Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 19 of 59
Found at i:6962041 original size:40 final size:40
Alignment explanation
Indices: 6961970--6962045 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
6961960 CCAGCTCATC
* *
6961970 CTTTTCTTCTTTCTTCTTTTTTTTATTTTCTTTTTTTTCT
1 CTTTTCTTCTTTCTTCTTTTTTCTATCTTCTTTTTTTTCT
* *
6962010 CTTTTTTTCTTTCTT-TTCTTTTCTCTCTTCTTTTTT
1 CTTTTCTTCTTTCTTCTT-TTTTCTATCTTCTTTTTT
6962046 ATTTTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (40 bp):
CTTTTCTTCTTTCTTCTTTTTTCTATCTTCTTTTTTTTCT
Found at i:6965651 original size:81 final size:81
Alignment explanation
Indices: 6965514--6965671 Score: 253
Period size: 81 Copynumber: 2.0 Consensus size: 81
6965504 TATAGGTATA
*
6965514 TATGTAAAAATGTAAATTCGTAAGGGATATCAAGATTTACTCAATTATTCATTAATGTAAAATTT
1 TATGTAAAAATGTAAATTCGTAAGGGATATCAAGATTTACTCAATTATTCACTAATGTAAAATTT
6965579 TCATAAAAATATAAGG
66 TCATAAAAATATAAGG
* * * * *
6965595 TATGTTAAAATGTAAATTCGTGAGTGATATTAAGATTTACTCAATTATTTACTAATGTAAAATTT
1 TATGTAAAAATGTAAATTCGTAAGGGATATCAAGATTTACTCAATTATTCACTAATGTAAAATTT
*
6965660 TTATAAAAATAT
66 TCATAAAAATAT
6965672 CAAAATCGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.39
Consensus pattern (81 bp):
TATGTAAAAATGTAAATTCGTAAGGGATATCAAGATTTACTCAATTATTCACTAATGTAAAATTT
TCATAAAAATATAAGG
Found at i:6965819 original size:18 final size:18
Alignment explanation
Indices: 6965793--6965835 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6965783 GGAAAGTTTA
*
6965793 GATTGAGTGTGAAGCAAG
1 GATTTAGTGTGAAGCAAG
6965811 GATTTAGTGTGAAGCAAG
1 GATTTAGTGTGAAGCAAG
6965829 GATTTAG
1 GATTTAG
6965836 ATGCTTCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.28
Consensus pattern (18 bp):
GATTTAGTGTGAAGCAAG
Found at i:6968667 original size:16 final size:16
Alignment explanation
Indices: 6968643--6968681 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6968633 GGTCCGGTCG
*
6968643 ACTTTGGGTTCAAGTC
1 ACTTCGGGTTCAAGTC
**
6968659 ACTTCGGGTTTGAGTC
1 ACTTCGGGTTCAAGTC
6968675 ACTTCGG
1 ACTTCGG
6968682 CAGGTCCCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.36
Consensus pattern (16 bp):
ACTTCGGGTTCAAGTC
Found at i:6984763 original size:23 final size:23
Alignment explanation
Indices: 6984736--6984787 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
6984726 CACAAAGGCA
*
6984736 AAAACAAAACTTCAAAGTTGCCT
1 AAAACAAAACTTAAAAGTTGCCT
6984759 AAAACAAAACTTAAAAGTTGCCT
1 AAAACAAAACTTAAAAGTTGCCT
*
6984782 GAAACA
1 AAAACA
6984788 GGCAAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (23 bp):
AAAACAAAACTTAAAAGTTGCCT
Found at i:6986487 original size:2 final size:2
Alignment explanation
Indices: 6986480--6986516 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
6986470 CTAATTGTTG
6986480 TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC TC -C TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6986517 ACCCCTACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:6986502 original size:17 final size:17
Alignment explanation
Indices: 6986480--6986516 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6986470 CTAATTGTTG
6986480 TCTCTCTCTCTCTCTCC
1 TCTCTCTCTCTCTCTCC
6986497 TCTCTCTCTCTCTCTCC
1 TCTCTCTCTCTCTCTCC
6986514 TCT
1 TCT
6986517 ACCCCTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (17 bp):
TCTCTCTCTCTCTCTCC
Found at i:6986516 original size:15 final size:15
Alignment explanation
Indices: 6986481--6986510 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6986471 TAATTGTTGT
6986481 CTCTCTCTCTCTCTC
1 CTCTCTCTCTCTCTC
6986496 CTCTCTCTCTCTCTC
1 CTCTCTCTCTCTCTC
6986511 TCCTCTACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (15 bp):
CTCTCTCTCTCTCTC
Found at i:6989985 original size:1 final size:1
Alignment explanation
Indices: 6989910--6989967 Score: 116
Period size: 1 Copynumber: 58.0 Consensus size: 1
6989900 ATTTTTAAAA
6989910 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6989968 AAAAAAATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6991123 original size:28 final size:28
Alignment explanation
Indices: 6991092--6991302 Score: 174
Period size: 28 Copynumber: 7.5 Consensus size: 28
6991082 ATGACGTGTT
* *
6991092 ACAACTACATTTTTCAACATAAAACATAACA
1 ACAACTACATTTTTCAACAT--GACAT-ATA
* * *
6991123 ACAACTA-AATTTTCAACATGAAATGTA
1 ACAACTACATTTTTCAACATGACATATA
** * *
6991150 ACAACTGTATTTTTTAACATGATATATA
1 ACAACTACATTTTTCAACATGACATATA
* * *
6991178 ACAATTACATTTTTCAACATAACGTATA
1 ACAACTACATTTTTCAACATGACATATA
* * * ***
6991206 ACAACTAAATTTTTTAATATGACGCGTA
1 ACAACTACATTTTTCAACATGACATATA
* *
6991234 ACAACTA-AATTTTCAACATGACGTATA
1 ACAACTACATTTTTCAACATGACATATA
* *
6991261 ACAACTACATTTTTCAACATGTCATGTA
1 ACAACTACATTTTTCAACATGACATATA
*
6991289 ACAACTAAATTTTT
1 ACAACTACATTTTT
6991303 AATATAGCGT
Statistics
Matches: 144, Mismatches: 34, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
27 29 0.20
28 97 0.67
30 11 0.08
31 7 0.05
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (28 bp):
ACAACTACATTTTTCAACATGACATATA
Found at i:6991258 original size:55 final size:55
Alignment explanation
Indices: 6991122--6991301 Score: 207
Period size: 55 Copynumber: 3.3 Consensus size: 55
6991112 AAAACATAAC
** * ** * *
6991122 AACAACTAAATTTTCAACATGAAATGTAACAACTGTATTTTTTAACATGATATAT
1 AACAACTAAATTTTCAACATGACGTATAACAACTAAATTTTTTAACATGACATGT
* * * * **
6991177 AACAATTACATTTTTCAACATAACGTATAACAACTAAATTTTTTAATATGACGCGT
1 AACAACTA-AATTTTCAACATGACGTATAACAACTAAATTTTTTAACATGACATGT
* * *
6991233 AACAACTAAATTTTCAACATGACGTATAACAACTACATTTTTCAACATGTCATGT
1 AACAACTAAATTTTCAACATGACGTATAACAACTAAATTTTTTAACATGACATGT
6991288 AACAACTAAATTTT
1 AACAACTAAATTTT
6991302 TAATATAGCG
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
55 60 0.59
56 42 0.41
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (55 bp):
AACAACTAAATTTTCAACATGACGTATAACAACTAAATTTTTTAACATGACATGT
Found at i:6991261 original size:83 final size:81
Alignment explanation
Indices: 6991066--6991381 Score: 241
Period size: 83 Copynumber: 3.9 Consensus size: 81
6991056 GTATGGTTTA
* * * *
6991066 TAACAACT--TTTTT-ATCATGACGTGTTACAACTACATTTTTCAACATAAAACATAACAACAAC
1 TAACAACTAATTTTTCAACATGACGTATAACAACTACATTTTTCAACAT--AACAT-ATAACAAC
* * **
6991128 TAAATTTTCAACATGAAATG
63 TAAATTTTTAATATG-AGCG
* * ** * *
6991148 TAACAACTGTATTTTTTAACATGATATATAACAATTACATTTTTCAACATAACGTATAACAACTA
1 TAACAACT-AATTTTTCAACATGACGTATAACAACTACATTTTTCAACATAACATATAACAACTA
6991213 AATTTTTTAATATGACGCG
65 AA-TTTTTAATATGA-GCG
* ** *
6991232 TAACAACTAAATTTTCAACATGACGTATAACAACTACATTTTTCAACATGTCATGTAACAACTAA
1 TAACAACTAATTTTTCAACATGACGTATAACAACTACATTTTTCAACATAACATATAACAACTAA
6991297 ATTTTTAATAT-AGCG
66 ATTTTTAATATGAGCG
* * * * * * *** *
6991312 TGCAAAAATTATATTTTTCAATATGGCGTGTAACAA-T-TA-TTTTCAACATAACGCGTCACAAC
1 T--AACAACTA-ATTTTTCAACATGACGTATAACAACTACATTTTTCAACATAACATATAACAAC
6991374 TAAATTTT
63 TAAATTTT
6991382 AAAACATGGT
Statistics
Matches: 191, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
80 30 0.16
81 2 0.01
82 25 0.13
83 80 0.42
84 22 0.12
85 5 0.03
86 27 0.14
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (81 bp):
TAACAACTAATTTTTCAACATGACGTATAACAACTACATTTTTCAACATAACATATAACAACTAA
ATTTTTAATATGAGCG
Found at i:6991329 original size:28 final size:28
Alignment explanation
Indices: 6991297--6991351 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
6991287 TAACAACTAA
6991297 ATTTTT-AATATAGCGTGCAAAAATTAT
1 ATTTTTCAATATAGCGTGCAAAAATTAT
* * *
6991324 ATTTTTCAATATGGCGTGTAACAATTAT
1 ATTTTTCAATATAGCGTGCAAAAATTAT
6991352 TTTCAACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (28 bp):
ATTTTTCAATATAGCGTGCAAAAATTAT
Found at i:7003982 original size:22 final size:22
Alignment explanation
Indices: 7003954--7004016 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
7003944 TATTGGTATC
7003954 AGAGCTTTTGATTTTAAAGATA
1 AGAGCTTTTGATTTTAAAGATA
7003976 AGAGCTTTTGATTTTAAAGATA
1 AGAGCTTTTGATTTTAAAGATA
*
