Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 14 of 187
Found at i:3588272 original size:2 final size:2
Alignment explanation
Indices: 3588265--3588291 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3588255 TCCAGGTTTG
3588265 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
3588292 ATCTAGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3591037 original size:6 final size:6
Alignment explanation
Indices: 3591027--3591064 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
3591017 TCCGAATGTT
*
3591027 CAGAAT CAGAAC CAGAAC CAGAAC CAGAAC CAGAAC CA
1 CAGAAC CAGAAC CAGAAC CAGAAC CAGAAC CAGAAC CA
3591065 TAGTCATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.32, G:0.16, T:0.03
Consensus pattern (6 bp):
CAGAAC
Found at i:3593583 original size:48 final size:48
Alignment explanation
Indices: 3593512--3593654 Score: 189
Period size: 48 Copynumber: 3.0 Consensus size: 48
3593502 AGGTGTTCCG
* * *
3593512 ATCCCTTTGTTCTTGGCCCCAGCCACTGCTCGGATTCCCATAATCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCCATAATCTCT
* *
3593560 ATCCCTTTGTTCTCGACTCCAGCCATTGCTCAGA-TCCCTATAATCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCC-ATAATCTCT
* ** *
3593608 ATCCCTTTGTTCTCGACTCCAGCCGCCACTTGGATTCCCATAATCTC
1 ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCCATAATCTC
3593655 GACTCTTCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 4 0.05
48 74 0.90
49 4 0.05
ACGTcount: A:0.17, C:0.37, G:0.13, T:0.34
Consensus pattern (48 bp):
ATCCCTTTGTTCTCGACTCCAGCCACTGCTCGGATTCCCATAATCTCT
Found at i:3602863 original size:23 final size:23
Alignment explanation
Indices: 3602836--3602895 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
3602826 CCTTAGGGGA
*
3602836 GATTAACGAGTGGATGGGGATGT
1 GATTAACGAATGGATGGGGATGT
*
3602859 GATTAATGAATGGATGGGGATGT
1 GATTAACGAATGGATGGGGATGT
3602882 GATTAACGAA-GGAT
1 GATTAACGAATGGAT
3602896 TTAGGGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 4 0.12
23 30 0.88
ACGTcount: A:0.32, C:0.03, G:0.38, T:0.27
Consensus pattern (23 bp):
GATTAACGAATGGATGGGGATGT
Found at i:3603627 original size:19 final size:21
Alignment explanation
Indices: 3603589--3603628 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
3603579 TAAATACAAA
*
3603589 ATTTTTAATTTTTGTTAATTT
1 ATTTTTAATTTGTGTTAATTT
3603610 ATTTTT-ATTTGT-TTAATTT
1 ATTTTTAATTTGTGTTAATTT
3603629 CCTTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
ATTTTTAATTTGTGTTAATTT
Found at i:3609186 original size:27 final size:27
Alignment explanation
Indices: 3609129--3609195 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
3609119 CCCAGTTCGC
**
3609129 CAGGCCTATTGGCGGTCCCAACTCGAT
1 CAGGCCTATTGGCGAACCCAACTCGAT
*
3609156 -AGGCCTAATGGCGAACACCAACTCG-T
1 CAGGCCTATTGGCGAAC-CCAACTCGAT
3609182 CAGGCCTATTGGCG
1 CAGGCCTATTGGCG
3609196 TAAACCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.19
Consensus pattern (27 bp):
CAGGCCTATTGGCGAACCCAACTCGAT
Found at i:3617306 original size:53 final size:53
Alignment explanation
Indices: 3617225--3617369 Score: 229
Period size: 53 Copynumber: 2.7 Consensus size: 53
3617215 ACAGTTGATC
*
3617225 AAATACCATATCATGTAAGACCGTAACTGGTGGGTTATGACATAATAT-GAAA
1 AAATACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATAATATGGAAA
* *
3617277 AGAATACCATATCGTGTAAGACCGTAACTGGTTGGTTATGACATCATATGGAAA
1 A-AATACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATAATATGGAAA
* *
3617331 AAAGACCATATCGTGTAAGACCGTAACTAGTGGGTTATG
1 AAATACCATATCGTGTAAGACCGTAACTGGTGGGTTATG
3617370 GCATCAAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
52 1 0.01
53 79 0.93
54 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (53 bp):
AAATACCATATCGTGTAAGACCGTAACTGGTGGGTTATGACATAATATGGAAA
Found at i:3617595 original size:57 final size:56
Alignment explanation
Indices: 3617534--3617798 Score: 241
Period size: 57 Copynumber: 4.7 Consensus size: 56
3617524 TTTAAGGATG
*
3617534 CCTTTGTGCAAAAAATTTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
1 CCTTTGTGC-AAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
* * * ** *
3617591 CCTTTGAGGCAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGACAA
1 CCTTTG-TGCAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
* * *
3617648 CCTTTGTGACAAAAATCTGGAAAGGTAAGCCTTTATGGCAAACCTCTTAAA-GAACA
1 CCTTTGTG-CAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
* * * * ** *
3617704 CCTTTGTGGC--AAATCTTTGAAAGGAAATGCCTTTGTGGCGATCTCTATCCAAGGAAAG
1 CCTTTGT-GCAAAAATC-TGGAAAGGTAA-GCCTTTGTGGCAAAC-CTATTAAAGGAAAA
* * * *
3617762 CCTCTGTGGC-AAACTCTAGAAAGGAAAGCCTTTGTGG
1 CCTTTGT-GCAAAAATCTGGAAAGGTAAGCCTTTGTGG
3617799 AAATCTCTGT
Statistics
Matches: 171, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
54 5 0.03
55 9 0.05
56 24 0.14
57 105 0.61
58 24 0.14
59 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (56 bp):
CCTTTGTGCAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAA
Found at i:3617673 original size:114 final size:113
Alignment explanation
Indices: 3617533--3617798 Score: 306
Period size: 114 Copynumber: 2.3 Consensus size: 113
3617523 GTTTAAGGAT
*
3617533 GCCTTTGTGCAAAAAATTTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGGAAAACCTTTGA
1 GCCTTTGTGC-AAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAA-GAAAACCTTTGA
* * *
3617598 GGCAAAACTCTAGAAAGGTAA-GCCTTTGTGGTGAAC-CTATTAAAGGACAA
64 GGCAAAACT-TAGAAAGGAAATGCCTTTGTGGCGAACTCTATCAAAGGA-AA
* * * *
3617648 -CCTTTGTGACAAAAATCTGGAAAGGTAAGCCTTTATGGCAAACCTCTTAAAGAACACCTTTGTG
1 GCCTTTGTG-CAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGAAAACCTTTGAG
* * * *
3617712 GCAAATCTTTGAAAGGAAATGCCTTTGTGGCGATCTCTATCCAAGGAAA
65 GCAAAACTTAGAAAGGAAATGCCTTTGTGGCGAACTCTATCAAAGGAAA
* * * *
3617761 GCCTCTGTGGC-AAACTCTAGAAAGGAAAGCCTTTGTGG
1 GCCTTTGT-GCAAAAATCTGGAAAGGTAAGCCTTTGTGG
3617799 AAATCTCTGT
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
112 9 0.07
113 56 0.43
114 62 0.48
115 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (113 bp):
GCCTTTGTGCAAAAATCTGGAAAGGTAAGCCTTTGTGGCAAACCTATTAAAGAAAACCTTTGAGG
CAAAACTTAGAAAGGAAATGCCTTTGTGGCGAACTCTATCAAAGGAAA
Found at i:3617806 original size:28 final size:28
Alignment explanation
Indices: 3617553--3617806 Score: 173
Period size: 29 Copynumber: 9.0 Consensus size: 28
3617543 AAAAAATTTG
*
3617553 GAAAGGTAAGCCTTTGTGGCAAAC-CTA
1 GAAAGGAAAGCCTTTGTGGCAAACTCTA
* * *
3617580 TTAAAGGAAAACCTTTGAGGCAAAACTCTA
1 -GAAAGGAAAGCCTTTGTGGC-AAACTCTA
* **
3617610 GAAAGGTAAGCCTTTGTGGTGAAC-CTA
1 GAAAGGAAAGCCTTTGTGGCAAACTCTA
* * * *
3617637 TTAAAGGACAA-CCTTTGTGACAAAAATCTG
1 -GAAAGGA-AAGCCTTTGTGGC-AAACTCTA
* *
3617667 GAAAGGTAAGCCTTTATGGCAAACCTCT-
1 GAAAGGAAAGCCTTTGTGGCAAA-CTCTA
* *
3617695 TAAA-GAACA-CCTTTGTGGCAAA-TCTTT
1 GAAAGGAA-AGCCTTTGTGGCAAACTC-TA
* *
3617722 GAAAGGAAATGCCTTTGTGGCGATCTCTA
1 GAAAGGAAA-GCCTTTGTGGCAAACTCTA
** *
3617751 TCCAAGGAAAGCCTCTGTGGCAAACTCTA
1 -GAAAGGAAAGCCTTTGTGGCAAACTCTA
3617780 GAAAGGAAAGCCTTTGTGG-AAATCTCT
1 GAAAGGAAAGCCTTTGTGGCAAA-CTCT
3617807 GTAAAAGAAG
Statistics
Matches: 172, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
25 2 0.01
26 1 0.01
27 24 0.14
28 64 0.37
29 67 0.39
30 14 0.08
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (28 bp):
GAAAGGAAAGCCTTTGTGGCAAACTCTA
Found at i:3622141 original size:139 final size:139
Alignment explanation
Indices: 3621952--3622234 Score: 532
Period size: 139 Copynumber: 2.0 Consensus size: 139
3621942 GTAATCAACT
3621952 TCAG-ACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
1 TCAGTACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
3622016 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
66 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
3622081 ACGATTTAC
131 ACGATTTAC
* **
3622090 TCAGTACTTAGGGTTTTTCTGAGAAAATTATTTATTACCTAGACAGTATTACCTCTCGGCATCTA
1 TCAGTACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
3622155 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
66 CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
3622220 ACGATTTAC
131 ACGATTTAC
3622229 TCAGTA
1 TCAGTA
3622235 TCCTTGTATC
Statistics
Matches: 141, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
138 4 0.03
139 137 0.97
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (139 bp):
TCAGTACTTAGGGTTTTTCTGAGAAAATTAATTATTACCTAGACAGTATTACCTCTCAACATCTA
CTGCCTAACTAATCAACCAGTACACGCTTACCTCTAGGCCTCACTTTCCTGACTGGGATAAATAC
ACGATTTAC
Found at i:3626115 original size:14 final size:14
Alignment explanation
Indices: 3626098--3626132 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3626088 CAAGAAAATT
3626098 AATTTTAAATAAAA
1 AATTTTAAATAAAA
**
3626112 AATTAAAAATAAAA
1 AATTTTAAATAAAA
3626126 AATTTTA
1 AATTTTA
3626133 TGCATTTTTC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTTAAATAAAA
Found at i:3630611 original size:4 final size:4
Alignment explanation
Indices: 3630602--3630663 Score: 124
Period size: 4 Copynumber: 15.5 Consensus size: 4
3630592 CATCTATATC
3630602 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3630650 TACA TACA TACA TA
1 TACA TACA TACA TA
3630664 TATTACTGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:3641456 original size:50 final size:49
Alignment explanation
Indices: 3641400--3641734 Score: 332
Period size: 51 Copynumber: 6.7 Consensus size: 49
3641390 GATGGCCACG
3641400 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCTGAATGATGGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATGGGTCGCA
** * **
3641450 TGTGTAGTACTATGTGCAGGCTACTATGCATATCGAAT-A-GCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATGGGTCG--CA
* * *
3641499 TGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCTGAATGATGGGTCCCA
1 --TGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATGGGTCGCA
* * * * *
3641551 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAT-G-ATGGGTCGCA
* * *
3641602 TATGTAATACTATGTGCAGGCTACTACGTGTACCGGAATGATGGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATGGGTCGCA
* * * * * * * *
3641652 TGAGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAT-G-ATGGGTCGCA
*
3641703 TGTGTAGTACTATGTGCAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTA
3641735 TCAGATGGAA
Statistics
Matches: 231, Mismatches: 42, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 13 0.06
50 99 0.43
51 100 0.43
52 10 0.04
53 1 0.00
54 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATGGGTCGCA
Found at i:3641515 original size:101 final size:101
Alignment explanation
Indices: 3641396--3641734 Score: 570
Period size: 101 Copynumber: 3.4 Consensus size: 101
3641386 AAGTGATGGC
*
3641396 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCTGAATGATGGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATGGGTCGCATGTGTAGTACT
* *
3641461 ATGTGCAGGCTACTATGCATATCGAATAGCTTCGAT
66 ATGTGCAGGCTACTATGCGTACCGAATAGCTTCGAT
* * *
3641497 CATGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCTGAATGATGGGTCCCATGTGTAGTACT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATGGGTCGCATGTGTAGTACT
3641562 ATGTGCAGGCTACTATGCGTACCGAATAGCTTCGAT
66 ATGTGCAGGCTACTATGCGTACCGAATAGCTTCGAT
* * * * *
3641598 CACATATGTAATACTATGTGCAGGCTACTACGTGTACCGGAATGATGGGTCGCATGAGTAGTACT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATGGGTCGCATGTGTAGTACT
*
3641663 ATGTGCAGGCTACTATGCGTACCGGATAGCTTCGAT
66 ATGTGCAGGCTACTATGCGTACCGAATAGCTTCGAT
3641699 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
3641735 TCAGATGGAA
