAGGTT
190 TAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT
* *
31702913 GCAGATTAT
255 GAAAATTAT
*
31702922 AGATCTTGTCTCCCTAAACAGTAGTGGATCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGT
1 AGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGT
** *
31702987 AAAGTAACAGGCTGAAGATTGTAGATCTTGTCTCCTCGAAGTTGCAGTGGAACAGATCAAAGACG
66 AGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGA-G
* *
31703052 GTAAGCCTTGACCCTCTAAGTAGTAGGGTAACAGGCTAAAGATTGTAGATCTTGTTGCCCTGAAG
130 GTAAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTTGCCCT-AAG
* * * *
31703117 TTGCAGTGGAACAGATCAAAAATGGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAT
194 TTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAA
*
31703182 ATTGT
259 ATTAT
31703187 AGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGT
1 AGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGT
* * *
31703252 AGGGTAACATGCTGAAGATTGCAGATCTTGTTTCCTCAAAGTTGCAGTGGAACAGATCAAAGATG
66 AGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGA-G
* *
31703317 GTGAGCCTTGACTCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCGCCCTAAG
130 GTAAGCCTTGAC-CCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTTGCCCTAAG
** * * * * * *
31703382 CAGTAGCGGAGCAGATCGAAGACAGTGAA-CCTTAACCCCCTAAGCAGTAGGGTAACAGCCTGAA
194 TTGCAGTGGAACAGATCAAAGACGGT-AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA
*
31703446 AATTAC
258 AATTAT
* * *
31703452 AGATCCTATCTCCCTAAGCAGTAGTGGAGCA
1 AGATCTTGTCTCCCTAAACAGTAGTGGAGCA
31703483 GACTGAAGAT
Statistics
Matches: 481, Mismatches: 71, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
260 2 0.00
261 5 0.01
262 51 0.11
263 34 0.07
264 91 0.19
265 250 0.52
266 48 0.10
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (263 bp):
AGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGT
AGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCTCAAAGTTGCAGTGGAACAGATCAAAGAGG
TAAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTTGCCCTAAGTT
GCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAT
TAT
Found at i:31703467 original size:44 final size:44
Alignment explanation
Indices: 31703418--31703510 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
31703408 GAACCTTAAC
*
31703418 CCCCTAAGCAGTAG-GGTAACAGCCTGAAAATTA-CAGATCCTAT
1 CCCCTAAGCAGTAGTGG-AACAGACTGAAAATTACCAGATCCTAT
* * *
31703461 CTCCCTAAGCAGTAGTGGAGCAGACTGAAGATTACCAGATTCTAT
1 C-CCCTAAGCAGTAGTGGAACAGACTGAAAATTACCAGATCCTAT
31703506 CCCCT
1 CCCCT
31703511 TTAAGTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
43 1 0.02
44 30 0.70
45 12 0.28
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (44 bp):
CCCCTAAGCAGTAGTGGAACAGACTGAAAATTACCAGATCCTAT
Found at i:31704183 original size:18 final size:16
Alignment explanation
Indices: 31704160--31704205 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
31704150 CCACCAAAAT
31704160 ACAAAATAAATATAAA
1 ACAAAATAAATATAAA
*
31704176 ATCTAAAAAAAATATAAA
1 A-C-AAAATAAATATAAA
31704194 ACAAAATAAATA
1 ACAAAATAAATA
31704206 CTATCCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 2 0.08
18 14 0.54
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
ACAAAATAAATATAAA
Found at i:31706785 original size:130 final size:128
Alignment explanation
Indices: 31706571--31706901 Score: 472
Period size: 130 Copynumber: 2.6 Consensus size: 128
31706561 TAACTATTCA
*
31706571 TTCAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
1 TTCAAAAATC-TTAAAA-GAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
*
31706636 TGCTGGGTTGCAATATCCCGTTTG-TCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
64 TGCTGGGTTGCAATATCCCGTTTGCT-CAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
31706700 CT
128 -T
*
31706702 TT-AAAAACTCTTCAAAATGAAGGAAATGTTCGATGTTTGGCAATTCGGGG-ATCGTGCCCTATC
1 TTCAAAAA-TCTT-AAAA-GAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
*
31706765 GTGCTGGGTTGCAATTTCCCGTTTGCTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
63 GTGCTGGGTTGCAATATCCCGTTTGCTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
31706830 T
128 T
* * * * * *
31706831 TTCTAAAATC-TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCTTACCGTG
1 TTCAAAAATCTTAAAAGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
*
31706895 CTAGGTT
66 CTGGGTT
31706902 TCGATTTTTC
Statistics
Matches: 182, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
126 28 0.15
127 24 0.13
128 1 0.01
129 5 0.03
130 84 0.46