7003998 AGAG-TTTGTGGTTTTAAAG
1 AGAGCTTT-TGATTTTAAAG
7004017 TGGTTTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.41
Consensus pattern (22 bp):
AGAGCTTTTGATTTTAAAGATA
Found at i:7009596 original size:28 final size:29
Alignment explanation
Indices: 7009555--7009614 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7009545 GTCTATGGGC
*
7009555 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
7009583 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
7009613 AA
1 AA
7009615 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:7013379 original size:31 final size:30
Alignment explanation
Indices: 7013322--7013380 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
7013312 ATAAAGATAG
*
7013322 AAAAAAAAATCTCAAACTAAATAAAATAAA
1 AAAAAAAAATCTCAAACTAAAGAAAATAAA
*
7013352 AAAAATAAAATC-CTAAACTAACGAAAATA
1 AAAAA-AAAATCTC-AAACTAAAGAAAATA
7013381 CTAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.17
Consensus pattern (30 bp):
AAAAAAAAATCTCAAACTAAAGAAAATAAA
Found at i:7014989 original size:21 final size:21
Alignment explanation
Indices: 7014960--7014999 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7014950 TAATTTTAAT
7014960 TATGATATGATATCACAAGAA
1 TATGATATGATATCACAAGAA
*
7014981 TATGGTATGATATCACAAG
1 TATGATATGATATCACAAG
7015000 GGCGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
TATGATATGATATCACAAGAA
Found at i:7015497 original size:23 final size:24
Alignment explanation
Indices: 7015462--7015506 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7015452 AACATCAACG
*
7015462 CAGCAAAG-GAAAAAAAACCAAGA
1 CAGCAAAGAAAAAAAAAACCAAGA
*
7015485 CAGCAGAGAAAAAAAAAACCAA
1 CAGCAAAGAAAAAAAAAACCAA
7015507 CATCAATAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.67, C:0.18, G:0.16, T:0.00
Consensus pattern (24 bp):
CAGCAAAGAAAAAAAAAACCAAGA
Found at i:7049540 original size:22 final size:21
Alignment explanation
Indices: 7049500--7049540 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7049490 GGACAAGCGT
**
7049500 ATGGTGAAATTTTGGAAACAA
1 ATGGTGAAATTTTAAAAACAA
7049521 ATGGATGAAATTTTAAAAAC
1 ATGG-TGAAATTTTAAAAAC
7049541 GGGCCAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (21 bp):
ATGGTGAAATTTTAAAAACAA
Found at i:7053165 original size:29 final size:29
Alignment explanation
Indices: 7053104--7053167 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
7053094 AGCAAATTTT
** *
7053104 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
*
7053133 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
7053161 AAAAATT
1 AAAAATT
7053168 GTCCGTAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:7055840 original size:19 final size:19
Alignment explanation
Indices: 7055816--7055852 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7055806 CTTCTAAACT
7055816 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
7055835 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
7055853 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:7060362 original size:30 final size:29
Alignment explanation
Indices: 7060272--7060366 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
7060262 AAAGTTAATG
* *
7060272 TGGGTTTGTCGT-AAGTCCATTAAAAACCA
1 TGGGTTTGTCGTGAA-CCCGTTAAAAACCA
* *
7060301 TGGGTTTGTCGTGAACTCGTTGAAAACCA
1 TGGGTTTGTCGTGAACCCGTTAAAAACCA
* *
7060330 TGGGTTTGTGGTTGAACCCGTTAAAAAGCA
1 TGGGTTTGTCG-TGAACCCGTTAAAAACCA
7060360 TGGGTTT
1 TGGGTTT
7060367 CACTTGATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 32 0.57
30 24 0.43
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (29 bp):
TGGGTTTGTCGTGAACCCGTTAAAAACCA
Found at i:7063759 original size:28 final size:27
Alignment explanation
Indices: 7063723--7063775 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7063713 ATATCCTGGT
*
7063723 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
7063750 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
7063776 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:7063843 original size:20 final size:20
Alignment explanation
Indices: 7063820--7063865 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
7063810 CTTCTAAACC
7063820 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
7063840 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
7063860 TCAAAT
1 TCAAAT
7063866 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:7065245 original size:40 final size:40
Alignment explanation
Indices: 7065158--7065296 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 40
7065148 AAAAATCTTA
* * * *
7065158 AACATAAACTTAAATAACCAAAAATAAATATCCATACAAT
1 AACATAAACTTAAATAACTAAACATAAATATCCAAAAAAT
* * * * * *
7065198 GATATAAACTTAAATAACTATACGTAAATATCCAAATAAC
1 AACATAAACTTAAATAACTAAACATAAATATCCAAAAAAT
* * *
7065238 AACATAAATTTAAATAACTAAACACAAAGATCCAAAGAAAT
1 AACATAAACTTAAATAACTAAACATAAATATCCAAA-AAAT
7065279 AACATAAACTTAAATAAC
1 AACATAAACTTAAATAAC
7065297 AAAAATTATA
Statistics
Matches: 79, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 60 0.76
41 19 0.24
ACGTcount: A:0.58, C:0.16, G:0.03, T:0.23
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAACATAAATATCCAAAAAAT
Found at i:7065323 original size:16 final size:17
Alignment explanation
Indices: 7065302--7065337 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
7065292 ATAACAAAAA
7065302 TTATAATTTTTATAA-G
1 TTATAATTTTTATAATG
7065318 TTATAATTTTTATAATG
1 TTATAATTTTTATAATG
7065335 TTA
1 TTA
7065338 ACACAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTATAATTTTTATAATG
Found at i:7071344 original size:11 final size:11
Alignment explanation
Indices: 7071328--7071365 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7071318 TTTCTACAGT
*
7071328 AAAAAATAAAG
1 AAAAAATAATG
7071339 AAAAAA-AATG
1 AAAAAATAATG
*
7071349 AAAAACTAATG
1 AAAAAATAATG
7071360 AAAAAA
1 AAAAAA
7071366 ATGATTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (11 bp):
AAAAAATAATG
Found at i:7071597 original size:28 final size:28
Alignment explanation
Indices: 7071557--7071615 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
7071547 TGGCCCCCTT
*
7071557 GTGTTGGTGCCTAAACACAGAGTAACTA
1 GTGTTGATGCCTAAACACAGAGTAACTA
** **
7071585 GTGTTGATGCCTAGGCTTAGAGTAACTA
1 GTGTTGATGCCTAAACACAGAGTAACTA
7071613 GTG
1 GTG
7071616 CCTAGGCGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
GTGTTGATGCCTAAACACAGAGTAACTA
Found at i:7071620 original size:22 final size:22
Alignment explanation
Indices: 7071592--7071644 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
7071582 CTAGTGTTGA
**
7071592 TGCCTAGGCTTAGAGTAACTAG
1 TGCCTAGGCGCAGAGTAACTAG
7071614 TGCCTAGGCGCAGAGTAACTAG
1 TGCCTAGGCGCAGAGTAACTAG
7071636 TGCCTAGGC
1 TGCCTAGGC
7071645 ACTATGCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (22 bp):
TGCCTAGGCGCAGAGTAACTAG
Found at i:7076772 original size:18 final size:18
Alignment explanation
Indices: 7076749--7076783 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7076739 TAATAAGACC
7076749 ATAAGACAAAACCTTTAA
1 ATAAGACAAAACCTTTAA
7076767 ATAAGACAAAACCTTTA
1 ATAAGACAAAACCTTTA
7076784 CCACTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (18 bp):
ATAAGACAAAACCTTTAA
Found at i:7080447 original size:29 final size:29
Alignment explanation
Indices: 7080405--7080499 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
7080395 CATTGAAGTG
* *
7080405 TAACAA-AATA-TTTTTTAATATGTCGTA
1 TAACAACAATATTTTTTTAACATGACGTA
* *
7080432 TAACAACAATATTTTTTCAACATGACGTG
1 TAACAACAATATTTTTTTAACATGACGTA
* *
7080461 TAACAACAATATATTTTTTTCAACATGGCGTG
1 TAACAAC-A-ATATTTTTTT-AACATGACGTA
7080493 TAACAAC
1 TAACAAC
7080500 CTTTTTTAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.11
28 4 0.07
29 20 0.35
30 1 0.02
31 9 0.16
32 17 0.30
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (29 bp):
TAACAACAATATTTTTTTAACATGACGTA
Found at i:7080465 original size:26 final size:26
Alignment explanation
Indices: 7080436--7080579 Score: 105