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 220 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATGGGTCGCATGTGTAGTACT
ATGTGCAGGCTACTATGCGTACCGAATAGCTTCGAT
Found at i:3641526 original size:51 final size:51
Alignment explanation
Indices: 3641400--3641728 Score: 346
Period size: 50 Copynumber: 6.5 Consensus size: 51
3641390 GATGGCCACG
* * * * *
3641400 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCTGAAT-G-ATGGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGATCACA
* * **
3641450 TGTGTAGTACTATGTGCAGGCTACTATGCATATCGAATAGCTTCGATCATG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACA
* * * * * * *
3641501 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCTGAAT-G-ATGGGTCCCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGATCACA
3641551 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACA
* * * * * * * *
3641602 TATGTAATACTATGTGCAGGCTACTACGTGTACCGGAAT-G-ATGGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGATCACA
* * *
3641652 TGAGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACA
3641703 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
3641729 CGTGTATCAG
Statistics
Matches: 224, Mismatches: 47, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
49 11 0.05
50 104 0.46
51 101 0.45
52 8 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACA
Found at i:3641761 original size:51 final size:49
Alignment explanation
Indices: 3641403--3641788 Score: 272
Period size: 51 Copynumber: 7.7 Consensus size: 49
3641393 GGCCACGTGT
* * * * *
3641403 GTAGTACTATGTGCAGGCTACTATGTGTACCTGAATGATGGGTCGCATGT
1 GTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGATCGGTCACATGA
* ** * * * * ** *
3641453 GTAGTACTATGTGCAGGCTACTATGCATATCGAATAGCTTCGATCATGTGT
1 GTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-G-ATCGGTCACATGA
* * * * *
3641504 GTAGTACTATGTGTAGGCTACTACGTGTACCTGAATGATGGGTCCCATGT
1 GTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGATCGGTCACATGA
* * * * *
3641554 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACAT-A
1 GTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-G-ATCGGTCACATGA
* * *
3641604 TGTAATACTATGTGCAGGCTACTACGTGTACCGGAATGATGGGTCGCATGA
1 -GTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATCGGTCACATGA
* * * * * *
3641655 GTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACGTGT
1 GTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-G-ATCGGTCACATGA
* * *
3641706 GTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGAAAT-GGTCACCTGA
1 GTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-G--ATCGGTCACATGA
* * * *
3641757 GTAGTACTATGTGTAGACTACTATGTGAACCG
1 GTAGTACTATGTGCAGGCTACTACGTGTACCG
3641789 AGTATCATTG
Statistics
Matches: 264, Mismatches: 61, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
49 10 0.04
50 103 0.39
51 144 0.55
52 7 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATCGGTCACATGA
Found at i:3642757 original size:49 final size:49
Alignment explanation
Indices: 3642679--3642777 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
3642669 ATGAGTACTT
* * * *
3642679 TCGGTAAGTGATATGTGATTCCGTATAAGACCATGGCTGGGCTATGGCA
1 TCGGTAAGTGATATGTGATTACATATAAGACCATAGCTGGACTATGGCA
* * *
3642728 TCGGTATGTGATATGTGATTACATGTAAGACCATAGTTGGACTATGGCA
1 TCGGTAAGTGATATGTGATTACATATAAGACCATAGCTGGACTATGGCA
3642777 T
1 T
3642778 TGAGAAAACG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (49 bp):
TCGGTAAGTGATATGTGATTACATATAAGACCATAGCTGGACTATGGCA
Found at i:3644268 original size:63 final size:63
Alignment explanation
Indices: 3644169--3644295 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
3644159 AGAAAGGATT
3644169 AAATTGCAAAAGTGAGAAAAGTTTTATTACCCAAGAGTAAATACTCAAAATTTGAGGGGTTAA
1 AAATTGCAAAAGTGAGAAAAGTTTTATTACCCAAGAGTAAATACTCAAAATTTGAGGGGTTAA
* * *
3644232 AAATTGTAAAAGTGAGAAAAGTTTTGTTGCCCAAGAGTAAATACTCAAAATTTGAGGGGTTAA
1 AAATTGCAAAAGTGAGAAAAGTTTTATTACCCAAGAGTAAATACTCAAAATTTGAGGGGTTAA
3644295 A
1 A
3644296 GTGTAAATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (63 bp):
AAATTGCAAAAGTGAGAAAAGTTTTATTACCCAAGAGTAAATACTCAAAATTTGAGGGGTTAA
Found at i:3644669 original size:93 final size:93
Alignment explanation
Indices: 3644510--3644694 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 93
3644500 GAGAGAAATA
3644510 TAGAAGAAAATGATGATGTTGGAGATATTTTATATTAATAAATAAATAAATAGTTTATTAATATT
1 TAGAAGAAAATGATGATGTTGGAGATATTTTATATTAATAAATAAATAAATAGTTTATTAATATT
3644575 TTAATTTGATTTTTTTAAAATGATATTC
66 TTAATTTGATTTTTTTAAAATGATATTC
*
3644603 TAGAAGATAATGATGATGTTGGAGATATTTTATATTAATAAATAAATAAATAGTTTATTAATATT
1 TAGAAGAAAATGATGATGTTGGAGATATTTTATATTAATAAATAAATAAATAGTTTATTAATATT
3644668 TTAATTTGATTTTTTTAAAATGATATT
66 TTAATTTGATTTTTTTAAAATGATATT
3644695 TTATTATTTT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.46
Consensus pattern (93 bp):
TAGAAGAAAATGATGATGTTGGAGATATTTTATATTAATAAATAAATAAATAGTTTATTAATATT
TTAATTTGATTTTTTTAAAATGATATTC
Found at i:3645688 original size:15 final size:15
Alignment explanation
Indices: 3645668--3645698 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3645658 TATGTGAGTC
3645668 TAGTTTCAGATAAAA
1 TAGTTTCAGATAAAA
3645683 TAGTTTCAGATAAAA
1 TAGTTTCAGATAAAA
3645698 T
1 T
3645699 TAACGGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (15 bp):
TAGTTTCAGATAAAA
Found at i:3649511 original size:85 final size:85
Alignment explanation
Indices: 3649359--3649528 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 85
3649349 TTTTGCAATC
* * ** *
3649359 ATTGTGTATTCAAACTTTCAAAATGCATAAAAAAAGTTCTCAAAATTTTTCAAAAAAAGTAATTA
1 ATTGGGTACTCAAACTTTCAAAATGCATAAAAAAAGCCCTCAAAATTTTTCAAAAAAAGCAATTA
3649424 AGCCCCTAATTTTTTTATTCA
66 AGCCCCTAATTTTTTT-TTCA
* * *
3649445 ATTGGGTACTCAAACTTTCAACATGCATAAAAAAAAGCCCTC-AATTTTTTC-AAAAATGCAATT
1 ATTGGGTACTCAAACTTTCAAAATGCAT-AAAAAAAGCCCTCAAAATTTTTCAAAAAAAGCAATT
* *
3649508 AAGCCCTTGATTTTTTTTTCA
65 AAGCCCCTAATTTTTTTTTCA
3649529 CTGAATTGGG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.05
85 25 0.34
86 33 0.45
87 11 0.15
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (85 bp):
ATTGGGTACTCAAACTTTCAAAATGCATAAAAAAAGCCCTCAAAATTTTTCAAAAAAAGCAATTA
AGCCCCTAATTTTTTTTTCA
Found at i:3649715 original size:10 final size:10
Alignment explanation
Indices: 3649702--3649788 Score: 54
Period size: 10 Copynumber: 8.8 Consensus size: 10
3649692 ATAAAAGTTA
3649702 TAAAAAATAT
1 TAAAAAATAT
***
3649712 TAAATTTTAT
1 TAAAAAATAT
3649722 TAAAAAATAT
1 TAAAAAATAT
3649732 T-AAAAATAT
1 TAAAAAATAT
***
3649741 TAAATTTTAT
1 TAAAAAATAT
* *
3649751 TAAAAATTAG
1 TAAAAAATAT
*
3649761 AAAAAAAT-T
1 TAAAAAATAT
3649770 TATAAAAATCA-
1 TA-AAAAAT-AT
3649781 TAAAAAAT
1 TAAAAAAT
3649789 TATAAAATGT
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
9 10 0.18
10 45 0.79
11 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:3649726 original size:29 final size:29
Alignment explanation
Indices: 3649693--3649766 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
3649683 TAAAAATCAA
*
3649693 TAAAAGTTATAAAAAATATTAAATTTTAT
1 TAAAAATTATAAAAAATATTAAATTTTAT
* *
3649722 TAAAAAATATTAAAAATATTAAATTTTAT
1 TAAAAATTATAAAAAATATTAAATTTTAT
*
3649751 TAAAAATTAGAAAAAA
1 TAAAAATTATAAAAAA
3649767 ATTTATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAAAATTATAAAAAATATTAAATTTTAT
Found at i:3649793 original size:10 final size:10
Alignment explanation
Indices: 3649694--3649795 Score: 50
Period size: 10 Copynumber: 10.3 Consensus size: 10
3649684 AAAAATCAAT
*
3649694 AAAAGTTATA
1 AAAAATTATA
*
3649704 AAAAA-TATT
1 AAAAATTATA
**
3649713 AAATTTTATTA
1 AAAAATTA-TA
*
3649724 AAAAA-TATT
1 AAAAATTATA
*
3649733 AAAAA-TATT
1 AAAAATTATA
** *
3649742 AAATTTTATT
1 AAAAATTATA
*
3649752 AAAAATTAGAA
1 AAAAATTA-TA
3649763 AAAAATT-TA
1 AAAAATTATA
*
3649772 TAAAAATCATA
1 -AAAAATTATA
3649783 AAAAATTATA
1 AAAAATTATA
3649793 AAA
1 AAA
3649796 TGTATCAAAG
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
9 20 0.29
10 36 0.52
11 13 0.19
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAATTATA
Found at i:3649829 original size:13 final size:13
Alignment explanation
Indices: 3649811--3649837 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3649801 CAAAGAGGCT
3649811 CTTTAACCATTAA
1 CTTTAACCATTAA
3649824 CTTTAACCATTAA
1 CTTTAACCATTAA
3649837 C
1 C
3649838 CGTTAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (13 bp):
CTTTAACCATTAA
Found at i:3650099 original size:19 final size:19
Alignment explanation
Indices: 3650077--3650113 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3650067 CTATATTTCT
3650077 ATATATTTTATAATTTTTA
1 ATATATTTTATAATTTTTA
*
3650096 ATATTTTTTATAATTTTT
1 ATATATTTTATAATTTTT
3650114 TATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATATTTTATAATTTTTA
Found at i:3654451 original size:16 final size:15
Alignment explanation
Indices: 3654432--3654479 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
3654422 TAATTATAAA
3654432 TTATTCTATTTATATT
1 TTATT-TATTTATATT
* *
3654448 TTATTTATATAAATAT
1 TTATTTATTTATAT-T
3654464 TTATTTATTTATATT
1 TTATTTATTTATATT
3654479 T
1 T
3654480 ATCTGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTATTTATATT
Found at i:3654454 original size:31 final size:27
Alignment explanation
Indices: 3654419--3654480 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 27
3654409 GTATTTCACA
*
3654419 ATTTAATTATAAATTATTCTATTTATATTTT
1 ATTTAA-TATAAA-TATT-TATTTAT-TTAT
3654450 ATTT-ATATAAATATTTATTTATTTAT
1 ATTTAATATAAATATTTATTTATTTAT
3654476 ATTTA
1 ATTTA
3654481 TCTGTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 7 0.24
27 7 0.24
28 4 0.14
29 6 0.21
30 1 0.03
31 4 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTAATATAAATATTTATTTATTTAT
Found at i:3654843 original size:84 final size:84
Alignment explanation
Indices: 3654711--3654948 Score: 345
Period size: 84 Copynumber: 2.8 Consensus size: 84
3654701 TATTAAAACT
3654711 AATAAAATCTGTTTTGGGATTTAGTTCC-GCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
1 AATAAAATCTGTTTTGGGATTTA-TTCCAGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
*
3654775 TCTAAATTAGAATTAAATTA
65 TCCAAATTAGAATTAAATTA
* * *
3654795 AATAAAATCTATTTTGGGATTTATTCCAGTCGTTTAACAAGATTTTATTTTATTTTATTTTGTTT
1 AATAAAATCTGTTTTGGGATTTATTCCAGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTT
*
3654860 CCAAATTCGAATTAAATTA
66 CCAAATTAGAATTAAATTA
* ** * * *
3654879 AACAAAATCTGTTTCAGGATTTATTCCCA-CCGTTTAACAAGATTTTATTCGATATTGTTTTGTT
1 AATAAAATCTGTTTTGGGATTTATT-CCAGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
3654943 TCCAAA
65 TCCAAA
3654949 CAAAGACGTA
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
83 4 0.03
84 131 0.95
85 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (84 bp):
AATAAAATCTGTTTTGGGATTTATTCCAGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTT
CCAAATTAGAATTAAATTA
Found at i:3672649 original size:43 final size:42
Alignment explanation
Indices: 3672587--3672748 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
3672577 CAAAAGCTCG
* * **
3672587 TACAATACCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACATAATCAAA
* *
3672629 TAACAATGCCATTGTCCCAGACAG-GGTCTTACACATAATCATA
1 T-ACAATGCCAATGTCCCAGAC-GTGGTCTTACACATAATCAAA
* * * * *
3672672 TACGATGCCAATGTCCCAAACATGGTCTTATACGTAAATCTCAAA
1 TACAATGCCAATGTCCCAGACGTGGTCTTACACAT-AA--TCAAA
* * *
3672717 T-CGAGGCCAACGTCCCAGACGTGGTCTTACAC
1 TACAATGCCAATGTCCCAGACGTGGTCTTACAC
3672749 GATGTCACAT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 27 0.28