131 40 0.22
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (128 bp):
TTCAAAAATCTTAAAAGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATATCCCGTTTGCTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTT
Found at i:31707536 original size:36 final size:37
Alignment explanation
Indices: 31707489--31707563 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 37
31707479 TTGTACTTAT
31707489 CAATTTGTGCAAATTTAA-TTTTTTTAATTTTATTTA
1 CAATTTGTGCAAATTTAATTTTTTTTAATTTTATTTA
31707525 CAATTTGTGCAAATTTAATTTTTTTTTAATTTTATTTA
1 CAATTTGTGCAAATTTAA-TTTTTTTTAATTTTATTTA
31707563 C
1 C
31707564 TCAAAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 18 0.49
38 19 0.51
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (37 bp):
CAATTTGTGCAAATTTAATTTTTTTTAATTTTATTTA
Found at i:31711781 original size:23 final size:24
Alignment explanation
Indices: 31711731--31711786 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
31711721 AAGTGTTAGG
*
31711731 TATATTTAAATTATTTTGAGATTGT
1 TATATTT-AATTATTTTGAGATTAT
31711756 TATATTTAATT-TGTTTG-GATTAT
1 TATATTTAATTAT-TTTGAGATTAT
31711779 TAT-TTTAA
1 TATATTTAA
31711787 CTGCTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 5 0.17
23 9 0.31
24 8 0.28
25 7 0.24
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (24 bp):
TATATTTAATTATTTTGAGATTAT
Found at i:31711915 original size:22 final size:22
Alignment explanation
Indices: 31711890--31711932 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
31711880 TTTAGATTTG
**
31711890 GATTTTTGTTGATTCAAATATA
1 GATTTTTACTGATTCAAATATA
31711912 GATTTTTACTGATTCAAATAT
1 GATTTTTACTGATTCAAATAT
31711933 CTGACATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (22 bp):
GATTTTTACTGATTCAAATATA
Found at i:31713175 original size:2 final size:2
Alignment explanation
Indices: 31713168--31713199 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
31713158 AAAAAGTTTA
31713168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31713200 GACAAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31713345 original size:5 final size:5
Alignment explanation
Indices: 31713335--31713361 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31713325 TTCGTTGGTT
31713335 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
31713362 TGTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:31714761 original size:30 final size:30
Alignment explanation
Indices: 31714727--31714792 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
31714717 TAAAGTAATC
*
31714727 TTAATTAATGTATAATTATATATAT-AAATT
1 TTAATT-ATGTATAATTATATAAATAAAATT
* * *
31714757 TTAATTTTGTGTAATTTTATAAATAAAATT
1 TTAATTATGTATAATTATATAAATAAAATT
31714787 TTAATT
1 TTAATT
31714793 TGATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
TTAATTATGTATAATTATATAAATAAAATT
Found at i:31715264 original size:13 final size:14
Alignment explanation
Indices: 31715246--31715278 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
31715236 GCAGGATTTC
31715246 AGAAAAAAA-AAAA
1 AGAAAAAAACAAAA
*
31715259 AGAAAAAAACACAA
1 AGAAAAAAACAAAA
31715273 AGAAAA
1 AGAAAA
31715279 GGTGGATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (14 bp):
AGAAAAAAACAAAA
Found at i:31715344 original size:12 final size:11
Alignment explanation
Indices: 31715320--31715349 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
31715310 CATTTTATTC
31715320 TTTAGTTTCTTT
1 TTTA-TTTCTTT
31715332 TTTATTTCTTT
1 TTTATTTCTTT
31715343 TTTATTT
1 TTTATTT
31715350 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:31716291 original size:2 final size:2
Alignment explanation
Indices: 31716284--31716313 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
31716274 TCATTATCTC
31716284 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31716314 TAGGTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:31718097 original size:30 final size:30
Alignment explanation
Indices: 31718044--31718105 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
31718034 TAATAAAAGT
* *
31718044 AAAATTATATTTTATCCCCTAAAAATAATA
1 AAAATTATATTTAATCACCTAAAAATAATA
** *
31718074 AAAATTATATTTAATCATTTAAAAATTATA
1 AAAATTATATTTAATCACCTAAAAATAATA
31718104 AA
1 AA
31718106 GATATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATTATATTTAATCACCTAAAAATAATA
Found at i:31719828 original size:15 final size:15
Alignment explanation
Indices: 31719808--31719838 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31719798 TATAAGAGAT