Period size: 26 Copynumber: 5.2 Consensus size: 26
7080426 GTCGTATAAC
*
7080436 AACAATATTTTTTCAACATGACGTGT
1 AACAATATTTTTTCAACATGGCGTGT
7080462 AACAACAATATATTTTTTTCAACATGGCGTGT
1 ---AAC-A-ATA-TTTTTTCAACATGGCGTGT
**
7080494 AACAACCTTTTTT-AACCATGGCGTGT
1 AACAATATTTTTTCAA-CATGGCGTGT
* * *
7080520 AAC-ATGTTTTTT-TACATGGCGCGT
1 AACAATATTTTTTCAACATGGCGTGT
7080544 AACAATAGTATTTTTTTTCAACATGGCGTGT
1 AAC-A-A-TA--TTTTTTCAACATGGCGTGT
7080575 AACAA
1 AACAA
7080580 CCTAACCATG
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
24 12 0.13
25 10 0.11
26 19 0.20
27 2 0.02
28 2 0.02
29 7 0.07
30 8 0.09
31 16 0.17
32 18 0.19
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (26 bp):
AACAATATTTTTTCAACATGGCGTGT
Found at i:7080479 original size:32 final size:30
Alignment explanation
Indices: 7080402--7080499 Score: 114
Period size: 32 Copynumber: 3.3 Consensus size: 30
7080392 AGGCATTGAA
* *
7080402 GTGTAAC-A-AAATATTTTTT-AATATGTC
1 GTGTAACAACAAATATTTTTTCAACATGAC
*
7080429 GTATAACAAC-AATATTTTTTCAACATGAC
1 GTGTAACAACAAATATTTTTTCAACATGAC
*
7080458 GTGTAACAACAATATATTTTTTTCAACATGGC
1 GTGTAACAACAA-ATA-TTTTTTCAACATGAC
7080490 GTGTAACAAC
1 GTGTAACAAC
7080500 CTTTTTTAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.10
28 11 0.18
29 15 0.25
30 1 0.02
31 3 0.05
32 24 0.40
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (30 bp):
GTGTAACAACAAATATTTTTTCAACATGAC
Found at i:7080537 original size:24 final size:24
Alignment explanation
Indices: 7080474--7080547 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
7080464 CAACAATATA
7080474 TTTTTTTCAACATGGCGTGTAACAACC
1 TTTTTTT--ACATGGCGTGTAAC-ACC
* **
7080501 TTTTTTAACCATGGCGTGTAACATG
1 TTTTTTTA-CATGGCGTGTAACACC
*
7080526 TTTTTTTACATGGCGCGTAACA
1 TTTTTTTACATGGCGTGTAACA
7080548 ATAGTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 13 0.32
25 9 0.22
26 13 0.32
27 6 0.15
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (24 bp):
TTTTTTTACATGGCGTGTAACACC
Found at i:7080621 original size:45 final size:45
Alignment explanation
Indices: 7080564--7080660 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
7080554 TTTTTTTTCA
* *
7080564 ACATGGCGTGTAACAACCTAACCATGGCTTGTCACAAGTTTTTGT
1 ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAAGTGTTTGT
* * *
7080609 ACATGGCGTGTAACAAGCTAACCATAGCTTGTGACAGGTGTTTGT
1 ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAAGTGTTTGT
*
7080654 ACTTGGC
1 ACATGGC
7080661 TTGTCACATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (45 bp):
ACATGGCGTGTAACAACCTAACCATAGCTTGTCACAAGTGTTTGT
Found at i:7080622 original size:76 final size:78
Alignment explanation
Indices: 7080451--7080624 Score: 226
Period size: 76 Copynumber: 2.2 Consensus size: 78
7080441 TATTTTTTCA
*
7080451 ACATGACGTGTAACAACAATATATTTTTTTCAACATGGCGTGTAACAACCTTTTTTAACCATGGC
1 ACATGGCGTGTAACAACAATATATTTTTTTCAACATGGCGTGTAACAACC----TTAACCATGGC
* *
7080516 GTGTAACATGTTTTTTT
62 GTGTAACAAGTTTTTGT
* * * *
7080533 ACATGGCGCGTAACAATAGTAT-TTTTTTTCAACATGGCGTGTAACAACC-TAACCATGGCTTGT
1 ACATGGCGTGTAACAACAATATATTTTTTTCAACATGGCGTGTAACAACCTTAACCATGGCGTGT
*
7080596 CACAAGTTTTTGT
66 AACAAGTTTTTGT
7080609 ACATGGCGTGTAACAA
1 ACATGGCGTGTAACAA
7080625 GCTAACCATA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
76 38 0.46
81 27 0.33
82 18 0.22
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (78 bp):
ACATGGCGTGTAACAACAATATATTTTTTTCAACATGGCGTGTAACAACCTTAACCATGGCGTGT
AACAAGTTTTTGT
Found at i:7085993 original size:38 final size:40
Alignment explanation
Indices: 7085907--7086009 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
7085897 ACCCGGCTCA
*
7085907 TGTACATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
* * * *
7085947 TGTGCATCCCCTCACATCGTGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
*
7085985 TGTACATCCCCCCACATTGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
7086010 CGAGCACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 31 0.56
39 1 0.02
40 23 0.42
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.21
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
Found at i:7089213 original size:21 final size:20
Alignment explanation
Indices: 7089173--7089215 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7089163 AAAAAAACTA
*
7089173 ATTGTTTCAAATTGATTACC
1 ATTGTTTCAAATTGACTACC
7089193 ATTGTTTCTAAA-TGTACTACC
1 ATTGTTTC-AAATTG-ACTACC
7089214 AT
1 AT
7089216 CTTCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (20 bp):
ATTGTTTCAAATTGACTACC
Found at i:7089596 original size:38 final size:38
Alignment explanation
Indices: 7089527--7089602 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
7089517 TCCTTCTATT
*
7089527 CTCTTCTCTTCCCTAAAATCTGTAAGGAAAATCCAATG
1 CTCTTCTCTTCCCTAAAATCTGTAAGAAAAATCCAATG
* * * * * *
7089565 CTCTTCTTTTCTCTTAAATTTGTGAGAAAAATCTAATG
1 CTCTTCTCTTCCCTAAAATCTGTAAGAAAAATCCAATG
7089603 GTGTTGAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (38 bp):
CTCTTCTCTTCCCTAAAATCTGTAAGAAAAATCCAATG
Found at i:7089851 original size:20 final size:20
Alignment explanation
Indices: 7089806--7089851 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
7089796 ATGGCTTAAA
*
7089806 TTAAAAAGATGATAATCAG-
1 TTAAAAAGACGATAATCAGT
7089825 TTAAAAAGGACGATAATCCA-T
1 TTAAAAA-GACGATAAT-CAGT
7089846 TTAAAA
1 TTAAAA
7089852 CAATTAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 8 0.35
21 8 0.35
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (20 bp):
TTAAAAAGACGATAATCAGT
Found at i:7091098 original size:59 final size:59
Alignment explanation
Indices: 7091006--7091123 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
7090996 GATATAATAG
*
7091006 ATTACCATGTCAAAGTATGTCATGTAGAAGCATGATGATTTCAGAATTTCATAAACTAT
1 ATTACCATGTCAAAGTATGTCATATAGAAGCATGATGATTTCAGAATTTCATAAACTAT
*
7091065 ATTACCATGTCGAAGTATGTCATATAGAAGCATGATGATTTCAGAATTTCATAAACTAT
1 ATTACCATGTCAAAGTATGTCATATAGAAGCATGATGATTTCAGAATTTCATAAACTAT
7091124 GTCATATAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (59 bp):
ATTACCATGTCAAAGTATGTCATATAGAAGCATGATGATTTCAGAATTTCATAAACTAT
Found at i:7097526 original size:21 final size:21
Alignment explanation
Indices: 7097497--7097536 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7097487 AAAACGAAAA
*
7097497 ATATCATAT-AATTATATCATC
1 ATATAATATCAATT-TATCATC
7097518 ATATAATATCAATTTATCA
1 ATATAATATCAATTTATCA
7097537 CGTCATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATAATATCAATTTATCATC
Found at i:7102373 original size:73 final size:72
Alignment explanation
Indices: 7102276--7102453 Score: 193
Period size: 73 Copynumber: 2.4 Consensus size: 72
7102266 ACCAAGAAGT
* * *
7102276 AAGTTAGTCGACTAAGAGCCTACTGCCAAAAATCT-GGACTTC-AAGACAGAAACAACTTAATCG
1 AAGTTAGTCGACTAAGTGCTTACTGCCAAAAA-CTAAGA--TCAAAGACAGAAACAACTTAATCG
7102339 ACTAAAA-AG
63 ACTAAAAGAG
* * *
7102348 AAAGTTAGTCGACTAAGTGCTTACTGTCAGAAACTAAGATCAGAAGACAGAAACAACTTAGTCGA
1 -AAGTTAGTCGACTAAGTGCTTACTGCCAAAAACTAAGATCA-AAGACAGAAACAACTTAATCGA
7102413 CTAAAAGAG
64 CTAAAAGAG
* * *
7102422 CAGTTAGTCAACTAAGATGATT-CTGCCAAAAA
1 AAGTTAGTCGACTAAG-TGCTTACTGCCAAAAA
7102454 ATTTGCATTG
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
71 2 0.02
72 2 0.02
73 79 0.89
74 6 0.07
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (72 bp):
AAGTTAGTCGACTAAGTGCTTACTGCCAAAAACTAAGATCAAAGACAGAAACAACTTAATCGACT
AAAAGAG
Found at i:7107700 original size:19 final size:20
Alignment explanation
Indices: 7107673--7107718 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7107663 AAGAGACAAG
*
7107673 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
7107692 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
7107711 ATAATATT
1 ATAATATT
7107719 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:7115657 original size:17 final size:17
Alignment explanation
Indices: 7115635--7115687 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
7115625 AAGTAAAATA
7115635 AGCACACACTAAGGGGG
1 AGCACACACTAAGGGGG
*