45 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACGTGGTCTTACACATAATCAAA
Found at i:3677491 original size:10 final size:10
Alignment explanation
Indices: 3677478--3677502 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3677468 TCATTCTCTA
3677478 TCATTTCTTT
1 TCATTTCTTT
3677488 TCATTTCTTT
1 TCATTTCTTT
3677498 TCATT
1 TCATT
3677503 ATTATTCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (10 bp):
TCATTTCTTT
Found at i:3677793 original size:3 final size:3
Alignment explanation
Indices: 3677785--3677814 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3677775 GCTTTGCTAT
3677785 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3677815 CTACACTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:3693357 original size:499 final size:500
Alignment explanation
Indices: 3692419--3693416 Score: 1944
Period size: 499 Copynumber: 2.0 Consensus size: 500
3692409 GGAACTCTTT
3692419 AGTCACTAAGTAGTTCACTATGTCGGCATACCATGGCAGAACACTAGACACACTATAAAGTCGCT
1 AGTCACTAAGTAGTTCACTATGTCGGCATACCATGGCAGAACACTAGACACACTATAAAGTCGCT
3692484 CATCGGGAAATAAATCACTCGGCTTATCCCTCAAAATTCCAGTCTCTAACCTACTCAAATGATCG
66 CATCGGGAAATAAATCACTCGGCTTATCCCTCAAAATTCCAGTCTCTAACCTACTCAAATGATCG
3692549 GCCACAAGATTCTCCTTACCTTTCTTATCTTTAATTTCCAAGTCAAATTCCTGCAAAAGCAAAAT
131 GCCACAAGATTCTCCTTACCTTTCTTATCTTTAATTTCCAAGTCAAATTCCTGCAAAAGCAAAAT
3692614 CCATCTTATTAATCGGGGCTTAGCTTCTTTTTTATGTAACAAATATTTAAGAGCACCATGGTCAG
196 CCATCTTATTAATCGGGGCTTAGCTTCTTTTTTATGTAACAAATATTTAAGAGCACCATGGTCAG
3692679 AAAATACAACAACTTTGACTCCTAACAAGTATGCTCTAAATTTTTCTAAGGCAAAAACTATGGCA
261 AAAATACAACAACTTTGACTCCTAACAAGTATGCTCTAAATTTTTCTAAGGCAAAAACTATGGCA
3692744 TAGAGCTCTTTCTCGGTCGTGGTATAATTGCATTGAGCTGGGTTCAATAGTTCGCTAGCATACCT
326 TAGAGCTCTTTCTCGGTCGTGGTATAATTGCATTGAGCTGGGTTCAATAGTTCGCTAGCATACCT
3692809 GATAATATAAGACTCCTTACCATTTCTTTGTCCCAAAACCGCACCAACAGCCTTAT-ACTGGAAT
391 GATAATATAAGACTCCTTACCATTTCTTTGTCCCAAAACCGCACCAACAGCCTTATCACTGGAAT
3692873 CACATAAAATTTCAAAAGGTAATGCATAATTCAGCCCTTATATGG
456 CACATAAAATTTCAAAAGGTAATGCATAATTCAGCCCTTATATGG
3692918 AGTCACTAAGTAGTTCACTATGTCGGCATACCATGGCAGAACACTAGACACACTATAAAGTCGCT
1 AGTCACTAAGTAGTTCACTATGTCGGCATACCATGGCAGAACACTAGACACACTATAAAGTCGCT
*
3692983 CATCGGGAAATAAATCACTCGGCTTATCCCTTAAAATTCCAGTCTCTAACCTACTCAAATGATCG
66 CATCGGGAAATAAATCACTCGGCTTATCCCTCAAAATTCCAGTCTCTAACCTACTCAAATGATCG
3693048 GCCACAAGATTCTCCTTACCTTTCTTATCTTTAATTTCCAAGTCAAATTCCTGCAAAAGCAAAAT
131 GCCACAAGATTCTCCTTACCTTTCTTATCTTTAATTTCCAAGTCAAATTCCTGCAAAAGCAAAAT
3693113 CCATCTTATTAATCGGGGCTTAGCTTCTTTTTTATGTAACAAATATTTAAGAGCACCATGGTCAG
196 CCATCTTATTAATCGGGGCTTAGCTTCTTTTTTATGTAACAAATATTTAAGAGCACCATGGTCAG
3693178 AAAATACAACAACTTTGACTCCTAACAAGTATGCTCTAAATTTTTCTAAGGCAAAAACTATGGCA
261 AAAATACAACAACTTTGACTCCTAACAAGTATGCTCTAAATTTTTCTAAGGCAAAAACTATGGCA
3693243 TAGAGCTCTTTCTCGGTCGTGGTATAATTGCATTGAGCTGGGTTCAATAGTTCGCTAGCATACCT
326 TAGAGCTCTTTCTCGGTCGTGGTATAATTGCATTGAGCTGGGTTCAATAGTTCGCTAGCATACCT
* *
3693308 GATAATATAAGACTCCTTACCATTTCTTTGTCCCAAAGCCGCACCAACAGCCTTATCACTGGCAT
391 GATAATATAAGACTCCTTACCATTTCTTTGTCCCAAAACCGCACCAACAGCCTTATCACTGGAAT
* *
3693373 CACATAAAATTTCAAAAGGTAATGCATAATTCGGCCCTTGTATG
456 CACATAAAATTTCAAAAGGTAATGCATAATTCAGCCCTTATATG
3693417 ATAGGGGCTG
Statistics
Matches: 493, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
499 444 0.90
500 49 0.10
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (500 bp):
AGTCACTAAGTAGTTCACTATGTCGGCATACCATGGCAGAACACTAGACACACTATAAAGTCGCT
CATCGGGAAATAAATCACTCGGCTTATCCCTCAAAATTCCAGTCTCTAACCTACTCAAATGATCG
GCCACAAGATTCTCCTTACCTTTCTTATCTTTAATTTCCAAGTCAAATTCCTGCAAAAGCAAAAT
CCATCTTATTAATCGGGGCTTAGCTTCTTTTTTATGTAACAAATATTTAAGAGCACCATGGTCAG
AAAATACAACAACTTTGACTCCTAACAAGTATGCTCTAAATTTTTCTAAGGCAAAAACTATGGCA
TAGAGCTCTTTCTCGGTCGTGGTATAATTGCATTGAGCTGGGTTCAATAGTTCGCTAGCATACCT
GATAATATAAGACTCCTTACCATTTCTTTGTCCCAAAACCGCACCAACAGCCTTATCACTGGAAT
CACATAAAATTTCAAAAGGTAATGCATAATTCAGCCCTTATATGG
Found at i:3699720 original size:27 final size:27
Alignment explanation
Indices: 3699690--3700031 Score: 332
Period size: 27 Copynumber: 12.7 Consensus size: 27
3699680 GTGAGGTCAA
3699690 TAAAATGACCGAAATACCCCCGTAGGG
1 TAAAATGACCGAAATACCCCCGTAGGG
** *
3699717 TAAAATGACCGAAATACCCCTATATGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* * *
3699744 TAAAATGACCGAAATACCCTCATATGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* * * *
3699771 TAAAATGATCGAAATACTCCTGTAGGA
1 TAAAATGACCGAAATACCCCCGTAGGG
* ** *
3699798 TAAAATGATCGAAATACCCCTATAAGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* * *
3699825 TAAAATGATCC-AAACACCCCCGTAAGA
1 TAAAATGA-CCGAAATACCCCCGTAGGG
** * *
3699852 TAAAATGATTGAAATACCACCGTAAGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* *
3699879 TAAAATGACCGAAA-ACCCTCTTAGGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* *
3699905 TAAAATGATCGAAATAACCCCGTAGGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* *
3699932 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* * *
3699959 TAAAATAACCAAAATA-CCCCAT-GGG
1 TAAAATGACCGAAATACCCCCGTAGGG
* *
3699984 TTAAAATGACTGAAATACTCCCGTAGGG
1 -TAAAATGACCGAAATACCCCCGTAGGG
* *
3700012 TGAAATGATCGAAATACCCC
1 TAAAATGACCGAAATACCCC
3700032 TGTCGAAACC
Statistics
Matches: 259, Mismatches: 50, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
25 3 0.01
26 40 0.15
27 212 0.82
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCGTAGGG
Found at i:3700030 original size:80 final size:80
Alignment explanation
Indices: 3699690--3700031 Score: 397
Period size: 80 Copynumber: 4.2 Consensus size: 80
3699680 GTGAGGTCAA
* * *
3699690 TAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCCCTATATGGTAAAATGACCG
1 TAAAATGATCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
* *
3699755 AAATACCCTCATATGG
66 AAATACCC-CGTAGGG
* * * * * *
3699771 TAAAATGATCGAAATACTCCTGTAGGATAAAATGATCGAAATACCCCTATAAGGTAAAATGATCC
1 TAAAATGATCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
* * *
3699836 AAACACCCCCGTAAGA
66 AAATA-CCCCGTAGGG
* * *
3699852 TAAAATGATTGAAATACCACCGTAAGGTAAAATGACCGAAA-ACCCTCT-TAGGGTAAAATGATC
1 TAAAATGATCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCC-CTATAGGGTAAAATGATC
3699915 GAAATAACCCCGTAGGG
65 GAAAT-ACCCCGTAGGG
* * *
3699932 TAAAATGATCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCC-AT-GGGTTAAAATGA-C
1 TAAAATGATCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCCCTATAGGG-TAAAATGATC
3699994 TGAAATACTCCCGTAGGG
65 -GAAATAC-CCCGTAGGG
*
3700012 TGAAATGATCGAAATACCCC
1 TAAAATGATCGAAATACCCC
3700032 TGTCGAAACC
Statistics
Matches: 222, Mismatches: 31, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
79 6 0.03
80 107 0.48
81 106 0.48
82 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (80 bp):
TAAAATGATCGAAATACCCCCGTAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCG
AAATACCCCGTAGGG
Found at i:3703313 original size:100 final size:100
Alignment explanation
Indices: 3703158--3704166 Score: 1491
Period size: 100 Copynumber: 10.1 Consensus size: 100
3703148 CGCCATTGTG
* ** * * * ** *
3703158 GCTTTAATCTTTTT-ACTACAATGTTGGGGAAGCATGATTCGCTATTGTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* ** *
3703222 ACTGCACCGCCTGGG-GAGTAAAATTCGTTGTTGTA
66 ACTGCACCGCCTGGGAG-GTAAGATTCACTGCTGTA
* * * * *
3703257 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGATTTAATCTTTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* *
3703322 ACTGCACCGCCTGAGAGGTAAGACTCACTGCTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
* * *
3703357 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* *
3703422 ACTGCACCGCCTGAGAGGTAAGACTCACTGCTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
*
3703457 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTATGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* ** *
3703522 ACTGCACCACCTGGGAGGTAAGATTCGTTACTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
* **
3703557 GGTTTAATCTTTTTAACTGCAATACCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
**
3703622 ACTGCACAACCTGGGAGGTAAGATTCACTGCTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
*
3703657 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGACTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
*
3703722 ACTGCACCGCCTGGGAGGTAAGATTCACTGTTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
*
3703757 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* *
3703822 ACTGCACTGCCTGGGAGGTAAGATTCGCTGCTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
* * * *
3703857 GCTTTAATCTTTTTAACTACAATGTCAGGGAGGTAAGATTCACAGTTGTGGCTCTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* *
3703922 ACTGCATCGCCTGGGAGGTAAGATTCCCTGCTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
* *
3703957 GCTTTAATCTTTTTAACTGCAATGTCAGGAAGGCAAGATTCACCGTTGTGACTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
*
3704022 ACTGCACTGCCTGGGAGGTAAGATTCACTGCTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
* * *
3704057 GCTTTAATCTTTTTAACTACAATGTCAGGGAGGCAAGATTTACCGTTGTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * **
3704122 ACTGCACCGCTTGGGAGGTAAGATTCGCTATTGTA
66 ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
3704157 GCTTTAATCT
1 GCTTTAATCT
3704167 GCAATGTCAA
Statistics
Matches: 836, Mismatches: 72, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
99 14 0.02
100 821 0.98
101 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
ACTGCACCGCCTGGGAGGTAAGATTCACTGCTGTA
Found at i:3706403 original size:9 final size:9
Alignment explanation
Indices: 3706389--3706416 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3706379 TCCATCTAGA
3706389 TTTTTTTCT
1 TTTTTTTCT
3706398 TTTTTTTCT
1 TTTTTTTCT
3706407 TTTTTTTCT
1 TTTTTTTCT
3706416 T
1 T
3706417 CTTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:3706425 original size:13 final size:13
Alignment explanation
Indices: 3706393--3706428 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
3706383 TCTAGATTTT
*
3706393 TTTCTTTTTTTTC
1 TTTCTTTTTCTTC
3706406 TTT-TTTTTCTTC
1 TTTCTTTTTCTTC
3706418 TTTCTTTTTCT
1 TTTCTTTTTCT
3706429 CTCATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:3706470 original size:16 final size:15
Alignment explanation
Indices: 3706433--3706467 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3706423 TTTTCTCTCA
3706433 TTTTTT-ATTTTAAT
1 TTTTTTGATTTTAAT
*
3706447 TTTTTTGATTTTGAT
1 TTTTTTGATTTTAAT
3706462 TTTTTT
1 TTTTTT
3706468 TGAAAGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (15 bp):
TTTTTTGATTTTAAT
Found at i:3712793 original size:27 final size:27
Alignment explanation
Indices: 3712697--3712790 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
3712687 TTACAACTCT
*
3712697 AATAGGGTAAAATAACCTAAATAACCCC
1 AATAGGGTAAAATAACCAAAAT-ACCCC
*
3712725 -ATAAGGTAAAATAACCAAAATACCCC
1 AATAGGGTAAAATAACCAAAATACCCC
** * *
3712751 TGTAGGGTAAAATGACCGAAATACCCC
1 AATAGGGTAAAATAACCAAAATACCCC
3712778 AATAGGGTAAAAT
1 AATAGGGTAAAAT
3712791 GACTGTTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.09
27 52 0.91
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (27 bp):
AATAGGGTAAAATAACCAAAATACCCC
Found at i:3712996 original size:26 final size:26
Alignment explanation
Indices: 3712967--3713021 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
3712957 TCTATCACAT
*
3712967 ATACTATTACTGCCAGCTTTGCTGCG
1 ATACTATTACTGCCAGCTTTGCTGAG
*
3712993 ATACTATTACTGGCAGCTTTGCTGAG
1 ATACTATTACTGCCAGCTTTGCTGAG
3713019 ATA
1 ATA
