Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 28 of 91
Found at i:9608162 original size:67 final size:67
Alignment explanation
Indices: 9608083--9608214 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
9608073 CAAAATCTTA
*
9608083 CACAATGGTTTTT-ACTGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCATAACC
1 CACAATGGTTTTTCAC-GAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACC
9608147 TTT
65 TTT
* *
9608150 CACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCT
1 CACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCT
9608215 ATGTCACGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 59 0.97
68 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (67 bp):
CACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCT
TT
Found at i:9612074 original size:37 final size:36
Alignment explanation
Indices: 9612024--9612128 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 36
9612014 CTCAGCTCAA
*
9612024 TGCACTCCCTACTCGCACACTTGAACATCATCATGTG
1 TGCACTCCCTACTCGCACACTT-AACATCATCACGTG
*
9612061 TGCACTCCCTACTCGCACACTCTATCATCATCACGTG
1 TGCACTCCCTACTCGCACACT-TAACATCATCACGTG
* * * *
9612098 TGCATTCCATACTCACGCACTTCAACATCAT
1 TGCACTCCCTACTCGCACACTT-AACATCAT
9612129 TCATCAATGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 57 0.97
38 1 0.02
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.28
Consensus pattern (36 bp):
TGCACTCCCTACTCGCACACTTAACATCATCACGTG
Found at i:9613690 original size:40 final size:38
Alignment explanation
Indices: 9613597--9613695 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
9613587 ATAGTGCCCG
* *
9613597 TGTGCACGATGTGGGGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTGGGGGGATGCACACGATGGCACCGAT
* **
9613635 TGTGCACAATGTGGGGGGATGCACACGATGGTGCCGACT
1 TGTGCACGATGTGGGGGGATGCACACGATGGCACCGA-T
* *
9613674 ATGTGCATGATATGGGGGGATG
1 -TGTGCACGATGTGGGGGGATG
9613696 TACATGAGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 32 0.63
39 1 0.02
40 18 0.35
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.23
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGGCACCGAT
Found at i:9618352 original size:29 final size:28
Alignment explanation
Indices: 9618307--9618448 Score: 167
Period size: 29 Copynumber: 4.9 Consensus size: 28
9618297 TGCAGCTTTG
9618307 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
9618335 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* * *
9618364 ATATGTTTGCCTTAATTTAAAACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * *
9618394 ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* * *
9618423 ACATATTTGTCTCAATTTAAACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
9618449 TAAAATATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 36 0.37
29 38 0.39
30 11 0.11
31 13 0.13
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:9618420 original size:59 final size:58
Alignment explanation
Indices: 9618307--9618461 Score: 204
Period size: 59 Copynumber: 2.7 Consensus size: 58
9618297 TGCAGCTTTG
* * * *
9618307 ACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAAACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * *
9618364 ATATGTTTGCCTTAATTTAAAACAAGAAAAATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATGTTTGTCTTAATTT-AAACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* *
9618423 ACATATTTGTCTCAATTTAAACAAGATAAAATATTTTTT
1 ACATGTTTGTCTTAATTTAAACAAGA-AAAATATTTTTT
9618462 TTTGTCTTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 16 0.19
58 14 0.17
59 54 0.64
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (58 bp):
ACATGTTTGTCTTAATTTAAACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
Found at i:9618456 original size:28 final size:28
Alignment explanation
Indices: 9618307--9618458 Score: 155
Period size: 28 Copynumber: 5.3 Consensus size: 28
9618297 TGCAGCTTTG
*
9618307 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAA
*
9618335 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATATTT-GTCTTAATTTAGACAAGAAA
* * * *
9618364 ATATGTTTGCCTTAATTTAAAACAAGAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAA
*
9618393 A-ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATA---TTTGTCTTAATTTAGACAAGAAA
* *
9618423 ACATATTTGTCTCAATTTAAACAAGATAA
1 ACATATTTGTCTTAATTTAGACAAGA-AA
9618452 A-ATATTT
1 ACATATTT
9618459 TTTTTTGTCT
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
28 43 0.40
29 40 0.37
30 9 0.08
31 15 0.14
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (28 bp):
ACATATTTGTCTTAATTTAGACAAGAAA
Found at i:9618647 original size:17 final size:17
Alignment explanation
Indices: 9618625--9618657 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9618615 ATAATAATAA
9618625 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
9618642 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
9618658 TTGTCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:9624623 original size:20 final size:20
Alignment explanation
Indices: 9624598--9624638 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9624588 ATAAGCCTTG
*
9624598 TTGATTTTTACGAAATAAAA
1 TTGATTTATACGAAATAAAA
* *
9624618 TTGATTTATATGAAATGAAA
1 TTGATTTATACGAAATAAAA
9624638 T
1 T
9624639 GAGATTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.41
Consensus pattern (20 bp):
TTGATTTATACGAAATAAAA
Found at i:9625439 original size:35 final size:35
Alignment explanation
Indices: 9625389--9625601 Score: 221
Period size: 35 Copynumber: 6.0 Consensus size: 35
9625379 GGTTGTGACA
* *
9625389 GTTTAATTAAATCATTGAGCCTAATTAATTAAATT
1 GTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
9625424 GTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
1 GTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
**** *
9625459 AAACAATTAAGTTATTTGGGCCTAATTAATTAAATT
1 GTTTAATTAAGTCA-TTGGGCCTAATTAATTAAATT
* *
9625495 -TACTTAATTTAGTCATTGGGCCTAATTGATTAAAATT
1 GT--TTAATTAAGTCATTGGGCCTAATTAATT-AAATT
* ** * *
9625532 GTTTAATTAAATTGTTGGGCTTTATTAATTAAATT
1 GTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
* * * *
9625567 ATTAAATTAAGTTATTGGGCCTAATTTATTAAATT
1 GTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
9625602 AAAAAATTAA
Statistics
Matches: 146, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
35 75 0.51
36 57 0.39
37 13 0.09
38 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (35 bp):
GTTTAATTAAGTCATTGGGCCTAATTAATTAAATT
Found at i:9630794 original size:2 final size:2
Alignment explanation
Indices: 9630789--9630851 Score: 90
Period size: 2 Copynumber: 30.5 Consensus size: 2
9630779 ATAACTTATC
* *
9630789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA AA CTA NTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA TA TA
9630833 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
9630852 CCAAAACAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
2 53 0.95
3 3 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9638600 original size:2 final size:2
Alignment explanation
Indices: 9638593--9638619 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9638583 ACACGTGAAG
9638593 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9638620 CGCATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9639636 original size:22 final size:18
Alignment explanation
Indices: 9639622--9639659 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9639612 ATTATTCAAC
9639622 TTTTATTTATTCATTTCA
1 TTTTATTTATTCATTTCA
*
9639640 TTTTATTTATTTA-TTCA
1 TTTTATTTATTCATTTCA
9639657 TTT
1 TTT
9639660 ATTGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTATTCATTTCA
Found at i:9639667 original size:22 final size:22
Alignment explanation
Indices: 9639623--9639668 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9639613 TTATTCAACT
9639623 TTTATTTATTCATTTCATTTTA
1 TTTATTTATTCATTTCATTTTA
9639645 TTTATTTATTCATTT-ATTGTTA
1 TTTATTTATTCATTTCATT-TTA
9639667 TT
1 TT
9639669 ATTATTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTATTTATTCATTTCATTTTA
Found at i:9646617 original size:38 final size:38
Alignment explanation
Indices: 9646530--9646627 Score: 101
Period size: 38 Copynumber: 2.5 Consensus size: 38
9646520 CAGCTCAAGA
9646530 ACATCCCCCCACATCGTGCACATAGCTGAAGTCATCGTGT
1 ACATCCCCCCACATCGTG--CATAGCTGAAGTCATCGTGT
* * * *
9646570 GCATGCCCCCACATCGTGCATATCT-AA-TGCTGTCGTGT
1 ACATCCCCCCACATCGTGCATAGCTGAAGT-C-ATCGTGT
*
9646608 ACATCCCCCCACATTGTGCA
1 ACATCCCCCCACATCGTGCA
9646628 CACGAGCAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
36 1 0.02
37 3 0.06
38 29 0.59
40 16 0.33
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.24
Consensus pattern (38 bp):
ACATCCCCCCACATCGTGCATAGCTGAAGTCATCGTGT
Found at i:9649845 original size:18 final size:17
Alignment explanation
Indices: 9649810--9649856 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9649800 TACCCTTTCA
*
9649810 TTATTCA-TC-TTTTCT
1 TTATTCATTCATTTTAT
9649825 TTATTCATTTCATTTTAT
1 TTATTCA-TTCATTTTAT
*
9649843 TTATTTATTCATTT
1 TTATTCATTCATTT
9649857 ATTGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.26
17 9 0.33
18 11 0.41
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTCATTCATTTTAT
Found at i:9649849 original size:22 final size:22
Alignment explanation