31719808 GTAGAAAACTAACTC
1 GTAGAAAACTAACTC
31719823 GTAGAAAACTAACTC
1 GTAGAAAACTAACTC
31719838 G
1 G
31719839 GAACATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (15 bp):
GTAGAAAACTAACTC
Found at i:31723088 original size:32 final size:32
Alignment explanation
Indices: 31723052--31723115 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
31723042 AACACTGAAG
31723052 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
1 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
31723084 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
1 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
31723116 CCTCTTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (32 bp):
TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
Found at i:31724260 original size:6 final size:6
Alignment explanation
Indices: 31724251--31724280 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
31724241 ACATGTACAA
*
31724251 TTGTGT TTGTAT TTGTAT TTGTAT TTGTAT
1 TTGTAT TTGTAT TTGTAT TTGTAT TTGTAT
31724281 GGTGAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (6 bp):
TTGTAT
Found at i:31725143 original size:30 final size:30
Alignment explanation
Indices: 31725109--31725168 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
31725099 GTATTTTCCA
31725109 ATGTCCTAATCACTTCATTTAAAGGTTTTC
1 ATGTCCTAATCACTTCATTTAAAGGTTTTC
31725139 ATGTCCTAATCACTTCATTTAAAGGTTTTC
1 ATGTCCTAATCACTTCATTTAAAGGTTTTC
31725169 TTTTTATCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (30 bp):
ATGTCCTAATCACTTCATTTAAAGGTTTTC
Found at i:31736391 original size:43 final size:43
Alignment explanation
Indices: 31736327--31736413 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
31736317 ATATGTGATT
**
31736327 TCGATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGGCTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCA
31736370 TCGATATGTGGCTAC-ATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGGCTACGA-GTAAGACCACGTCTGGGACGTTGGCA
31736413 T
1 T
31736414 TGTACGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
TCGATATGTGGCTACGAGTAAGACCACGTCTGGGACGTTGGCA
Found at i:31739580 original size:10 final size:10
Alignment explanation
Indices: 31739565--31739614 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
31739555 TAATTTTAGG
31739565 ATTTAT-TTT
1 ATTTATCTTT
31739574 CATTTATCTTT
1 -ATTTATCTTT
31739585 ATTTATCTTT
1 ATTTATCTTT
*
31739595 AATTAT-TTGT
1 ATTTATCTT-T
31739605 ATTTATCTTT
1 ATTTATCTTT
31739615 TAGTATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:31739621 original size:20 final size:20
Alignment explanation
Indices: 31739584--31739622 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31739574 CATTTATCTT
*
31739584 TATTTATCTTTAATTATTTG
1 TATTTATCTTTAAGTATTTG
*
31739604 TATTTATCTTTTAGTATTT
1 TATTTATCTTTAAGTATTT
31739623 AATTAGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTTATCTTTAAGTATTTG
Found at i:31740367 original size:17 final size:18
Alignment explanation
Indices: 31740335--31740368 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31740325 TATTCTCCAT
*
31740335 TTTAATTTTGGCAATTTA
1 TTTAATTTTCGCAATTTA
31740353 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
31740369 CAATCCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:31741465 original size:35 final size:35
Alignment explanation
Indices: 31741426--31741496 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
31741416 CACTTGCCTC
*
31741426 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
31741461 TTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
31741496 T
1 T
31741497 CACACACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:31742024 original size:11 final size:11
Alignment explanation
Indices: 31741991--31742025 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
31741981 CGGATTCCCC
31741991 TCCCT-TCTCT
1 TCCCTCTCTCT
31742001 CTCCCTCTCTCT
1 -TCCCTCTCTCT
31742013 TCCCTCTCTCT
1 TCCCTCTCTCT
31742024 TC
1 TC
31742026 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
TCCCTCTCTCT
Found at i:31742499 original size:3 final size:3
Alignment explanation
Indices: 31742491--31742527 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31742481 TGCATTTCAA
31742491 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31742528 GAAATACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:31742637 original size:3 final size:3
Alignment explanation