3713022 TTGGTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGCCAGCTTTGCTGAG
Found at i:3719146 original size:6 final size:6
Alignment explanation
Indices: 3719135--3719164 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
3719125 TCCTCCCTCA
3719135 CTTTTT CTTTTT CTTTTT CTTCTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTT
3719165 CGGTTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:3720116 original size:27 final size:27
Alignment explanation
Indices: 3720087--3720445 Score: 429
Period size: 27 Copynumber: 13.3 Consensus size: 27
3720077 GTGAGGTCAA
* *
3720087 TAAAATGACCAAAATACCCTCATAGGA
1 TAAAATGACCGAAATACCCTCATAGGG
*
3720114 TAAAATGACCGAAATACACC-CATAGGA
1 TAAAATGACCGAAATAC-CCTCATAGGG
* * * *
3720141 TAAAACGATCGAAATACCCCCGTAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* *
3720168 TAAAATAATCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* *
3720195 TAAAATGATCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
3720222 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
*
3720249 TAAAATGATCGAAATACCC-CTATAGGG
1 TAAAATGACCGAAATACCCTC-ATAGGG
* *
3720276 TAAAATGATCGAAATACCC-CTGTAGGG
1 TAAAATGACCGAAATACCCTC-ATAGGG
*
3720303 TAAAATGACCGAAATACTCC-CGTAGGG
1 TAAAATGACCGAAATAC-CCTCATAGGG
* *
3720330 TAAAATAACCGAAATACCCTCATAAGG
1 TAAAATGACCGAAATACCCTCATAGGG
* * *
3720357 TAAAAAGACCAAAATACCCTCGTAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* *
3720384 TAAAATAATCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* * *
3720411 TAAAATGACTGAAATACCCCCATAAGG
1 TAAAATGACCGAAATACCCTCATAGGG
3720438 TAAAATGA
1 TAAAATGA
3720446 TTGTTATACC
Statistics
Matches: 293, Mismatches: 34, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.02
27 283 0.97
28 5 0.02
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCATAGGG
Found at i:3723893 original size:23 final size:23
Alignment explanation
Indices: 3723867--3723910 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
3723857 ATGTTAATTT
3723867 AATTAGTAAAAATATA-TATTTTG
1 AATT-GTAAAAATATATTATTTTG
* *
3723890 AATTGTAGAATTATATTATTT
1 AATTGTAAAAATATATTATTT
3723911 AAAGAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
AATTGTAAAAATATATTATTTTG
Found at i:3728463 original size:22 final size:21
Alignment explanation
Indices: 3728431--3728475 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
3728421 ATTTGAAATG
3728431 TTTTATAATATTACTTTTTAAAA
1 TTTTATAATATT--TTTTTAAAA
3728454 TTTTA-AATATTTTTTTAAAA
1 TTTTATAATATTTTTTTAAAA
3728474 TT
1 TT
3728476 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATAATATTTTTTTAAAA
Found at i:3728480 original size:14 final size:14
Alignment explanation
Indices: 3728461--3728489 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3728451 AAATTTTAAA
3728461 TATTTTTTTAAAAT
1 TATTTTTTTAAAAT
3728475 TATTTTTTTAAAAT
1 TATTTTTTTAAAAT
3728489 T
1 T
3728490 TTAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTTTTAAAAT
Found at i:3728506 original size:22 final size:22
Alignment explanation
Indices: 3728466--3728507 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3728456 TTAAATATTT
*
3728466 TTTTAAAATTATTTTTTTAAAA
1 TTTTAAAATTATATTTTTAAAA
3728488 TTTT-AAATATATATTTTTAA
1 TTTTAAAAT-TATATTTTTAA
3728508 TAAATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAAATTATATTTTTAAAA
Found at i:3728713 original size:13 final size:13
Alignment explanation
Indices: 3728697--3728758 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
3728687 TAAATGCATA
*
3728697 TTTTAAATATTTT
1 TTTTAAATATTAT
*
3728710 TTTTAAATATAATT
1 TTTTAAATATTA-T
3728724 TTTATAAATTATTAAT
1 TTT-TAAA-TATT-AT
3728740 TTTTAAA-ATTAT
1 TTTTAAATATTAT
3728752 TTTTAAA
1 TTTTAAA
3728759 GATATTCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 9 0.21
13 13 0.31
14 4 0.10
15 8 0.19
16 7 0.17
17 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:3728753 original size:29 final size:30
Alignment explanation
Indices: 3728709--3728772 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
3728699 TTAAATATTT
3728709 TTTTTAAATATAATTTTTATAA-ATTATT-AA
1 TTTTTAAATATAATTTTTA-AAGA-TATTCAA
*
3728739 TTTTTAAA-ATTATTTTTAAAGATATTCAA
1 TTTTTAAATATAATTTTTAAAGATATTCAA
3728768 TTTTT
1 TTTTT
3728773 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 6 0.19
29 17 0.55
30 8 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTTTAAATATAATTTTTAAAGATATTCAA
Found at i:3734764 original size:20 final size:19
Alignment explanation
Indices: 3734741--3734792 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
3734731 TTTTTTCTAA
*
3734741 TTAATTTAAATTTCACTTTT
1 TTAATTTAAATATCA-TTTT
* *
3734761 TTAAATAAAATATCATTTT
1 TTAATTTAAATATCATTTT
*
3734780 TAAATTTTAAATA
1 TTAA-TTTAAATA
3734793 GAATTTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATTTAAATATCATTTT
Found at i:3734890 original size:41 final size:40
Alignment explanation
Indices: 3734833--3734913 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
3734823 AAATAATTTA
*
3734833 AAAATCATAATTTAAAAAATTATAAATCAAATTAAAAAATT
1 AAAATCATAATTTAAAAAATTATAAAACAAA-TAAAAAATT
* *
3734874 AAAAT-ATACATTTAAAATATTATAAAACAAATAATAAATT
1 AAAATCATA-ATTTAAAAAATTATAAAACAAATAAAAAATT
3734914 TGAAAAGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 11 0.31
41 25 0.69
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (40 bp):
AAAATCATAATTTAAAAAATTATAAAACAAATAAAAAATT
Found at i:3734988 original size:22 final size:21
Alignment explanation
Indices: 3734954--3735027 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
3734944 ATTTTATTTA
3734954 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
*
3734975 TTAAAAAATAATATTATAAAACAT
1 TTAAAAAAT-ATATT-TAAAA-TT
* * *
3734999 TTCAAATATACATTTAAAATT
1 TTAAAAAATATATTTAAAATT
*
3735020 TTATAAAA
1 TTAAAAAA
3735028 CAAATAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 15 0.36
22 10 0.24
23 9 0.21
24 8 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:3735060 original size:12 final size:12
Alignment explanation
Indices: 3735022--3735067 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
3735012 TTAAAATTTT
3735022 ATAAAACAAATA
1 ATAAAACAAATA
3735034 AT-AAACAAATAA
1 ATAAAACAAAT-A
*
3735046 ATAAAATAAATA
1 ATAAAACAAATA
*
3735058 ATAAATCAAA
1 ATAAAACAAA
3735068 CGTGTATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 8 0.28
12 14 0.48
13 7 0.24
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (12 bp):
ATAAAACAAATA
Found at i:3751515 original size:11 final size:10
Alignment explanation
Indices: 3751502--3751601 Score: 75
Period size: 10 Copynumber: 9.9 Consensus size: 10
3751492 TAAAAAAAGT
3751502 ATTTT-AAAA
1 ATTTTAAAAA
3751511 ATATTT-AAAA
1 AT-TTTAAAAA
3751521 ATTTTAAAAA
1 ATTTTAAAAA
*
3751531 A-TTAAAAAA
1 ATTTTAAAAA
3751540 GTATTTTAAAAA
1 --ATTTTAAAAA
*
3751552 ATTTTTAAAA
1 ATTTTAAAAA
3751562 A--TTAAAAA
1 ATTTTAAAAA
*
3751570 ATTTAAAAAA
1 ATTTTAAAAA
*
3751580 GTATTTTAAAAGT
1 --ATTTTAAAA-A
3751593 ATTTTAAAA
1 ATTTTAAAA
3751602 TTAAAAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.09
9 12 0.16
10 30 0.41
11 10 0.14
12 15 0.20
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:3751538 original size:41 final size:40
Alignment explanation
Indices: 3751486--3751618 Score: 180
Period size: 40 Copynumber: 3.3 Consensus size: 40
3751476 AAATTAAAAC
3751486 AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTTTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAA-TTTA
*
3751527 AAAAATT-AAAAAAGTATTTTAAAAAATTTTTAAAAA-TTA
1 AAAAATTAAAAAAAGTATTTT-AAAAATATTTAAAAATTTA
* * * *
3751566 AAAAATTTAAAAAAGTATTTTAAAAGTATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTTA
*
3751606 AAAAAATAAAAAA
1 AAAAATTAAAAAA
3751619 TAATAAAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
39 22 0.27
40 39 0.48
41 21 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTTA
Found at i:3751571 original size:8 final size:9
Alignment explanation
Indices: 3751504--3751579 Score: 73
Period size: 9 Copynumber: 8.0 Consensus size: 9
3751494 AAAAAAGTAT
3751504 TTTAAAAATA
1 TTTAAAAA-A
*
3751514 TTTAAAAAT
1 TTTAAAAAA
3751523 TTTAAAAAA
1 TTTAAAAAA
*
3751532 TTAAAAAAGTA
1 TTTAAAAA--A
3751543 TTTTAAAAAA
1 -TTTAAAAAA
*
3751553 TTTTTAAAAA
1 -TTTAAAAAA
3751563 -TTAAAAAA
1 TTTAAAAAA
3751571 TTTAAAAAA
1 TTTAAAAAA
3751580 GTATTTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
8 7 0.12
9 23 0.41
10 18 0.32
11 1 0.02
12 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:3756148 original size:21 final size:22
Alignment explanation
Indices: 3756111--3756163 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3756101 TCGGCCCATT
**
3756111 TTTTAATAAA-TACAAAAATTTA
1 TTTTAA-AAATTACAAAAAAGTA
3756133 TTTTAAAAATTA-AAAAAAGTA
1 TTTTAAAAATTACAAAAAAGTA
3756154 TTTTAAAAAT
1 TTTTAAAAAT
3756164 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTTAAAAATTACAAAAAAGTA
Found at i:3778960 original size:42 final size:42
Alignment explanation
Indices: 3778904--3779026 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
3778894 AAGCTCATAG
* * * *
3778904 GAGCTGAACGGAAACCCATAAGGGTTAATCTGAAGCTCAGAAA
1 GAGCTAAACTGAAACCAATAAGGGTTAAACTGAA-CTCAGAAA
* * *
3778947 -AGCTAAACTGAAACCTATTAGGGTTAAAATGACACTC-GAAA
1 GAGCTAAACTGAAACCAATAAGGGTTAAACTGA-ACTCAGAAA
* *
3778988 GAGCTAAACTTAAACCAAGAAGGGTTAAACTGAAACTCA
1 GAGCTAAACTGAAACCAATAAGGGTTAAACTG-AACTCA
3779027 TATGAGTTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
41 4 0.06
42 59 0.91
43 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (42 bp):
GAGCTAAACTGAAACCAATAAGGGTTAAACTGAACTCAGAAA
Found at i:3781148 original size:16 final size:15
Alignment explanation
Indices: 3781123--3781155 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
3781113 TTGGGTTGAG
3781123 AAAATAATTTAATTA
1 AAAATAATTTAATTA
3781138 AAAATTAATTTAATTA
1 AAAA-TAATTTAATTA
3781154 AA
1 AA
3781156 CTAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATAATTTAATTA
Found at i:3781380 original size:18 final size:17
Alignment explanation
Indices: 3781339--3781381 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
3781329 CAAGTGGAAT
3781339 TTTTATTTTTTAATAAA
1 TTTTATTTTTTAATAAA
* *
3781356 TTATATTTTTTAATTATA
1 TTTTATTTTTTAA-TAAA
3781374 TTTTATTT
1 TTTTATTT
3781382 GAATAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATTTTTTAATAAA
Found at i:3784123 original size:26 final size:27
Alignment explanation
Indices: 3784085--3784157 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
3784075 AATATCGCAA
* *
3784085 CAAAGCTTCCAGTAATAGTATTGC-AG
1 CAAAGCTGCCAGTAATAGTATTCCAAG
*
3784111 CAAAGCTGGCAGT-ATCAGTA-TCCAAG
1 CAAAGCTGCCAGTAAT-AGTATTCCAAG
* *
3784137 CAAAGCTGTCAGTAACAGTAT
1 CAAAGCTGCCAGTAATAGTAT
3784158 ACTTCCTCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 4 0.11
26 33 0.87
27 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
CAAAGCTGCCAGTAATAGTATTCCAAG
Found at i:3791936 original size:26 final size:26
Alignment explanation
Indices: 3791864--3791938 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
3791854 ACCAACATCG
*
3791864 CAGCAAAGCTA-CAGTAATAGTATCA
1 CAGCAAAGCTACCAGTAACAGTATCA
* * *
3791889 CAGTAAAGCTGCCAGTATCAGTATCA
1 CAGCAAAGCTACCAGTAACAGTATCA
* *
3791915 CAGCAAAACTACCAATAACAGTAT
1 CAGCAAAGCTACCAGTAACAGTAT
3791939 ACTTCCTCCA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 9 0.22
26 31 0.77
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.20
Consensus pattern (26 bp):
CAGCAAAGCTACCAGTAACAGTATCA