Indices: 9649824--9649865 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
9649814 TCATCTTTTC
9649824 TTTATTCATTTCATT-TTATTTA
1 TTTATTCATTT-ATTGTTATTTA
9649846 TTTATTCATTTATTGTTATT
1 TTTATTCATTTATTGTTATT
9649866 ATTATTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATTCATTTATTGTTATTTA
Found at i:9653262 original size:22 final size:22
Alignment explanation
Indices: 9653228--9653275 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
9653218 TTATATTGGT
* *
9653228 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAAAGCCTTTGGTTTTAAAG
9653250 ATCAAAGCCTTTGGTTTTAAAG
1 ATCAAAGCCTTTGGTTTTAAAG
9653272 ATCA
1 ATCA
9653276 TAGTACAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (22 bp):
ATCAAAGCCTTTGGTTTTAAAG
Found at i:9663160 original size:11 final size:11
Alignment explanation
Indices: 9663137--9663212 Score: 54
Period size: 11 Copynumber: 7.2 Consensus size: 11
9663127 AGCCTTCACC
9663137 TTTCTTT-TCT
1 TTTCTTTCTCT
9663147 TTTCTTTCTCT
1 TTTCTTTCTCT
*
9663158 TTT-TCTTCCCT
1 TTTCT-TTCTCT
* * *
9663169 TTCCTTTCCCC
1 TTTCTTTCTCT
9663180 TTTCTTT-TCT
1 TTTCTTTCTCT
*
9663190 TCTTCCTT-TC-
1 T-TTCTTTCTCT
9663200 TTTCTTTCTCT
1 TTTCTTTCTCT
9663211 TT
1 TT
9663213 CTCTCTTGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
9 5 0.10
10 13 0.25
11 33 0.63
12 1 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTCTTTCTCT
Found at i:9663160 original size:16 final size:16
Alignment explanation
Indices: 9663137--9663212 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
9663127 AGCCTTCACC
9663137 TTTCTTT-TCTTTTCT
1 TTTCTTTCTCTTTTCT
* **
9663152 TTCTCTTTTTCTTCCCT
1 TT-TCTTTCTCTTTTCT
* * *
9663169 TTCCTTTCCCCTTTCT
1 TTTCTTTCTCTTTTCT
*
9663185 TTTC-TTCTTCCTTTC-
1 TTTCTTTC-TCTTTTCT
9663200 TTTCTTTCTCTTT
1 TTTCTTTCTCTTT
9663213 CTCTCTTGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
15 13 0.28
16 25 0.54
17 8 0.17
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCTTTCTCTTTTCT
Found at i:9663649 original size:12 final size:12
Alignment explanation
Indices: 9663632--9663656 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9663622 TATTCTATTA
9663632 TATTTTATTTAT
1 TATTTTATTTAT
9663644 TATTTTATTTAT
1 TATTTTATTTAT
9663656 T
1 T
9663657 TCTTAACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:9667539 original size:20 final size:20
Alignment explanation
Indices: 9667495--9667532 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9667485 ATAGTCTCCA
*
9667495 ATTACTCAATTTCTAAAATC
1 ATTATTCAATTTCTAAAATC
9667515 ATTATTCAATTTC-AAAAT
1 ATTATTCAATTTCTAAAAT
9667533 GATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATTCAATTTCTAAAATC
Found at i:9677616 original size:20 final size:20
Alignment explanation
Indices: 9677572--9677609 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9677562 ACAGTCTCCA
*
9677572 ATTACTCAATTTCTAAAATC
1 ATTATTCAATTTCTAAAATC
9677592 ATTATTCAATTTC-AAAAT
1 ATTATTCAATTTCTAAAAT
9677610 GATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATTCAATTTCTAAAATC
Found at i:9684207 original size:527 final size:527
Alignment explanation
Indices: 9683214--9684242 Score: 1729
Period size: 527 Copynumber: 2.0 Consensus size: 527
9683204 TTCTACAACC
* *
9683214 TTGCATATAAATTGTAACACTCTCGATTTTCGATACAAACTAAGTCAATTGAGAATGATTTATGA
1 TTGCATATAAATTGTAACACTCCCAATTTTCGATACAAACTAAGTCAATTGAGAATGATTTATGA
* * **
9683279 CATATATTGTGCCTTGAGGACTTTGATGATAAGTTAAGTATGCCAAGTTTATAGGAGTATGCATA
66 AATATATTGTGCCTTGAGGACTTTGATGATAAGTTAAGAATGCCAAGCGTATAGGAGTATGCATA
*
9683344 TTGACACTTAGGAAAATTTTTATGAAAATGTGTGATAAGTACTATAGCTTAAGGTTTTGATTTGA
131 TTGACACTTACGAAAATTTTTATGAAAATGTGTGATAAGTACTATAGCTTAAGGTTTTGATTTGA
*
9683409 ATTTGATGTTATATTTGATGATATAAGTACAAGAAATATGAGTTATAATAGTTGATTGAGGTATG
196 ATTTGATGTTATATTTGATGATATAAGCACAAGAAATATGAGTTATAATAGTTGATTGAGGTATG
* *
9683474 ATTTAAACAGGGAATGATTTGGGGTGTTAAATTTGGATTTTTGAGGAGTTTTGAAGGTTCAAAAT
261 ATTTAAACAAGGAATGATTTGGGGTGTTAAATTTGGATTTTTGAGGAGTCTTGAAGGTTCAAAAT
** * *
9683539 ACGTCGAGAAGAGAAAATGTATTGATACATTCCCTAATATATTAATACATTCTTGGCAAGAAGAA
326 ACACCGACAAGAGAAAATGTATTGATACATTCCCCAATATATTAATACATTCTTGGCAAGAAGAA
*
9683604 CAAAATGAAGTGTTCTTAGGGTTTTCTATCGATACATTCAAGAATGTATTGATAGATTTGAATTA
391 CAAAATAAAGTGTTCTTAGGGTTTTCTATCGATACATTCAAGAATGTATTGATAGATTTGAATTA
*
9683669 GGATGAACATCTATCGATATATTGTCCAAATGTATTAATAGATTTGAATTAGGAAGAACATCGAT
456 GGATGAACATCTATCGATACATTGTCCAAATGTATTAATAGATTTGAATTAGGAAGAACATCGAT
9683734 TGATACA
521 TGATACA
* **
9683741 TTGCATATACATTGTAACACTCCCAATTTTCGATATGAACTAAGTCAATTGAGAATGATTTATGA
1 TTGCATATAAATTGTAACACTCCCAATTTTCGATACAAACTAAGTCAATTGAGAATGATTTATGA
* *
9683806 AATATATTGTGCCTTGAGGACTTTGATGATAAGTTAAGAATGCTAAGCGTATAGGATTATGCATA
66 AATATATTGTGCCTTGAGGACTTTGATGATAAGTTAAGAATGCCAAGCGTATAGGAGTATGCATA
9683871 TTGACACTTACGAAAATTTTTATGAAAATGTGTGATAAGTACTATAGCTTAAGGTTTTGATTTGA
131 TTGACACTTACGAAAATTTTTATGAAAATGTGTGATAAGTACTATAGCTTAAGGTTTTGATTTGA
9683936 ATTTGATGTTATATTTGATGATATATA-CACAAGAAATATGAGTTATAATAGTTGATTGAGGTAT
196 ATTTGATGTTATATTTGATGATATA-AGCACAAGAAATATGAGTTATAATAGTTGATTGAGGTAT
* *
9684000 GATTTAAATAAGGAATGATTTGGGGTGTTAAATTTGGATTTTTTG-GGAGTCTTGAAGGTTGAAA
260 GATTTAAACAAGGAATGATTTGGGGTGTTAAATTTGGA-TTTTTGAGGAGTCTTGAAGGTTCAAA
* * * * * * *
9684064 ATGCACCTACAAGGGAAAATGTATTGATACATTCCCCAATGTATTGATACATTCTTGGTAGGAAG
324 ATACACCGACAAGAGAAAATGTATTGATACATTCCCCAATATATTAATACATTCTTGGCAAGAAG
*
9684129 AACAAAATAAAGTGTTCTTAGGGTTTTCTATCGATACATTTAAGAATGTATTGATAGATTTGAAT
389 AACAAAATAAAGTGTTCTTAGGGTTTTCTATCGATACATTCAAGAATGTATTGATAGATTTGAAT
* *
9684194 TAGGATTAACATCTATCGATACATTGTCCAAATGTATTAATATATTTGA
454 TAGGATGAACATCTATCGATACATTGTCCAAATGTATTAATAGATTTGA
9684243 TGCAGGGGAC
Statistics
Matches: 467, Mismatches: 33, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
527 460 0.99
528 7 0.01
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (527 bp):
TTGCATATAAATTGTAACACTCCCAATTTTCGATACAAACTAAGTCAATTGAGAATGATTTATGA
AATATATTGTGCCTTGAGGACTTTGATGATAAGTTAAGAATGCCAAGCGTATAGGAGTATGCATA
TTGACACTTACGAAAATTTTTATGAAAATGTGTGATAAGTACTATAGCTTAAGGTTTTGATTTGA
ATTTGATGTTATATTTGATGATATAAGCACAAGAAATATGAGTTATAATAGTTGATTGAGGTATG
ATTTAAACAAGGAATGATTTGGGGTGTTAAATTTGGATTTTTGAGGAGTCTTGAAGGTTCAAAAT
ACACCGACAAGAGAAAATGTATTGATACATTCCCCAATATATTAATACATTCTTGGCAAGAAGAA
CAAAATAAAGTGTTCTTAGGGTTTTCTATCGATACATTCAAGAATGTATTGATAGATTTGAATTA
GGATGAACATCTATCGATACATTGTCCAAATGTATTAATAGATTTGAATTAGGAAGAACATCGAT
TGATACA
Found at i:9693399 original size:17 final size:17
Alignment explanation
Indices: 9693377--9693430 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
9693367 AGCCATGTTG
9693377 AATATTTAAATGAAATA
1 AATATTTAAATGAAATA
*
9693394 AATATTTATGTTATGAAATA
1 AATATTTA---AATGAAATA
* *
9693414 AATATTGAGATGAAATA
1 AATATTTAAATGAAATA
9693431 TTTAAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 16 0.52
20 15 0.48
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (17 bp):
AATATTTAAATGAAATA
Found at i:9702726 original size:23 final size:23
Alignment explanation
Indices: 9702696--9702755 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
9702686 TATACGTATA
* * *
9702696 CCCATCATTATCATGCACATCAT
1 CCCATCATCATCATACACACCAT
9702719 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
9702742 CACATCATCATCAT
1 CCCATCATCATCAT
9702756 CACCAGCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:9702801 original size:43 final size:43
Alignment explanation
Indices: 9702752--9702883 Score: 149
Period size: 43 Copynumber: 3.1 Consensus size: 43
9702742 CACATCATCA
* * * **
9702752 TCATCACCAGCTCATGTGCACTCCCTACTCGCACATAGTTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* * *
9702795 TCATCACTGGGTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* * *
9702838 TCATC-CTCGGCTTATGCGCACTCTCTACTCGCGCATAGCCGAG
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
9702881 TCA
1 TCA
9702884 ACATAATTAC
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.25
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
Found at i:9704671 original size:35 final size:35
Alignment explanation
Indices: 9704627--9704697 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
9704617 TTTCACCAAG
* * *
9704627 CTTTTACAATGGCTTTTACTAGGCTCAACCAAAAC
1 CTTTCACAATGGCTTTTACCAGGATCAACCAAAAC
* *
9704662 CTTTCACAATGGTTTTTACCGGGATCAACCAAAAC
1 CTTTCACAATGGCTTTTACCAGGATCAACCAAAAC
9704697 C
1 C
9704698 CAACAACTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (35 bp):
CTTTCACAATGGCTTTTACCAGGATCAACCAAAAC
Found at i:9706711 original size:20 final size:20
Alignment explanation
Indices: 9706686--9706725 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9706676 GCTTGAACTC
9706686 GAGAATGTATCGAAACATTT
1 GAGAATGTATCGAAACATTT
*
9706706 GAGAATGTATCGATACATTT
1 GAGAATGTATCGAAACATTT
9706726 ACACGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (20 bp):
GAGAATGTATCGAAACATTT
Found at i:9707009 original size:20 final size:20
Alignment explanation
Indices: 9706984--9707023 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9706974 TCATCCTACC
9706984 AAGAATATATCGATACATTT
1 AAGAATATATCGATACATTT
* *
9707004 AAGAATGTATCGATATATTT
1 AAGAATATATCGATACATTT
9707024 TCCCCTGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (20 bp):
AAGAATATATCGATACATTT
Found at i:9710552 original size:71 final size:70