7115652 AGCACACACTAAAGGGG
1 AGCACACACTAAGGGGG
*
7115669 AGCACACACTTAGGGGG
1 AGCACACACTAAGGGGG
7115686 AG
1 AG
7115688 AAATCCTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.36, C:0.23, G:0.34, T:0.08
Consensus pattern (17 bp):
AGCACACACTAAGGGGG
Found at i:7116182 original size:73 final size:73
Alignment explanation
Indices: 7116037--7116198 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 73
7116027 GACAGAGAAG
* *
7116037 ACTTAGTCGACCAAGAAGTAAGTTAGTCGACTAAGAGCCTACTACCAGAAATCTAAACTTCAAGA
1 ACTTAGTCGACTAAGAAGAAAGTTAGTCGACTAAGAGCCTACTACCAGAAATCTAAACTTCAAGA
* *
7116102 TAGAAACA
66 CAAAAACA
* * ** * * *
7116110 ACTTAATCGACTAAGAAGAAAGTTAGTCGACTAAGTGTTTACTGCCAGAAAT-TGAGA-TTAGAA
1 ACTTAGTCGACTAAGAAGAAAGTTAGTCGACTAAGAGCCTACTACCAGAAATCT-AAACTT-CAA
7116173 GACAAAAACA
64 GACAAAAACA
*
7116183 ACTTAGTCAACTAAGA
1 ACTTAGTCGACTAAGA
7116199 GCGCAGTTAG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
72 3 0.04
73 71 0.96
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (73 bp):
ACTTAGTCGACTAAGAAGAAAGTTAGTCGACTAAGAGCCTACTACCAGAAATCTAAACTTCAAGA
CAAAAACA
Found at i:7120267 original size:17 final size:17
Alignment explanation
Indices: 7120245--7120279 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7120235 TGGAGGTTTC
7120245 CTCCCCTTAAGTGTGTG
1 CTCCCCTTAAGTGTGTG
*
7120262 CTCCCCTTTAGTGTGTG
1 CTCCCCTTAAGTGTGTG
7120279 C
1 C
7120280 ATAGTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.31, G:0.23, T:0.37
Consensus pattern (17 bp):
CTCCCCTTAAGTGTGTG
Found at i:7120911 original size:15 final size:15
Alignment explanation
Indices: 7120891--7120923 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7120881 AATCCTCTGA
7120891 AGAGGCGGAAGGAGT
1 AGAGGCGGAAGGAGT
7120906 AGAGGCGGAAGGAGT
1 AGAGGCGGAAGGAGT
7120921 AGA
1 AGA
7120924 TTCATCAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.52, T:0.06
Consensus pattern (15 bp):
AGAGGCGGAAGGAGT
Found at i:7123115 original size:21 final size:21
Alignment explanation
Indices: 7123091--7123132 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7123081 AGACAAAATG
*
7123091 CTCTTAGTTGACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
7123112 CTCTTAGTCGACTAAGTGCCT
1 CTCTTAGTCGACTAAGTGCCT
7123133 ACTATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (21 bp):
CTCTTAGTCGACTAAGTGCCT
Found at i:7123319 original size:20 final size:21
Alignment explanation
Indices: 7123290--7123333 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7123280 ATTAGGTTAC
7123290 TTTTAAGTTA-GTTATTTTAA
1 TTTTAAGTTATGTTATTTTAA
* * *
7123310 TTTTATGTTATTTTCTTTTAA
1 TTTTAAGTTATGTTATTTTAA
7123331 TTT
1 TTT
7123334 GTTTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTAAGTTATGTTATTTTAA
Found at i:7124464 original size:18 final size:18
Alignment explanation
Indices: 7124441--7124475 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7124431 TAAATTTTGG
*
7124441 TTAATTAGTTTTAATTAA
1 TTAATTAATTTTAATTAA
*
7124459 TTAATTAATTTTGATTA
1 TTAATTAATTTTAATTA
7124476 TTTGGATAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TTAATTAATTTTAATTAA
Found at i:7127075 original size:17 final size:17
Alignment explanation
Indices: 7127053--7127088 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7127043 GGGATGATTA
7127053 CAAATTTATTGAATACT
1 CAAATTTATTGAATACT
* *
7127070 CAAATTTGTTGAATGCT
1 CAAATTTATTGAATACT
7127087 CA
1 CA
7127089 TTCCAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (17 bp):
CAAATTTATTGAATACT
Found at i:7127561 original size:20 final size:20
Alignment explanation
Indices: 7127536--7127581 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7127526 TTTTGGCCCC
*
7127536 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGAAGTATA
*
7127556 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
7127576 ATTTGA
1 ATTTGA
7127582 GGTTTAGAAG
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:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:7135517 original size:20 final size:20
Alignment explanation
Indices: 7135492--7135537 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7135482 TTTTGACCCC
*
7135492 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGAAGTATA
*
7135512 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
7135532 ATTTGA
1 ATTTGA
7135538 GGTTTAGAAG
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:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:7135613 original size:28 final size:27
Alignment explanation
Indices: 7135582--7135634 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7135572 TTTGGAGTAT
*
7135582 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
7135610 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
7135635 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:7135640 original size:28 final size:28
Alignment explanation
Indices: 7135582--7135640 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7135572 TTTGGAGTAT
* *
7135582 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
7135610 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
7135638 AGG
1 AGG
7135641 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:7141095 original size:3 final size:3
Alignment explanation
Indices: 7141077--7141121 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
7141067 TTACTCATTT
7141077 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7141122 GCTTTATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:7144877 original size:16 final size:15
Alignment explanation
Indices: 7144858--7144900 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
7144848 TTACTTATTT
7144858 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
* *
7144874 TTAGGTTACTTTTAAG
1 TTA-GTTATTTTTAAA
7144890 TTAGTTATTTT
1 TTAGTTATTTT
7144901 AATTTTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:7144912 original size:20 final size:20
Alignment explanation
Indices: 7144883--7144926 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7144873 ATTAGGTTAC
7144883 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTAGTTATTTTAA
* * *
7144903 TTTTATGTTATTTCTTTTAA
1 TTTTAAGTTAGTTATTTTAA
7144923 TTTT
1 TTTT
7144927 TTTATTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTAAGTTAGTTATTTTAA
Found at i:7144934 original size:21 final size:20
Alignment explanation
Indices: 7144897--7144936 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7144887 AAGTTAGTTA
*
7144897 TTTTAATTTTATGTTATTTC
1 TTTTAATTTTATATTATTTC
*
7144917 TTTTAATTTTTTTATTATTT
1 TTTTAA-TTTTATATTATTT
7144937 ATTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTAATTTTATATTATTTC
Found at i:7157647 original size:42 final size:42
Alignment explanation
Indices: 7157558--7157739 Score: 148
Period size: 42 Copynumber: 4.1 Consensus size: 42
7157548 ACACCTCCCA
* * * * * *
7157558 TCATCATCAGCTCATGTGCACTCCCAACTTGCACATGGCTGGG
1 TCATCATCGGCTTATGTGCACT-CCTACTCGCACATAGCCGGG
**
7157601 TCATCATCGGCTTATGTGCACTCCTACTCGCACATAGCCAAG
1 TCATCATCGGCTTATGTGCACTCCTACTCGCACATAGCCGGG
* *
7157643 TCATCATTGGCTTATGCTGCTTATGCGCACTACTACTTGCACATAGCCGGG
1 TCATCATCGGCTTATG-TGC--A--CTC-CTACT-C--GCACATAGCCGGG
* ** *
7157694 TCATCATTGGCTTATACGCACTCCTACTCACACATAGCCGGG
1 TCATCATCGGCTTATGTGCACTCCTACTCGCACATAGCCGGG
7157736 TCAT
1 TCAT
7157740 TATCATCACA
Statistics
Matches: 114, Mismatches: 16, Indels: 19
0.77 0.11 0.13
Matches are distributed among these distances:
42 45 0.39
43 23 0.20
44 1 0.01
45 6 0.05
46 2 0.02
47 2 0.02
48 6 0.05
49 1 0.01
50 2 0.02
51 26 0.23
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (42 bp):
TCATCATCGGCTTATGTGCACTCCTACTCGCACATAGCCGGG
Found at i:7157686 original size:51 final size:51
Alignment explanation
Indices: 7157610--7157708 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
7157600 GTCATCATCG
* *
7157610 GCTTATGTGCACTCCTACTCGCACATAGCCAAGTCATCATTGGCTTATGCT
1 GCTTATGCGCACTACTACTCGCACATAGCCAAGTCATCATTGGCTTATGCT
* **