Found at i:3804754 original size:9 final size:9
Alignment explanation
Indices: 3804737--3804989 Score: 157
Period size: 9 Copynumber: 29.9 Consensus size: 9
3804727 TAAGTATAAT
*
3804737 TAAGCTATG
1 TAAGTTATG
3804746 TAAGTTATG
1 TAAGTTATG
*
3804755 TAAGTTATA
1 TAAGTTATG
*
3804764 TAAGTTGTG
1 TAAGTTATG
*
3804773 T-A-TAATG
1 TAAGTTATG
3804780 TAAGTTATG
1 TAAGTTATG
*
3804789 AAAGTTATG
1 TAAGTTATG
3804798 T-A-TTATG
1 TAAGTTATG
3804805 TAAGTTATG
1 TAAGTTATG
3804814 T-A-TTATG
1 TAAGTTATG
*
3804821 TAAGTTATT
1 TAAGTTATG
*
3804830 TAAGTTGTG
1 TAAGTTATG
3804839 T-A-TTATG
1 TAAGTTATG
*
3804846 TAAGTCATG
1 TAAGTTATG
* *
3804855 TAGGCTATG
1 TAAGTTATG
3804864 T-A-TTATG
1 TAAGTTATG
3804871 TAAGTTATG
1 TAAGTTATG
* *
3804880 AAAGTTTCATA
1 TAAG-TT-ATG
*
3804891 TAAGTGAT-
1 TAAGTTATG
*
3804899 TAA-ATATG
1 TAAGTTATG
3804907 T-A-TTATG
1 TAAGTTATG
* *
3804914 TAATTTATT
1 TAAGTTATG
3804923 TAAGTTATG
1 TAAGTTATG
*
3804932 TAAGTTGTG
1 TAAGTTATG
3804941 T-A-TTATG
1 TAAGTTATG
*
3804948 CT-AGTCATG
1 -TAAGTTATG
* *
3804957 TAGGCTATG
1 TAAGTTATG
3804966 T-A-TTATG
1 TAAGTTATG
3804973 TAAGTTATG
1 TAAGTTATG
*
3804982 AAAGTTAT
1 TAAGTTAT
3804990 ATATAAGTTA
Statistics
Matches: 186, Mismatches: 38, Indels: 40
0.70 0.14 0.15
Matches are distributed among these distances:
7 43 0.23
8 19 0.10
9 116 0.62
10 3 0.02
11 5 0.03
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:3804803 original size:16 final size:16
Alignment explanation
Indices: 3804784--3804879 Score: 88
Period size: 16 Copynumber: 5.9 Consensus size: 16
3804774 ATAATGTAAG
*
3804784 TTATGAAAGTTATGTA
1 TTATGTAAGTTATGTA
3804800 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
3804816 TTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
*
3804833 GTTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
* * *
3804849 GTCATGTAGGCTATGTA
1 -TTATGTAAGTTATGTA
3804866 TTATGTAAGTTATG
1 TTATGTAAGTTATG
3804880 AAAGTTTCAT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
16 52 0.80
17 3 0.05
18 10 0.15
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:3804828 original size:25 final size:25
Alignment explanation
Indices: 3804742--3804933 Score: 136
Period size: 25 Copynumber: 8.0 Consensus size: 25
3804732 ATAATTAAGC
*
3804742 TATGTAAGTTATGTAAGTTATATAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
3804769 TGTGT-A-TAATGTAAGTTATGAAAGT
1 TATGTAAGTTATGTAAGTTATG-TA-T
3804794 TATGT-A-TTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
3804817 TATGTAAGTTATTTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
3804842 TATGTAAGTCATGTAGGCTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
3804867 TATGTAAGTTATGAAAGTT-T-CA-
1 TATGTAAGTTATGTAAGTTATGTAT
* *
3804889 TA--TAAGTGAT-TAA-ATATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
3804910 TATGTAATTTATTTAAGTTATGTA
1 TATGTAAGTTATGTAAGTTATGTA
3804934 AGTTGTGTAT
Statistics
Matches: 129, Mismatches: 26, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 3 0.02
20 8 0.06
21 2 0.02
22 2 0.02
23 13 0.10
24 6 0.05
25 89 0.69
26 1 0.01
27 4 0.03
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:3804864 original size:66 final size:66
Alignment explanation
Indices: 3804750--3804879 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
3804740 GCTATGTAAG
* *
3804750 TTATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGAAAGTTATGTATTATGTAAGTTATGT
1 TTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGAAAGCTATGTATTATGTAAGTTATGT
3804815 A
66 A
* * * *
3804816 TTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGTTATG
1 TTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGAAAGCTATGTATTATGTAAGTTATG
3804880 AAAGTTTCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (66 bp):
TTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGAAAGCTATGTATTATGTAAGTTATGT
A
Found at i:3804875 original size:41 final size:41
Alignment explanation
Indices: 3804784--3804981 Score: 64
Period size: 41 Copynumber: 5.0 Consensus size: 41
3804774 ATAATGTAAG
* * *
3804784 TTATGAAAGTTATGTATTATGTAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTCATGTACTATGTAAGTTATGTAAGTTATGT-A
* ** * * * *
3804824 GTTATTTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTA
1 -TTATGTAAGTCATGTACTATGTAAGTTATGTAAGTTATGTA
* * * * * *
3804866 TTATGTAAGTTATGAAAGTTTCATATAAGTGAT-TAA-ATATGTA
1 TTATGTAAGTCATG-TA--CT-ATGTAAGTTATGTAAGTTATGTA
*
3804909 TTATGTAA-T--T-TA-T-T-TAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTCATGTACTATGTAAGTTATGTAAGTTATGTA
3804943 TTATGCT-AGTCATGTAGGCTATGT-A-TTATGTAAGTTATG
1 TTATG-TAAGTCATGTA--CTATGTAAGTTATGTAAGTTATG
3804982 AAAGTTATAT
Statistics
Matches: 121, Mismatches: 18, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
32 7 0.06
33 4 0.03
34 11 0.09
35 3 0.02
37 1 0.01
38 3 0.02
40 1 0.01
41 53 0.44
42 5 0.04
43 20 0.17
44 4 0.03
45 9 0.07
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (41 bp):
TTATGTAAGTCATGTACTATGTAAGTTATGTAAGTTATGTA
Found at i:3804943 original size:102 final size:100
Alignment explanation
Indices: 3804809--3805004 Score: 315
Period size: 102 Copynumber: 1.9 Consensus size: 100
3804799 ATTATGTAAG
*
3804809 TTATGTATTATGTAAGTTATTTAAGTTGTGTATTATG-TAAGTCATGTAGGCTATGTATTATGTA
1 TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCT-AGTCATGTAGGCTATGTATTATGTA
3804873 AGTTATGAAAGTT-TCATATAAGTGATTAAATATGTA
65 AGTTATGAAAGTTAT-ATATAAGTGATTAAATATGTA
*
3804909 TTATGTAATTTATTTAAGTTATGTAAGTTGTGTATTATGCTAGTCATGTAGGCTATGTATTATGT
1 TTATGT-A-TTATGTAAGTTATGTAAGTTGTGTATTATGCTAGTCATGTAGGCTATGTATTATGT
*
3804974 AAGTTATGAAAGTTATATATAAGTTATTAAA
64 AAGTTATGAAAGTTATATATAAGTGATTAAA
3805005 AATATATATA
Statistics
Matches: 89, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
100 6 0.07
101 1 0.01
102 80 0.90
103 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (100 bp):
TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGCTAGTCATGTAGGCTATGTATTATGTAA
GTTATGAAAGTTATATATAAGTGATTAAATATGTA
Found at i:3804998 original size:20 final size:20
Alignment explanation
Indices: 3804973--3805015 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3804963 ATGTATTATG
**
3804973 TAAGTTATGAAAGTTATATA
1 TAAGTTATGAAAAATATATA
*
3804993 TAAGTTATTAAAAATATATA
1 TAAGTTATGAAAAATATATA
3805013 TAA
1 TAA
3805016 ATTTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
TAAGTTATGAAAAATATATA
Found at i:3805023 original size:20 final size:19
Alignment explanation
Indices: 3804987--3805032 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
3804977 TTATGAAAGT
*
3804987 TATATATAAGTTATTAAAAA
1 TATATATAAATTATT-AAAA
* *
3805007 TATATATAAATTTTTAATA
1 TATATATAAATTATTAAAA
3805026 TATATAT
1 TATATAT
3805033 TAAAAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATATAAATTATTAAAA
Found at i:3805076 original size:23 final size:22
Alignment explanation
Indices: 3805048--3805092 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3805038 ATGTATATAA
*
3805048 ATATTAATAAGTTATTAAGTTAT
1 ATATTAAAAAGTTA-TAAGTTAT
*
3805071 ATATTAAAAATTTATAAGTTAT
1 ATATTAAAAAGTTATAAGTTAT
3805093 GTAAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATTAAAAAGTTATAAGTTAT
Found at i:3805088 original size:30 final size:30
Alignment explanation
Indices: 3805041--3805101 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
3805031 ATTAAAAATG
* *
3805041 TATATAAATATTAATAAGTTAT-TAAGTTA
1 TATATAAAAATTAATAAGTTATGTAAATTA
*
3805070 TATATTAAAAATTTATAAGTTATGTAAATTA
1 TATA-TAAAAATTAATAAGTTATGTAAATTA
3805101 T
1 T
3805102 GAACTCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (30 bp):
TATATAAAAATTAATAAGTTATGTAAATTA
Found at i:3807296 original size:105 final size:102
Alignment explanation
Indices: 3807155--3807403 Score: 295
Period size: 105 Copynumber: 2.4 Consensus size: 102
3807145 CGCAAAATAT
* * * *
3807155 TATTTCATTTTGAATAAAATGACGTCGTTTTGCTATGCACAA-ACTTTTTTTATTTTGTTTTTTA
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCA-AATAATTTTTTTA--TT-TTTTATA
* * *
3807219 AATTGATTTATTTTTTGCGGCGTTTTTATGGAAAATGCCGC-
62 AATTGATTTATATTTTGCGGCGTTTTTATAG-AAACGCCGCA
* *
3807260 TATTTCATTTTGAACAAAATGACGCCGTTTTCCTATGCAAATAATTTTTTTATTTTTTATAATTT
1 TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAATAATTTTTTTATTTTTTATAAATT
*
3807325 TATTTATATTTTGCGGCGTTTTTATAGAAACGCCGCAAAATA
66 GATTTATATTTTGCGGCGTTTTTATAGAAACGCCGC-----A
3807367 TTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAT
1 -TATTTCATTTTGAACAAAATGACGCCGTTTTGCTAT
3807404 TTTGTTTCTA
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
101 8 0.06
102 33 0.26
103 2 0.02
104 2 0.02
105 45 0.36
108 35 0.28
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (102 bp):
TATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAATAATTTTTTTATTTTTTATAAATT
GATTTATATTTTGCGGCGTTTTTATAGAAACGCCGCA
Found at i:3807321 original size:18 final size:20
Alignment explanation
Indices: 3807300--3807336 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
3807290 TCCTATGCAA
3807300 ATAATTTT-TTTAT-TTTTT
1 ATAATTTTATTTATATTTTT
3807318 ATAATTTTATTTATATTTT
1 ATAATTTTATTTATATTTT
3807337 GCGGCGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
ATAATTTTATTTATATTTTT
Found at i:3807336 original size:19 final size:18
Alignment explanation
Indices: 3807300--3807336 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
3807290 TCCTATGCAA
*
3807300 ATAATTTTTTTATTTTTT
1 ATAATTTTTTTATATTTT
3807318 ATAATTTTATTTATATTTT
1 ATAATTTT-TTTATATTTT
3807337 GCGGCGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATAATTTTTTTATATTTT
Found at i:3807854 original size:22 final size:22
Alignment explanation
Indices: 3807829--3807871 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3807819 ACCTTAAATC
3807829 TCTAAAACCTAAACCCCTAACG
1 TCTAAAACCTAAACCCCTAACG
**
3807851 TCTAACCCCTAAACCCCTAAC
1 TCTAAAACCTAAACCCCTAAC
3807872 CCCTAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.42, G:0.02, T:0.19
Consensus pattern (22 bp):
TCTAAAACCTAAACCCCTAACG
Found at i:3807877 original size:22 final size:22
Alignment explanation
Indices: 3807836--3807877 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3807826 ATCTCTAAAA
**
3807836 CCTAAACCCCTAACGTCTAACC
1 CCTAAACCCCTAACCCCTAACC
3807858 CCTAAACCCCTAACCCCTAA
1 CCTAAACCCCTAACCCCTAA
3807878 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.48, G:0.02, T:0.17
Consensus pattern (22 bp):
CCTAAACCCCTAACCCCTAACC
Found at i:3807879 original size:15 final size:15
Alignment explanation
Indices: 3807852--3807880 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3807842 CCCCTAACGT
3807852 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
3807867 CTAACCCCTAAACC
1 CTAACCCCTAAACC
3807881 TTAAATCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:3807885 original size:22 final size:21
Alignment explanation
Indices: 3807833--3807881 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
3807823 TAAATCTCTA
**
3807833 AAACCTAAACCCCTAACGTCT
1 AAACCTAAACCCCTAACCCCT
*
3807854 AACCCCTAAACCCCTAACCCCT
1 AA-ACCTAAACCCCTAACCCCT
3807876 AAACCT
1 AAACCT
3807882 TAAATCTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.37, C:0.45, G:0.02, T:0.16
Consensus pattern (21 bp):
AAACCTAAACCCCTAACCCCT
Found at i:3807917 original size:14 final size:14
Alignment explanation
Indices: 3807900--3807941 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
3807890 AACCCTTAAA
*
3807900 CCATAATCCCTAAT
1 CCATAATCCCTAAC
3807914 CCATAATCCCTAGAC
1 CCATAATCCCTA-AC
*
3807929 CCATACTCCCTAA
