Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 576 of 770
Found at i:179615643 original size:39 final size:38
Alignment explanation
Indices: 179615537--179615648 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
179615527 ATAATCACGT
* * *
179615537 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
179615577 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
179615616 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
179615649 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:179615670 original size:79 final size:78
Alignment explanation
Indices: 179615537--179615686 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
179615527 ATAATCACGT
*
179615537 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
179615602 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
179615616 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
179615679 CCGGATAT
64 CCGGATAT
179615687 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:179616534 original size:17 final size:19
Alignment explanation
Indices: 179616511--179616556 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
179616501 AAGAAGCATG
179616511 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
179616529 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
179616547 AATCATGCTC
1 AATCATGCTC
179616557 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:179621989 original size:27 final size:27
Alignment explanation
Indices: 179621570--179621989 Score: 527
Period size: 27 Copynumber: 15.7 Consensus size: 27
179621560 CCAAAGTACT
*
179621570 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621597 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
*
179621624 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621651 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
*
179621678 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621705 CTCGATTTATA-AATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621731 CT-GATTTTA-A-AATTACCGTTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
*
179621756 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621783 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
*
179621810 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* * **
179621837 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACTGTTTTACC
* *
179621864 C-CGATTTACATAATTA-TCATTTTACC
1 CTCGATTTACAGAATTACT-GTTTTACC
**
179621890 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621917 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621944 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
179621971 CTCGATTTACAAAATTACT
1 CTCGATTTACAGAATTACT
179621990 AAAATACCCT
Statistics
Matches: 348, Mismatches: 31, Indels: 28
0.86 0.08 0.07
Matches are distributed among these distances:
25 23 0.07
26 50 0.14
27 272 0.78
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTGTTTTACC
Found at i:179623328 original size:9 final size:9
Alignment explanation
Indices: 179623316--179623392 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
179623306 TTTGATAAAC
179623316 ATGATATGT
1 ATGATATGT
*
179623325 ATGATATGCAC
1 ATGATATG--T
179623336 ATGATATGT
1 ATGATATGT
*
179623345 ATGATATGCAC
1 ATGATATG--T
*
179623356 ATGACATGT
1 ATGATATGT
*
179623365 ATGATATGCAC
1 ATGATATG--T
179623376 ATGATATGT
1 ATGATATGT
179623385 ATGATATG
1 ATGATATG
179623393 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:179623341 original size:11 final size:11
Alignment explanation
Indices: 179623325--179623396 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
179623315 CATGATATGT
179623325 ATGATATGCAC
1 ATGATATGCAC
*
179623336 ATGATATG--T
1 ATGATATGCAC
179623345 ATGATATGCAC
1 ATGATATGCAC
* *
179623356 ATGACATG--T
1 ATGATATGCAC
179623365 ATGATATGCAC
1 ATGATATGCAC
*
179623376 ATGATATG--T
1 ATGATATGCAC
179623385 ATGATATGCAC
1 ATGATATGCAC
179623396 A
1 A
179623397 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:179623404 original size:20 final size:20
Alignment explanation
Indices: 179623314--179623396 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
179623304 ATTTTGATAA
179623314 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
179623334 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
179623354 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
179623374 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
179623394 ACA
1 ACA
179623397 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:179623507 original size:24 final size:24
Alignment explanation
Indices: 179623451--179623639 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
179623441 GAGGAAGTGA
179623451 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
179623474 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
179623498 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
179623522 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
179623546 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
179623569 TAAA-GGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
179623592 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
179623616 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
179623640 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
22 17 0.11
23 28 0.19
24 95 0.63
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:179623601 original size:70 final size:71
Alignment explanation
Indices: 179623450--179623639 Score: 269
Period size: 70 Copynumber: 2.7 Consensus size: 71
179623440 GGAGGAAGTG
* *
179623450 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
179623515 AGTTAT
66 AGTTAT
* *
179623521 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAA-GGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
179623584 CAGTTAT
65 CAGTTAT
* *
179623591 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
179623640 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
70 49 0.45
71 38 0.35
72 21 0.19
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:179623866 original size:31 final size:31
Alignment explanation
Indices: 179623831--179623894 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
179623821 CGTTTACCGT
*
179623831 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
179623862 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
179623893 AA
1 AA
179623895 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:179626754 original size:27 final size:27
Alignment explanation
Indices: 179626719--179627166 Score: 566
Period size: 27 Copynumber: 16.7 Consensus size: 27
179626709 CCAAAGTACT
*
179626719 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
179626746 CTC-AGTTTACAGAATTACAATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
179626773 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
179626800 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
179626827 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
179626854 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
179626881 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
179626908 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
179626935 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
179626962 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
179626989 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACCGTTTTACC
* *
179627016 C-CGATTTACATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
179627042 CTCGATTTACA-AATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
179627068 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
179627095 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
179627122 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
179627149 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
179627167 TAAAATACCC
Statistics
Matches: 372, Mismatches: 40, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
26 50 0.13
27 319 0.86
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:179628501 original size:9 final size:9
Alignment explanation
Indices: 179628489--179628565 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
179628479 TTTGATAAAC
179628489 ATGATATGT
1 ATGATATGT
*
179628498 ATGATATGCAC
1 ATGATATG--T
179628509 ATGATATGT
1 ATGATATGT
*
179628518 ATGATATGCAC
1 ATGATATG--T
*
179628529 ATGACATGT
1 ATGATATGT
*
179628538 ATGATATGCAC
1 ATGATATG--T
179628549 ATGATATGT
1 ATGATATGT
179628558 ATGATATG
1 ATGATATG
179628566 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:179628514 original size:11 final size:11
Alignment explanation
Indices: 179628498--179628569 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
179628488 CATGATATGT
179628498 ATGATATGCAC
1 ATGATATGCAC
*
179628509 ATGATATG--T
1 ATGATATGCAC
179628518 ATGATATGCAC
1 ATGATATGCAC
* *
179628529 ATGACATG--T
1 ATGATATGCAC
179628538 ATGATATGCAC
1 ATGATATGCAC
*
179628549 ATGATATG--T
1 ATGATATGCAC
179628558 ATGATATGCAC
1 ATGATATGCAC
179628569 A
1 A
179628570 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:179628577 original size:20 final size:20
Alignment explanation
Indices: 179628487--179628569 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
179628477 ATTTTGATAA
179628487 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
179628507 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
179628527 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
179628547 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
179628567 ACA
1 ACA
179628570 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:179628680 original size:24 final size:24
Alignment explanation
Indices: 179628624--179628813 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
179628614 GAGGAAGTGA
179628624 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