Indices: 31742629--31742676 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
31742619 TGTGTTTCAA
31742629 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31742677 ATATCCTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31742960 original size:33 final size:31
Alignment explanation
Indices: 31742892--31742962 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 31
31742882 TAATATTATG
*
31742892 TATATATTTTAATATTATCAGTTATATATAC
1 TATATATTTTAATACTATCAGTTATATATAC
* *
31742923 TATATGATTTCTAATACTATTATTTATTATATA-
1 TATAT-ATTT-TAATACTATCAGTTA-TATATAC
31742956 TATATAT
1 TATATAT
31742963 ATATATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 5 0.15
32 6 0.18
33 17 0.50
34 6 0.18
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (31 bp):
TATATATTTTAATACTATCAGTTATATATAC
Found at i:31755384 original size:70 final size:70
Alignment explanation
Indices: 31755297--31755885 Score: 953
Period size: 70 Copynumber: 8.2 Consensus size: 70
31755287 CAAGTGACAG
*
31755297 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
31755362 GTTTC
66 GTTTC
31755367 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
31755432 GTTTC
66 GTTTC
*
31755437 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
31755502 ATTTC
66 GTTTC
*
31755507 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
31755572 AATTTATGTTTC
59 AATTTATGTTTC
* *
31755584 AAAATTAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
31755649 GTTTC
66 GTTTC
*
31755654 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
31755719 GTTTC
66 GTTTC
*
31755724 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
31755789 AATTTATGTTTC
59 AATTTATGTTTC
* *
31755801 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCACTTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
31755866 GTTTC
66 GTTTC
31755871 AAAAATCAACTCATA
1 -AAAATCAACTCATA
31755886 GGTGAGTTGA
Statistics
Matches: 487, Mismatches: 17, Indels: 29
0.91 0.03 0.05
Matches are distributed among these distances:
70 333 0.68
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 128 0.26
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:31755665 original size:217 final size:217
Alignment explanation
Indices: 31755297--31757179 Score: 1353
Period size: 217 Copynumber: 8.2 Consensus size: 217
31755287 CAAGTGACAG
* *
31755297 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
31755355 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
31755420 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
31755485 AGGTAATTTCAATTTATATTTC
196 AGGTAATTTCAATTTATATTTC
31755507 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
31755572 AATTTATGTTTCAAAATTAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
31755637 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
*
31755702 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATATTTC
31755724 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
31755789 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
* * ** * *
31755854 ATTTCACTTTATGTTTCAAAAATCAACTC--A-T-----AGGTGAGTTGAGCCTCGGGGCACGCT
131 ATTTCAATTTATGTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
* *
31755911 GAGGTATTTTCAGTCTCTACTTTCCAATTCCTGTTTTTC
195 GAGG-----T-A------A-TTT-CAATT--TATATTTC
* * ** * * * * * *
31755950 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTTAATTTCTGTCTTTCAAAAAGCAA-C
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TCAA-AAC--ACGTT---GAGGTAATT
* * ***** *
31756014 TC-ATATTGCGAGAGGTGAGTTGTACCTTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGT
57 TCAAT-TTTC---A----A-TT-TA--TGTTTCAAAATC-------AACTCATATGGCGAGAGGT
* * *
31756078 GAGTTGAGCCTC-AGCTCACGCGCTGAGGTATTTCTAATTTCTGTTTTTCAATTTCTGTTCGTCA
103 GAGTTGAGCCTCAAG---ACACGTTGAGG------TAA--------TTTCAATTTATGTT--TCA
* * * * *
31756142 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCTG
149 AAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTATA
31756207 TTCATC
214 TT--TC
* ** *
31756213 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGT-ATTTCCA
1 ---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AAACACGTTGAGGTAATTT-CA
* *
31756277 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
60 A-------TTTTCAATTTATGTT--TCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCA
* * *
31756342 AGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGA
116 AGACACGTTGAGGTAATTTCAATTTATG-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAA
* *