1 CCATAATCCCTAA
3807942 ACCTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.33, C:0.40, G:0.02, T:0.24
Consensus pattern (14 bp):
CCATAATCCCTAAC
Found at i:3808227 original size:14 final size:14
Alignment explanation
Indices: 3808210--3808236 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3808200 AACCCTTAAA
3808210 CCATAATCCCTAAT
1 CCATAATCCCTAAT
3808224 CCATAATCCCTAA
1 CCATAATCCCTAA
3808237 ACCTATACTC
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:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:3808258 original size:310 final size:302
Alignment explanation
Indices: 3807713--3808322 Score: 854
Period size: 310 Copynumber: 2.0 Consensus size: 302
3807703 AATATATTTG
3807713 ATTTATTATTATCTCTTTTACAACTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
1 ATTTATTATTATCTCTTTTACAACTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
* *
3807778 AAGCTAAACTCAAAACCTTAACTCGACCCCTGAATCTCTAAACCTTAAATCTCTAAAACCTAAAC
66 AA-C-AAACCCAAAACCTTAACTCGACCCCTGAATCTCTAAACCCTAAATCTCT-AAACCTAAAC
*
3807843 CCCTAACGTCTAACCCCTAAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATC
128 CCCAAACGTCTAACCCCTAAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATC
* * * *
3807908 CCTAATCCATAATCCCTAGACCCATACTCCCTAAACCTTAAAATATG-AACTCCTAAACCGGCCT
193 CCTAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAA-ACGTAACTCCTAAACCGGCAT
* *
3807972 TAAATCTTAAATAAATCATATACCCTAAACCAAAAACCCTAAACAA
257 TAAATCTTAAATAAATCATAGACCCAAAACCAAAAACCCTAAACAA
* *
3808018 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTCAAATATAAATTAAAAAAATTAAT
1 ATTTATTATTATCTCTTTTACAACTATATAAGAACATATTTAAAATATAAATTAAAAAAA-TAAT
* * *
3808083 CTAA-ACACCCAAAATCC-TAACTCGACCCTTGAATC-CTTAAACCCTAAAT-TCCT-AACTCTT
65 -TAACAAACCCAAAA-CCTTAACTCGACCCCTGAATCTC-TAAACCCTAAATCT-CTAAAC-CTA
* *
3808143 AACCCCAAACGTCTAACCCTAAACTCCTAACCCTCTAACCCTTAAACCTTAAATCTCAACCCTTA
125 AACCCCAAACGTCTAACCC----CT--AAACCC-CTAACCCCTAAACCTTAAATCTCAACCCTTA
* *
3808208 AACCATAATCCCTAATCCATAATCCCTAAACCTATACTCCATATACCTTAAAAACGTAACTCCTA
183 AACCATAATCCCTAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAAACGTAACTCCTA
*
3808273 AACTGGCATTAAATCTTAAATAAATCATAGACCCAAAACCAAAAACCCTA
248 AACCGGCATTAAATCTTAAATAAATCATAGACCCAAAACCAAAAACCCTA
3808323 TGTTTTTTTT
Statistics
Matches: 272, Mismatches: 19, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
302 3 0.01
303 22 0.08
304 38 0.14
305 60 0.22
306 4 0.01
307 5 0.02
309 7 0.03
310 133 0.49
ACGTcount: A:0.42, C:0.28, G:0.03, T:0.27
Consensus pattern (302 bp):
ATTTATTATTATCTCTTTTACAACTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
AACAAACCCAAAACCTTAACTCGACCCCTGAATCTCTAAACCCTAAATCTCTAAACCTAAACCCC
AAACGTCTAACCCCTAAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAATCCCT
AATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAAACGTAACTCCTAAACCGGCATTAAA
TCTTAAATAAATCATAGACCCAAAACCAAAAACCCTAAACAA
Found at i:3808463 original size:114 final size:114
Alignment explanation
Indices: 3808327--3808814 Score: 535
Period size: 114 Copynumber: 4.3 Consensus size: 114
3808317 ACCCTATGTT
** * *
3808327 TTTTTTGCGGCGCTTTAC-CAAAAACGCCGCTAAATACCTGAGCATTAGCAGTGCTTTCCT-AAA
1 TTTTTTGCGGCGCTTT-CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAAA
* *
3808390 AACGCCGTTAAATCCCCGAAAGCTCAGACAACGGCGTCGTTGGGCTTATG
65 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* *
3808440 TCTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC-TTCCTAAAA
1 T-TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAAA
* ** * * * *
3808504 AACGCCACTAAATCAGCGAAAGCTCAAAAAACAGCATCGTTAGGCTTA-G
65 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* * * * *
3808553 TTTATTTAGCGGCGCTTCCCCAAAAA-GTCGCTAAAGCCCTGAACATTAGCGGTGCTTT-CTAAA
1 TTT-TTT-GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAA
* * * *
3808616 AAACGCCGCTACATCCCCGAAAGCCCAGAAAACGGGGTCGTTGGGCTTAGGTTT
64 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA---TG
* * * * *
3808670 TTTTTTGCGGCGCTTTATC-AAAACACTGTTAAAGCCCT-AGAAATTAGCGGCGCTTTCCT-AAA
1 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAG-CATTAGCGGCGCTTTCCTAAAA
* *
3808732 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGG
65 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
* * *
3808782 TTTTTTGCGGCACTTTCTGAAAAACGCTGCTAA
1 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
3808815 TGCTTATTTT
Statistics
Matches: 307, Mismatches: 54, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
112 18 0.06
113 92 0.30
114 109 0.36
115 80 0.26
116 5 0.02
117 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (114 bp):
TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAAAA
ACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTATG
Found at i:3809050 original size:26 final size:27
Alignment explanation
Indices: 3809003--3809058 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
3808993 GATTTCGAGG
3809003 GGGGAAAAGAATAAGGAGAAAAA-GTT
1 GGGGAAAAGAATAAGGAGAAAAAGGTT
3809029 GGGGAAAA-AAGTAGAGGA-AAAAAGGTT
1 GGGGAAAAGAA-TA-AGGAGAAAAAGGTT
3809056 GGG
1 GGG
3809059 CTACAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 2 0.07
26 15 0.56
27 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.39, T:0.11
Consensus pattern (27 bp):
GGGGAAAAGAATAAGGAGAAAAAGGTT
Found at i:3809382 original size:113 final size:114
Alignment explanation
Indices: 3809235--3809572 Score: 341
Period size: 113 Copynumber: 3.0 Consensus size: 114
3809225 TTTATCAACA
* * * **
3809235 AGCGCCGCTAAATCCCTACATATTGCGGCG-TTTGACCAAAAATACCACTTAAAACCTACAAAAA
1 AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTGACCAAAAACACCAC-TAAAAAATACAAAAA
***
3809299 CGACGTCGTTTTGATTAAAACAAAATAACATTTTGCGGCGTTTTT-TGGT
65 CGACGTCGTTTTGATTAAAACAAAATAACATTTTGCGGCGTTTTTCACCT
* * *
3809348 AGCGCCACTAAATCCCAACCTATT-CGGCGTTTTGA-CGAAAACGCCACTAAAAAAT-CAAATAA
1 AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTGACCAAAAACACCACTAAAAAATACAAA-AA
* *
3809410 C-ACGGCTCCGTTTTGATTAAAA-ATAAATTAACCTTTTGCGGTGTTTTTCACCT
65 CGAC-G-T-CGTTTTGATTAAAACA-AAA-TAACATTTTGCGGCGTTTTTCACCT
* * *
3809463 TGCGCCGCTAAATCCCGACCTATTGCGGCGTTTT-ACCAAAAACACCACTAAAAAATCAAATAAA
1 AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTGACCAAAAACACCACTAAAAAAT-ACA-AAA
* * * * * *
3809527 AAGGCGCCGTTTTGATAAAAACAGAATAACTTTTTGCGGCGTTTTT
64 ACGACGTCGTTTTGATTAAAACAAAATAACATTTTGCGGCGTTTTT
3809573 GGTGAAACGC
Statistics
Matches: 184, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
110 6 0.03
111 10 0.05
112 16 0.09
113 43 0.23
114 18 0.10
115 41 0.22
116 42 0.23
117 1 0.01
118 4 0.02
119 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (114 bp):
AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTGACCAAAAACACCACTAAAAAATACAAAAAC
GACGTCGTTTTGATTAAAACAAAATAACATTTTGCGGCGTTTTTCACCT
Found at i:3809516 original size:115 final size:113
Alignment explanation
Indices: 3809235--3809687 Score: 368
Period size: 115 Copynumber: 4.0 Consensus size: 113
3809225 TTTATCAACA
* * * * **
3809235 AGCGCCGCTAAATCCCTACATATTGCGGCGTTTGACCAAAAATACCACTTAAAACCTACAAA-AA
1 AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTACCAAAAACACCAC-TAAAAAAT-CAAATAA
***
3809299 CGAC-G-T-CGTTTTGATTAAAACAAAATAACATTTTGCGGCGTTTTTTGGT
64 C-ACGGCTCCGTTTTGATTAAAA-AAAATAACATTTTGCGGCGTTTTTACCT
* * *
3809348 AGCGCCACTAAATCCCAACCTATT-CGGCGTTTTGA-CGAAAACGCCACTAAAAAATCAAATAAC
1 AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTT-ACCAAAAACACCACTAAAAAATCAAATAAC
* *
3809411 ACGGCTCCGTTTTGATTAAAAATAAATTAACCTTTTGCGGTGTTTTTCACCT
65 ACGGCTCCGTTTTGATTAAAAA-AAA-TAACATTTTGCGGCGTTTTT-ACCT
* * *
3809463 TGCGCCGCTAAATCCCGACCTATTGCGGCGTTTTACCAAAAACACCACTAAAAAATCAAATAAAA
1 AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTACCAAAAACACCACTAAAAAATCAAATAACA
* * * **
3809528 AGGCGCCGTTTTGA-TAAAAACAGAATAACTTTTTGCGGCGTTTTT-GGT
66 CGGCTCCGTTTTGATTAAAAA-A-AATAACATTTTGCGGCGTTTTTACCT
* * * * ** * * * * *
3809576 GAAACGCCGCTACAGCCCAACATATTGCGGTATTTCACTAAAAACGCCACTAAGAAATCCAATAA
1 --AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTACCAAAAACACCACTAAAAAATCAAATAA
* * * * *
3809641 AACGGCCCCGTTTTTG-TTAAAACAAAATGA-TTTTTGCGGAGTTTTTA
64 CACGGCTCCG-TTTTGATTAAAA-AAAATAACATTTTGCGGCGTTTTTA
3809688 GAAAAATGCC
Statistics
Matches: 279, Mismatches: 44, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
110 6 0.02
111 10 0.04
112 19 0.07
113 40 0.14
114 33 0.12
115 110 0.39
116 60 0.22
117 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (113 bp):
AGCGCCGCTAAATCCCAACCTATTGCGGCGTTTTACCAAAAACACCACTAAAAAATCAAATAACA
CGGCTCCGTTTTGATTAAAAAAAATAACATTTTGCGGCGTTTTTACCT
Found at i:3810170 original size:8 final size:7
Alignment explanation
Indices: 3810152--3810407 Score: 94
Period size: 7 Copynumber: 35.9 Consensus size: 7
3810142 ACTAATTAAT
3810152 CTAAACC
1 CTAAACC
3810159 CTAAACCC
1 CTAAA-CC
*
3810167 CT-AACT
1 CTAAACC
*
3810173 C-ATATCC
1 CTA-AACC
3810180 CTTAAACC
1 C-TAAACC
*
3810188 CTAAATC
1 CTAAACC
* *
3810195 ATAAAAC
1 CTAAACC
* *
3810202 ATAAATC
1 CTAAACC
*
3810209 CTGAACC
1 CTAAACC
*
3810216 ATAAACC
1 CTAAACC
3810223 CTTAAACC
1 C-TAAACC
*
3810231 C-CAACC
1 CTAAACC
3810237 CTTAAACC
1 C-TAAACC
3810245 CTAAACC
1 CTAAACC
*
3810252 GTAAACC
1 CTAAACC
* *
3810259 ATAATCC
1 CTAAACC
* *
3810266 ATAATCC
1 CTAAACC
*
3810273 ATAAACC
1 CTAAACC
*
3810280 TTAAA--
1 CTAAACC
*
3810285 ATAGTAACTC
1 CTA--AAC-C
3810295 CTAAACC
1 CTAAACC
*
3810302 TTAAACC
1 CTAAACC
3810309 CTAAACC
1 CTAAACC
* *
3810316 ATAATCC
1 CTAAACC
3810323 CTAAACC
1 CTAAACC
*
3810330 CATAATCC
1 C-TAAACC
* *
3810338 ATGAACC
1 CTAAACC
*
3810345 TTAAA--
1 CTAAACC
*
3810350 ATAGTAACTC
1 CTA--AAC-C
3810360 CTAAACC
1 CTAAACC
*
3810367 TTAAACC
1 CTAAACC
3810374 CTAAACC
1 CTAAACC
* *
3810381 ATATACC
1 CTAAACC
3810388 CTAAACC
1 CTAAACC
3810395 CTAAACC
1 CTAAACC
3810402 CTAAAC
1 CTAAAC
3810408 TATAATGATA
Statistics
Matches: 187, Mismatches: 43, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
5 4 0.02
6 7 0.04
7 140 0.75
8 31 0.17
9 1 0.01
10 4 0.02
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:3810313 original size:14 final size:14
Alignment explanation
Indices: 3810152--3810412 Score: 109
Period size: 14 Copynumber: 17.8 Consensus size: 14
3810142 ACTAATTAAT
*
3810152 CTAAACCCTAAACCC
1 CTAAACCATAAA-CC
*
3810167 CT-AACTCAT-ATCC
1 CTAAAC-CATAAACC
* *
3810180 CTTAAACCCTAAATC
1 C-TAAACCATAAACC
* * *
3810195 ATAAAACATAAATC
1 CTAAACCATAAACC
*
3810209 CTGAACCATAAACC
1 CTAAACCATAAACC
**
3810223 CTTAAACC-CCAACC
1 C-TAAACCATAAACC
*
3810237 CTTAAACCCTAAACC
1 C-TAAACCATAAACC
* *
3810252 GTAAACCATAATCC
1 CTAAACCATAAACC
* *
3810266 ATAATCCATAAACC
1 CTAAACCATAAACC
*
3810280 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
*
3810295 CTAAACCTTAAACC
1 CTAAACCATAAACC
*
3810309 CTAAACCATAATCC
1 CTAAACCATAAACC
*
3810323 CTAAACCCATAATCC
1 CTAAA-CCATAAACC
* *
3810338 ATGAACCTTAAAATAGTAACTC
1 CTAAACC-----ATA--AAC-C
*
3810360 CTAAACCTTAAACC
1 CTAAACCATAAACC
*
3810374 CTAAACCATATACC
1 CTAAACCATAAACC
*
3810388 CTAAACCCTAAACC
1 CTAAACCATAAACC
*
3810402 CTAAACTATAA
1 CTAAACCATAA
3810413 TGATAATTAA
Statistics
Matches: 185, Mismatches: 41, Indels: 41
0.69 0.15 0.15
Matches are distributed among these distances:
12 3 0.02
13 3 0.02
14 123 0.66
15 41 0.22
17 4 0.02
19 3 0.02
21 2 0.01
22 6 0.03
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.22
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:3810345 original size:65 final size:65
Alignment explanation