179628647 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
179628671 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
179628695 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
179628719 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
179628742 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
179628766 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
179628790 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
179628814 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
23 43 0.28
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:179628693 original size:47 final size:47
Alignment explanation
Indices: 179628624--179628792 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
179628614 GAGGAAGTGA
179628624 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
179628671 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
179628719 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
179628766 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
179628793 AGAGGCTAGG
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.61
48 45 0.39
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:179628747 original size:71 final size:71
Alignment explanation
Indices: 179628623--179628813 Score: 278
Period size: 71 Copynumber: 2.7 Consensus size: 71
179628613 GGAGGAAGTG
* *
179628623 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
179628688 AGTTAT
66 AGTTAT
* *
179628694 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
179628758 CAGTTAT
65 CAGTTAT
* *
179628765 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
179628814 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:179629042 original size:31 final size:31
Alignment explanation
Indices: 179629007--179629070 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
179628997 CGTTTACCGT
*
179629007 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
179629038 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
179629069 AA
1 AA
179629071 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:179631149 original size:31 final size:31
Alignment explanation
Indices: 179631108--179631171 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
179631098 CCTTTTCATA
*
179631108 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
179631139 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
179631170 TT
1 TT
179631172 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:179631418 original size:24 final size:24
Alignment explanation
Indices: 179631385--179631507 Score: 187
Period size: 24 Copynumber: 5.2 Consensus size: 24
179631375 GGCCTTGCCT
* *
179631385 CTTTTAATAACTAGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
179631409 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
179631433 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
179631456 CTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
179631480 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
179631503 CTTTT
1 CTTTT
179631508 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 43 0.48
24 46 0.52
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:179631442 original size:47 final size:47
Alignment explanation
Indices: 179631387--179631508 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
179631377 CCTTGCCTCT
* * *
179631387 TTTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCC
*
179631434 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCC
179631481 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
179631509 CACTTCCTCC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCC
Found at i:179631445 original size:23 final size:23
Alignment explanation
Indices: 179631387--179631506 Score: 177
Period size: 23 Copynumber: 5.1 Consensus size: 23
179631377 CCTTGCCTCT
* *
179631387 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
179631410 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
179631434 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
179631457 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
179631481 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
179631504 TTT
1 TTT
179631507 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
23 46 0.53
24 41 0.47
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:179631579 original size:9 final size:9
Alignment explanation
Indices: 179631565--179631617 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
179631555 ACATCATGTG
179631565 CATATCATA
1 CATATCATA
*
179631574 CATATCATGTG
1 CATATCA--TA
179631585 CATATCATA
1 CATATCATA
*
179631594 CATGTCATGTA
1 CATATCA--TA
179631605 CATATCATA
1 CATATCATA
179631614 CATA
1 CATA
179631618 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:179631582 original size:20 final size:20
Alignment explanation
Indices: 179631557--179631623 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
179631547 TTATGAATAC
179631557 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
179631577 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
179631597 GTCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
*
179631617 ACCATGT
1 ATCATGT
179631624 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:179631606 original size:11 final size:11
Alignment explanation
Indices: 179631557--179631612 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
179631547 TTATGAATAC
*
179631557 ATCATGTGCAT
1 ATCATGTACAT
179631568 ATCA--TACAT
1 ATCATGTACAT
*
179631577 ATCATGTGCAT
1 ATCATGTACAT
179631588 ATCA--TACAT
1 ATCATGTACAT
*
179631597 GTCATGTACAT
1 ATCATGTACAT
179631608 ATCAT
1 ATCAT
179631613 ACATACCATG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:179637560 original size:40 final size:40
Alignment explanation
Indices: 179637505--179637714 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
179637495 AACATTGGAA
179637505 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
179637545 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
179637585 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
179637625 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
179637664 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
179637705 CTATATCCGG
1 ATATATCCGG
179637715 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:179644282 original size:40 final size:40
Alignment explanation
Indices: 179644178--179644305 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
179644168 CGGAATATAA
** *
179644178 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* * * *
179644218 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
179644258 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
179644298 CCGGATAT
1 CCGGATAT
179644306 CATTCAATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:179652278 original size:12 final size:12
Alignment explanation
Indices: 179652261--179652288 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
179652251 CATATGCCCG
179652261 TGTGCTAGGTCA
1 TGTGCTAGGTCA
179652273 TGTGCTAGGTCA
1 TGTGCTAGGTCA
179652285 TGTG
1 TGTG
179652289 AAAACTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (12 bp):
TGTGCTAGGTCA
Found at i:179658352 original size:38 final size:38
Alignment explanation
Indices: 179658301--179658543 Score: 180
Period size: 38 Copynumber: 5.9 Consensus size: 38
179658291 GGAATAAAAA
179658301 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* *
179658339 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATATATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTT----ATA-CG-----TGT
* * * *
179658387 AACGTGGTGCTAATTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-CG--T--GT
* *
179658434 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* * * *
179658472 AACGTGGTGCTAAGTGGATATGCCACGATTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* * *
179658510 AACGTAGTGCTAAGTGGATATGCCGCGGTTATAC
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAC
179658544 ATGTTAATTT
Statistics
Matches: 169, Mismatches: 20, Indels: 32
0.76 0.09 0.14
Matches are distributed among these distances:
38 96 0.57
40 1 0.01
42 3 0.02
43 4 0.02
45 1 0.01
46 1 0.01
47 27 0.16
48 34 0.20
49 1 0.01
52 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
Found at i:179658460 original size:47 final size:48
Alignment explanation
Indices: 179658336--179658469 Score: 200
Period size: 48 Copynumber: 2.8 Consensus size: 48
179658326 CGGTTATACG
*
179658336 TGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATATA
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATATA
* * *
179658384 TGTAACGTGGTGCTAATTGGATATGCCACGGTTACATATATTGAT-TCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATAT-A
*
179658432 T-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
179658470 GTAACGTGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
47 34 0.44
48 43 0.56
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATATA
Found at i:179658546 original size:38 final size:38
Alignment explanation
Indices: 179658433--179658547 Score: 185
Period size: 38 Copynumber: 3.0 Consensus size: 38
179658423 ATTGATTCAT
*
179658433 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATG
*
179658471 TAACGTGGTGCTAAGTGGATATGCCACGATTAAACATG
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATG
* * *
179658509 TAACGTAGTGCTAAGTGGATATGCCGCGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATG
179658547 T
1 T
179658548 TAATTTGAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATGCCACGGTTAAACATG
Found at i:179665066 original size:14 final size:14
Alignment explanation
Indices: 179665047--179665073 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
179665037 ACCCTAGCTC
179665047 TTCCTGCCACGCCG
1 TTCCTGCCACGCCG