7157661 GCTTATGCGCACTACTACTTGCACATAGCCGGGTCATCATTGGCTTAT
1 GCTTATGCGCACTACTACTCGCACATAGCCAAGTCATCATTGGCTTAT
7157709 ACGCACTCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (51 bp):
GCTTATGCGCACTACTACTCGCACATAGCCAAGTCATCATTGGCTTATGCT
Found at i:7158585 original size:16 final size:17
Alignment explanation
Indices: 7158566--7158605 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
7158556 GGAAGGAAGA
7158566 AGAAA-AAGAAGCTGCT
1 AGAAATAAGAAGCTGCT
7158582 AGAAATTGAAGAAGCTGCT
1 AGAAA-T-AAGAAGCTGCT
7158601 AGAAA
1 AGAAA
7158606 GAAAGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
19 16 0.76
ACGTcount: A:0.50, C:0.10, G:0.25, T:0.15
Consensus pattern (17 bp):
AGAAATAAGAAGCTGCT
Found at i:7165527 original size:19 final size:19
Alignment explanation
Indices: 7165463--7165514 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
7165453 TTAATATTTT
7165463 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
7165482 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
7165501 AATATTATTTTATT
1 AATATTATTTTATT
7165515 CTAAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:7166606 original size:60 final size:60
Alignment explanation
Indices: 7166518--7166685 Score: 237
Period size: 60 Copynumber: 2.8 Consensus size: 60
7166508 GGAGGTTTAC
* * * *
7166518 TTATTCTCCTTTGGACAATGCTTCTTCTCAAGGTTCTTCATCAACAAAGGATACCCTTAT
1 TTATTCTTCTTTGGAGAATGCTTTTTCTCAAGGTTCTTCATCCACAAAGGATACCCTTAT
* * *
7166578 TTATTCTTCTTTGGAGAATGCTTTTTCTCAAGGCTCTTCATCCACAAAGGATTCCTTTAT
1 TTATTCTTCTTTGGAGAATGCTTTTTCTCAAGGTTCTTCATCCACAAAGGATACCCTTAT
* * * *
7166638 TCATTCTTCATTGGAGAATGTTTTTTCTCAAGGTTTTTCATCCACAAA
1 TTATTCTTCTTTGGAGAATGCTTTTTCTCAAGGTTCTTCATCCACAAA
7166686 AGATTCTCTA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 96 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (60 bp):
TTATTCTTCTTTGGAGAATGCTTTTTCTCAAGGTTCTTCATCCACAAAGGATACCCTTAT
Found at i:7169688 original size:25 final size:20
Alignment explanation
Indices: 7169660--7169710 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
7169650 TATTTATGCC
7169660 TTATTTTATTTTCAAAACAA
1 TTATTTTATTTTCAAAACAA
7169680 TTATTTTATTTTCAAAACAA
1 TTATTTTATTTTCAAAACAA
7169700 TTATTTTATTT
1 TTATTTTATTT
7169711 CATTTTCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTTATTTTCAAAACAA
Found at i:7179504 original size:80 final size:80
Alignment explanation
Indices: 7179395--7179759 Score: 552
Period size: 80 Copynumber: 4.6 Consensus size: 80
7179385 TACTTAGCTT
* * * *
7179395 ATAGTGTATATGACTATCTCAACACATACATTTCATGGCATACATTTCATAGTCTCATAAATAAC
1 ATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAGCCTCATAAATCAC
*
7179460 TTACATGATTAGCCC
66 TTACATGCTTAGCCC
**
7179475 ATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAATCTCATAAATCAC
1 ATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAGCCTCATAAATCAC
7179540 TTACATGCTTAGCCC
66 TTACATGCTTAGCCC
* * * * * *
7179555 ATAATGTATATGACTAGCTCAGCATATATATCTCATGGCATATATTTTATAGCCTCATAAATCAC
1 ATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAGCCTCATAAATCAC
7179620 TTACATGCTTAGCCC
66 TTACATGCTTAGCCC
*
7179635 ATAGTGTATATGACTATCTCAGCATATACATCTCATGGCATACATTTCATAGCCTCATAAATCAC
1 ATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAGCCTCATAAATCAC
*
7179700 TTACATGCTTAGCCT
66 TTACATGCTTAGCCC
* * *
7179715 ATAGTGTACATGA-TATACTTAACACATACATCTCATGGCATACAT
1 ATAGTGTATATGACTAT-CTCAACATATACATCTCATGGCATACAT
7179760 GTTACAATTT
Statistics
Matches: 261, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 3 0.01
80 258 0.99
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (80 bp):
ATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAGCCTCATAAATCAC
TTACATGCTTAGCCC
Found at i:7184812 original size:36 final size:36
Alignment explanation
Indices: 7184710--7184824 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 36
7184700 AATGGGTTTT
*
7184710 GCTTCATCCCATGAAAAAAC-ATTGTGAGGGTTATC
1 GCTTGATCCCATGAAAAAACTATTGTGAGGGTTATC
* * * * * * * *
7184745 ACTTGAT-TC-TGTTAGAAAGTCGTTGTAAGGGTTATT
1 GCTTGATCCCATG-AAAAAACT-ATTGTGAGGGTTATC
7184781 GCTTGATCCCATGAAAAAACTATTGTGAGGGTTATC
1 GCTTGATCCCATGAAAAAACTATTGTGAGGGTTATC
*
7184817 GTTTGATC
1 GCTTGATC
7184825 TCGTTAAAAA
Statistics
Matches: 57, Mismatches: 18, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
33 2 0.04
34 5 0.09
35 5 0.09
36 37 0.65
37 6 0.11
38 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (36 bp):
GCTTGATCCCATGAAAAAACTATTGTGAGGGTTATC
Found at i:7184823 original size:72 final size:70
Alignment explanation
Indices: 7184703--7184836 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 70
7184693 CATTGCTAAT
*
7184703 GGGTTTTGCTTCATCCCATGAAAAAACATTGTGAGGGTTATCACTTGAT-TCTGTTAGAAAGTCG
1 GGGTTTTGCTTCATCCCATGAAAAAACATTGTGAGGGTTATCACTTGATCTC-GTTAAAAAGTCG
7184767 TTGTAA
65 TTGTAA
* **
7184773 GGGTTATTGCTTGATCCCATGAAAAAACTATTGTGAGGGTTATCGTTTGATCTCGTTAAAAAGT
1 GGGTT-TTGCTTCATCCCATGAAAAAAC-ATTGTGAGGGTTATCACTTGATCTCGTTAAAAAGT
7184837 AAGAATCTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
70 5 0.09
71 21 0.37
72 29 0.51
73 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (70 bp):
GGGTTTTGCTTCATCCCATGAAAAAACATTGTGAGGGTTATCACTTGATCTCGTTAAAAAGTCGT
TGTAA
Found at i:7185036 original size:52 final size:51
Alignment explanation
Indices: 7184980--7185106 Score: 172
Period size: 49 Copynumber: 2.5 Consensus size: 51
7184970 TTTGCCTTTG
* *
7184980 GAAAATATTTTACCTTGATTTATTGTTTATGCTTTGCTTGTATTT-AGCTTAA
1 GAAAATATTTTACCTTGATTTATTATTTATGCTTTGCTTGGATTTGA-CTT-A
*
7185032 GAAAATATTTT---TTTATTTATTATTTATGCTTTGCTTGGATTTGACTTA
1 GAAAATATTTTACCTTGATTTATTATTTATGCTTTGCTTGGATTTGACTTA
7185080 GAAAAATATTTTACCTTGATTTATTAT
1 G-AAAATATTTTACCTTGATTTATTAT
7185107 CTGTTCTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
48 2 0.03
49 41 0.62
50 1 0.02
52 22 0.33
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.53
Consensus pattern (51 bp):
GAAAATATTTTACCTTGATTTATTATTTATGCTTTGCTTGGATTTGACTTA
Found at i:7185371 original size:50 final size:50
Alignment explanation
Indices: 7185291--7185410 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 50
7185281 TCTTCAGAAC
* * * *
7185291 AAGTATCGATACTTAAAAGAAAAAATGCCTTAGG-GAGCATTTTGTGTGAA
1 AAGTATTGATACTTAGAAGAAAAAACGCCTT-GGAGAGCATTTTATGTGAA
*
7185341 AAGTATTGATACTTAGAAGACAAAACGCCTTGGAGAGCATTTTATGTGAA
1 AAGTATTGATACTTAGAAGAAAAAACGCCTTGGAGAGCATTTTATGTGAA
*
7185391 AAATATTGATACTTGAGAAG
1 AAGTATTGATACTT-AGAAG
7185411 GAAGTATCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
49 2 0.03
50 55 0.89
51 5 0.08
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGTATTGATACTTAGAAGAAAAAACGCCTTGGAGAGCATTTTATGTGAA
Found at i:7187332 original size:21 final size:20
Alignment explanation
Indices: 7187288--7187332 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7187278 TTCGTGGATT
* *
7187288 TGGTTTCAAACTAAATTTCA
1 TGGTTTCAAAATAAATTGCA
*
7187308 TGGTTTTAAAATAAATATGCA
1 TGGTTTCAAAATAAAT-TGCA
7187329 TGGT
1 TGGT
7187333 GGTTATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (20 bp):
TGGTTTCAAAATAAATTGCA
Found at i:7194726 original size:17 final size:17
Alignment explanation
Indices: 7194701--7194739 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
7194691 AGTGATAGTC
7194701 AAAAA-TTATGACTAAT
1 AAAAACTTATGACTAAT
*
7194717 AAAAACTTATGTCTAAT
1 AAAAACTTATGACTAAT
7194734 AAAAAC
1 AAAAAC
7194740 CAATAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAACTTATGACTAAT
Found at i:7194855 original size:69 final size:69
Alignment explanation
Indices: 7194726--7194882 Score: 181
Period size: 69 Copynumber: 2.3 Consensus size: 69
7194716 TAAAAACTTA
* * * * *
7194726 TGTCTAAT-AAAAACCAATAGTTATGATTGTTTGAAACAAACAATTGTATCTCTTTCAACCAAAA
1 TGTCTATTGAAAAACCAATAGTTATGACTATTTAAAACAAACAATTGTATCTCGTTCAACCAAAA
7194790 GTCG
66 GTCG
* * * * * *
7194794 TGTCTATTGAAAAACTAATCGTTATGACTATTTAAAACAAACACTTGTATTTGGTTGAACCAAAA
1 TGTCTATTGAAAAACCAATAGTTATGACTATTTAAAACAAACAATTGTATCTCGTTCAACCAAAA