Alignment explanation
Indices: 9710436--9710573 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 70
9710426 CCAGAAGAAG
* *
9710436 GTTTTATGATATTTTAAGATTTAAATAGGTATAAGACCGAATAAATAATGTGTAATGATGAAAAC
1 GTTTTATGATATTTTAAGATCTAAATAGGTATAAGACCGAATAAATAACGTGTAATGATGAAAAC
9710501 ACTAA
66 ACTAA
* * * *
9710506 NGTTTTATGATATTTTAAGGTCTAAATAGGTATAAGACTGCATAAATGACGTGTAATGATGAAAA
1 -GTTTTATGATATTTTAAGATCTAAATAGGTATAAGACCGAATAAATAACGTGTAATGATGAAAA
9710571 CAC
65 CAC
9710574 GAAGAAAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.33
Consensus pattern (70 bp):
GTTTTATGATATTTTAAGATCTAAATAGGTATAAGACCGAATAAATAACGTGTAATGATGAAAAC
ACTAA
Found at i:9711715 original size:43 final size:43
Alignment explanation
Indices: 9711644--9711745 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
9711634 GCTTTGAGCA
* * ****
9711644 AGTAGGGAGTGCACATAAGCCGAGGATGACCCGGTTATGTGCG
1 AGTAGGGAGTGCGCATAACCCGAGGATGACCCAACCATGTGCG
*
9711687 AGTAGGGAGTGCGCATAACCCGATGATGACCCAACCATGTGCG
1 AGTAGGGAGTGCGCATAACCCGAGGATGACCCAACCATGTGCG
9711730 AGTAGGGAGTGCGCAT
1 AGTAGGGAGTGCGCAT
9711746 GAGCTGGTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.18
Consensus pattern (43 bp):
AGTAGGGAGTGCGCATAACCCGAGGATGACCCAACCATGTGCG
Found at i:9711785 original size:23 final size:23
Alignment explanation
Indices: 9711755--9711814 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
9711745 TGAGCTGGTG
* * *
9711755 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
9711778 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
9711801 ATGATAATGATGGG
1 ATGATGATGATGGG
9711815 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:9719586 original size:43 final size:43
Alignment explanation
Indices: 9719504--9719616 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
9719494 ATATTGACTC
* *
9719504 AGCTATGCGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCT
1 AGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCT
* * *
9719547 GGTTATGTGCGAGTAGGGAGTGCGTATAACCCG-GTGATGACCT
1 AGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAG-GATGACCT
* *
9719590 AGCCATGTGAGAGTAGGGAGTGCGCAT
1 AGCTATGTGCGAGTAGGGAGTGCGCAT
9719617 GAGCTGCTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (43 bp):
AGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCT
Found at i:9719659 original size:23 final size:23
Alignment explanation
Indices: 9719626--9719684 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
9719616 TGAGCTGCTG
* * * *
9719626 ATGATGGTGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
9719649 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
9719672 ATGATAATGATGG
1 ATGATGATGATGG
9719685 ATATACATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.39, T:0.34
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:9721424 original size:45 final size:45
Alignment explanation
Indices: 9721355--9721542 Score: 178
Period size: 54 Copynumber: 3.8 Consensus size: 45
9721345 GTGTATCTCA
*
9721355 CCCAGCTCATGTGCATCCCACCACATCATGCACATTGCCGAACAT
1 CCCAGCTCATGTGCATCCCACCACATCGTGCACATTGCCGAACAT
* *
9721400 CCCAACTCATGTGCATCCCACCACATCGTGCACATTGTCGGACATCCCATCT
1 CCCAGCTCATGTGCATCCCACCACATCGTGCACATTG-CCGA-A---CA--T
*
9721452 CACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCT
1 C-CC-AGCTCATGTGCATCCCACCACATCGTGCACATTGCC-GA-A---CA--T
9721506 CACCCAGCTCATGTGCATCCCACCACATCGTGCACAT
1 --CCCAGCTCATGTGCATCCCACCACATCGTGCACAT
9721543 AACTGGACAG
Statistics
Matches: 125, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
45 35 0.28
46 3 0.02
47 1 0.01
50 2 0.02
52 2 0.02
53 3 0.02
54 76 0.61
55 2 0.02
56 1 0.01
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.21
Consensus pattern (45 bp):
CCCAGCTCATGTGCATCCCACCACATCGTGCACATTGCCGAACAT
Found at i:9721446 original size:29 final size:29
Alignment explanation
Indices: 9721413--9721502 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
9721403 AACTCATGTG
9721413 CATCCCACCACATCGTGCACATTGTCGGA
1 CATCCCACCACATCGTGCACATTGTCGGA
* * * *
9721442 CATCCCATCTCA-CCTAGCTCA-TGT--G-
1 CATCCCACCACATCGT-GCACATTGTCGGA
* *
9721467 CATCCCACCACATCGTGCACATAGCCGGA
1 CATCCCACCACATCGTGCACATTGTCGGA
9721496 CATCCCA
1 CATCCCA
9721503 TCTCACCCAG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
25 14 0.31
26 4 0.09
28 6 0.13
29 21 0.47
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.20
Consensus pattern (29 bp):
CATCCCACCACATCGTGCACATTGTCGGA
Found at i:9721469 original size:54 final size:54
Alignment explanation
Indices: 9721400--9721543 Score: 252
Period size: 54 Copynumber: 2.7 Consensus size: 54
9721390 TGCCGAACAT
* * *
9721400 CCCAACTCATGTGCATCCCACCACATCGTGCACATTGTCGGACATCCCATCTCA
1 CCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCA
*
9721454 CCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCA
1 CCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCA
9721508 CCCAGCTCATGTGCATCCCACCACATCGTGCACATA
1 CCCAGCTCATGTGCATCCCACCACATCGTGCACATA
9721544 ACTGGACAGT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.21
Consensus pattern (54 bp):
CCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCA
Found at i:9721470 original size:25 final size:25
Alignment explanation
Indices: 9721442--9721527 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
9721432 CATTGTCGGA
9721442 CATCCCATCTCACCTAGCTCATGTG
1 CATCCCATCTCACCTAGCTCATGTG
* * * * *
9721467 CATCCCACCACATCGT-GCACATAGCCGG
1 CATCCCATCTCA-CCTAGCTCAT-G--TG
*
9721495 ACATCCCATCTCACCCAGCTCATGTG
1 -CATCCCATCTCACCTAGCTCATGTG
9721521 CATCCCA
1 CATCCCA
9721528 CCACATCGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
25 22 0.50
26 4 0.09
28 3 0.07
29 15 0.34
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (25 bp):
CATCCCATCTCACCTAGCTCATGTG
Found at i:9725884 original size:43 final size:43
Alignment explanation
Indices: 9725803--9725936 Score: 200
Period size: 43 Copynumber: 3.1 Consensus size: 43
9725793 TTGTGTGATA
*
9725803 ATGATGACCCAGCTATGTG-ATTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAATGTGGGAGTGCACATGAGCTG
*
9725845 ATGATGACCTAGCTATGTGCAATGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAATGTGGGAGTGCACATGAGCTG
* * *
9725888 ATGATGACCCAACTATGTGCGA-GTAGGGAGTGCACATGTGCTG
1 ATGATGACCCAGCTATGTGCAATGT-GGGAGTGCACATGAGCTG
9725931 ATGATG
1 ATGATG
9725937 GTGCGATGGT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
42 20 0.24
43 64 0.76
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCAATGTGGGAGTGCACATGAGCTG
Found at i:9736881 original size:25 final size:25
Alignment explanation
Indices: 9736853--9736939 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
9736843 CCATTTATTT
* *
9736853 TTATTTCCTACTGGGCCATGCCCAC
1 TTATTTTCTATTGGGCCATGCCCAC
9736878 TTATTTTCTATTGGGCCATGCCCAC
1 TTATTTTCTATTGGGCCATGCCCAC
* *
9736903 TTATTTTCTATTAGGCCATGCCCAT
1 TTATTTTCTATTGGGCCATGCCCAC
9736928 TTATTTTCTATT
1 TTATTTTCTATT
9736940 TCTTTTCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.17, C:0.26, G:0.13, T:0.44
Consensus pattern (25 bp):
TTATTTTCTATTGGGCCATGCCCAC
Found at i:9737160 original size:24 final size:25
Alignment explanation
Indices: 9737133--9737179 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
9737123 ATTTTTAGCA
9737133 ACAAAACT-TCTCAATTTT-TGCAGC
1 ACAAAACTGTC-CAATTTTCTGCAGC
*
9737157 ACAAAGCTGTCCAATTTTCTGCA
1 ACAAAACTGTCCAATTTTCTGCA
9737180 CAAACTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (25 bp):
ACAAAACTGTCCAATTTTCTGCAGC
Found at i:9737213 original size:34 final size:34
Alignment explanation
Indices: 9737166--9737242 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
9737156 CACAAAGCTG
9737166 TCCAA-TTTTCTGCACAAACTACCAGCAAACAGC
1 TCCAATTTTTCTGCACAAACTACCAGCAAACAGC
* ***
9737199 TCCAATTTTTCTGCACAAATTGGTAGCAAACAGC
1 TCCAATTTTTCTGCACAAACTACCAGCAAACAGC
9737233 TCCAATTTTT
1 TCCAATTTTT
9737243 AGCAGCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 5 0.13
34 34 0.87
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.30
Consensus pattern (34 bp):
TCCAATTTTTCTGCACAAACTACCAGCAAACAGC
Found at i:9737447 original size:25 final size:23
Alignment explanation
Indices: 9737388--9737447 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
9737378 TTATCCTAAA
9737388 AAAAATTTCAGCTTTCTTACCTC
1 AAAAATTTCAGCTTTCTTACCTC
*
9737411 AAAATTTTCAGCTTTTTCTT-CCTC
1 AAAAATTTCAGC--TTTCTTACCTC
*
9737435 TAAAAATTGCAGC
1 -AAAAATTTCAGC
9737448 AAAAAGCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 11 0.35
24 4 0.13
25 16 0.52
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (23 bp):
AAAAATTTCAGCTTTCTTACCTC
Found at i:9747277 original size:74 final size:74
Alignment explanation
Indices: 9747178--9747369 Score: 242
Period size: 74 Copynumber: 2.6 Consensus size: 74
9747168 TGTAAGATAG
* * * * * * *
9747178 AGAAGACTTAGTCGACCAAAAAGCATGGTTAGTTAACTAAGCA-CTCACTGCTAGAGACTTCAAT
1 AGAAAACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAG-AGCTCACTGCCAGAGAATTCAAT
9747242 TACAAGACAA
65 TACAAGACAA
* * * *
9747252 AGAGAACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCTCTCTGCCATAGAATTCAATT
1 AGAAAACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAGAGAATTCAATT
* *
9747317 ACAAGATAG
66 ACAAGACAA
*
9747326 AGAAAACTTAATCGACTAAGAAGTATGGTTAGTCAACTAAGAGC