179665061 TTCCTGCCACGCC
1 TTCCTGCCACGCC
179665074 CGTGCGCCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.52, G:0.19, T:0.22
Consensus pattern (14 bp):
TTCCTGCCACGCCG
Found at i:179668207 original size:39 final size:39
Alignment explanation
Indices: 179668153--179668304 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
179668143 GAATGTTCGA
* *
179668153 GTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
179668192 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
179668231 ATGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
179668270 GTGATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
179668305 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 96 0.91
40 9 0.09
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:179668320 original size:39 final size:39
Alignment explanation
Indices: 179668154--179668335 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
179668144 AATGTTCGAG
* * *
179668154 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
179668193 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
179668232 TGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
179668271 TGATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
179668310 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
179668336 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 119 0.93
40 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:179668356 original size:79 final size:78
Alignment explanation
Indices: 179668163--179668373 Score: 203
Period size: 78 Copynumber: 2.7 Consensus size: 78
179668153 GTGATATCCA
** * * *
179668163 GGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA
1 GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGA
** *
179668228 GCTATGATATCCG
66 GCTACCATAACCG
* ** *
179668241 GGTTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCG
* *
179668305 GGTTACCATAACCG
65 AGCTACCATAACCG
* ** *
179668319 GGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 GGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
179668374 TATGTGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 78 0.69
79 33 0.29
80 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
GGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGA
GCTACCATAACCG
Found at i:179676275 original size:39 final size:39
Alignment explanation
Indices: 179676221--179676373 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
179676211 GAATGTTCGA
*
179676221 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
179676260 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
179676299 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
179676338 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
179676374 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:179676389 original size:40 final size:39
Alignment explanation
Indices: 179676222--179676403 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
179676212 AATGTTCGAG
* *
179676222 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
179676261 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
179676300 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
179676339 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
179676379 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
179676404 TGTTTGAACG
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:179680434 original size:38 final size:39
Alignment explanation
Indices: 179680382--179680524 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
179680372 GAATGTTCGA
179680382 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
179680421 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
179680459 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
179680498 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
179680525 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:179680470 original size:77 final size:79
Alignment explanation
Indices: 179680383--179680564 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
179680373 AATGTTCGAG
179680383 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
179680446 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
179680460 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
179680525 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
179680539 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
179680565 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:179686944 original size:37 final size:36
Alignment explanation
Indices: 179686894--179686980 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
179686884 TACGAAGTCT
179686894 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
179686930 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
179686967 TCACCCGGAACATA
1 T-ACCCGG-ACATA
179686981 TTTCAAGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:179687125 original size:49 final size:49
Alignment explanation
Indices: 179687054--179687261 Score: 344
Period size: 49 Copynumber: 4.2 Consensus size: 49
179687044 ACATAGATAT
179687054 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
*
179687103 ATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
*
179687152 ATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
* * * * *
179687201 ATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
*
179687250 ATACATTTTCAC
1 ATACACTTTCAC
179687262 GAATCTTGAT
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 149 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
Found at i:179692612 original size:39 final size:39
Alignment explanation
Indices: 179692558--179692701 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
179692548 GAATGTTCGA
179692558 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
179692597 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
179692636 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
179692675 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
179692702 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:179692648 original size:78 final size:79
Alignment explanation
Indices: 179692559--179692741 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
179692549 AATGTTCGAG
179692559 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
179692623 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
179692637 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
179692702 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
179692716 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
179692742 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:179695435 original size:29 final size:28
Alignment explanation
Indices: 179695369--179695435 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
179695359 AAGTCTACAT
* * *
179695369 ACATGCATATGGCTCACTAGGTCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
* * *
179695397 TCATTGATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
179695426 ACATTCATAT
1 ACATTCATAT
179695436 TCATGCTTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:179698215 original size:15 final size:15
Alignment explanation
Indices: 179698195--179698233 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
179698185 AACCAGGATC
179698195 TCTAAGAT-AGAGAAA
1 TCTAAGATAAG-GAAA
179698210 TCTAAGATAAGGAAA
1 TCTAAGATAAGGAAA
*
179698225 TCCAAGATA
1 TCTAAGATA
179698234 CAATATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (15 bp):
TCTAAGATAAGGAAA
Found at i:179700323 original size:25 final size:25
Alignment explanation
Indices: 179700294--179700341 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
179700284 TTGTAACATG
* * *
179700294 AAAATGACCGTTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
179700319 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
179700342 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:179700444 original size:20 final size:20
Alignment explanation
Indices: 179700378--179700444 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
179700368 ATTTTGATAA
*
179700378 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
179700398 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
179700418 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
179700438 ACATGAT
1 ACATGAT
179700445 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:179700563 original size:47 final size:47
Alignment explanation
Indices: 179700493--179700613 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
179700483 GGAGGAAGTG
*
179700493 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
179700540 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
179700587 AAAAAGGGCTTTTG-CCCAGTTATTAAA
1 AAAAAGGGCTTATGCCCCAGTTATTAAA
179700614 AGAGGCAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
46 13 0.19
47 57 0.81
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:179700614 original size:23 final size:24
Alignment explanation
Indices: 179700494--179700615 Score: 187
Period size: 23 Copynumber: 5.2 Consensus size: 24
179700484 GAGGAAGTGA
179700494 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
179700518 -AAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
179700541 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
179700565 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
*
179700588 AAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
179700611 AAAAG
1 AAAAG
179700616 AGGCAAGGCC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 57 0.64
24 32 0.36
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:179700863 original size:31 final size:31
Alignment explanation
Indices: 179700828--179700891 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
179700818 CGTTTACAGT
*
179700828 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