Indices: 3810236--3810395 Score: 252
Period size: 65 Copynumber: 2.5 Consensus size: 65
3810226 AAACCCCAAC
* * * *
3810236 CCTTAAACCCTAAACCGTAAACCAT-AATCCATAATCCATAAACCTTAAAATAGTAACTCCTAAA
1 CCTTAAACCCTAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCCTAAA
*
3810300 CCTTAAACCCTAAACCATAATCCCTAAACCCATAATCCATGAACCTTAAAATAGTAACTCCTAAA
1 CCTTAAACCCTAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCCTAAA
3810365 CCTTAAACCCTAAACCAT-ATACCCTAAACCC
1 CCTTAAACCCTAAACCATAAT-CCCTAAACCC
3810396 TAAACCCTAA
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
64 24 0.27
65 65 0.73
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.23
Consensus pattern (65 bp):
CCTTAAACCCTAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCCTAAA
Found at i:3813519 original size:20 final size:19
Alignment explanation
Indices: 3813496--3813544 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
3813486 TTTTACATTA
*
3813496 ATTTCTTTTTCTTTTTTTCT
1 ATTTCTTTTT-TTTCTTTCT
3813516 ATTTGCTTTTTTTTCTTTCT
1 ATTT-CTTTTTTTTCTTTCT
3813536 -TCTTCTTTT
1 AT-TTCTTTT
3813545 ATAATGTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 14 0.54
21 6 0.23
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (19 bp):
ATTTCTTTTTTTTCTTTCT
Found at i:3816690 original size:18 final size:21
Alignment explanation
Indices: 3816662--3816709 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
3816652 AAAGTAGTGG
3816662 AAATT-TATTTT-A-AGAA-T
1 AAATTCTATTTTCAGAGAATT
3816679 AAATTCTATTTTCAGAGAATT
1 AAATTCTATTTTCAGAGAATT
3816700 ACAATTCTAT
1 A-AATTCTAT
3816710 CCGTTTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 6 0.23
19 1 0.04
20 4 0.15
21 2 0.08
22 8 0.31
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (21 bp):
AAATTCTATTTTCAGAGAATT
Found at i:3832827 original size:30 final size:30
Alignment explanation
Indices: 3832793--3832859 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
3832783 TCATCGCTAA
*
3832793 CCATTTTCTGTTAAAGACGTAACAAAGTTG
1 CCATTTTCCGTTAAAGACGTAACAAAGTTG
** * *
3832823 CCATTTTCCGTTGTAGACTTAACAGAGTTG
1 CCATTTTCCGTTAAAGACGTAACAAAGTTG
3832853 CCATTTT
1 CCATTTT
3832860 TCATCCTTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (30 bp):
CCATTTTCCGTTAAAGACGTAACAAAGTTG
Found at i:3833747 original size:30 final size:30
Alignment explanation
Indices: 3833711--3833778 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
3833701 GAGAAGGATG
*
3833711 GAAAATGGAAACTTCGTTAAGTCTGTAACA
1 GAAAATGGAAACTCCGTTAAGTCTGTAACA
* * *
3833741 GAAAATGGCAACTCCGTTACGTTTGTAACA
1 GAAAATGGAAACTCCGTTAAGTCTGTAACA
*
3833771 GGAAATGG
1 GAAAATGG
3833779 TTAGTGATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (30 bp):
GAAAATGGAAACTCCGTTAAGTCTGTAACA
Found at i:3838437 original size:76 final size:76
Alignment explanation
Indices: 3838345--3838509 Score: 267
Period size: 76 Copynumber: 2.2 Consensus size: 76
3838335 TATCTCCCGT
* *
3838345 ACATAAAGGTATCGTCGATTTGTACCAGTGGCTTGTAGTATTGGAATGCCTGTCGACATTGCATC
1 ACATAAAGGTACCGTCGATTTGTACCAGGGGCTTGTAGTATTGGAATGCCTGTCGACATTGCATC
3838410 AGATATCCCAC
66 AGATATCCCAC
* * *
3838421 ATATAAAGGTACCGTCGATTTGTACCAGGGGCTTGTAGTATTGGGATGCCTGTCGACATTGCATT
1 ACATAAAGGTACCGTCGATTTGTACCAGGGGCTTGTAGTATTGGAATGCCTGTCGACATTGCATC
**
3838486 AGATATCCCGT
66 AGATATCCCAC
3838497 ACATAAAGGTACC
1 ACATAAAGGTACC
3838510 ATCCTACATG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (76 bp):
ACATAAAGGTACCGTCGATTTGTACCAGGGGCTTGTAGTATTGGAATGCCTGTCGACATTGCATC
AGATATCCCAC
Found at i:3838790 original size:17 final size:16
Alignment explanation
Indices: 3838768--3838809 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
3838758 TAAATAATTC
3838768 AAATATACGATTGGTT-T
1 AAATAT-CGATT-GTTGT
3838785 AAATAT-GATTGTTGT
1 AAATATCGATTGTTGT
3838800 AAATATCGAT
1 AAATATCGAT
3838810 GTAAGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 11 0.48
16 3 0.13
17 6 0.26
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
AAATATCGATTGTTGT
Found at i:3841055 original size:9 final size:9
Alignment explanation
Indices: 3841041--3841070 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3841031 TCCATTGATG
*
3841041 AGATATTGA
1 AGATATTAA
3841050 AGATATTAA
1 AGATATTAA
3841059 AGATATTAA
1 AGATATTAA
3841068 AGA
1 AGA
3841071 ATCGTTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (9 bp):
AGATATTAA
Found at i:3846796 original size:27 final size:27
Alignment explanation
Indices: 3846766--3846819 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3846756 TTAATTTATC
3846766 TTAATCTAATTCTAACATAATATAAAT
1 TTAATCTAATTCTAACATAATATAAAT
* *
3846793 TTAATTTAATTTTAACATAATATAAAT
1 TTAATCTAATTCTAACATAATATAAAT
3846820 CTGTCATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (27 bp):
TTAATCTAATTCTAACATAATATAAAT
Found at i:3847580 original size:34 final size:34
Alignment explanation
Indices: 3847525--3847590 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
3847515 CAAACACCAA
*
3847525 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
3847560 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
3847591 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:3850490 original size:43 final size:43
Alignment explanation
Indices: 3850391--3850546 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
3850381 TAGGGTTATC
* * *
3850391 GAGATTACGTGTAAGAACATATCTGGGATA-TGGAATCAATAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGAATCGATAT
* *
3850433 GAGAATT-CGTGTAAGACCATGTCTGGGACATTGGGATCGATAT
1 GAG-ATTACGTGTAAGACCATATCTGGGACATTGGAATCGATAT
* * * * * *
3850476 GTGATTTCGTGTAAGACCA-AGGCCGGG-CTATTGGCATCGATAC
1 GAGATTACGTGTAAGACCATA-TCTGGGAC-ATTGGAATCGATAT
*
3850519 GAGATTACATGTAAGACCATATCTGGGA
1 GAGATTACGTGTAAGACCATATCTGGGA
3850547 TATGACATTG
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
42 27 0.30
43 63 0.69
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (43 bp):
GAGATTACGTGTAAGACCATATCTGGGACATTGGAATCGATAT
Found at i:3855424 original size:14 final size:14
Alignment explanation
Indices: 3855405--3855439 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
3855395 ATATATCAAA
3855405 TAATTTTCTCACCC
1 TAATTTTCTCACCC
3855419 TAATTTTCTCACCC
1 TAATTTTCTCACCC
3855433 TAATTTT
1 TAATTTT
3855440 AACCGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTTTCTCACCC
Found at i:3855593 original size:12 final size:12
Alignment explanation
Indices: 3855565--3855600 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3855555 GCAAATAAGT
*
3855565 CATTTCTCATTTT
1 CATTTC-CATTTC
3855578 CATTTCCATTTC
1 CATTTCCATTTC
3855590 CATTTCCATTT
1 CATTTCCATTT
3855601 TGAGAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:3855599 original size:18 final size:19
Alignment explanation
Indices: 3855565--3855600 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3855555 GCAAATAAGT
*
3855565 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
3855584 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
3855601 TGAGAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:3867481 original size:188 final size:187
Alignment explanation
Indices: 3867163--3867537 Score: 597
Period size: 188 Copynumber: 2.0 Consensus size: 187
3867153 TGCAGATTTT
*
3867163 GTTAACTATCTAGTGTGTAGAAAACTCCCATTGGGTGTCACAAGCCATAAAAAGAAAGATTTATT
1 GTTAACTATATAGTGTGTAGAAAACTCCCATTGGGTGTCACAAGCCATAAAAAGAAAGATTTATT
* * * * * *
3867228 CGTGACATAATGAAGTATCATTGGATCGAGCCGTATTTATTCAAAGTATGCAATGACAGTATCAT
66 CATAACATAATAAAGTATCATTAGAACGAGCCGTATTTATTCAAAGTATGCAATGACAATATCAT
3867293 TCGACTCTGTGTTCCGGAAGAAGAGATGCTTTCAATCCTAAAGCATTGTCATGATGC
131 TCGACTCTGTGTTCCGGAAGAAGAGATGCTTTCAATCCTAAAGCATTGTCATGATGC
* * *
3867350 GTTAACTATATAGTGTGTAGAAAACTCCCATTGGGTGTCACAGGCCATAAAAAAGAAAGGTTTCT
1 GTTAACTATATAGTGTGTAGAAAACTCCCATTGGGTGTCACAAGCCAT-AAAAAGAAAGATTTAT
* * *
3867415 TTATAACATAATAAAGTATCATTAGAACGAGCTGTATTTATTCAAAGTATGCGATGACAATATCA
65 TCATAACATAATAAAGTATCATTAGAACGAGCCGTATTTATTCAAAGTATGCAATGACAATATCA
* * *
3867480 TTCGACTTTGTGTTCCGGAAGAAGAGATGCTTTCAATCCTGAAGCATTGTCGTGATGC
130 TTCGACTCTGTGTTCCGGAAGAAGAGATGCTTTCAATCCTAAAGCATTGTCATGATGC
3867538 TCCTTATGGA
Statistics
Matches: 171, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
187 46 0.27
188 125 0.73
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (187 bp):
GTTAACTATATAGTGTGTAGAAAACTCCCATTGGGTGTCACAAGCCATAAAAAGAAAGATTTATT
CATAACATAATAAAGTATCATTAGAACGAGCCGTATTTATTCAAAGTATGCAATGACAATATCAT
TCGACTCTGTGTTCCGGAAGAAGAGATGCTTTCAATCCTAAAGCATTGTCATGATGC
Found at i:3870438 original size:18 final size:18
Alignment explanation
Indices: 3870415--3870461 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3870405 TTGGTGCTAT
*
3870415 AGAAGAAGAAGTTGTTGC
1 AGAAGAAGAAGTTATTGC
* *
3870433 AGAAGAGGAAATTATTGC
1 AGAAGAAGAAGTTATTGC
*
3870451 TGAAGAAGAAG
1 AGAAGAAGAAG
3870462 AAATTGTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.32, T:0.19
Consensus pattern (18 bp):
AGAAGAAGAAGTTATTGC
Found at i:3870937 original size:17 final size:17
Alignment explanation
Indices: 3870912--3870948 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3870902 AATAAGTATA
*
3870912 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
*
3870929 CATTTTCATTACATTTT
1 CATTGTCATTACATTTT
3870946 CAT
1 CAT
3870949 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:3874785 original size:47 final size:48
Alignment explanation
Indices: 3874733--3874831 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 48
3874723 AACTAACATT
* * *
3874733 TGTTCTGGCAACTTGACTGCAATTCTGGTGGC-TTGACCACGTATATC
1 TGTTCTGACAACTTGACTACAATTCTGGTGGCTTTGACCACATATATC
* * *
3874780 TGTTCTGACAGCTTGACTACAATTTTGGTGGCTTTGTCCACATATATC
1 TGTTCTGACAACTTGACTACAATTCTGGTGGCTTTGACCACATATATC
3874828 TGTT
1 TGTT
3874832 GGTGTGTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
47 28 0.62
48 17 0.38
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (48 bp):
TGTTCTGACAACTTGACTACAATTCTGGTGGCTTTGACCACATATATC
Found at i:3875858 original size:94 final size:94
Alignment explanation
Indices: 3875666--3875839 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 94
3875656 GGGGGTTACA
* * * *
3875666 ACAACCTAAGTTTATTGATTTATGATCATGAACAATCTTCTTTGAGTTAGCTGATTTACAATCAC
1 ACAACCTAAGTTAATTGATTTACGATCATGAACAATCTTCTCTAAGTTAGCTGATTTACAATCAC
*
3875731 AACTTCAAATAGCTCTCTAATTTACAATC
66 AACTCCAAATAGCTCTCTAATTTACAATC
* * * *
3875760 ACAACCTAAGTTAATTGATTTACGATCATGAACAATCTT-TCCTAAGTTAGTTGGTTTACGATCG
1 ACAACCTAAGTTAATTGATTTACGATCATGAACAATCTTCT-CTAAGTTAGCTGATTTACAATCA
3875824 CAACTCCAAATAGCTC
65 CAACTCCAAATAGCTC
3875840 ATTGATTTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 69 0.99
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (94 bp):
ACAACCTAAGTTAATTGATTTACGATCATGAACAATCTTCTCTAAGTTAGCTGATTTACAATCAC
AACTCCAAATAGCTCTCTAATTTACAATC
Found at i:3875907 original size:130 final size:129
Alignment explanation
Indices: 3875750--3876019 Score: 344
Period size: 130 Copynumber: 2.1 Consensus size: 129
3875740 TAGCTCTCTA
* **
3875750 ATTTACAATCACAACCTAAGTTAATTGATTTACGATCATGAACAATCTT-TCCTAAGTTAGTTGG
1 ATTTACAATCACAACCTAAGTTAATTGATTTACGATCATGAACAATCTTCTCC-AAGTTAGCTAA
* * * * *
3875814 TTTACGATCGCAACTCCAAATAGCTCATTGATTTATGATCACAACTGATATTATTAAGACTTGTT
65 CTTACAATCGCAACTCCAAACAGCTCACTAATTTA-GATCACAACTGATATTATTAAGACTTGTT
3875879 G
129 G
* * * * *
3875880 ATTTACGATCACAACCTAAGTTCATTGATTTACGATCATGAATAGTCTTCTCCGAGTTAGCTAAC
1 ATTTACAATCACAACCTAAGTTAATTGATTTACGATCATGAACAATCTTCTCCAAGTTAGCTAAC