*
7194859 GTGG
66 GTCG
* *
7194863 TGTCTGTTGCAAAACCAATA
1 TGTCTATTGAAAAACCAATA
7194883 TTTGTGTCTA
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
68 7 0.10
69 65 0.90
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (69 bp):
TGTCTATTGAAAAACCAATAGTTATGACTATTTAAAACAAACAATTGTATCTCGTTCAACCAAAA
GTCG
Found at i:7200014 original size:5 final size:5
Alignment explanation
Indices: 7200001--7200040 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
7199991 TAACTCGATA
* *
7200001 TAACC TAACT TAACT TGACT T-ACT TAACT TAACT TAACT T
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT T
7200041 GGGCCACGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:7200095 original size:15 final size:15
Alignment explanation
Indices: 7200075--7200125 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
7200065 TTCTTAAAAC
7200075 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
* *
7200090 AACTTTGAAATCCAA
1 AACTTTAAAATCAAA
*
7200105 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
7200120 ATCTTT
1 AACTTT
7200126 GATCTTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:7213310 original size:19 final size:19
Alignment explanation
Indices: 7213277--7213333 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
7213267 TAATTATATT
*
7213277 AAAAATATGTA-AAAATTA
1 AAAAATATATATAAAATTA
*
7213295 AAAAATATATATAAAAGTA
1 AAAAATATATATAAAATTA
7213314 AAAAATA-ATTAGTAAAATTA
1 AAAAATATA-TA-TAAAATTA
7213334 TTTGTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.33
19 15 0.45
20 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATATATATAAAATTA
Found at i:7215269 original size:13 final size:15
Alignment explanation
Indices: 7215235--7215271 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
7215225 TTATTCTTCT
7215235 AACTTTTTAGATGTA
1 AACTTTTTAGATGTA
*
7215250 AAATTTTTA-AT-TA
1 AACTTTTTAGATGTA
7215263 AACTTTTTA
1 AACTTTTTA
7215272 TAATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 10 0.50
14 2 0.10
15 8 0.40
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (15 bp):
AACTTTTTAGATGTA
Found at i:7217845 original size:2 final size:2
Alignment explanation
Indices: 7217838--7217867 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7217828 ATTTTCAGAA
7217838 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
7217868 CAAATGTTTC
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:7219577 original size:12 final size:12
Alignment explanation
Indices: 7219560--7219585 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7219550 TACTATGGTT
7219560 GGTCGAGGTAGA
1 GGTCGAGGTAGA
7219572 GGTCGAGGTAGA
1 GGTCGAGGTAGA
7219584 GG
1 GG
7219586 CAATCAGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.54, T:0.15
Consensus pattern (12 bp):
GGTCGAGGTAGA
Found at i:7232120 original size:2 final size:2
Alignment explanation
Indices: 7232115--7232141 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7232105 ATACTTGTGT
7232115 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 T
7232142 GGTTTGAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7240782 original size:2 final size:2
Alignment explanation
Indices: 7240770--7240812 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
7240760 TATACTGTTC
* *
7240770 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7240812 T
1 T
7240813 GACTTCTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7240843 original size:21 final size:21
Alignment explanation
Indices: 7240795--7240844 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
7240785 TATATATATA
7240795 TATATGTA-TGTATTATATGAC
1 TATAT-TAGTGTATTATATGAC
*
7240816 T-TCTTAGTGTACTTATA-GAC
1 TATATTAGTGTA-TTATATGAC
7240836 TATATTAGT
1 TATATTAGT
7240845 ATATATTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (21 bp):
TATATTAGTGTATTATATGAC
Found at i:7240973 original size:45 final size:43
Alignment explanation
Indices: 7240907--7240990 Score: 98
Period size: 45 Copynumber: 1.9 Consensus size: 43
7240897 AGTTATACTC
*
7240907 TATATATAATATATATCAATACAATACACATATATTCTATATAGT
1 TATATATAATAAATATCAATACAATACACAT-TATT-TATATAGT
* * *
7240952 TATATATAGTAAATA-CTAATACAGTATACATTATTTATA
1 TATATATAATAAATATC-AATACAATACACATTATTTATA
7240991 GTTATACATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 4 0.12
44 5 0.15
45 25 0.74
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (43 bp):
TATATATAATAAATATCAATACAATACACATTATTTATATAGT
Found at i:7242455 original size:16 final size:17
Alignment explanation
Indices: 7242427--7242458 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7242417 AATTAACTTA
7242427 AGAAAAATAAACTAAAT
1 AGAAAAATAAACTAAAT
7242444 AGAAAAAT-AACTAAA
1 AGAAAAATAAACTAAA
7242459 AATAATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (17 bp):
AGAAAAATAAACTAAAT
Found at i:7246136 original size:24 final size:24
Alignment explanation
Indices: 7246106--7246152 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7246096 GATGTAGATG
* *
7246106 CAGTCAATGCAGTTGGAGATCCAA
1 CAGTCAATGCAATTAGAGATCCAA
7246130 CAGTCAATGCAATTAGAGATCCA
1 CAGTCAATGCAATTAGAGATCCA
7246153 GCGGGCGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
CAGTCAATGCAATTAGAGATCCAA
Found at i:7247759 original size:26 final size:25
Alignment explanation
Indices: 7247721--7247777 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
7247711 CATTATTCTG
*
7247721 TATCATTTCCATAGTATTCTTTGTTA
1 TATCATTTACATAGTATTCTTTG-TA
*
7247747 TATCATTTACATATTATTCTTTGTA
1 TATCATTTACATAGTATTCTTTGTA
7247772 T-TCATT
1 TATCATT
7247778 CATGTGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 21 0.72
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.56
Consensus pattern (25 bp):
TATCATTTACATAGTATTCTTTGTA
Found at i:7248104 original size:23 final size:23
Alignment explanation
Indices: 7248078--7248147 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 23
7248068 TTTAAATCAC
*
7248078 GTCAGTAGTTAATATGGAATCGT
1 GTCAGTAGTAAATATGGAATCGT
* * ** *
7248101 GTCACTAATCCATTTGGAATCGT
1 GTCAGTAGTAAATATGGAATCGT
* *
7248124 GTGAGTTGTAAATATGG-ATCGT
1 GTCAGTAGTAAATATGGAATCGT
7248146 GT
1 GT
7248148 GAACCGTTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
22 7 0.20
23 28 0.80
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (23 bp):
GTCAGTAGTAAATATGGAATCGT
Found at i:7248205 original size:70 final size:70
Alignment explanation
Indices: 7248131--7248281 Score: 248
Period size: 70 Copynumber: 2.2 Consensus size: 70
7248121 CGTGTGAGTT
** *
7248131 GTAAATATGGATCGTGTGAACCGTTAAGATTTAGAATCGTGTGAGTATTTGATATTGACTCCCAT
1 GTAAATATGGATCACGTGAACCGTTAAGATTTAGAATCGTGTGAGTATTTAATATTGACTCCCAT
7248196 TAGTA
66 TAGTA
* * *
7248201 GTAAATATGGATCACGTGAACTGTTAAGATTTAGAATTGTGTGAGTATTTAATATTGACTCCCGT
1 GTAAATATGGATCACGTGAACCGTTAAGATTTAGAATCGTGTGAGTATTTAATATTGACTCCCAT
7248266 TAGTA
66 TAGTA
7248271 GTAAATATGGA
1 GTAAATATGGA
7248282 GTGGCGTTAC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (70 bp):
GTAAATATGGATCACGTGAACCGTTAAGATTTAGAATCGTGTGAGTATTTAATATTGACTCCCAT
TAGTA
Found at i:7248466 original size:23 final size:22
Alignment explanation
Indices: 7248439--7248519 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
7248429 GAGTAGAAAA
*
7248439 ATGGAGTCGCGTGATTAGCTATT
1 ATGGAGTCGCGTGACTAG-TATT
* * *
7248462 ATGGAATTGCGTTACTAGT-TGAT
1 ATGGAGTCGCGTGACTAGTAT--T
*
7248485 ATGGAGTCGCGTGAGTAGTATAT
1 ATGGAGTCGCGTGACTAGTAT-T
*
7248508 ATGGAGTGGCGT
1 ATGGAGTCGCGT
7248520 TACGAATTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 43 0.93
24 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
ATGGAGTCGCGTGACTAGTATT
Found at i:7248585 original size:23 final size:23
Alignment explanation
Indices: 7248536--7248592 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
7248526 TTCTTATTGA
* *
7248536 ATCGCATGACTAGATGATATGGG
1 ATCGCGTGACTAGATGATATGGC
* * *
7248559 ATCGCGTGACTAGTTGATCTTGC
1 ATCGCGTGACTAGATGATATGGC
*
7248582 ATCGTGTGACT
1 ATCGCGTGACT