179700859 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
179700890 AA
1 AA
179700892 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:179704514 original size:16 final size:16
Alignment explanation
Indices: 179704495--179704526 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
179704485 AATTGTTTTA
179704495 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
179704511 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
179704527 ACTCTATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:179704921 original size:151 final size:151
Alignment explanation
Indices: 179704729--179705121 Score: 538
Period size: 151 Copynumber: 2.6 Consensus size: 151
179704719 GAAGCACTCT
* * * *
179704729 GGTATGCATAGTAGCCTACACTTAGCACTACACATGCGACCTATCAATCTAGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
* * * * * *
179704794 CTACACTTAGTACTAAATACTTGAGTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTACACTTAGTACTAAACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAATTAATACTA
*
179704859 CACACTTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* ** *
179704880 GGTATGTGTAGTAGCCTGCACTTAGTAGTACACATGCGACCTATCAAAT-TGGTACACATAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATC-AATCTGGTACACATAGTAG
* *
179704944 CCTGA-ACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAGCCTACAATTAATAC
65 CCT-ACACTTAGTACTAAACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAATTAATAC
*
179705008 TACACACGTGATTGAAGTTAACG
129 TACACACGTGATCGAAGTTAACG
** *
179705031 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAATAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
* **
179705096 CTGCACTTAGTACTTCACACGTGACT
66 CTACACTTAGTACTAAACACGTGACT
179705122 CACAACGAAT
Statistics
Matches: 213, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
150 3 0.01
151 206 0.97
152 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
CTACACTTAGTACTAAACACGTGACTTAACCATCTGATACACGTAGTAGCCTACAATTAATACTA
CACACGTGATCGAAGTTAACG
Found at i:179704962 original size:50 final size:50
Alignment explanation
Indices: 179704726--179705116 Score: 250
Period size: 50 Copynumber: 7.8 Consensus size: 50
179704716 ACCGAAGCAC
** * * *
179704726 TCTGGTATGCATAGTAGCCTACACTTAGCACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * ** ** * *
179704776 TCTAGTACACATAGTAGCCTACACTTAGTACTAAATACTTGAGTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * ** ** *
179704826 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACTTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* **** * *
179704878 -CGGGTATGTGTAGTAGCCTGCACTTAGTAGTACACATGCGACCTATCAAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATC-AA
* * * * *
179704928 T-TGGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* ** * * * * * *
179704977 TCTGATACATGTAGTAGCCTACAATTAATACTACACACGTGA-TTGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT--A-TCAA
* * *
179705029 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
** * *
179705078 TCTGGTACATGTAATAGCCTGCACTTAGTACTTCACACG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
179705117 TGACTCACAA
Statistics
Matches: 253, Mismatches: 78, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
49 8 0.03
50 177 0.70
51 65 0.26
52 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:179705035 original size:101 final size:101
Alignment explanation
Indices: 179704930--179705119 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 101
179704920 CTATCAAATT
* * * *
179704930 GGTACACATAGTAGCCTGAACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAGC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACACGCGACCTAACAATCTGATACATGTAATAGC
179704995 CTACAATTAATACTACACACGTGATTGAAGTTAACG
66 CTACAATTAATACTACACACGTGATTGAAGTTAACG
* * * * *
179705031 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAATAGC
1 GGTACACATAGTAGCCTGAACTTAGTACTACACACGCGACCTAACAATCTGATACATGTAATAGC
* * * *
179705096 CTGCACTTAGTACTTCACACGTGA
66 CTACAATTAATACTACACACGTGA
179705120 CTCACAACGA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGAACTTAGTACTACACACGCGACCTAACAATCTGATACATGTAATAGC
CTACAATTAATACTACACACGTGATTGAAGTTAACG
Found at i:179707153 original size:40 final size:40
Alignment explanation
Indices: 179707108--179707274 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
179707098 CGGAATATAA
179707108 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
179707148 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
179707188 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
179707228 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
179707267 CCGGATAT
1 CCGGATAT
179707275 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:179707258 original size:80 final size:79
Alignment explanation
Indices: 179707108--179707274 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
179707098 CGGAATATAA
* *
179707108 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
179707173 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
179707188 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
179707250 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
179707267 CCGGATAT
1 CCGGATAT
179707275 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:179708123 original size:17 final size:19
Alignment explanation
Indices: 179708100--179708145 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
179708090 AAGAAGCATG
179708100 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
179708118 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
179708136 AATCATGCTC
1 AATCATGCTC
179708146 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:179715141 original size:40 final size:40
Alignment explanation
Indices: 179715096--179715262 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
179715086 CGGAATATAA
179715096 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
179715136 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
179715176 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
179715216 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
179715255 CCGGATAT
1 CCGGATAT
179715263 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:179715246 original size:80 final size:79
Alignment explanation
Indices: 179715096--179715262 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
179715086 CGGAATATAA
* *
179715096 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
179715161 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
179715176 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
179715238 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
179715255 CCGGATAT
1 CCGGATAT
179715263 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:179716111 original size:17 final size:19
Alignment explanation
Indices: 179716088--179716133 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
179716078 AAGAAGCATG
179716088 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
179716106 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
179716124 AATCATGCTC
1 AATCATGCTC
179716134 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:179718457 original size:39 final size:40
Alignment explanation
Indices: 179718402--179718493 Score: 143
Period size: 39 Copynumber: 2.3 Consensus size: 40
179718392 TATAGCAGAC
*
179718402 AAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCA-
1 AAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCAT
*
179718441 CAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 AAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
179718481 AAATGCCTTCGGG
1 AAATGCCTTCGGG
179718494 ACTTGCCGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 35 0.73
40 13 0.27
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
Found at i:179726508 original size:40 final size:40
Alignment explanation
Indices: 179726443--179726610 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
179726433 TCTTCGGAAT
* ** *
179726443 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
179726482 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
179726522 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
179726562 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
179726602 TTAGCCCGG
1 TTAGCCCGG
179726611 GTATCATTCA
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.03
40 110 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:179729053 original size:28 final size:29
Alignment explanation
Indices: 179728999--179729053 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
179728989 GAGAGATAAA
*
179728999 CTGATTTTGCTTTGGGCCATGCATATCGG
1 CTGATTTGGCTTTGGGCCATGCATATCGG
179729028 CTGATTTGGCTTCT-GGCCATG-ATATC
1 CTGATTTGGCTT-TGGGCCATGCATATC
179729054 AGTATTTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 18 0.75
30 1 0.04
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (29 bp):
CTGATTTGGCTTTGGGCCATGCATATCGG
Found at i:179733750 original size:22 final size:23
Alignment explanation
Indices: 179733724--179733769 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
179733714 CAACCAAACC
179733724 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
179733746 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
179733769 A
1 A
179733770 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:179733775 original size:23 final size:23
Alignment explanation
Indices: 179733731--179733775 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
179733721 ACCAATTCAA
*
179733731 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
179733754 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
179733776 CACACACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:179737030 original size:40 final size:39
Alignment explanation