1 AGAAAACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGC
9747370 ACTCTATCTA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
73 1 0.01
74 100 0.99
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (74 bp):
AGAAAACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAGAGAATTCAATT
ACAAGACAA
Found at i:9750421 original size:28 final size:29
Alignment explanation
Indices: 9750388--9750453 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
9750378 TCTCTCCCCA
9750388 TCTTTTTTCTATTGGGCCATGCCCA-T-TT
1 TCTTTTTT-TATTGGGCCATGCCCACTCTT
* *
9750416 TCTTTTCTTGTTGGGCCATGCCCACTCTT
1 TCTTTTTTTATTGGGCCATGCCCACTCTT
9750445 TCTTTTTTT
1 TCTTTTTTT
9750454 TCTTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.45
28 8 0.24
29 10 0.30
ACGTcount: A:0.08, C:0.26, G:0.14, T:0.53
Consensus pattern (29 bp):
TCTTTTTTTATTGGGCCATGCCCACTCTT
Found at i:9750465 original size:10 final size:9
Alignment explanation
Indices: 9750443--9750481 Score: 60
Period size: 10 Copynumber: 4.1 Consensus size: 9
9750433 ATGCCCACTC
9750443 TTTCTTTTT
1 TTTCTTTTT
9750452 TTTCTTTTT
1 TTTCTTTTT
9750461 ATTTCTTTTCT
1 -TTTCTTTT-T
9750472 TTTCTTTTT
1 TTTCTTTTT
9750481 T
1 T
9750482 CTTTCTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 11 0.39
10 16 0.57
11 1 0.04
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:9750476 original size:20 final size:21
Alignment explanation
Indices: 9750443--9750493 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
9750433 ATGCCCACTC
9750443 TTTCTTTT-TTTTC-TTTTTA
1 TTTCTTTTCTTTTCTTTTTTA
*
9750462 TTTCTTTTCTTTTCTTTTTTC
1 TTTCTTTTCTTTTCTTTTTTA
9750483 TTTC-TTTCTTT
1 TTTCTTTTCTTT
9750494 CCCATCCAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.28
20 12 0.41
21 9 0.31
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTTTTCTTTTCTTTTTTA
Found at i:9750483 original size:12 final size:11
Alignment explanation
Indices: 9750441--9750494 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 11
9750431 CCATGCCCAC
9750441 TCTTTC-TTTT
1 TCTTTCTTTTT
9750451 T-TTTC-TTTT
1 TCTTTCTTTTT
* *
9750460 TATTTCTTTTC
1 TCTTTCTTTTT
9750471 T-TTTCTTTTT
1 TCTTTCTTTTT
9750481 TCTTTCTTTCTT
1 TCTTTCTTT-TT
9750493 TC
1 TC
9750495 CCATCCAGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 9 0.24
10 14 0.37
11 11 0.29
12 4 0.11
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTCTTTTT
Found at i:9750490 original size:15 final size:15
Alignment explanation
Indices: 9750441--9750493 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
9750431 CCATGCCCAC
9750441 TCTTTC-TTTTT-TT
1 TCTTTCTTTTTTCTT
*
9750454 TCTTT-TTATTTCTTT
1 TCTTTCTTTTTTC-TT
9750469 TCTTTTCTTTTTTCTT
1 TC-TTTCTTTTTTCTT
9750485 TCTTTCTTT
1 TCTTTCTTT
9750494 CCCATCCAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 9 0.27
15 11 0.33
16 7 0.21
17 6 0.18
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (15 bp):
TCTTTCTTTTTTCTT
Found at i:9750685 original size:34 final size:34
Alignment explanation
Indices: 9750647--9750726 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
9750637 TATTGACTTC
* *
9750647 AAAATCAGCAGC-TAAGCTGC-TCTATT-TCTCCTTA
1 AAAATCAGCAGCTTAA-CAGCAT-TATTCTC-CCTCA
9750681 AAAATCAGCAGCTTAACAGCATTATTCTCCCTCA
1 AAAATCAGCAGCTTAACAGCATTATTCTCCCTCA
9750715 AAAATCAGCAGC
1 AAAATCAGCAGC
9750727 CAAAGCCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 35 0.85
35 6 0.15
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (34 bp):
AAAATCAGCAGCTTAACAGCATTATTCTCCCTCA
Found at i:9750789 original size:35 final size:34
Alignment explanation
Indices: 9750737--9750847 Score: 107
Period size: 35 Copynumber: 3.2 Consensus size: 34
9750727 CAAAGCCACA
* *
9750737 AAAATTAACAACCAAACCGTACCTTTCAACCTTC
1 AAAATCAACAACAAAACCGTACCTTTCAACCTTC
* *
9750771 AAAATCAACAACTAAAACCATA-CTGTTCAGCCTTC
1 AAAATCAACAAC-AAAACCGTACCT-TTCAACCTTC
* ** * *
9750806 AAAATCAACAGCAAAAATTGCACTTTTCAACCTTC
1 AAAATCAACAAC-AAAACCGTACCTTTCAACCTTC
9750841 AAAATCA
1 AAAATCA
9750848 GTAGCAAAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
34 13 0.21
35 48 0.77
36 1 0.02
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (34 bp):
AAAATCAACAACAAAACCGTACCTTTCAACCTTC
Found at i:9751098 original size:2 final size:2
Alignment explanation
Indices: 9751091--9751125 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9751081 CTTATTCAAT
9751091 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9751126 TATTCTCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9753051 original size:13 final size:13
Alignment explanation
Indices: 9753033--9753057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9753023 TTCCAAAAAA
9753033 TTTATAAAATCAT
1 TTTATAAAATCAT
9753046 TTTATAAAATCA
1 TTTATAAAATCA
9753058 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9754304 original size:19 final size:19
Alignment explanation
Indices: 9754280--9754317 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9754270 ACTTTTAAAC
9754280 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
9754299 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
9754318 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:9755423 original size:31 final size:31
Alignment explanation
Indices: 9755395--9755514 Score: 123
Period size: 31 Copynumber: 3.9 Consensus size: 31
9755385 TTAGGTTGGT
* *
9755395 AATGTACATCTCCATTGCACCTTGGGTTGGC
1 AATGTACATCCCCATTGCACCTTGGGCTGGC
*** *
9755426 AATGTACATTTGCATTACACCTTGGGCTGGC
1 AATGTACATCCCCATTGCACCTTGGGCTGGC
* * * *
9755457 AACGTATAACCCCATTGCATCTTGGGCTGGC
1 AATGTACATCCCCATTGCACCTTGGGCTGGC
* * *
9755488 AATGTATATCCCCATTGAACCTGGGGC
1 AATGTACATCCCCATTGCACCTTGGGC
9755515 ATTTTATGAT
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (31 bp):
AATGTACATCCCCATTGCACCTTGGGCTGGC
Found at i:9755804 original size:68 final size:68
Alignment explanation
Indices: 9755636--9755961 Score: 292
Period size: 68 Copynumber: 4.8 Consensus size: 68
9755626 CACATACATG
* * * * * *
9755636 CTTACTCATCTCATAAGGTATATGAAATTTATATCATATACTTAATCTCATGGCATT---T-ATG
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACAT-ATCTTATGGCATTACATCATG
*
9755697 -GTA
65 CATA
* * * * * *
9755700 GCTCAATGATCTCATGTAGCATATGGAATATACATCATATACATATTCTTATGGCATTA-ATCAT
1 -CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATA-TCTTATGGCATTACATCAT
9755764 GCATA
64 GCATA
* * * * *
9755769 CTTAATCACCTCATATGGTATATGAAATTTACATCATATACACCATCCTAT--AATATACATCAT
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACA-TATCTTATGGCAT-TACATCAT
*
9755832 GCACA
64 GCATA
* * * * *
9755837 CTTGATCATCTCATATGGTATATGGAATTTACATCATATACACCATCCTATAGTA-TACATCATG
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACA-TATCTTATGGCATTACATCATG
9755901 CATA
65 CATA
* *
9755905 CTTGATCATCTCATATGGTATATGGAATTTACATCATATACATAATTTTATGGCATT
1 CTTAATCATCTCATATGGTATATGGAATTTACATCATATACAT-ATCTTATGGCATT
9755962 CAGCATACCA
Statistics
Matches: 214, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
64 1 0.00
65 43 0.20
66 2 0.01
67 3 0.01
68 160 0.75
69 4 0.02
70 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (68 bp):
CTTAATCATCTCATATGGTATATGGAATTTACATCATATACATATCTTATGGCATTACATCATGC
ATA
Found at i:9757229 original size:16 final size:16
Alignment explanation
Indices: 9757205--9757235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9757195 TAAAAATATA
9757205 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
9757221 AAAAGAATCAAAATC
1 AAAAAAATCAAAATC
9757236 TAAATTTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:9762363 original size:42 final size:42
Alignment explanation
Indices: 9762187--9762416 Score: 151
Period size: 42 Copynumber: 5.3 Consensus size: 42
9762177 CTTTGATACA
* * * * *
9762187 AAAATATTATAAAATTATAAAAAAGTATTTTTGTATTTAGTG
1 AAAATATTATTAAATTATAATAAAGGATTTTTTTATTTTGTG
* ** * * *
9762229 AAAATATTGTTTCATTACAATAAAGGGTATTTCTATATTTTGATG
1 AAAATATTATTAAATTATAATAAA-GG-ATTTTTTTATTTTG-TG
* * ** ***
9762274 -AAATATTATTAAAGTT-TAAATAAA-TATTTTTTTCTAAATCCA
1 AAAATATTATTAAA-TTAT-AATAAAGGATTTTTTTAT-TTTGTG
9762316 AAAATATTATTAAATTATAATAAAGGATTTTTTTATTTTGTG
1 AAAATATTATTAAATTATAATAAAGGATTTTTTTATTTTGTG
* * * * *
9762358 TAAATATTATTTAATTACAATAAAGGGTTTTTTCATCATTTGATG
1 AAAATATTATTAAATTATAATAAAGGATTTTTTTAT--TTTG-TG
9762403 AAAATATTATTAAA
1 AAAATATTATTAAA
9762417 GCTTTAATAA
Statistics
Matches: 139, Mismatches: 37, Indels: 21
0.71 0.19 0.11
Matches are distributed among these distances:
42 65 0.47
43 25 0.18
44 25 0.18
45 24 0.17
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (42 bp):
AAAATATTATTAAATTATAATAAAGGATTTTTTTATTTTGTG
Found at i:9762500 original size:127 final size:124
Alignment explanation
Indices: 9762329--9762681 Score: 290
Period size: 127 Copynumber: 2.8 Consensus size: 124
9762319 ATATTATTAA
* * ***
9762329 ATTATAATAAAGGATTTTTTTATTTTGTGTAAATATTATTTAATTACAATAAAGGGT-TTTTTCA
1 ATTATAATAAAGGATTTTTCTATTTTGTGTAAAAATTATTTAATTACAATAAACAATATTTTT-A
* * *
9762393 TCATTTGATGAAAATATTATTAAAGCTTTAATAAAAGGTATTTTTGTCTTTGTTACAAAAT
65 TCATTTGATGAAAATATTATTAAAGCTTAAAT-AAAGGAAGTTTTGTCTTTGTTACAAAAT
*
9762454 ATTATGATAAAGGGTATTTTTCTATTTTG-GTAAACAAATT-TTTAATTACAATAAACAATATTT
1 ATTATAATAAA-GG-ATTTTTCTATTTTGTGT-AA-AAATTATTTAATTACAATAAACAATATTT
* * * *