31756407 GCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC
180 GCCTCAAGACACGTTGAGGTAATTTCAATTTAT-ATTTC
** * *
31756446 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTT
** **** * * * * *
31756510 CTGTTT-T-CAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGA
65 CAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGA
* *
31756572 GGT-ATTCTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
127 GGTAATT-TCAATTTATG--TTTC-----AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
* * * * *
31756636 CAGGACACGTTGAGGTAATTTTAATTTCTGTTCATAAAA
184 CAAGACACGTTGAGGTAATTTCAATTTATATT--T---C
* * ** * * *
31756675 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AAACACGTTGAGGTAATTTCAA---
* * *
31756740 CTGTTATTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
61 ---TT-TTCAATTTATGTT--TCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGAC
* * * *
31756805 ACGTTGAGGTAATTTTAATTTCTGTTCATTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
120 ACGTTGAGGTAATTTCAATTTATG-T--TT--CAAAATCAACTCATATTGCGAGAGGTGAGTTAA
* * * *
31756870 GTCTC-AGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTGTC
180 GCCTCAAG---ACACGTTGAGG-----T-AA--------TTTCAATTTAT-ATT-TC
* *
31756926 AAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
* *
31756990 ----TGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
66 AATTTATGTTTC-AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
* * ** *
31757050 AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACG
130 AATTTCAATTTATG-TTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACG
* * *
31757115 TTGAGGTATTTTCAATTTCTGTTTTC
193 TTGAGGTAATTTCAATTTAT-ATTTC
*
31757141 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
31757180 GGTTCACATG
Statistics
Matches: 1375, Mismatches: 138, Indels: 313
0.75 0.08 0.17
Matches are distributed among these distances:
210 74 0.05
215 5 0.00
216 20 0.01
217 369 0.27
218 14 0.01
219 20 0.01
220 5 0.00
221 7 0.01
222 1 0.00
223 3 0.00
224 8 0.01
225 63 0.05
226 7 0.01
227 34 0.02
228 30 0.02
229 21 0.02
230 36 0.03
231 35 0.03
232 32 0.02
233 8 0.01
234 71 0.05
235 84 0.06
236 4 0.00
237 5 0.00
238 42 0.03
239 2 0.00
240 29 0.02
241 9 0.01
242 39 0.03
243 7 0.01
245 7 0.01
246 2 0.00
249 26 0.02
251 69 0.05
252 32 0.02
254 20 0.01
255 2 0.00
256 3 0.00
258 5 0.00
259 5 0.00
260 5 0.00
261 5 0.00
262 2 0.00
263 8 0.01
264 5 0.00
265 35 0.03
267 3 0.00
268 13 0.01
269 11 0.01
270 2 0.00
271 2 0.00
272 2 0.00
277 27 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATATTTC
Found at i:31756028 original size:54 final size:52
Alignment explanation
Indices: 31755936--31756088 Score: 208
Period size: 54 Copynumber: 3.0 Consensus size: 52
31755926 TCTACTTTCC
* *
31755936 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
31755990 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
31756041 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
31756089 CAGCTCACGC
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
47 1 0.01
48 40 0.44
49 3 0.03
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:31756071 original size:48 final size:51
Alignment explanation
Indices: 31755941--31756088 Score: 205
Period size: 48 Copynumber: 2.9 Consensus size: 51
31755931 TTTCCAATTC
*
31755941 CTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTTAATTT
1 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT-ATTT
* *
31755995 CTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T-TTT
1 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTATTT
31756044 -TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
31756089 CAGCTCACGC
Statistics
Matches: 86, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
47 1 0.01
48 40 0.47
49 3 0.03
51 1 0.01
54 40 0.47
55 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (51 bp):
CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTATTT
Found at i:31756132 original size:14 final size:15
Alignment explanation
Indices: 31756108--31756136 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31756098 CGCTGAGGTA
31756108 TTTCTAATTTCTGTT
1 TTTCTAATTTCTGTT
31756123 TTTC-AATTTCTGTT
1 TTTCTAATTTCTGTT
31756137 CGTCAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (15 bp):
TTTCTAATTTCTGTT
Found at i:31756322 original size:163 final size:161
Alignment explanation
Indices: 31756052--31757218 Score: 1423
Period size: 163 Copynumber: 7.5 Consensus size: 161
31756042 TTTGTTTTTC