Indices: 179736986--179737111 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
179736976 GGGACTCAAC
*
179736986 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
179737026 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
179737066 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
179737106 CCGGAT
1 CCGGAT
179737112 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:179737070 original size:80 final size:80
Alignment explanation
Indices: 179736925--179737111 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
179736915 GCTACACATT
* * *
179736925 CAAATGCCTTCGGGACATAGCCC-GATTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
179736989 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
179737005 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
179737068 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
179737086 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
179737112 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 70 0.78
81 14 0.16
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:179746751 original size:27 final size:28
Alignment explanation
Indices: 179746695--179746764 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
179746685 AAATTTGTAC
179746695 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
179746723 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
179746750 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
179746765 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:179754673 original size:27 final size:28
Alignment explanation
Indices: 179754617--179754686 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
179754607 AAATTTGTAC
179754617 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
179754645 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
179754672 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
179754687 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:179758531 original size:27 final size:28
Alignment explanation
Indices: 179758501--179758570 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
179758491 ATAATAAGTC
*
179758501 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
179758528 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
179758556 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
179758571 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:179766443 original size:27 final size:28
Alignment explanation
Indices: 179766413--179766482 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
179766403 ATAATAAGTC
*
179766413 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
179766440 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
179766468 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
179766483 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:179768384 original size:43 final size:43
Alignment explanation
Indices: 179768285--179768386 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
179768275 TACGATATGT
* * * *
179768285 GATTACATGTAAGACCATGTCTAGGACATTGGCGTTGTATTGA
1 GATTACATATAAGACCATGTCTAGGACATTGGCATTGTAATCA
* *
179768328 GATTACATGTAAGATCATGTCTAGGACATTGGCATTGTTAATCA
1 GATTACATATAAGACCATGTCTAGGACATTGGCATTG-TAATCA
*
179768372 -ATTTCATATAAGACC
1 GATTACATATAAGACC
179768387 CTATTTAGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (43 bp):
GATTACATATAAGACCATGTCTAGGACATTGGCATTGTAATCA
Found at i:179771640 original size:2 final size:2
Alignment explanation
Indices: 179771633--179771659 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
179771623 TTAATGAGGT
179771633 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
179771660 TGGAAAATAT
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:179773348 original size:14 final size:15
Alignment explanation
Indices: 179773331--179773359 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
179773321 GAGTATGGTA
179773331 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
179773345 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
179773360 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:179777841 original size:141 final size:140
Alignment explanation
Indices: 179777491--179778724 Score: 1565
Period size: 140 Copynumber: 9.0 Consensus size: 140
179777481 TACAACAAAA
* * * *
179777491 TAGTCCTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTGGCCAATATAC
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* * * *
179777556 GCTTTAGCCAACTATTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
179777621 TGGCTTTGTC
131 TGGCTTTGTC
* * * * *
179777631 TAGTCCTAAGGCGACACTTTTGGGGTGGCACTTTCGTAAGTGTTGGGATAGACTTGCCAACATAC
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* ** *
179777696 GCTTTCGCCAACTCTTTAAATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
*
179777761 TGGCTTTTGTG
131 TGGC-TTTGTC
179777772 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* *
179777837 GCTTTGGCCAACTCTTTGCATAAGGGTTGTGATATGTATGCCTAAGACAACGCTTAAATAAGAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
179777902 TGGCTTTTGTC
131 TGGC-TTTGTC
*
179777913 TAGTCCTAAGACGACATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* * * *
179777978 GCTTTGGCCAACTCTTTGCATAAAGGTTGCGATATGTATGCCTAAGACAACGCTTAAATAACAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
179778043 TGGCTTTGTC
131 TGGCTTTGTC
* *
179778053 CAGTCCTAAGACGACATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* * * *
179778118 GCTTTGGCCAACTCTTTGCATAAGGGTTGCGATATGTATGCCTAAGACAACACTTGAATAAGAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
179778183 TGGCTTTGTC
131 TGGCTTTGTC
* * *
179778193 CAGTCCTAAGACGACATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* *
179778258 GCTTTGGCCAACTCTTTGCATAAGGGTTGCGATATGTATGCCTAAGACAACGCTTAAATAAGAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
179778323 TGGCTTTGTC
131 TGGCTTTGTC
* * *
179778333 TAGTCCT-A-A-G--A----T-----GACATTTTCCTAAGTGTTGGGATAGACTTGTCGACATAC
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATA-
* * * * * *
179778384 T-TTTTGGTCAACTTTTTGTATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAG
65 TGCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAG
*
179778448 TCGGCTTTGTC
130 TTGGCTTTGTC
* * * * * * * *
179778459 GA-ACACTATGCCTACACATTTGGGTCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATA
1 TAGTC-CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATA
** * * **
179778523 CACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAG
65 TGCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAG
*
179778588 TCGG--TT-T-
130 TTGGCTTTGTC
* * * *
179778595 T-GTCC--A-A-G--AC-TAT--GCCAACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
* * * * * * *
179778650 GCTTTGGCCAACTCTTTGTATAAGAGATGGTATATGCATGCCTAAAGCAACACTTAAATAAGAGT
66 GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
*
179778715 TAGCTTTGTC
131 TGGCTTTGTC
179778725 CAATAGTATG
Statistics
Matches: 985, Mismatches: 86, Indels: 56
0.87 0.08 0.05
Matches are distributed among these distances:
125 1 0.00
126 200 0.20
127 1 0.00
128 4 0.00
129 3 0.00
131 2 0.00
135 3 0.00
136 1 0.00
137 2 0.00
138 3 0.00
139 1 0.00
140 500 0.51
141 264 0.27
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (140 bp):
TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
GCTTTGGCCAACTCTTTGCATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGT
TGGCTTTGTC
Found at i:179778454 original size:126 final size:127
Alignment explanation
Indices: 179778219--179778723 Score: 541
Period size: 126 Copynumber: 3.9 Consensus size: 127
179778209 TTTTTGGGGC
* *
179778219 GACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGG
* * * *
179778284 TTGCGATATGTATGCCTAAGACAACGCTTAAATAAGAGTTGGCTTTGT-CTAGTCCTAAGAT
66 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTACTAGTCCTAAGAT
* * * * * *
179778345 GACATTTTCCTAAGTGTTGGGATAGACTTGTCGACATACT-TTTTGGTCAACTTTTTGTATAAGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATA-TGCTTTGGCCAACTCTTTGTATAAGG
*
179778409 GTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCGAACACTA-TGCCTA
65 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGT-----ACTAGT-CCTA
*
179778473 CACATTT
124 -AGA--T
**
179778480 GGGTCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTCTTTGTAT
1 --G---ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTAT
** * * * * *
179778545 AAGGGTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAGTCGGTTTTGTCCAAG-ACTATG
61 AAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTACTAGTCCTAAG
**
179778609 CC
126 AT
* * *
179778611 AACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGAG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGG
* * * * **
179778676 ATGGTATATGCATGCCTAAAGCAACACTTAAATAAGAGTTAGCTTTGT
66 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGT
179778724 CCAATAGTAT
Statistics
Matches: 316, Mismatches: 45, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
126 198 0.63
127 1 0.00
131 1 0.00
132 7 0.02
133 2 0.01
134 3 0.01
135 3 0.01
137 1 0.00
140 100 0.32
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (127 bp):
GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGG
TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTACTAGTCCTAAGAT
Found at i:179778567 original size:266 final size:266
Alignment explanation
Indices: 179777516--179778726 Score: 1276
Period size: 266 Copynumber: 4.4 Consensus size: 266
179777506 ACTTTTGTGG
* * * * * *
179777516 CGACACTTTCCTAAGTGTTGGGATAGACTGGCCAATATACGCTTTAGCCAACTATTTGTATAAGG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGG
* * * *
179777581 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGGCGAC
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCAGACCTAAGACGAC
* *** * * * *