9762517 TTGTCTTTTGATGAACATATTATTAAATCTTAAATAAAGGAAGTTTTGTCTTT-TCT-CAAAAAT
62 TTATCATTTGATGAAAATATTATTAAAGCTTAAATAAAGGAAGTTTTGTCTTTGT-TAC-AAAAT
* ** **** * *
9762580 ATTATTTGATCATAATAAAAGGTAT-TTTTGTG-AAAATATTAATTAATTACAATAAA-AGATAT
1 ATTA--TAAT-A-AAGGATTTTTCTATTTTGTGTAAAA-ATTATTTAATTACAATAAACA-ATAT
* * * *
9762642 TTTTATCCTTTGACGAAAATATTGTTAAAACTTAAATAAA
60 TTTTATCATTTGATGAAAATATTATTAAAGCTTAAATAAA
9762682 AGATATTTTT
Statistics
Matches: 186, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
125 14 0.08
126 36 0.19
127 116 0.62
128 17 0.09
129 1 0.01
130 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.44
Consensus pattern (124 bp):
ATTATAATAAAGGATTTTTCTATTTTGTGTAAAAATTATTTAATTACAATAAACAATATTTTTAT
CATTTGATGAAAATATTATTAAAGCTTAAATAAAGGAAGTTTTGTCTTTGTTACAAAAT
Found at i:9762634 original size:37 final size:37
Alignment explanation
Indices: 9762575--9762645 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
9762565 TCTTTTCTCA
* * * *
9762575 AAAATATTATTTGATCATAATAAAAGGTATTTTTGTG
1 AAAATATTAATTAATCACAATAAAAGATATTTTTGTG
*
9762612 AAAATATTAATTAATTACAATAAAAGATATTTTT
1 AAAATATTAATTAATCACAATAAAAGATATTTTT
9762646 ATCCTTTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.42
Consensus pattern (37 bp):
AAAATATTAATTAATCACAATAAAAGATATTTTTGTG
Found at i:9762744 original size:127 final size:125
Alignment explanation
Indices: 9762495--9762775 Score: 295
Period size: 127 Copynumber: 2.2 Consensus size: 125
9762485 AAACAAATTT
* * * * * *
9762495 TTAATTACAATAAACA-ATATTTTTGTCTTTTGATGAACATATTATTAAATCTTAAATAAAGGAA
1 TTAATTACAATAAA-AGATATTTTTATCCTTTGACGAAAATATTATTAAAACTTAAATAAAAGAA
**
9762559 GTTTTGTCTTTTCTCAAAAATATTATTTGATCATAATAAAAGGTATTTTTGTGAAAATATTAA
65 GTTTTGTCTTTTCTCAAAAATATTATTAAATCATAATAAAAGGTATTTTTGT-AAAATA-TAA
*
9762622 TTAATTACAATAAAAGATATTTTTATCCTTTGACGAAAATATTGTTAAAACTTAAATAAAAGATA
1 TTAATTACAATAAAAGATATTTTTATCCTTTGACGAAAATATTATTAAAACTTAAATAAAAGA-A
* * * *
9762687 TTTTTGT-TTTTTTGACAAAAAAATATTATTAAATGATAAT-AGAGG-ATATTTT-T-AAATATA
65 GTTTTGTCTTTTCT--C--AAAAATATTATTAAATCATAATAAAAGGTAT-TTTTGTAAAATATA
9762747 A
125 A
* *
9762748 TTGAATTATAATAAAAGATATTCTTATC
1 TT-AATTACAATAAAAGATATTTTTATC
9762776 ATTTTATAAG
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
126 6 0.05
127 87 0.66
128 7 0.05
129 4 0.03
130 8 0.06
131 19 0.15
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (125 bp):
TTAATTACAATAAAAGATATTTTTATCCTTTGACGAAAATATTATTAAAACTTAAATAAAAGAAG
TTTTGTCTTTTCTCAAAAATATTATTAAATCATAATAAAAGGTATTTTTGTAAAATATAA
Found at i:9762759 original size:33 final size:33
Alignment explanation
Indices: 9762707--9762769 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
9762697 TTTGACAAAA
* * *
9762707 AAATATTATTAAATGATAATAGAGGATATTTTT
1 AAATATAATTAAATGATAATAAAAGATATTTTT
* *
9762740 AAATATAATTGAATTATAATAAAAGATATT
1 AAATATAATTAAATGATAATAAAAGATATT
9762770 CTTATCATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.40
Consensus pattern (33 bp):
AAATATAATTAAATGATAATAAAAGATATTTTT
Found at i:9770114 original size:2 final size:2
Alignment explanation
Indices: 9770107--9770133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9770097 TGGATCTAAT
9770107 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
9770134 GAAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9774194 original size:82 final size:82
Alignment explanation
Indices: 9774094--9774259 Score: 280
Period size: 82 Copynumber: 2.0 Consensus size: 82
9774084 GATTGGATTT
* * *
9774094 AAAAATAGTGATGTACATGCAAACTAATTATGTATTTCACTTGTTATTGTAG-CTTTTGTATTAG
1 AAAAATAGTGATGTACATGCAAACTAATTATGTAATTCAATTGTTATTATAGAC-TTTGTATTAG
*
9774158 TGTCATTAGAATGCTAAG
65 TGTCATTACAATGCTAAG
9774176 AAAAATAGTGATGTACATGCAAACTAATTATGTAATTCAATTGTTATTATAGACTTTGTATTAGT
1 AAAAATAGTGATGTACATGCAAACTAATTATGTAATTCAATTGTTATTATAGACTTTGTATTAGT
9774241 GTCATTACAATGCTAAG
66 GTCATTACAATGCTAAG
9774258 AA
1 AA
9774260 GAATTCCAGG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 78 0.99
83 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (82 bp):
AAAAATAGTGATGTACATGCAAACTAATTATGTAATTCAATTGTTATTATAGACTTTGTATTAGT
GTCATTACAATGCTAAG
Found at i:9783103 original size:2 final size:2
Alignment explanation
Indices: 9783096--9783147 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
9783086 TATGACATAG
9783096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9783138 TA TA TA TA TA
1 TA TA TA TA TA
9783148 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9784604 original size:43 final size:43
Alignment explanation
Indices: 9784512--9784615 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
9784502 CGACTCTGTG
* ***** *
9784512 CGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGGTTGTGTG
1 CGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAACCATGTA
*
9784555 CTAGTAGGGAGTGCGCATAACCCG-GTGATGACCCAACCATGTA
1 CGAGTAGGGAGTGCGCATAACCCGAG-GATGACCCAACCATGTA
9784598 CGAGTAGGGAGTGCGCAT
1 CGAGTAGGGAGTGCGCAT
9784616 GAGCTGGTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.24, C:0.21, G:0.37, T:0.18
Consensus pattern (43 bp):
CGAGTAGGGAGTGCGCATAACCCGAGGATGACCCAACCATGTA
Found at i:9787568 original size:72 final size:72
Alignment explanation
Indices: 9787425--9787560 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
9787415 TTCAGGAATG
* * * * * *
9787425 CTAATTTCCAAAGAGCAAGTCTGAAAGTATCAAGACTCAAGCTTTAACGTATCGAGACTTCACCA
1 CTAATTTCCAAAAAGAAAGTCTGAAAGTATCAAGACCCAAGCTTCAACGTAACAAGACTTCACCA
9787490 CCAGGCT
66 CCAGGCT
* *
9787497 CTAATTTCCAAAAAGAAAGT-TCGAAAGTATCGAGACCCAAGCTTCAATGTAACAAGACTTCACC
1 CTAATTTCCAAAAAGAAAGTCT-GAAAGTATCAAGACCCAAGCTTCAACGTAACAAGACTTCACC
9787561 TCTAGGCTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (72 bp):
CTAATTTCCAAAAAGAAAGTCTGAAAGTATCAAGACCCAAGCTTCAACGTAACAAGACTTCACCA
CCAGGCT
Found at i:9799824 original size:22 final size:22
Alignment explanation
Indices: 9799796--9799838 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9799786 TTACATTGGT
*
9799796 ATCAGAGCTTTTGGTTTTAAAC
1 ATCAGAGCTTTTGGGTTTAAAC
9799818 ATCAGAGCTTTTGGGTTTAAA
1 ATCAGAGCTTTTGGGTTTAAA
9799839 GTTGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (22 bp):
ATCAGAGCTTTTGGGTTTAAAC
Found at i:9812826 original size:26 final size:26
Alignment explanation
Indices: 9812797--9812855 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9812787 ATTTTCTAGT
* *
9812797 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
9812823 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
9812849 TTTCCTT
1 TTTCCTT
9812856 ATGGCCAGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:9814898 original size:45 final size:45
Alignment explanation
Indices: 9814749--9814982 Score: 172
Period size: 45 Copynumber: 5.3 Consensus size: 45
9814739 TCCCCCTATA
* * * * *
9814749 ATTATGTTAATGATACCACCCCTTGGGAGATTACTTCGGATGATG
1 ATTACGTTGATGATACCATCCATTGGGAGATTACTCCGGATGATG
** * * * * *
9814794 ATTATATTG-TGATGCCACCCACT--GAGACTACTCCGGGTG-TG
1 ATTACGTTGATGATACCATCCATTGGGAGATTACTCCGGATGATG
** * * * * * *
9814835 AGCATGTCT-ACGATACCATCTATTGGAATATTACTCCGGATAATG
1 ATTACGT-TGATGATACCATCCATTGGGAGATTACTCCGGATGATG
* * * *
9814880 ATTATGTTGATGATACCATCCATTGGGAGATTACTCTGAATGTTG
1 ATTACGTTGATGATACCATCCATTGGGAGATTACTCCGGATGATG
* * *
9814925 ATTACGTTGATGACACCATCCATTGGGAGATTACACCAGATGATG
1 ATTACGTTGATGATACCATCCATTGGGAGATTACTCCGGATGATG
*
9814970 ATTACATTGATGA
1 ATTACGTTGATGA
9814983 CTTCATTCGT
Statistics
Matches: 144, Mismatches: 39, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
41 6 0.04
42 23 0.16
44 23 0.16
45 92 0.64
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (45 bp):
ATTACGTTGATGATACCATCCATTGGGAGATTACTCCGGATGATG
Found at i:9822540 original size:38 final size:40
Alignment explanation
Indices: 9822492--9822597 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 40
9822482 AAAGTGACCG
* * *
9822492 TGTGCACGATGTGGGGGGATGTACATGATGGC-ACTAAT-
1 TGTGCACGATGTGGGGGGATGCACATGATGACTACGAATA
* * * * * *
9822530 TGTGAACGATGTGGGGGCATGGACACGATGACTCCGACTA
1 TGTGCACGATGTGGGGGGATGCACATGATGACTACGAATA
9822570 TGTGCACGATGTGGGGGGATGCACATGA
1 TGTGCACGATGTGGGGGGATGCACATGA
9822598 ACTGGATGAG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 27 0.50
39 3 0.06
40 24 0.44
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACATGATGACTACGAATA
Found at i:9824719 original size:68 final size:68
Alignment explanation
Indices: 9824647--9824813 Score: 192
Period size: 68 Copynumber: 2.5 Consensus size: 68
9824637 GCATCTACTG
* * * *
9824647 TAGTATGTGGCATATACATCATATACGTAATC-TCATGGCATTTATCATGCATACTAAATAACCT
1 TAGTATGTGGAATTTACATCATATACATAATCGT-ATAGCATTTATCATGCATACTAAATAACCT
9824711 CATA
65 CATA
* * * * * * * *
9824715 TAGTATATGAAATTTACTTCATATACACAATCGTATAGTATTTATCATGCATACTTAATCATCTC
1 TAGTATGTGGAATTTACATCATATACATAATCGTATAGCATTTATCATGCATACTAAATAACCTC
9824780 ATA
66 ATA
* *
9824783 TGGTATGTGGAATTTATATCATATACATAAT
1 TAGTATGTGGAATTTACATCATATACATAAT
9824814 TTTATGACAT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
68 79 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (68 bp):
TAGTATGTGGAATTTACATCATATACATAATCGTATAGCATTTATCATGCATACTAAATAACCTC
ATA
Found at i:9829044 original size:44 final size:44
Alignment explanation
Indices: 9828986--9829144 Score: 282
Period size: 44 Copynumber: 3.6 Consensus size: 44