* *
31756052 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTCCAATT
*
31756117 TCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 TCTGTTTTTCAATTTCTGTT-GTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
31756182 CACGTTGAGGTAATTTTAATTTCTGTTCATCAA
130 CACGTTGAGGTAATTTTAATTTCTGTT-TTCAA
*
31756215 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTCCAATT
31756280 TCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66 TCTGTTTTTCAATTTCTGTT-GTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
31756345 CACGTTGAGGTAATTTCAATTTCTGTTTTC--
130 CACGTTGAGGTAATTTTAATTTCTGTTTTCAA
* *
31756375 -AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTT-CAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTCCAA
* **
31756435 TTTCTG-TTTTC-A-----------AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
64 TTTCTGTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
31756487 ACACGTTGAGGT-ATTTTCAATTTCTGTTTTCAA
129 ACACGTTGAGGTAATTTT-AATTTCTGTTTTCAA
* * * *
31756520 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTA-TTCTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTC-CAAT
* *** *
31756584 TTCTGTCTTTCAA--------AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
65 TTCTGTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
* *
31756641 CACGTTGAGGTAATTTTAATTTCTGTTCATAAA
130 CACGTTGAGGTAATTTTAATTTCTGTT-TTCAA
* * * *
31756674 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTCCAATT
* * *
31756739 TCTGTTATTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 TCTGTTTTTCAATTTCTGTT-GTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
31756804 CACGTTGAGGTAATTTTAATTTCTGTTCATT-AA
130 CACGTTGAGGTAATTTTAATTTCTGTT--TTCAA
* *
31756837 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTCCAATT
*
31756902 TCTGTTTTTCAATTTCTGTTTGTCAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66 TCTGTTTTTCAATTTCTG-TTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
31756967 CACGTTGAGGTAATTTCAATTTCTGTTTTC--
130 CACGTTGAGGTAATTTTAATTTCTGTTTTCAA
*
31756997 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATTT-CAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGT-ATTTCCAA
* * **
31757058 TTTCTG-TTTTC-A-----------AAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAG
64 TTTCTGTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
31757110 ACACGTTGAGGT-ATTTTCAATTTCTGTTTTC-A
129 ACACGTTGAGGTAATTTT-AATTTCTGTTTTCAA
* * * *
31757142 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTA-TTCTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTC-CAAT
* *
31757206 TTCCGTCTTTCAA
65 TTCTGTTTTTCAA
31757219 AAAAAAAAAA
Statistics
Matches: 902, Mismatches: 60, Indels: 98
0.85 0.06 0.09
Matches are distributed among these distances:
142 4 0.00
143 66 0.07
144 61 0.07
145 40 0.04
146 38 0.04
147 19 0.02
148 23 0.03
149 5 0.01
150 1 0.00
153 58 0.06
154 72 0.08
155 3 0.00
156 6 0.01
157 25 0.03
158 24 0.03
159 39 0.04
160 39 0.04
161 4 0.00
162 2 0.00
163 370 0.41
164 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (161 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTCCAATT
TCTGTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
ACGTTGAGGTAATTTTAATTTCTGTTTTCAA
Found at i:31756496 original size:72 final size:71
Alignment explanation
Indices: 31756286--31756750 Score: 540
Period size: 72 Copynumber: 6.3 Consensus size: 71
31756276 AATTTCTGTT
*
31756286 TTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTT-TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
31756351 GAGGTAA
65 GAGGTAA
*
31756358 TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
31756423 AGGTAA
66 AGGTAA
**
31756429 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
31756494 GAGGTAT
65 GAGGTAA
* *
31756501 TTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 TTTCAATTTCTGTTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
31756565 ATGCTGAGGT-A
60 ACGTTGAGGTAA
*
31756576 TTCTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TT-TCAATTTCTGT-TTTC-----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
31756641 CACGTTGAGGTAA
59 CACGTTGAGGTAA
* ** * *
31756654 TTTTAATTTCTGTTCATAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-AGCTCA
1 TTTCAATTTCTGTT--T--TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---A
* * *
31756718 CGCGCTGAGGTAT
59 CACGTTGAGGTAA
31756731 TTTCAATTTCTGTTATTCAA
1 TTTCAATTTCTGTT-TTCAA
31756751 TTTCTGTTCA
Statistics