179777646 ACTTTTGGGGTGGCACTTTCGTAAGTGTTGGGATAGACTTGCCAACATACGCTTTCGCCAACTCT
131 ACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACACTTTGGCCAACTCT
** * * * * *
179777711 TTAAATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGT
196 TTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGC---T-T-T-GT
* *
179777776 CCTAAGACGACACTTTTGGGG
255 CC-AAGACTA-A-------GA
* *
179777797 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGG
* * * * * *
179777862 GTTGTGATATGTATGCCTAAGACAACGCTTAAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGA
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGC-TTTGTCCAGACCTAAGACGA
** * * **
179777927 CATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTC
130 CACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACACTTTGGCCAACTC
* * * *
179777992 TTTGCATAAAGGTTGCGATATGTATGCCTAAGACAACGCTTAAATAACAGTTGGCTTTGTCCAGT
195 TTTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGC-TT-T---GT
* *
179778057 CCTAAGACGACATTTTTGGGG
255 CC-AAGACTA-A-------GA
* *
179778078 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGG
* * * * *
179778143 GTTGCGATATGTATGCCTAAGACAACACTTGAATAAGAGTTGGCTTTGTCCAGTCCTAAGACGAC
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCAGACCTAAGACGAC
** * **
179778208 ATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATATGCTTTGGCCAACTCT
131 ACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACACTTTGGCCAACTCT
* * *
179778273 TTGCATAAGGGTTGCGATATGTATGCCTAAGACAACGCTTAAATAAGAGTTGGCTTTGT-CTAGT
196 TTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAAG-
*
179778337 CCTAAGA
260 ACTAAGA
* * * * * *
179778344 TGACATTTTCCTAAGTGTTGGGATAGACTTGTCGACATACT-TTTTGGTCAACTTTTTGTATAAG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATA-TGCTTTGGCCAACTCTTTGTATAAG
* * * * * * *
179778408 GGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCGA-ACACTATGCCT
65 GGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCAGAC-CTAAGACG
* *
179778472 ACACATTTGGGTCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACT
129 ACACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACACTTTGGCCAACT
* * * ** *
179778537 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAGTCGGTTTTGTCCAA
194 CTTTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAA
* *
179778602 GACTATGC
259 GACTAAGA
* *
179778610 CAACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGA
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGG
* * * *
179778675 GATGGTATATGCATGCCTAAAGCAACACTTAAATAAGAGTTAGCTTTGTCCA
66 GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCA
179778727 ATAGTATGTC
Statistics
Matches: 832, Mismatches: 90, Indels: 31
0.87 0.09 0.03
Matches are distributed among these distances:
265 2 0.00
266 319 0.38
267 4 0.00
273 3 0.00
274 3 0.00
275 2 0.00
278 1 0.00
279 5 0.01
280 138 0.17
281 229 0.28
282 126 0.15
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (266 bp):
CGACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGG
GTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCAGACCTAAGACGAC
ACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACACTTTGGCCAACTCT
TTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAAGA
CTAAGA
Found at i:179779034 original size:21 final size:21
Alignment explanation
Indices: 179779004--179779053 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
179778994 TTTCTTTAGT
*
179779004 TTTAGGGTTTAAGATTTGGGG
1 TTTAGAGTTTAAGATTTGGGG
* * *
179779025 TTTGGAGTTTAGGGTTTGGGG
1 TTTAGAGTTTAAGATTTGGGG
179779046 TTTAGAGT
1 TTTAGAGT
179779054 CATGGTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (21 bp):
TTTAGAGTTTAAGATTTGGGG
Found at i:179779039 original size:14 final size:14
Alignment explanation
Indices: 179779004--179779050 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
179778994 TTTCTTTAGT
*
179779004 TTTAGGGTTT-AAG
1 TTTAGGGTTTGGAG
*
179779017 ATTTGGGGTTTGGAG
1 -TTTAGGGTTTGGAG
*
179779032 TTTAGGGTTTGGGG
1 TTTAGGGTTTGGAG
179779046 TTTAG
1 TTTAG
179779051 AGTCATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTGGAG
Found at i:179780083 original size:35 final size:35
Alignment explanation
Indices: 179780037--179780119 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
179780027 TCTGCCCTAT
*
179780037 TCCAGCCACTGGTGCATCTGCCGTCGACCACCTGC
1 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
179780072 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
1 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
179780107 TCCAGCCACTGGT
1 TCCAGCCACTGGT
179780120 ATGTCACGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.14, C:0.43, G:0.22, T:0.20
Consensus pattern (35 bp):
TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
Found at i:179781698 original size:13 final size:13
Alignment explanation
Indices: 179781680--179781704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179781670 ATAGATTGTG
179781680 TCTTAAAAATTTT
1 TCTTAAAAATTTT
179781693 TCTTAAAAATTT
1 TCTTAAAAATTT
179781705 AAAACATATG
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TCTTAAAAATTTT
Found at i:179783788 original size:27 final size:29
Alignment explanation
Indices: 179783758--179783872 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
179783748 ACGCAAGAGC
*
179783758 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
179783785 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
179783814 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
179783844 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
179783873 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:179783825 original size:30 final size:29
Alignment explanation
Indices: 179783770--179783872 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
179783760 ATAGTGAATC
179783770 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
179783799 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
179783829 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
179783858 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
179783873 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:179783862 original size:59 final size:60
Alignment explanation
Indices: 179783769--179783902 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
179783759 TATAGTGAAT
* * *
179783769 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
179783828 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
179783888 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
179783903 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:179785241 original size:17 final size:19
Alignment explanation
Indices: 179785207--179785244 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
179785197 TCCACACCCA
179785207 TTTTTTTTCATCATTTTCTT
1 TTTTTTTTCA-CATTTTCTT
179785227 TTTTTTTTC-CA-TTTCTT
1 TTTTTTTTCACATTTTCTT
179785244 T
1 T
179785245 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
20 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCACATTTTCTT
Found at i:179791651 original size:27 final size:29
Alignment explanation
Indices: 179791621--179791735 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
179791611 ACGCAAGAGC
*
179791621 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
179791648 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
179791677 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
179791707 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
179791736 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:179791688 original size:30 final size:29
Alignment explanation
Indices: 179791633--179791735 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
179791623 ATAGTGAATC
179791633 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
179791662 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
179791692 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
179791721 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
179791736 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:179791725 original size:59 final size:60
Alignment explanation
Indices: 179791632--179791765 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
179791622 TATAGTGAAT
* * *
179791632 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
179791691 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
179791751 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
179791766 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:179793085 original size:18 final size:20
Alignment explanation
Indices: 179793050--179793088 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
179793040 TCCACACCCA
179793050 TTTTTTTTCATCATTTTCTTT
1 TTTTTTTTCA-CATTTTCTTT
179793071 TTTTTTTTC-CA-TTTCTTT
1 TTTTTTTTCACATTTTCTTT
179793089 ATTCCCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
21 9 0.50
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCACATTTTCTTT
Found at i:179797626 original size:14 final size:14
Alignment explanation
Indices: 179797607--179797634 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
179797597 ATATTTATTT
179797607 TATGAAATTATTCA
1 TATGAAATTATTCA
179797621 TATGAAATTATTCA
1 TATGAAATTATTCA
179797635 AAGAAGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TATGAAATTATTCA
Found at i:179811729 original size:30 final size:30
Alignment explanation
Indices: 179811695--179811755 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
179811685 TTCCCGAGCC
179811695 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
179811725 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
179811755 T
1 T
179811756 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:179812579 original size:64 final size:63
Alignment explanation
Indices: 179812492--179812676 Score: 174
Period size: 67 Copynumber: 2.9 Consensus size: 63