9828976 GATTGATGCC
* * *
9828986 ATGTGTGGTCTGGGAAAGCACATGATGCTGATGATGATATTGTA
1 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTGTA
9829030 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTGTA
1 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTGTA
9829074 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTGTA
1 ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTGTA
*
9829118 ATGTGCGGTGTGGGAGTGCACATGATG
1 ATGTGCGGTGTGGGAGAGCACATGATG
9829145 ACCTAGCTAT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 111 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (44 bp):
ATGTGCGGTGTGGGAGAGCACATGATGCTGATGATGATATTGTA
Found at i:9829566 original size:73 final size:74
Alignment explanation
Indices: 9829388--9829569 Score: 194
Period size: 74 Copynumber: 2.5 Consensus size: 74
9829378 TTCACTGTAG
* *
9829388 CGAAATT-TATTCTCGCTGCAGCGAGAAACTCTCGAGTGCTTAGGGCTCAACACAGCCTTAGTTT
1 CGAAATTACATTCTCGCTGCAGCGAGAAACTCTCGAGTGCTTAGGGCTCAAAACAGCCTTAGTTT
*
9829452 TCGCTGCAG
66 TCGCTGCAA
* * * * * * *
9829461 CGAAATTGCATTCTCGCTACAGTGAGAAACTCTCGGGTGGTT-GGGGT-AAAATGTCAGCC-TGG
1 CGAAATTACATTCTCGCTGCAGCGAGAAACTCTCGAGTGCTTAGGGCTCAAAA---CAGCCTTAG
*
9829523 TTTTTGCTGCAA
63 TTTTCGCTGCAA
*
9829535 C-AAATTACATTCTCGTTGCAGCGAGAAACTCTCGA
1 CGAAATTACATTCTCGCTGCAGCGAGAAACTCTCGA
9829570 TTGGTGGTTC
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
72 3 0.03
73 40 0.44
74 42 0.47
75 5 0.06
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (74 bp):
CGAAATTACATTCTCGCTGCAGCGAGAAACTCTCGAGTGCTTAGGGCTCAAAACAGCCTTAGTTT
TCGCTGCAA
Found at i:9831186 original size:63 final size:65
Alignment explanation
Indices: 9831085--9831217 Score: 216
Period size: 63 Copynumber: 2.1 Consensus size: 65
9831075 AACTTAAGAA
** * *
9831085 AAAAATAAAACATACCTCCACCAATGGATCATCGTGGTTATATTTTAACACATAGAATGGCATAT
1 AAAAATAAAACATACCTCCACCAATAAATCACCATGGTTATATTTTAACACATAGAATGGCATAT
9831150 AAAAA-AAAA-ATACCTCCACCAATAAATCACCATGGTTATATTTTAACACATAGAATGGCATAT
1 AAAAATAAAACATACCTCCACCAATAAATCACCATGGTTATATTTTAACACATAGAATGGCATAT
9831213 AAAAA
1 AAAAA
9831218 CATAACATCA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 55 0.86
64 4 0.06
65 5 0.08
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.26
Consensus pattern (65 bp):
AAAAATAAAACATACCTCCACCAATAAATCACCATGGTTATATTTTAACACATAGAATGGCATAT
Found at i:9842001 original size:17 final size:17
Alignment explanation
Indices: 9841979--9842019 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
9841969 ATGTGTGTTT
9841979 TTGCTTGTGCAATTGGA
1 TTGCTTGTGCAATTGGA
*
9841996 TTGCTTGTGTAATTGGA
1 TTGCTTGTGCAATTGGA
9842013 TTGCTTG
1 TTGCTTG
9842020 CTTCCTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.29, T:0.46
Consensus pattern (17 bp):
TTGCTTGTGCAATTGGA
Found at i:9844343 original size:36 final size:35
Alignment explanation
Indices: 9844294--9844408 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 35
9844284 TGTGAGTGCA
9844294 CACACTGATGATATATGCCATGTGCGATGTGGGAGTG
1 CACA-TGATGATAT-TGCCATGTGCGATGTGGGAGTG
* * *
9844331 CACATGATGATATTGCCTTGTACGGTGTGGGAGTG
1 CACATGATGATATTGCCATGTGCGATGTGGGAGTG
* * * *
9844366 TACAGGATGAT-TCTAGCTATGTGCGATGTGGAAGTG
1 CACATGATGATAT-T-GCCATGTGCGATGTGGGAGTG
9844402 CACATGA
1 CACATGA
9844409 GCTGGTGAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
34 1 0.02
35 29 0.45
36 30 0.47
37 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (35 bp):
CACATGATGATATTGCCATGTGCGATGTGGGAGTG
Found at i:9844800 original size:74 final size:74
Alignment explanation
Indices: 9844652--9844802 Score: 171
Period size: 74 Copynumber: 2.0 Consensus size: 74
9844642 CGTTCCAAAA
* ** *
9844652 AAAATGCATTCTCGCTGCAGCGAGAAACTCTCGGGTGGTTGGGTAAAATGCCTGCCCGAATTTTC
1 AAAATGCATTCTCGCTGCAACGAGAAACTCTCGGGTGAATGGGTAAAATGCCTGCCCGAATGTTC
*
9844717 GCTGCAGCG
66 ACTGCAGCG
* * * **
9844726 AAAATGCATTCTCGTTGCAACGAGAAACTCTCGGGTTAATGGTTCAAAAT-TTTGCCCTGAA-GT
1 AAAATGCATTCTCGCTGCAACGAGAAACTCTCGGGTGAATGGGT-AAAATGCCTGCCC-GAATGT
*
9844789 TCACTGTAGCG
64 TCACTGCAGCG
9844800 AAA
1 AAA
9844803 TTTGCTCTAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 56 0.88
75 8 0.12
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (74 bp):
AAAATGCATTCTCGCTGCAACGAGAAACTCTCGGGTGAATGGGTAAAATGCCTGCCCGAATGTTC
ACTGCAGCG
Found at i:9846561 original size:30 final size:29
Alignment explanation
Indices: 9846525--9846583 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
9846515 AGGATCAATC
* *
9846525 TTGTGAAGTAGAAATTTAAGGTTAAATAAT
1 TTGTGAAATA-AAATTTAAGGGTAAATAAT
* *
9846555 TTGTGAAATAAAGTTTAGGGGTAAATAAT
1 TTGTGAAATAAAATTTAAGGGTAAATAAT
9846584 AGCACTAGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (29 bp):
TTGTGAAATAAAATTTAAGGGTAAATAAT
Found at i:9847961 original size:49 final size:48
Alignment explanation
Indices: 9847907--9848152 Score: 217
Period size: 49 Copynumber: 5.0 Consensus size: 48
9847897 TGTTGAGGAA
*
9847907 TATGTTCCATCCATAGATGATTCTTGATGATGACATGATGTGAGGTATG
1 TATGTTCCATCCATAGATGATT-TTGATGATGATATGATGTGAGGTATG
** ** * *
9847956 TATGTTCTGTCTGTAGATTATTTTGGATGATGATATGATGTG-GATTATG
1 TATGTTCCATCCATAGATGATTTT-GATGATGATATGATGTGAG-GTATG
** *
9848005 TATGTTCCATCTTTAGATGATTTTGGATGATGATATGATGTGAGTTATG
1 TATGTTCCATCCATAGATGATTTT-GATGATGATATGATGTGAGGTATG
* * * * * *
9848054 TATGTTCCATCTGA-AGATAATTCTAGATGATGATATGATATGAGATATA
1 TATGTTCCATC-CATAGATGATT-TTGATGATGATATGATGTGAGGTATG
* ** * * *
9848103 TATGTTTCGCCCGTAAATGATTTCGGATGATGATATGATGTGAGGTATG
1 TATGTTCCATCCATAGATGATTT-TGATGATGATATGATGTGAGGTATG
9848152 T
1 T
9848153 TTATTTTGAT
Statistics
Matches: 161, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.02
49 155 0.96
50 2 0.01
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (48 bp):
TATGTTCCATCCATAGATGATTTTGATGATGATATGATGTGAGGTATG
Found at i:9848022 original size:98 final size:96
Alignment explanation
Indices: 9847907--9848214 Score: 312
Period size: 98 Copynumber: 3.1 Consensus size: 96
9847897 TGTTGAGGAA
*
9847907 TATGTTCCATCCATAGATGATTCTTGATGATGACATGATGTGAGGTATGTATGTTCTGTCTGTAG
1 TATGTTCCATCCATAGATGATT-TTGATGATGATATGATGTGAGGTATGTATGTTCTGTCTGTAG
*
9847972 ATTATTTTGGATGATGATATGATGTGGATTATG
65 ATAATTTTGGATGATGATATGATGTGGA-TATG
** * ** *
9848005 TATGTTCCATCTTTAGATGATTTTGGATGATGATATGATGTGAGTTATGTATGTTCCATCTGAAG
1 TATGTTCCATCCATAGATGATTTT-GATGATGATATGATGTGAGGTATGTATGTTCTGTCTGTAG
* * * *
9848070 ATAATTCTAGATGATGATATGATATGAGATATA
65 ATAATTTTGGATGATGATATGATGTG-GATATG
* ** * * * * * * *
9848103 TATGTTTCGCCCGTAAATGATTTCGGATGATGATATGATGTGAGGTATGTTTATTTTGAT-TGTG
1 TATGTTCCATCCATAGATGATTT-TGATGATGATATGATGTGAGGTATGTATGTTCTG-TCTGTA
* * *
9848167 GATGATTTTGGATGATGTTATGATGTTGAATATG
64 GATAATTTTGGATGATGATATGATG-TGGATATG
*
9848201 TATGTTTCATCCAT
1 TATGTTCCATCCAT
9848215 GGAGGAATTC
Statistics
Matches: 168, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
97 2 0.01
98 161 0.96
99 5 0.03
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (96 bp):
TATGTTCCATCCATAGATGATTTTGATGATGATATGATGTGAGGTATGTATGTTCTGTCTGTAGA
TAATTTTGGATGATGATATGATGTGGATATG
Found at i:9857439 original size:13 final size:13
Alignment explanation
Indices: 9857406--9857445 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
9857396 AATCATACAT
9857406 ATATATATAATCAC
1 ATATATATAAT-AC
9857420 ATAATATATAATAC
1 AT-ATATATAATAC
*
9857434 ATATATAAAATA
1 ATATATATAATA
9857446 TATGCACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATATATAATAC
Found at i:9863386 original size:21 final size:19
Alignment explanation
Indices: 9863362--9863404 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9863352 AAAAGGGGAA
9863362 AAGAATAGGAAAAGTAAGAGT
1 AAGAATAGG--AAGTAAGAGT
*
9863383 AAGAGTAGGAAGTAAGAGT
1 AAGAATAGGAAGTAAGAGT
9863402 AAG
1 AAG
9863405 CTGCTAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
21 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.14
Consensus pattern (19 bp):
AAGAATAGGAAGTAAGAGT
Found at i:9867651 original size:2 final size:2
Alignment explanation
Indices: 9867634--9867677 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
9867624 TCTTTCTCCA
* *
9867634 TC TC TC CC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9867676 TC
1 TC
9867678 CTTCGAAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9867720 original size:2 final size:2
Alignment explanation
Indices: 9867713--9867750 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
9867703 TGTAATGTAA
9867713 AT AT AT AT AT AT AT CAT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
9867751 TGAAGTGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9867733 original size:15 final size:14
Alignment explanation
Indices: 9867713--9867750 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
9867703 TGTAATGTAA
9867713 ATATATATATATAT
1 ATATATATATATAT
9867727 CATATATATATATAT
1 -ATATATATATATAT
9867742 AT-TATATAT
1 ATATATATAT
9867751 TGAAGTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.30
14 2 0.09
15 14 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:9867735 original size:17 final size:17
Alignment explanation
Indices: 9867713--9867750 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9867703 TGTAATGTAA
9867713 ATATATATATATATCAT
1 ATATATATATATATCAT
*
9867730 ATATATATATATATTAT