Matches: 347, Mismatches: 26, Indels: 38
0.84 0.06 0.09
Matches are distributed among these distances:
71 76 0.22
72 79 0.23
73 1 0.00
74 33 0.10
75 41 0.12
76 24 0.07
77 48 0.14
78 4 0.01
79 39 0.11
80 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (71 bp):
TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
AGGTAA
Found at i:31756764 original size:14 final size:14
Alignment explanation
Indices: 31756732--31756758 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31756722 CTGAGGTATT
31756732 TTCAATTTCTGTTA
1 TTCAATTTCTGTTA
31756746 TTCAATTTCTGTT
1 TTCAATTTCTGTT
31756759 CATCAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (14 bp):
TTCAATTTCTGTTA
Found at i:31756805 original size:622 final size:623
Alignment explanation
Indices: 31756052--31757263 Score: 2250
Period size: 622 Copynumber: 1.9 Consensus size: 623
31756042 TTTGTTTTTC
31756052 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCTAATT
* *
31756117 TCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 TCTGTTATTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
31756182 CACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
131 CACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
31756247 AGTCTCAGCTCACACGCTGAGGTATTTCCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAA
196 AGTCTCAGCTCACACGCTGAGGTATTTCCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATAAA
31756312 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC-A
261 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAA
31756376 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
326 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
*
31756441 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
391 TTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
31756506 ATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
456 ATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
* *
31756571 AGGTATTCTCAATTTCTGTCTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
520 AGGTATTCTCAATTTCCGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
31756635 TCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATAAA
585 TCAGGACACGTTGAGGTAATTTTAATTTCTGTTCATAAA
* *
31756674 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTT-TCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCT-AAT
31756738 TTCTGTTATTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
65 TTCTGTTATTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
31756803 ACACGTTGAGGTAATTTTAATTTCTGTTCATTAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
130 ACACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
31756868 GAGTCTCAGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTGTCAAAATAA
195 GAGTCTCAGCTCACACGCTGAGGTATTTCCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATAA
31756933 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
260 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
*
31756998 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
325 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
31757063 GTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
390 GTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
31757128 AATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
455 AATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
31757193 AGGTATTCTCAATTTCCGTCTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAG
520 AGGTATTCTCAATTTCCGTCTTTC--AAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAG
*
31757258 CTTCAG
583 CCTCAG
31757264 ATCACACACT
Statistics
Matches: 572, Mismatches: 13, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
621 1 0.00
622 388 0.68
623 141 0.25
625 42 0.07
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (623 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCTAATT
TCTGTTATTCAATTTCTGTTCATCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGTCTCAGCTCACACGCTGAGGTATTTCCAATTTCTGTTTTTCAATTTCTGTTCGTCAAAATAAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAA
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
TTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGA
GGTATTCTCAATTTCCGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCT
CAGGACACGTTGAGGTAATTTTAATTTCTGTTCATAAA
Found at i:31756912 original size:14 final size:14
Alignment explanation
Indices: 31756893--31756927 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
31756883 CGCTGAGGTA