179812482 AGACATTATG
*
179812492 ATGTAGCTAGGTCACATGGGTGATATTATGTGTACACCATGTAAACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCACATGGGTGATATTATGTGTACACCATGTAAACAAGAGAGCTACGAGATA
** * * * * *
179812555 TATGTAGCTAGGTTGCATGCGTGAT-TCCAGGTGAAGAACACCATGTAGACAAGAGAGCTACGAG
1 -ATGTAGCTAGGTCACATGGGTGATAT-TA--TG-TGTACACCATGTAAACAAGAGAGCTACGAG
179812619 ATA
61 ATA
** * * * * **
179812622 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCT
1 ATGTAGCTAGGTCACATGGGTGATATTATGTGTACACCATGTAAACAAGAGAGCT
179812677 GAACTATATG
Statistics
Matches: 94, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
63 21 0.22
64 23 0.24
66 21 0.22
67 29 0.31
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCACATGGGTGATATTATGTGTACACCATGTAAACAAGAGAGCTACGAGATA
Found at i:179815286 original size:40 final size:39
Alignment explanation
Indices: 179815175--179815326 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
179815165 ATAAGCATGT
* * *
179815175 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
*
179815215 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCG-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTA
* *** *
179815255 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACGACTA
* * *
179815295 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
179815327 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
Found at i:179815309 original size:80 final size:80
Alignment explanation
Indices: 179815175--179815326 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
179815165 ATAAGCATGT
* *
179815175 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
179815240 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
179815255 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
179815318 CCCGGATAT
64 CCCGGATAT
179815327 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:179818028 original size:28 final size:28
Alignment explanation
Indices: 179817988--179818059 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
179817978 AAAATTGTAC
* *
179817988 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
179818016 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
179818045 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
179818060 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:179825942 original size:28 final size:28
Alignment explanation
Indices: 179825902--179825973 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
179825892 AAAATTGTAC
* *
179825902 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
179825930 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
179825959 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
179825974 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:179844438 original size:29 final size:28
Alignment explanation
Indices: 179844350--179844451 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
179844340 TACTCAATCA
* *
179844350 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * * *
179844379 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCGTACA-TTCAAGCT
179844408 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
179844437 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
179844452 AATCTCGTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.03
28 3 0.05
29 53 0.91
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:179850343 original size:49 final size:49
Alignment explanation
Indices: 179850274--179850671 Score: 724
Period size: 49 Copynumber: 8.1 Consensus size: 49
179850264 GTACATAATA
179850274 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
179850323 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
179850372 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGGAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
179850421 ATACATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
179850470 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
179850519 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
179850568 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
179850617 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
179850666 ATATAT
1 ATATAT
179850672 ATGTGGTAAA
Statistics
Matches: 336, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 336 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:179850800 original size:37 final size:36
Alignment explanation
Indices: 179850740--179850826 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
179850730 AACTTGGAAA
179850740 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
179850778 TATGTCCGGGTACGACCTGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
179850815 TATGTCCGGGTA
1 TATGTCCGGGTA
179850827 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:179852315 original size:48 final size:48
Alignment explanation
Indices: 179852256--179852610 Score: 302
Period size: 48 Copynumber: 7.4 Consensus size: 48
179852246 GGGTGTTACA
* * *
179852256 TGGGACATGGCACCGGCAACGATATGAGAGCCAATGTAAGACCATGTT
1 TGGGACATGGCATCGGCAACGATATGAGAGCCAGTGTAAGACCATGTC
* * *
179852304 TGGAACATGGCATCGGCAATG-TAATGAGAGCCAATGTAAGACCATGTC
1 TGGGACATGGCATCGGCAACGAT-ATGAGAGCCAGTGTAAGACCATGTC
* * * * *
179852352 TGGGACATGGCATCGCCCAC-ATTATGATAGCCAGTGTAAGACCATTTT
1 TGGGACATGGCATCGGCAACGA-TATGAGAGCCAGTGTAAGACCATGTC
* ** * * * *
179852400 TGGGACATGGCATCAGCATTGATATGTGCGCTAGTGTTAGACCATGTC
1 TGGGACATGGCATCGGCAACGATATGAGAGCCAGTGTAAGACCATGTC
* * * *
179852448 TGGGACATGGCATCAGCCAC-ATTATTAGAGCTAGTGTAAGACCATGTC
1 TGGGACATGGCATCGGCAACGA-TATGAGAGCCAGTGTAAGACCATGTC
** * ** * * ***
179852496 TGGGACATGGCATCGGCATTGAGACAAGAGCTATTGTAAGATTGTGTC
1 TGGGACATGGCATCGGCAACGATATGAGAGCCAGTGTAAGACCATGTC
* * ** * * *
179852544 TGGGATATGGCATCAGCCTCGACATGTGAGCCAGTGTAAGACCATGTT
1 TGGGACATGGCATCGGCAACGATATGAGAGCCAGTGTAAGACCATGTC
*
179852592 TGGAACATGGCATCGGCAA
1 TGGGACATGGCATCGGCAA
179852611 TTCACCCTCT
Statistics
Matches: 240, Mismatches: 61, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
47 2 0.01
48 235 0.98
49 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TGGGACATGGCATCGGCAACGATATGAGAGCCAGTGTAAGACCATGTC
Found at i:179852442 original size:96 final size:96
Alignment explanation
Indices: 179852277--179852609 Score: 370
Period size: 96 Copynumber: 3.5 Consensus size: 96
179852267 ACCGGCAACG
* * *
179852277 ATATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TAATGAGAGCCAATGT
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAT-ATGAGAGCTAATGT
179852341 AAGACCATGTCTGGGACATGGCATC-GCCCAC
65 AAGACCATGTCTGGGACATGGCATCAGCCCAC
* * * * * * *
179852372 ATTATGATAGCCAGTGTAAGACCATTTTTGGGACATGGCATCAGCATTGATATGTGCGCTAGTGT
1 A-TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAATGT
*
179852437 TAGACCATGTCTGGGACATGGCATCAG-CCAC
65 AAGACCATGTCTGGGACATGGCATCAGCCCAC
* * * * * ** *
179852468 ATTATTAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGAGCTATTGT
1 A-TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAATGT
*** *
179852533 AAGATTGTGTCTGGGATATGGCATCAGCCTCGAC
65 AAGACCATGTCTGGGACATGGCATCAGCC-C-AC
*
179852567 --ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
179852610 ATTCACCCTC
Statistics
Matches: 199, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
95 1 0.01
96 192 0.96
97 3 0.02
98 1 0.01
99 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAATGTA
AGACCATGTCTGGGACATGGCATCAGCCCAC
Found at i:179853215 original size:17 final size:17
Alignment explanation
Indices: 179853193--179853226 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
179853183 TTCATTTTGT
179853193 ATAGGCCATTAATGTTG
1 ATAGGCCATTAATGTTG
179853210 ATAGGCCATTAATGTTG
1 ATAGGCCATTAATGTTG
179853227 GCTAATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
ATAGGCCATTAATGTTG
Found at i:179859575 original size:40 final size:40
Alignment explanation
Indices: 179859496--179859653 Score: 142
Period size: 40 Copynumber: 4.0 Consensus size: 40
179859486 TTCGAATGAT
* * * *
179859496 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* * *
179859536 ACCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * * *
179859576 ATCTGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
**
179859616 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
179859654 GTAACCGGGC
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 1 0.01
40 86 0.92
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:179859674 original size:80 final size:80
Alignment explanation
Indices: 179859496--179859683 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
179859486 TTCGAATGAT
* *
179859496 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATA
179859561 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * * **
179859576 ATCTGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAACCCGGACTAAGAT-CCGAAGG
* *
179859637 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
179859657 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
179859684 ATGTGTAGCC
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 77 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:179861493 original size:24 final size:25
Alignment explanation
Indices: 179861456--179861511 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
179861446 TTTGAACTGG
*
179861456 TCAAGGA-AAGGATTATGGAGAAAA
1 TCAAGGAGAAGGATTAGGGAGAAAA
* *
179861480 TCAAGGAGAA-GATTGGGGAGGAAA
1 TCAAGGAGAAGGATTAGGGAGAAAA
*
179861504 TCATGGAG
1 TCAAGGAG
179861512 GGATTTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.43, C:0.05, G:0.36, T:0.16
Consensus pattern (25 bp):
TCAAGGAGAAGGATTAGGGAGAAAA
Found at i:179862652 original size:26 final size:27
Alignment explanation
Indices: 179862623--179862679 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
179862613 GGTCGATAAG
*