1 ATATATATATATATCAT
9867747 ATAT
1 ATAT
9867751 TGAAGTGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATCAT
Found at i:9881258 original size:32 final size:31
Alignment explanation
Indices: 9881222--9881332 Score: 114
Period size: 32 Copynumber: 3.4 Consensus size: 31
9881212 TTTACCAAGA
*
9881222 TCAACTAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAA-TGGTTTTTCAAAGGC
* **
9881254 TCAACCACAACCTTTCACAATGGTTTTTCATGGGC
1 TCAACCAAAACC---CA-AATGGTTTTTCAAAGGC
9881289 TCAACCAAAACCCAAATTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAA-TGGTTTTTCAAAGGC
* *
9881321 TTAACCATAACC
1 TCAACCAAAACC
9881333 TACAATAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
31 2 0.03
32 35 0.54
35 26 0.40
36 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (31 bp):
TCAACCAAAACCCAAATGGTTTTTCAAAGGC
Found at i:9881269 original size:67 final size:66
Alignment explanation
Indices: 9881184--9881333 Score: 185
Period size: 67 Copynumber: 2.2 Consensus size: 66
9881174 ACTTTTACCG
* *
9881184 GGCTCAACCAAAACCTTTCACACTAGTTTTTACCA-AGATCAACTAAAACCCAAAGTGGTTTTTC
1 GGCTCAACCAAAACCTTTCACAATAGTTTTT--CAGAGATCAACCAAAACCCAAAGTGGTTTTTC
9881248 AAA
64 AAA
* * * * *
9881251 GGCTCAACCACAACCTTTCACAATGGTTTTTCATGGGCTCAACCAAAACCCAAATTGGTTTTTCA
1 GGCTCAACCAAAACCTTTCACAATAGTTTTTCA-GAGATCAACCAAAACCCAAAGTGGTTTTTCA
9881316 AA
65 AA
* *
9881318 GGCTTAACCATAACCT
1 GGCTCAACCAAAACCT
9881334 ACAATAATGG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
65 2 0.03
67 70 0.97
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (66 bp):
GGCTCAACCAAAACCTTTCACAATAGTTTTTCAGAGATCAACCAAAACCCAAAGTGGTTTTTCAA
A
Found at i:9881278 original size:35 final size:33
Alignment explanation
Indices: 9881222--9881349 Score: 118
Period size: 35 Copynumber: 3.8 Consensus size: 33
9881212 TTTACCAAGA
* *
9881222 TCAACTAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAATTGGTTTTTCAAAGGC
* **
9881254 TCAACCACAACCTTTCACAA-TGGTTTTTCATGGGC
1 TCAACCAAAACC--TCA-AATTGGTTTTTCAAAGGC
9881289 TCAACCAAAACC-CAAATTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAATTGGTTTTTCAAAGGC
* * *
9881321 TTAACCATAACCTACAATAATGGTTTTTC
1 TCAACCAAAACCT-CAA-ATTGGTTTTTC
9881350 TCACGGGGTC
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
31 2 0.03
32 35 0.45
34 3 0.04
35 36 0.46
36 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (33 bp):
TCAACCAAAACCTCAAATTGGTTTTTCAAAGGC
Found at i:9881343 original size:67 final size:69
Alignment explanation
Indices: 9881222--9881372 Score: 200
Period size: 67 Copynumber: 2.2 Consensus size: 69
9881212 TTTACCAAGA
* * *
9881222 TCAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTTCACAATGG-TTTT-TCAT
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTACACAATGGTTTTTCTCAC
9881285 GGGC
66 GGGC
* * * *
9881289 TCAACCAAAACCCAAATTGGTTTTTCAAAGGCTTAACCATAACC-TACAATAATGGTTTTTCTCA
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTAC-ACAATGGTTTTTCTCA
*
9881353 CGGGG
65 CGGGC
9881358 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
9881373 CAACTAACTT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 2 0.03
67 46 0.63
68 4 0.05
69 21 0.29
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (69 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACCTTACACAATGGTTTTTCTCAC
GGGC
Found at i:9881950 original size:9 final size:9
Alignment explanation
Indices: 9881929--9881958 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9881919 ATTTGAATAT
9881929 AATAAAA-A
1 AATAAAAGA
9881937 AATAAAAGA
1 AATAAAAGA
9881946 AATAAAAGA
1 AATAAAAGA
9881955 AATA
1 AATA
9881959 TTAAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (9 bp):
AATAAAAGA
Found at i:9884129 original size:27 final size:27
Alignment explanation
Indices: 9884078--9884129 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
9884068 ATATCCTGGT
*
9884078 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTGACCCTGA
*
9884105 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
9884130 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGA
Found at i:9884198 original size:20 final size:20
Alignment explanation
Indices: 9884175--9884220 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9884165 CTTCTAAACC
9884175 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
9884195 TCAAATTATAGTCCAATAAG
1 TCAAATCATACTCCAATAAG
9884215 TCAAAT
1 TCAAAT
9884221 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:9887919 original size:21 final size:20
Alignment explanation
Indices: 9887880--9887919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9887870 GCATTTTGTA
*
9887880 TAGGAAGTATCCATGCTTTT
1 TAGGAAGTATCCATACTTTT
*
9887900 TAGGAAAGTATCGATACTTT
1 TAGG-AAGTATCCATACTTT
9887920 GAACCTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (20 bp):
TAGGAAGTATCCATACTTTT
Found at i:9889096 original size:39 final size:39
Alignment explanation
Indices: 9889035--9889118 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
9889025 TGTGTAGGTC
9889035 CTTGCATCGGTCATGTCCCAAGAATCAGGACGTCACTCT
1 CTTGCATCGGTCATGTCCCAAGAATCAGGACGTCACTCT
* * *
9889074 TTTGCATCGGTCATG-CCACAAGAATCAGGATGTCTCTCT
1 CTTGCATCGGTCATGTCC-CAAGAATCAGGACGTCACTCT
9889113 CTTGCA
1 CTTGCA
9889119 CCTCTATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (39 bp):
CTTGCATCGGTCATGTCCCAAGAATCAGGACGTCACTCT
Found at i:9894554 original size:42 final size:42
Alignment explanation
Indices: 9894490--9894602 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
9894480 TGTGGACCCG
* * *
9894490 GCTATGTGCGAGTAGGATTGCACATAAGCCGTTGTTGACCAA
1 GCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCAA
* **
9894532 GCTATGTGCGAGTGGGAGTGCACATAAACCGTTGCTGACCCG
1 GCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCAA
** *
9894574 GCTATGTATGAGTGGGAGTGCGCATAAGC
1 GCTATGTGCGAGTGGGAGTGCACATAAGC
9894603 TATTGCATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (42 bp):
GCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCAA
Found at i:9894959 original size:21 final size:21
Alignment explanation
Indices: 9894917--9894959 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9894907 CTGTAGCTTA
* **
9894917 TCGCTGCAGCGAGATTCATTC
1 TCGCTGCAACGAGAAACATTC
*
9894938 TCGCTGCAACGAGAAACTTTC
1 TCGCTGCAACGAGAAACATTC
9894959 T
1 T
9894960 ATTTTATGAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
TCGCTGCAACGAGAAACATTC
Found at i:9896390 original size:32 final size:32
Alignment explanation
Indices: 9896349--9896451 Score: 125
Period size: 32 Copynumber: 3.1 Consensus size: 32
9896339 GATTGTTATA
9896349 GGTTGTGGTTGAGCCTTTGAAAAACCATTTTG
1 GGTTGTGGTTGAGCCTTTGAAAAACCATTTTG
* ** *
9896381 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTG
1 GGTTGTGGTTGAGCCTTTGAAAAACCATTTTG
* *
9896413 AAAGGTTGTGGTTAAGCCTTTGAAAAACCACTTTG
1 ---GGTTGTGGTTGAGCCTTTGAAAAACCATTTTG
9896448 GGTT
1 GGTT
9896452 TTAATTTAGC
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
32 32 0.55
35 26 0.45
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (32 bp):
GGTTGTGGTTGAGCCTTTGAAAAACCATTTTG
Found at i:9896498 original size:67 final size:67
Alignment explanation
Indices: 9896348--9896499 Score: 205
Period size: 67 Copynumber: 2.3 Consensus size: 67
9896338 TGATTGTTAT
* ** * * *
9896348 AGGTTGTGGTTGAGCCTTTGAAAAACCATTTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTG
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAATTGAGCCCATGAAAAACCAGTGTA
9896413 AA
66 AA
* * *
9896415 AGGTTGTGGTTAAGCCTTTGAAAAACCACTTTGGGTTTTAATTTAGCCCATGAAAAACTAGTGTA
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAATTGAGCCCATGAAAAACCAGTGTA
9896480 AA
66 AA
* *
9896482 AGGTTTTGGTCGAGCCTT
1 AGGTTGTGGTTGAGCCTT
9896500 GTAAAAGCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (67 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAATTGAGCCCATGAAAAACCAGTGTA
AA
Found at i:9899180 original size:80 final size:81
Alignment explanation
Indices: 9899032--9899192 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 81
9899022 TATTTTCTTA
** *
9899032 TAAAACAATATTTTTAGAGTTATACGAAAATAATTTTTTATAGCGTAAAAGTAAAATAAATTCAT
1 TAAAACAATATTTTTAGACATATACGAAAATAATTTTTTATAGCGTAAAAGCAAAATAAATTCAT
9899097 ACATACT-GTAGTACAG
66 ACATA-TAGTAGTACAG
* * * *
9899113 TAAAACAATATTTTTAAGACAT-TGCGTAAATAA-TTTTTATAGCGTAAACGCAAAATAAATTCC
1 TAAAACAATATTTTT-AGACATATACGAAAATAATTTTTTATAGCGTAAAAGCAAAATAAATTCA
9899176 TACATATAGTAGTACAG
65 TACATATAGTAGTACAG
9899193 ATACCTAGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 1 0.01
80 42 0.59
81 24 0.34
82 4 0.06
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (81 bp):
TAAAACAATATTTTTAGACATATACGAAAATAATTTTTTATAGCGTAAAAGCAAAATAAATTCAT
ACATATAGTAGTACAG
Found at i:9900931 original size:22 final size:24
Alignment explanation
Indices: 9900906--9900952 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
9900896 TACCTTTTGT
9900906 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
9900928 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
9900952 C
1 C
9900953 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:9904504 original size:25 final size:25
Alignment explanation
Indices: 9904476--9904532 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
9904466 ATGGACTTCT
9904476 CCCATTTCTTT-TTAATTGGGCCATG