31756893 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
31756907 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
31756921 TTGTCAA
1 TTTTCAA
31756928 AATAAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:31757025 original size:72 final size:72
Alignment explanation
Indices: 31756908--31757179 Score: 456
Period size: 72 Copynumber: 3.8 Consensus size: 72
31756898 AATTTCTGTT
*
31756908 TTTCAATTTCTGTTTGTC-AAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
31756972 TGAGGTAA
65 TGAGGTAA
31756980 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
31757045 GAGGTAA
66 GAGGTAA
* * **
31757052 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
31757117 GAGGTAT
66 GAGGTAA
*
31757124 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
31757180 GGTTCACATG
Statistics
Matches: 187, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
71 2 0.01
72 152 0.81
73 33 0.18
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:31758560 original size:11 final size:11
Alignment explanation
Indices: 31758527--31758560 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
31758517 CGGATTCCCC
31758527 TCCCT-TCTCT
1 TCCCTCTCTCT
31758537 CTCCCTCTCTCT
1 -TCCCTCTCTCT
31758549 TCCCTCTCTCT
1 TCCCTCTCTCT
31758560 T
1 T
31758561 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCCTCTCTCT
Found at i:31759035 original size:3 final size:3
Alignment explanation
Indices: 31759027--31759060 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
31759017 TGCATTTCAA
31759027 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31759061 GAAATACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:31759170 original size:3 final size:3
Alignment explanation
Indices: 31759162--31759209 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
31759152 TGTGTTTCAA
31759162 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31759210 ATATCCTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31759483 original size:33 final size:30
Alignment explanation
Indices: 31759425--31759497 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
31759415 TAATATTATG
*
31759425 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
31759455 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
31759488 TATATATTTT
1 TATATATTTT
31759498 CTTAGTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:31765335 original size:10 final size:9
Alignment explanation
Indices: 31765285--31765406 Score: 59
Period size: 8 Copynumber: 13.9 Consensus size: 9
31765275 CAACCTAACC
31765285 TTTATTTT-
1 TTTATTTTA
*
31765293 TTTACTTTA
1 TTTATTTTA
*
31765302 CTTAATTTT-
1 -TTTATTTTA
31765311 TATTA-TTTA
1 T-TTATTTTA
31765320 -TTATTTTA
1 TTTATTTTA
31765328 TTTCATTTTA
1 TTT-ATTTTA
*
31765338 -TTAGTATCTA
1 TTTA-T-TTTA
31765348 -TTATTTTA
1 TTTATTTTA
31765356 TTTCATTTTA
1 TTT-ATTTTA
31765366 -TTAGTATTTA
1 TTTA-T-TTTA
31765376 -TTATTTTA
1 TTTATTTTA
*
31765384 TTTA-ATTA
1 TTTATTTTA
31765392 TTTA--TTA
1 TTTATTTTA
31765399 TTTATTTT
1 TTTATTTT
31765407 GGATATTAAC
Statistics
Matches: 91, Mismatches: 7, Indels: 31
0.71 0.05 0.24
Matches are distributed among these distances:
7 10 0.11
8 31 0.34
9 19 0.21
10 31 0.34
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTATTTTA
Found at i:31765357 original size:28 final size:28
Alignment explanation
Indices: 31765318--31765386 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
31765308 TTTTATTATT
31765318 TATTATTTTATTTCATTTTATTAGTATC
1 TATTATTTTATTTCATTTTATTAGTATC
*
31765346 TATTATTTTATTTCATTTTATTAGTATT
1 TATTATTTTATTTCATTTTATTAGTATC
31765374 TATTATTTTATTT
1 TATTATTTTATTT
31765387 AATTATTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (28 bp):
TATTATTTTATTTCATTTTATTAGTATC
Found at i:31765358 original size:23 final size:22
Alignment explanation
Indices: 31765308--31765406 Score: 64
Period size: 28 Copynumber: 4.4 Consensus size: 22
31765298 TTTACTTAAT
* *
31765308 TTTTATTAT-TTATTATT-TTA
1 TTTTATTTTATTAGTATTATTA
*
31765328 TTTCATTTTATTAGTATCTATTA
1 TTTTATTTTATTAGTAT-TATTA
31765351 TTTTATTTCATTTTATTAGTATTTATTA
1 ---T-TTT-ATTTTATTAGTA-TTATTA
*
31765379 TTTTATTTAATTA-T-TTATTA
1 TTTTATTTTATTAGTATTATTA
31765399 -TTTATTTT
1 TTTTATTTT
31765407 GGATATTAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
19 7 0.11
20 13 0.20
21 6 0.09
22 2 0.03
23 11 0.17
24 3 0.05
25 1 0.02
26 1 0.02
27 2 0.03
28 17 0.27
29 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATTTTATTAGTATTATTA
Done.