7248593 CACCTATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCGCGTGACTAGATGATATGGC
Found at i:7249277 original size:22 final size:22
Alignment explanation
Indices: 7249249--7249297 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
7249239 TGGAAGGGTC
7249249 GTCTCTTCCCGTAATGCAACTT
1 GTCTCTTCCCGTAATGCAACTT
7249271 GTCTCTTCCCGTAATGCAACTT
1 GTCTCTTCCCGTAATGCAACTT
7249293 GTCTC
1 GTCTC
7249298 ATTCTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.33, G:0.14, T:0.37
Consensus pattern (22 bp):
GTCTCTTCCCGTAATGCAACTT
Found at i:7253867 original size:118 final size:116
Alignment explanation
Indices: 7253692--7254050 Score: 478
Period size: 118 Copynumber: 3.1 Consensus size: 116
7253682 ACAAGAGGCA
* ** *
7253692 AATTGCACAAGTCATGCACCACCGCTCTCGCAATATATAACAACAGGTCACGTAATATATAAAAT
1 AATTGCACAAGTCACGTGCCACCACTCTCGCAATA-ATAACAACAGGTCACGTAATATATAAAA-
* * *
7253757 TCAGTCACGTAAGCCTTAAAAACTATTGAACAAAAGCCTCAAAAGAACACATG
64 ACAGTCACGTAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
* *
7253810 AATTGCACAAGTCACGTGCCACCACTCTTGCAATAAATAACAACAGGTCACGCAATATATAAAAA
1 AATTGCACAAGTCACGTGCCACCACTCTCGCAAT-AATAACAACAGGTCACGTAATATATAAAAA
* *
7253875 CCAGTCATGCAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
65 -CAGTCACGTAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
*
7253928 AATTGCACAAGTCACGTGCCACCACTCTCGC-----T-ACAACAGGTAACGTAATATATAAAAAC
1 AATTGCACAAGTCACGTGCCACCACTCTCGCAATAATAACAACAGGTCACGTAATATATAAAAAC
* * * *
7253987 TAGTCACGTAAGCCTAAAAAACTACTGAACAAATGCCTCAAAATAACACATA
66 -AGTCACGTAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
*
7254039 AATTGTACAAGT
1 AATTGCACAAGT
7254051 TAGTCACGCA
Statistics
Matches: 217, Mismatches: 21, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
110 1 0.00
111 80 0.37
112 1 0.00
118 134 0.62
119 1 0.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.20
Consensus pattern (116 bp):
AATTGCACAAGTCACGTGCCACCACTCTCGCAATAATAACAACAGGTCACGTAATATATAAAAAC
AGTCACGTAAGCCTAAAAAACTATTGAACAAAAGCCTCAAAACAACACATG
Found at i:7253886 original size:22 final size:22
Alignment explanation
Indices: 7253838--7253886 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7253828 CCACCACTCT
*
7253838 TGCAATAAATAACAACAGGTCA
1 TGCAATAAATAAAAACAGGTCA
* *
7253860 CGCAATATATAAAAACCA-GTCA
1 TGCAATAAATAAAAA-CAGGTCA
7253882 TGCAA
1 TGCAA
7253887 GCCTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.18
Consensus pattern (22 bp):
TGCAATAAATAAAAACAGGTCA
Found at i:7255443 original size:26 final size:26
Alignment explanation
Indices: 7255413--7255462 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7255403 CCTACAAACA
7255413 AGTCACACAATGCTCAACAAATATGC
1 AGTCACACAATGCTCAACAAATATGC
**
7255439 AGTCACGTAATGCTCAACAAATAT
1 AGTCACACAATGCTCAACAAATAT
7255463 TTAGTCACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (26 bp):
AGTCACACAATGCTCAACAAATATGC
Found at i:7255468 original size:26 final size:26
Alignment explanation
Indices: 7255421--7255477 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
7255411 CAAGTCACAC
7255421 AATGCTCAACAAATATGCAGTCACGT
1 AATGCTCAACAAATATGCAGTCACGT
**
7255447 AATGCTCAACAAATATTTAGTCACGT
1 AATGCTCAACAAATATGCAGTCACGT
7255473 AATGC
1 AATGC
7255478 CTATAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (26 bp):
AATGCTCAACAAATATGCAGTCACGT
Found at i:7255500 original size:48 final size:48
Alignment explanation
Indices: 7255441--7255629 Score: 162
Period size: 48 Copynumber: 3.8 Consensus size: 48
7255431 AAATATGCAG
* *
7255441 TCACGTAATGCTCAACAAATATTTAGTCACGTAATGCCTATAAAGAAC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* * * * ****
7255489 TCACGCAATGCTCAACAAATATTCAGTCAGGCAATATTTAGTCGTGTAATACTTG
1 TCACGCAATGCTCAACAAATATTCAGTCA--C-GTA-AT-G-CCTATAA-AGAAC
* * * * *
7255544 TCACGCAACGCTCAACATATATTTAATCACGTAATGCTTATAAAGAAC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* *
7255592 TCACGCAATGCTCAACAAATATTCAGGCACCTAATGCC
1 TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCC
7255630 AAATAAACAG
Statistics
Matches: 105, Mismatches: 29, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
48 59 0.56
49 5 0.05
50 2 0.02
51 3 0.03
52 3 0.03
53 2 0.02
54 5 0.05
55 26 0.25
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (48 bp):
TCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
Found at i:7255672 original size:18 final size:18
Alignment explanation
Indices: 7255649--7255684 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7255639 GGTAACAATT
7255649 CCTAATATCCAGTCACAC
1 CCTAATATCCAGTCACAC
*
7255667 CCTAATATCCAGTGACAC
1 CCTAATATCCAGTCACAC
7255685 AATGCCTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.36, G:0.08, T:0.22
Consensus pattern (18 bp):
CCTAATATCCAGTCACAC
Found at i:7255692 original size:22 final size:20
Alignment explanation
Indices: 7255643--7255693 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 20
7255633 TAAACAGGTA
*
7255643 ACAATTCCTAATATCCAGTC
1 ACAATCCCTAATATCCAGTC
7255663 AC-A-CCCTAATATCCAGTGAC
1 ACAATCCCTAATATCCAGT--C
*
7255683 ACAATGCCTAA
1 ACAATCCCTAA
7255694 CCAATATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 13 0.52
19 1 0.04
20 5 0.20
21 1 0.04
22 5 0.20
ACGTcount: A:0.37, C:0.31, G:0.08, T:0.24
Consensus pattern (20 bp):
ACAATCCCTAATATCCAGTC
Found at i:7258606 original size:2 final size:2
Alignment explanation
Indices: 7258599--7258640 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7258589 ACTATATTAC
7258599 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
7258641 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7258658 original size:2 final size:2
Alignment explanation
Indices: 7258653--7258703 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7258643 NNNNNNNNNN
7258653 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
7258695 TA TA TA TA T
1 TA TA TA TA T
7258704 GTTATAAGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7259494 original size:10 final size:10
Alignment explanation
Indices: 7259479--7259527 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
7259469 ATTTTATATT
7259479 ATATATATAC
1 ATATATATAC
7259489 ATATATATAC
1 ATATATATAC
* *
7259499 ATACACATAC
1 ATATATATAC
**
7259509 ATGCATATAC
1 ATATATATAC
*
7259519 ATATGTATA
1 ATATATATA
7259528 TGTATACTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (10 bp):
ATATATATAC
Found at i:7261615 original size:18 final size:18
Alignment explanation
Indices: 7261578--7261619 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7261568 CTCAAGGAAG
* *
7261578 AGGAAGAAAAAGATAGGA
1 AGGAAGAAAAAGAAAAGA
*
7261596 AGGAAGCAAAAGAAAAGA
1 AGGAAGAAAAAGAAAAGA
7261614 A-GAAGA
1 AGGAAGA
7261620 GCATTGCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (18 bp):
AGGAAGAAAAAGAAAAGA
Found at i:7262245 original size:21 final size:20
Alignment explanation
Indices: 7262221--7262277 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
7262211 AATATTCTGC
*
7262221 AAATTGAATTGGAACATTCAA
1 AAATTGAATTGGAA-ACTCAA
* * * *
7262242 AAATAGATTTTGAAACTCTA
1 AAATTGAATTGGAAACTCAA
7262262 AAATTGGAATTGGAAA
1 AAATT-GAATTGGAAA
7262278 GCAAAACTGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (20 bp):
AAATTGAATTGGAAACTCAA
Found at i:7271257 original size:16 final size:17
Alignment explanation
Indices: 7271227--7271269 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
7271217 AAGTAAAATA
*
7271227 AGCACACACTAAAGGAG-
1 AGCACATACTAAAGG-GC
7271244 AGCACATACT-AAGGGC
1 AGCACATACTAAAGGGC
7271260 AGCACATACT
1 AGCACATACT
7271270 TAGGGGGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 14 0.58
17 9 0.38
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (17 bp):
AGCACATACTAAAGGGC
Found at i:7271274 original size:16 final size:16
Alignment explanation
Indices: 7271244--7271274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7271234 ACTAAAGGAG
7271244 AGCACATACTAAGGGC
1 AGCACATACTAAGGGC
*
7271260 AGCACATACTTAGGG