179862623 ACCCCGGT-TTGTAAAATTATCGAAAT
1 ACCCCGGTCTTGTAAAATTACCGAAAT
**
179862649 ACCCTTGTCTTGTAAAATTACCGAAAT
1 ACCCCGGTCTTGTAAAATTACCGAAAT
179862676 ACCC
1 ACCC
179862680 TTGTAGGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (27 bp):
ACCCCGGTCTTGTAAAATTACCGAAAT
Found at i:179862661 original size:27 final size:27
Alignment explanation
Indices: 179862631--179862683 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
179862621 AGACCCCGGT
*
179862631 TTGTAAAATTATCGAAATACCCTTGTC
1 TTGTAAAATTACCGAAATACCCTTGTC
179862658 TTGTAAAATTACCGAAATACCCTTGT
1 TTGTAAAATTACCGAAATACCCTTGT
179862684 AGGGTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTTGTC
Found at i:179862690 original size:27 final size:27
Alignment explanation
Indices: 179862633--179862693 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
179862623 ACCCCGGTTT
* ***
179862633 GTAAAATTATCGAAATACCCTTGTCTT
1 GTAAAATTACCGAAATACCCTTGTAGG
179862660 GTAAAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCTTGTAGG
179862687 GTAAAAT
1 GTAAAAT
179862694 GACTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTTGTAGG
Found at i:179865126 original size:78 final size:79
Alignment explanation
Indices: 179864963--179865142 Score: 195
Period size: 78 Copynumber: 2.3 Consensus size: 79
179864953 CGAATGATGT
* * * * * *
179864963 CCGGGCTAAGTCCCGAAGGCTTTGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATGGTGC-GAGTTATTAAATCCGGACTAAGATCCGAAGGCATTTG
* *
179865028 TGCAAGTTACTAATT
65 TACAAGTTACTAATA
* **
179865043 TCGGGCTAAG-CCCGAAGGCATGGTGCGAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATGGTGCGAGTTATTAAATCCGGACTAAGAT-CCGAAGGCATTTG
*
179865106 TACGAGTTACT-ATAA
65 TACAAGTTACTAAT-A
*
179865121 CCGGGCTATGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCAT
179865143 TTGAACGAGT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
77 3 0.04
78 47 0.57
79 24 0.29
80 9 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATGGTGCGAGTTATTAAATCCGGACTAAGATCCGAAGGCATTTGT
ACAAGTTACTAATA
Found at i:179865151 original size:40 final size:39
Alignment explanation
Indices: 179864962--179865152 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 39
179864952 TCGAATGATG
*
179864962 TCCGGGCTAAGTCCCGAAGGC-TTTG-CGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGACG---AGTTACTAAA
* * * *
179865002 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTG-ACGAGTTACTAAA
* * *
179865042 TTCGGGCTAAG-CCCGAAGGCATGGTG-CGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCAT-TTGACGAGTTACTAAA
*
179865080 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-ACGAGTTACTA-AA
*
179865121 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-ACGAGT
179865153 AGCTATATCC
Statistics
Matches: 124, Mismatches: 17, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
38 20 0.16
39 21 0.17
40 75 0.60
41 7 0.06
43 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGACGAGTTACTAAA
Found at i:179873169 original size:40 final size:39
Alignment explanation
Indices: 179873085--179873283 Score: 198
Period size: 40 Copynumber: 5.1 Consensus size: 39
179873075 TCGAATGATG
* *
179873085 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATA
*
179873125 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
179873164 TTCCGGGCTAAG-CCGAAGGCA--TGTGCGAG-TA-TTTAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAT-A
*
179873200 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* * **
179873240 ACCGGGCTATGTCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTA-CTATA
179873279 TCCGG
1 TCCGG
179873284 TTAAACCGAA
Statistics
Matches: 134, Mismatches: 13, Indels: 25
0.78 0.08 0.15
Matches are distributed among these distances:
34 1 0.01
35 12 0.09
36 9 0.07
37 9 0.07
38 11 0.08
39 35 0.26
40 47 0.35
41 10 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:179881024 original size:29 final size:29
Alignment explanation
Indices: 179880991--179881122 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
179880981 GTGACGAGAT
*
179880991 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
179881020 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
179881049 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
179881078 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
179881107 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
179881123 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:179885040 original size:40 final size:40
Alignment explanation
Indices: 179884913--179885042 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
179884903 ATGCTGGAAA
* * *
179884913 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
179884953 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
179884993 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
179885033 TTATATCCGG
1 TTATATCCGG
179885043 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:179889010 original size:40 final size:40
Alignment explanation
Indices: 179888953--179889138 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
179888943 TCGAATGATG
* * * *
179888953 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
179888993 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
179889033 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
179889073 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
179889114 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
179889139 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:179889145 original size:80 final size:79
Alignment explanation
Indices: 179889006--179889161 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
179888996 GGACTAAGAT
* **
179889006 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
179889070 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
179889086 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
179889149 TATATCCGGTTAA
64 TAAATCCGGTTAA
179889162 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:179896842 original size:39 final size:40
Alignment explanation
Indices: 179896727--179896911 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
179896717 TCGAATGATG
* * * *
179896727 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
179896767 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
179896807 TCCGGACTAAGAT-CCGAAGG-ATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
179896846 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
179896887 -CTGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
179896912 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 35 0.27
40 83 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:179896876 original size:79 final size:80
Alignment explanation
Indices: 179896727--179896911 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
179896717 TCGAATGATG
* * *
179896727 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
179896792 GTGCGAGTTACTAAA
66 GTGCGAGCTACTAAA
* * **
179896807 TCCGGACTAAGAT-CCGAAGGATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
179896869 TTGTGCGAGCTACTATAA
64 TTGTGCGAGCTACTA-AA
* * *
179896887 -CTGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGG-ATTTG
179896912 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 2 0.02
79 55 0.62
80 31 0.35
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAA
Found at i:179896933 original size:79 final size:78
Alignment explanation
Indices: 179896761--179896944 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 78
179896751 GTGCTAAGTG
* *
179896761 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
**
179896826 GATTTGTGCGAGTT
65 GATTTGAACGAGTT
* * * *
179896840 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CTGGGCTATG-TCCCG
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCG
179896902 AAGGTATTTGAACGAG-T
62 AAGG-ATTTGAACGAGTT
179896919 AGCTATATCCGGTTAA-ACTCCGAAGG
1 A-CTATATCCGGTTAAGA-TCCGAAGG
179896945 TACGTGATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
78 2 0.02
79 65 0.74
80 21 0.24
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGG
ATTTGAACGAGTT
Found at i:179899407 original size:68 final size:68
Alignment explanation
Indices: 179899318--179899483 Score: 160
Period size: 68 Copynumber: 2.4 Consensus size: 68
179899308 GTGCCGAGTG
* * * * *
179899318 CACCATGT-GTACAAGAAAGCTACGAGATACTAAGTAGTAGCTAGGTCACATGTGTGA-T-ACGG
1 CACCATGTAG-ACAAGAGAGCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGCGTGATTCAAGG
* *
179899380 GATGTA
63 GAAGGA
*
179899386 TC-CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAG
1 -CACCATGTAGACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGCGTGATT-CAAG
*
179899450 TGAAGGA
62 GGAAGGA
179899457 CACCATGTAGACAAGAGAGCTACGAGA
1 CACCATGTAGACAAGAGAGCTACGAGA
179899484 CAAATCGGCT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
68 37 0.46
69 11 0.14
70 6 0.07
71 27 0.33
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (68 bp):
CACCATGTAGACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGCGTGATTCAAGGGAA
GGA
Found at i:179901961 original size:40 final size:40
Alignment explanation
Indices: 179901880--179902100 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
179901870 AAACCAAGTA
** * *
179901880 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
179901919 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
179901959 CCTTCGGGACTTAGCGCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
179901999 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
179902039 CCTTCGGGACTTAGTCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
179902079 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
179902101 CAATCCGAAT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 25 0.15
40 141 0.85
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Done.