1 CCCATTTCTTTCTT-ATTGGGCCATG
9904501 CCCA-TTCTTTCCTTATTGGGCCATG
1 CCCATTTCTTT-CTTATTGGGCCATG
*
9904526 TCCATTT
1 CCCATTT
9904533 ATATGCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 6 0.21
25 18 0.64
26 4 0.14
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (25 bp):
CCCATTTCTTTCTTATTGGGCCATG
Found at i:9904571 original size:15 final size:16
Alignment explanation
Indices: 9904551--9904583 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9904541 ATATATATTT
9904551 TTCTTTTCTTT-TCTC
1 TTCTTTTCTTTCTCTC
9904566 TTCTTTTCTTTCTCTC
1 TTCTTTTCTTTCTCTC
9904582 TT
1 TT
9904584 TCTCTTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTTTCTTTCTCTC
Found at i:9904579 original size:14 final size:14
Alignment explanation
Indices: 9904551--9904597 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
9904541 ATATATATTT
9904551 TTCTTTTCTTTTCTC
1 TTCTTTTC-TTTCTC
9904566 TTCTTTTCTTTCTC
1 TTCTTTTCTTTCTC
*
9904580 -TCTTTCTCTTCCTC
1 TTCTTT-TCTTTCTC
9904594 TTCT
1 TTCT
9904598 CTCTAGCCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 11 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCTTTTCTTTCTC
Found at i:9904794 original size:33 final size:34
Alignment explanation
Indices: 9904757--9904837 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
9904747 ATATCCACAC
* *
9904757 CAAAATCAGCAGTTAAGCTGCTCTA-TTTCTCC-T
1 CAAAATCAGCAGCTAAGCCGCTCTATTTTC-CCTT
9904790 CAAAATCAGCAGCTAAGCCGCTCTATTTTCCCTT
1 CAAAATCAGCAGCTAAGCCGCTCTATTTTCCCTT
9904824 CAAAAATCAGCAGC
1 C-AAAATCAGCAGC
9904838 CAAAGCTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 25 0.58
34 6 0.14
35 12 0.28
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (34 bp):
CAAAATCAGCAGCTAAGCCGCTCTATTTTCCCTT
Found at i:9904900 original size:35 final size:35
Alignment explanation
Indices: 9904854--9904927 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
9904844 TACAAAGATT
*
9904854 AGCAACTAAAACTGCACCTTTC-AGCCTTCAAAATC
1 AGCAACCAAAACTGCA-CTTTCTAGCCTTCAAAATC
* *
9904889 AGCAACCAAAACTTCACTTTCTAGCTTTCAAAATC
1 AGCAACCAAAACTGCACTTTCTAGCCTTCAAAATC
9904924 AGCA
1 AGCA
9904928 GCTAAAGCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 5 0.14
35 30 0.86
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.24
Consensus pattern (35 bp):
AGCAACCAAAACTGCACTTTCTAGCCTTCAAAATC
Found at i:9913776 original size:2 final size:2
Alignment explanation
Indices: 9913771--9913799 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9913761 ACACACACAC
9913771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9913800 CATAATNATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9913934 original size:2 final size:2
Alignment explanation
Indices: 9913929--9913957 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9913919 ACACACACAC
9913929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9913958 CATAATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9913937 original size:158 final size:157
Alignment explanation
Indices: 9913649--9913963 Score: 621
Period size: 158 Copynumber: 2.0 Consensus size: 157
9913639 AATGAAGGGA
9913649 ATAGACAAAATCTAATGACTATATGTTGTTGATAGACTCTGTTGAATTCTCTATGAAAATCTGTC
1 ATAGACAAAATCTAATGACTATATGTTGTTGATAGACTCTGTTGAATTCTCTATGAAAATCTGTC
9913714 AACATTCATTGCTGTAAATCATTCCAGAATTATGCACACACACACACACACACACACATATATAT
66 AACATTCATTGCTGTAAATCATTCCAGAATTATGCACACACACACACACACACACACATATATAT
9913779 ATATATATATATATATATATACATAAT
131 ATATATATATATATATATATACATAAT
9913806 NATAGACAAAATCTAATGACTATATGTTGTTGATAGACTCTGTTGAATTCTCTATGAAAATCTGT
1 -ATAGACAAAATCTAATGACTATATGTTGTTGATAGACTCTGTTGAATTCTCTATGAAAATCTGT
9913871 CAACATTCATTGCTGTAAATCATTCCAGAATTATGCACACACACACACACACACACACATATATA
65 CAACATTCATTGCTGTAAATCATTCCAGAATTATGCACACACACACACACACACACACATATATA
9913936 TATATATATATATATATATATACATAAT
130 TATATATATATATATATATATACATAAT
9913964 CTAAATGAAC
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (157 bp):
ATAGACAAAATCTAATGACTATATGTTGTTGATAGACTCTGTTGAATTCTCTATGAAAATCTGTC
AACATTCATTGCTGTAAATCATTCCAGAATTATGCACACACACACACACACACACACATATATAT
ATATATATATATATATATATACATAAT
Found at i:9914434 original size:13 final size:13
Alignment explanation
Indices: 9914416--9914443 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9914406 GAGAAACAAA
9914416 ACCAACTTAGTCG
1 ACCAACTTAGTCG
9914429 ACCAACTTAGTCG
1 ACCAACTTAGTCG
9914442 AC
1 AC
9914444 TAAGTACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.21
Consensus pattern (13 bp):
ACCAACTTAGTCG
Found at i:9914945 original size:32 final size:32
Alignment explanation
Indices: 9914905--9915001 Score: 124
Period size: 32 Copynumber: 2.9 Consensus size: 32
9914895 AGCTTGATTG
9914905 TTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
* **
9914937 CTT-TAGGTTTTGGTTGAGCCCGTGAAAAACCA
1 -TTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
9914969 TTGTAAAAGGTTGTGGTTGAGCCTTTGAAAAAC
1 TTGT---AGGTTGTGGTTGAGCCTTTGAAAAAC
9915002 GATTTTGGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 2 0.04
32 27 0.50
33 2 0.04
35 23 0.43
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (32 bp):
TTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
Found at i:9915013 original size:67 final size:67
Alignment explanation
Indices: 9914909--9915060 Score: 205
Period size: 67 Copynumber: 2.3 Consensus size: 67
9914899 TGATTGTTGT
* * *
9914909 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTTTGGTTGAGCCCGTGAAAAACCATTGTA
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTTTAGTTGAGCCAGTGAAAAACCAGTGTA
9914974 AA
66 AA
* * * * * *
9914976 AGGTTGTGGTTGAGCCTTTGAAAAACGATTTTGGGTTTTAGTTTAGCCAGTGACAAACTAGTGTA
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTTTAGTTGAGCCAGTGAAAAACCAGTGTA
9915041 AA
66 AA
* *
9915043 AGGTTTTGGCTGAGCCTT
1 AGGTTGTGGTTGAGCCTT
9915061 GTAAAAGTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (67 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTTTAGTTGAGCCAGTGAAAAACCAGTGTA
AA
Found at i:9920605 original size:19 final size:19
Alignment explanation
Indices: 9920578--9920615 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9920568 CCATTTGACT
9920578 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
9920597 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
9920616 GTTGAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:9949223 original size:18 final size:18
Alignment explanation
Indices: 9949200--9949237 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9949190 TAGAATTGTA
9949200 ATGGGTTACAATTATGAG
1 ATGGGTTACAATTATGAG
9949218 ATGGGTTACAATTATGAG
1 ATGGGTTACAATTATGAG
9949236 AT
1 AT
9949238 CCTTATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (18 bp):
ATGGGTTACAATTATGAG
Found at i:9950376 original size:21 final size:21
Alignment explanation
Indices: 9950348--9950397 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
9950338 TCCTTAACTT
9950348 TTTC-ATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
9950368 TTTCTATAGCATATATAAACA
1 TTTCTATAGCATATATAAACA
9950389 TCTT-TATAG
1 T-TTCTATAG
9950398 TGTAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.14
21 22 0.79
22 2 0.07
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (21 bp):
TTTCTATAGCATATATAAACA
Found at i:9950489 original size:35 final size:35
Alignment explanation
Indices: 9950443--9950582 Score: 208
Period size: 35 Copynumber: 4.0 Consensus size: 35
9950433 CATCAGCTCT
***
9950443 TGTGCACTCCCTACACACACAAGGCAATATCATCA
1 TGTGCACTCCCTACACACACATTTCAATATCATCA
*
9950478 TGTGCACTCCCTGCACACACATTTCAATATCATCA
1 TGTGCACTCCCTACACACACATTTCAATATCATCA
*
9950513 TGTGCACTCCCTACACGCACATTTCAATATCATCA
1 TGTGCACTCCCTACACACACATTTCAATATCATCA
* * *
9950548 TGTGCATTCCCTACACGCACATTTCAATACCATCA
1 TGTGCACTCCCTACACACACATTTCAATATCATCA
9950583 CACACACTCC
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 97 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (35 bp):
TGTGCACTCCCTACACACACATTTCAATATCATCA
Found at i:9951615 original size:19 final size:19
Alignment explanation
Indices: 9951593--9951629 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9951583 TAAGAAGAGA
9951593 AAGGAAAGGAAAA-GAAAAC
1 AAGGAAA-GAAAATGAAAAC
9951612 AAGGAAAGAAAATGAAAA
1 AAGGAAAGAAAATGAAAA
9951630 AACTTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (19 bp):
AAGGAAAGAAAATGAAAAC
Found at i:9962128 original size:22 final size:21
Alignment explanation
Indices: 9962087--9962128 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9962077 ATTAAACCTG
* *
9962087 AAAAATAAAATTCATTTTCTC
1 AAAAAAAAAATTCATGTTCTC
9962108 AAAAAAAAAATTCATGGTTCT
1 AAAAAAAAAATTCAT-GTTCT
9962129 AAGGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAAAAAAAATTCATGTTCTC
Found at i:9962745 original size:2 final size:2
Alignment explanation
Indices: 9962630--9962733 Score: 190
Period size: 2 Copynumber: 51.0 Consensus size: 2
9962620 TGTAATTAAG
9962630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9962672 AT AT AT AT ACT AT AT AT ANT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
9962716 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
9962734 TTGGATATAT
Statistics
Matches: 100, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 96 0.96
3 4 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.