1 AGCACATACTAAGGG
7271275 GGAGGAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (16 bp):
AGCACATACTAAGGGC
Found at i:7279808 original size:35 final size:35
Alignment explanation
Indices: 7279765--7279893 Score: 99
Period size: 35 Copynumber: 3.8 Consensus size: 35
7279755 TCCCACCAAG
*
7279765 CTTT-ACAATGGCTTTTCACAGGCTCAGTCACAAC
1 CTTTAACAATGGCTTTTCACAGGCTCAATCACAAC
* * * * *
7279799 CTTTAACAATGG-TTTTTACCGGGATAAATCAAAATC
1 CTTTAACAATGGCTTTTCA-CAGGCTCAATCACAA-C
* * *
7279835 C---AA-AGTGGCTTTTCAAAGGCTCAACCACAAC
1 CTTTAACAATGGCTTTTCACAGGCTCAATCACAAC
* *
7279866 CTTTAACAATGGTTTTTCACAGGATCAA
1 CTTTAACAATGGCTTTTCACAGGCTCAA
7279894 CCAAAACCCA
Statistics
Matches: 69, Mismatches: 18, Indels: 15
0.68 0.18 0.15
Matches are distributed among these distances:
31 2 0.03
32 13 0.19
33 7 0.10
34 11 0.16
35 34 0.49
36 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (35 bp):
CTTTAACAATGGCTTTTCACAGGCTCAATCACAAC
Found at i:7279899 original size:67 final size:67
Alignment explanation
Indices: 7279773--7279905 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 67
7279763 AGCTTTACAA
* ** * * *
7279773 TGGCTTTTCACAGGCTCAGTCACAACCTTTAACAATGGTTTTTACCGGGATAAATCAAAATCCAA
1 TGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTACCAGGATAAACCAAAACCCAA
7279838 AG
66 AG
*
7279840 TGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTT-CACAGGATCAACCAAAACCCA
1 TGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTAC-CAGGATAAACCAAAACCCA
7279904 AA
65 AA
7279906 ACTAACTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (67 bp):
TGGCTTTTCAAAGGCTCAACCACAACCTTTAACAATGGTTTTTACCAGGATAAACCAAAACCCAA
AG
Found at i:7280398 original size:73 final size:74
Alignment explanation
Indices: 7280292--7280476 Score: 216
Period size: 74 Copynumber: 2.5 Consensus size: 74
7280282 GGTAGAATGA
* * *
7280292 TCTTAGTCAACTAACATACGTCTTAGTCAATTAAGTCTC-CTCTGTCTCTG-AATTCA-ATTTCT
1 TCTTAGTCAACTAACATACTTCTTAGTCGATTAAGTCTCTCTCTGTCT-TGTAATCCAGATTTCT
*
7280354 GGCAATAAGC
65 GACAATAAGC
* * *
7280364 TCTTAGGCAACTAACAATGCTTCTTAGTCGATTAAGT-TCTTTCTGTCTTGTAATCCAGATTTCT
1 TCTTAGTCAACTAAC-ATACTTCTTAGTCGATTAAGTCTCTCTCTGTCTTGTAATCCAGATTTCT
* *
7280428 GACAGTAGGC
65 GACAATAAGC
* *
7280438 TCTTAGTCAACTAACCATCCTTCTTAGTCGACTAAGTCT
1 TCTTAGTCAACTAA-CATACTTCTTAGTCGATTAAGTCT
7280477 TTTTTGTTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
72 18 0.19
73 30 0.32
74 45 0.47
75 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (74 bp):
TCTTAGTCAACTAACATACTTCTTAGTCGATTAAGTCTCTCTCTGTCTTGTAATCCAGATTTCTG
ACAATAAGC
Found at i:7281777 original size:21 final size:21
Alignment explanation
Indices: 7281753--7281819 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
7281743 TTGGAAAAAT
7281753 TGTATCGATATATTATGAACA
1 TGTATCGATATATTATGAACA
* * ** *
7281774 TGTATCGATGTATGA-CCATA
1 TGTATCGATATATTATGAACA
* *
7281794 TGTATCAATACATTATGAACA
1 TGTATCGATATATTATGAACA
7281815 TGTAT
1 TGTAT
7281820 GAATTCATTT
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATCGATATATTATGAACA
Found at i:7281828 original size:21 final size:20
Alignment explanation
Indices: 7281793--7281832 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7281783 GTATGACCAT
7281793 ATGTATCAATACATTATGAAC
1 ATGTATCAATACATT-TGAAC
* *
7281814 ATGTATGAATTCATTTGAA
1 ATGTATCAATACATTTGAA
7281833 ATAGAATGCT
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:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCAATACATTTGAAC
Found at i:7282331 original size:21 final size:21
Alignment explanation
Indices: 7282289--7282331 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7282279 TAAAATTTAA
* * *
7282289 AATATACTTTATTTAGACATT
1 AATATAATTTATATAAACATT
*
7282310 AATATAATTTATATAAATATT
1 AATATAATTTATATAAACATT
7282331 A
1 A
7282332 TTTATACATA
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:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
AATATAATTTATATAAACATT
Found at i:7282450 original size:16 final size:16
Alignment explanation
Indices: 7282429--7282459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7282419 CACTTATTAA
7282429 TTATATTAACTTATTT
1 TTATATTAACTTATTT
*
7282445 TTATATTAAGTTATT
1 TTATATTAACTTATT
7282460 AACATATTAT
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:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATATTAACTTATTT
Found at i:7287425 original size:25 final size:25
Alignment explanation
Indices: 7287380--7287449 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
7287370 TTTTATTTTT
* *
7287380 TAAATATTTATAATTTATAATTTAAT-
1 TAAATATTAAT-ATTT-TAATATAATA
7287406 TAAAATATTAATATTTTAATATAATA
1 T-AAATATTAATATTTTAATATAATA
*
7287432 TAATTATTAATATTTTAA
1 TAAATATTAATATTTTAA
7287450 ATATTAGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 24 0.62
26 6 0.15
27 9 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TAAATATTAATATTTTAATATAATA
Found at i:7287434 original size:42 final size:41
Alignment explanation
Indices: 7287388--7287512 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 41
7287378 TTTAAATATT
*
7287388 TATAATTTATAATTTAATTAAAATATTAATATTTTAATATAA
1 TATAATTTATAATTT-ATTAAAATATTAGTATTTTAATATAA
*
7287430 TATAA-TTATTAATATT-TT-AAATATTAGTATTTTATTTATAA
1 TATAATTTA-TAAT-TTATTAAAATATTAGTATTTTA-ATATAA
* * *
7287471 TTTAATATTATTA-TGATTAAAATATTAGTAATTTTAAT-TAA
1 TATAAT-TTATAATTTATTAAAATATTAGT-ATTTTAATATAA
7287512 T
1 T
7287513 TTCCAATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
40 16 0.23
41 20 0.29
42 22 0.32
43 11 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (41 bp):
TATAATTTATAATTTATTAAAATATTAGTATTTTAATATAA
Found at i:7287827 original size:16 final size:16
Alignment explanation
Indices: 7287802--7287835 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7287792 ATTTAATAAA
7287802 TAAAACATTAATATTT
1 TAAAACATTAATATTT
* *
7287818 TAAAATATTAATTTTT
1 TAAAACATTAATATTT
7287834 TA
1 TA
7287836 TAATTCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAAACATTAATATTT
Found at i:7290141 original size:19 final size:19
Alignment explanation
Indices: 7290117--7290153 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7290107 TGGACTAATT
*
7290117 TTTTTTTCTTGGGTCTAAA
1 TTTTTTTCGTGGGTCTAAA
*
7290136 TTTTTTTGGTGGGTCTAA
1 TTTTTTTCGTGGGTCTAA
7290154 TCTGGGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.22, T:0.57
Consensus pattern (19 bp):
TTTTTTTCGTGGGTCTAAA
Found at i:7290587 original size:31 final size:31
Alignment explanation
Indices: 7290552--7290614 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
7290542 TTAAAAAAAT
7290552 TAAAT-TTAATATTAAATAAATAT-TTTATATA
1 TAAATATTAATA-TAAATAAATATCTTT-TATA
* *
7290583 TAAATATTTATATATATAAATATCTTTTATA
1 TAAATATTAATATAAATAAATATCTTTTATA
7290614 T
1 T
7290615 TATATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
TAAATATTAATATAAATAAATATCTTTTATA
Found at i:7290598 original size:16 final size:15
Alignment explanation
Indices: 7290567--7290614 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
7290557 TTAATATTAA
7290567 ATAAATATTTTATAT
1 ATAAATATTTTATAT
7290582 ATAAATATTTATATAT
1 ATAAATATTT-TATAT
7290598 ATAAATATCTTT-TAT
1 ATAAATAT-TTTATAT
7290613 AT
1 AT
7290615 TATATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.48
16 14 0.45
17 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAAATATTTTATAT
Found at i:7303452 original size:25 final size:24
Alignment explanation
Indices: 7303373--7303455 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
7303363 ATGTTCATAA
*
7303373 CATGTTTTGAACTTACGTGCCTCAT
1 CATGTTTTGAAC-TACATGCCTCAT
** * *
7303398 CACCTTTTGAAACCACATGCTTCA-
1 CATGTTTTG-AACTACATGCCTCAT
*
7303422 CTATGTTTTGAATCTACTTGCCTCAT
1 C-ATGTTTTGAA-CTACATGCCTCAT
7303448 CATGTTTT
1 CATGTTTT
7303456 ATACATGCCT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
24 3 0.07
25 37 0.84
26 4 0.09
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (24 bp):
CATGTTTTGAACTACATGCCTCAT
Done.