** * * *
3875945 TTACAATCGCAACTCCAAACAGCTTGCTAATTTAGATCACAACTGATATTATTAAGGCTCGCTG
66 TTACAATCGCAACTCCAAACAGCTCACTAATTTAGATCACAACTGATATTATTAAGACTTGTTG
*
3876009 ATTTATAATCA
1 ATTTACAATCA
3876020 TGAATAATCT
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
129 36 0.30
130 80 0.67
131 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (129 bp):
ATTTACAATCACAACCTAAGTTAATTGATTTACGATCATGAACAATCTTCTCCAAGTTAGCTAAC
TTACAATCGCAACTCCAAACAGCTCACTAATTTAGATCACAACTGATATTATTAAGACTTGTTG
Found at i:3876989 original size:21 final size:20
Alignment explanation
Indices: 3876943--3876989 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
3876933 CCTCTAGCCA
3876943 TTTATTTTGATTCACCAATT
1 TTTATTTTGATTCACCAATT
*
3876963 TCTTATTTT-CTTCAACCAATT
1 T-TTATTTTGATTC-ACCAATT
3876984 GTTTAT
1 -TTTAT
3876990 ACAGTTCACG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 18 0.78
22 1 0.04
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTATTTTGATTCACCAATT
Found at i:3878030 original size:20 final size:20
Alignment explanation
Indices: 3877967--3878030 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
3877957 TCGAGCCACT
* *
3877967 AGTATCGTAGATAAACTGCC
1 AGTATTGTAGATAAACTACC
* * * *
3877987 AATAATGCAGA-AAAGCTACT
1 AGTATTGTAGATAAA-CTACC
3878007 AGTATTGTAGATAAACTACC
1 AGTATTGTAGATAAACTACC
3878027 AGTA
1 AGTA
3878031 ATATGGTCAA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (20 bp):
AGTATTGTAGATAAACTACC
Found at i:3897574 original size:23 final size:23
Alignment explanation
Indices: 3897548--3897601 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
3897538 CAAACTAATC
*
3897548 CTCTCAAATTTCCTTTC-AATTT
1 CTCTCAAATTTCCTTCCAAATTT
3897570 GCTCTCAAA-TTCCTTCCAAATTT
1 -CTCTCAAATTTCCTTCCAAATTT
3897593 CTCTCAAAT
1 CTCTCAAAT
3897602 CTATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTTCCAAATTT
Found at i:3897600 original size:11 final size:12
Alignment explanation
Indices: 3897546--3897601 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 12
3897536 CACAAACTAA
3897546 TCCTCTCAAATT
1 TCCTCTCAAATT
*
3897558 TCCTTTC-AATT
1 TCCTCTCAAATT
*
3897569 TGCTCTCAAA-T
1 TCCTCTCAAATT
3897580 TCCT-TCCAAATT
1 TCCTCT-CAAATT
3897592 T-CTCTCAAAT
1 TCCTCTCAAAT
3897602 CTATATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
10 1 0.03
11 24 0.67
12 11 0.31
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (12 bp):
TCCTCTCAAATT
Found at i:3899984 original size:21 final size:21
Alignment explanation
Indices: 3899981--3900429 Score: 467
Period size: 21 Copynumber: 21.0 Consensus size: 21
3899971 TAAAACCCCT
*
3899981 AACCCTAACCTTTAA-TTGAAA
1 AACCCTAACCCTTAACTT-AAA
*
3900002 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
3900023 AACCCTAAACCATTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
*
3900044 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
3900066 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
3900088 AACACTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
3900110 AACCCTAGCCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
3900131 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** *
3900153 AACTATAACCCTTAAATT-AA
1 AACCCTAACCCTTAACTTAAA
*
3900173 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
3900195 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
3900216 AACCCTAATCCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAA
* * *
3900238 AACCCAAACCCTTAAATTTAA
1 AACCCTAACCCTTAACTTAAA
* *
3900259 AACCCTAAACCATTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
3900281 AACCCTAAGCCCTTAAATTAAA
1 AACCCTAA-CCCTTAACTTAAA
*
3900303 AACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
3900325 AACCATAACCCTTAAATT-AA
1 AACCCTAACCCTTAACTTAAA
* *
3900345 AACCCTAAACCTTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
3900367 AATCGTAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
*
3900387 AACCCCTAACACTTAACTTAAA
1 AA-CCCTAACCCTTAACTTAAA
3900409 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
3900430 TATAGTTTGA
Statistics
Matches: 364, Mismatches: 50, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
20 18 0.05
21 176 0.48
22 168 0.46
23 2 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:3900014 original size:22 final size:21
Alignment explanation
Indices: 3899981--3900429 Score: 355
Period size: 22 Copynumber: 21.0 Consensus size: 21
3899971 TAAAACCCCT
3899981 AACCCTAA-CCTTTAATTGAAA
1 AACCCTAACCCTTTAATT-AAA
*
3900002 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTTAATTAAA
* *
3900023 AACCCTAAACCATTAACTT-AA
1 AACCCTAACCCTTTAA-TTAAA
*
3900044 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTTAATTAAA
*
3900066 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTTAATTAAA
* *
3900088 AACACTAAACCTTTAACTTAAA
1 AACCCTAACCCTTTAA-TTAAA
* *
3900110 AACCCTAGCCC-TTAACTTTAA
1 AACCCTAACCCTTTAA-TTAAA
3900131 AACCCTAAACCC-TTAACTTAAA
1 AACCCT-AACCCTTTAA-TTAAA
** *
3900153 AACTATAACCCTTAAATT-AA
1 AACCCTAACCCTTTAATTAAA
*
3900173 AACCCTAAACCC-TTAACTTTAA
1 AACCCT-AACCCTTTAA-TTAAA
* * *
3900195 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTTAATTAAA
3900216 AACCCTAATCCC-TTAACTTAAA
1 AACCCTAA-CCCTTTAA-TTAAA
* * *
3900238 AACCCAAACCCTTAAATTTAA
1 AACCCTAACCCTTTAATTAAA
* *
3900259 AACCCTAAACCATTAAATTAAA
1 AACCCT-AACCCTTTAATTAAA
*
3900281 AACCCTAAGCCCTTAAATTAAA
1 AACCCTAA-CCCTTTAATTAAA
*
3900303 AACCATAAACCC-TTAACTTAAA
1 AACCCT-AACCCTTTAA-TTAAA
* *
3900325 AACCATAACCCTTAAATT-AA
1 AACCCTAACCCTTTAATTAAA
* *
3900345 AACCCTAAACCTTTAACTTTAA
1 AACCCTAACCCTTTAA-TTAAA
* * *
3900367 AATCGTAACCC-TTAAATAAA
1 AACCCTAACCCTTTAATTAAA
*
3900387 AACCCCTAACAC-TTAACTTAAA
1 AA-CCCTAACCCTTTAA-TTAAA
3900409 AACCCTAACCC-TTAACTTAAA
1 AACCCTAACCCTTTAA-TTAAA
3900430 TATAGTTTGA
Statistics
Matches: 353, Mismatches: 52, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
20 29 0.08
21 147 0.42
22 175 0.50
23 2 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTTAATTAAA
Found at i:3900055 original size:43 final size:42
Alignment explanation
Indices: 3899981--3900429 Score: 535
Period size: 43 Copynumber: 10.5 Consensus size: 42
3899971 TAAAACCCCT
* *
3899981 AACCCTAA-CCTTTAATTGAAAAACCCT-AACCCTTAAATTAAA
1 AACCCTAACCCTTAAATT--AAAACCCTAAACCCTTAACTTAAA
* * *
3900023 AACCCTAAACCATTAACTTAAAACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
* *
3900066 AACCCTAAACCCTTAAATTAAAAACACTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAAATT-AAAACCCTAAACCCTTAACTTAAA
* *
3900110 AACCCTAGCCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAA-ATTAAAACCCTAAACCCTTAACTTAAA
** *
3900153 AACTATAACCCTTAAATTAAAACCCTAAACCCTTAACTTTAA
1 AACCCTAACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
* * *
3900195 AACCGTAACCCTTAAATAAAAAACCCTAATCCCTTAACTTAAA
1 AACCCTAACCCTTAAAT-TAAAACCCTAAACCCTTAACTTAAA
* * *
3900238 AACCCAAACCCTTAAATTTAAAACCCTAAACCATTAAATTAAA
1 AACCCTAACCCTTAAA-TTAAAACCCTAAACCCTTAACTTAAA
*
3900281 AACCCTAAGCCCTTAAATTAAAAACCATAAACCCTTAACTTAAA
1 AACCCTAA-CCCTTAAATT-AAAACCCTAAACCCTTAACTTAAA
* * *
3900325 AACCATAACCCTTAAATTAAAACCCTAAACCTTTAACTTTAA
1 AACCCTAACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
* * * *
3900367 AATCGTAACCCTTAAATAAAAACCCCT-AACACTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAA-CCCTAAACCCTTAACTTAAA
*
3900409 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
3900430 TATAGTTTGA
Statistics
Matches: 351, Mismatches: 46, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
42 123 0.35
43 156 0.44
44 72 0.21
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (42 bp):
AACCCTAACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
Found at i:3904737 original size:21 final size:21
Alignment explanation
Indices: 3904734--3905182 Score: 467
Period size: 21 Copynumber: 21.0 Consensus size: 21
3904724 TAAAACCCCT
*
3904734 AACCCTAACCTTTAA-TTGAAA
1 AACCCTAACCCTTAACTT-AAA
*
3904755 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
3904776 AACCCTAAACCATTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
*
3904797 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
3904819 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
3904841 AACACTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
3904863 AACCCTAGCCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
3904884 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** *
3904906 AACTATAACCCTTAAATT-AA
1 AACCCTAACCCTTAACTTAAA
*
3904926 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
3904948 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
3904969 AACCCTAATCCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAA
* * *
3904991 AACCCAAACCCTTAAATTTAA
1 AACCCTAACCCTTAACTTAAA
* *
3905012 AACCCTAAACCATTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
3905034 AACCCTAAGCCCTTAAATTAAA
1 AACCCTAA-CCCTTAACTTAAA
*
3905056 AACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
3905078 AACCATAACCCTTAAATT-AA
1 AACCCTAACCCTTAACTTAAA
* *
3905098 AACCCTAAACCTTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
3905120 AATCGTAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
*
3905140 AACCCCTAACACTTAACTTAAA
1 AA-CCCTAACCCTTAACTTAAA
3905162 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
3905183 TATAGTTTGA
Statistics
Matches: 364, Mismatches: 50, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
20 18 0.05
21 176 0.48
22 168 0.46
23 2 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:3904767 original size:22 final size:21
Alignment explanation
Indices: 3904734--3905182 Score: 355
Period size: 22 Copynumber: 21.0 Consensus size: 21
3904724 TAAAACCCCT
3904734 AACCCTAA-CCTTTAATTGAAA
1 AACCCTAACCCTTTAATT-AAA
*
3904755 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTTAATTAAA
* *
3904776 AACCCTAAACCATTAACTT-AA
1 AACCCTAACCCTTTAA-TTAAA
*
3904797 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTTAATTAAA
*
3904819 AACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTTAATTAAA
* *
3904841 AACACTAAACCTTTAACTTAAA
1 AACCCTAACCCTTTAA-TTAAA
* *
3904863 AACCCTAGCCC-TTAACTTTAA
1 AACCCTAACCCTTTAA-TTAAA
3904884 AACCCTAAACCC-TTAACTTAAA
1 AACCCT-AACCCTTTAA-TTAAA
** *
3904906 AACTATAACCCTTAAATT-AA
1 AACCCTAACCCTTTAATTAAA
*
3904926 AACCCTAAACCC-TTAACTTTAA
1 AACCCT-AACCCTTTAA-TTAAA
* * *
3904948 AACCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTTAATTAAA
3904969 AACCCTAATCCC-TTAACTTAAA
1 AACCCTAA-CCCTTTAA-TTAAA
* * *
3904991 AACCCAAACCCTTAAATTTAA
1 AACCCTAACCCTTTAATTAAA
* *
3905012 AACCCTAAACCATTAAATTAAA
1 AACCCT-AACCCTTTAATTAAA
*
3905034 AACCCTAAGCCCTTAAATTAAA
1 AACCCTAA-CCCTTTAATTAAA
*
3905056 AACCATAAACCC-TTAACTTAAA
1 AACCCT-AACCCTTTAA-TTAAA
* *
3905078 AACCATAACCCTTAAATT-AA
1 AACCCTAACCCTTTAATTAAA
* *
3905098 AACCCTAAACCTTTAACTTTAA
1 AACCCTAACCCTTTAA-TTAAA
* * *
3905120 AATCGTAACCC-TTAAATAAA
1 AACCCTAACCCTTTAATTAAA
*
3905140 AACCCCTAACAC-TTAACTTAAA
1 AA-CCCTAACCCTTTAA-TTAAA
3905162 AACCCTAACCC-TTAACTTAAA
1 AACCCTAACCCTTTAA-TTAAA
3905183 TATAGTTTGA
Statistics
Matches: 353, Mismatches: 52, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
20 29 0.08
21 147 0.42
22 175 0.50
23 2 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTTAATTAAA
Found at i:3904808 original size:43 final size:42
Alignment explanation
Indices: 3904734--3905182 Score: 535
Period size: 43 Copynumber: 10.5 Consensus size: 42
3904724 TAAAACCCCT
* *
3904734 AACCCTAA-CCTTTAATTGAAAAACCCT-AACCCTTAAATTAAA
1 AACCCTAACCCTTAAATT--AAAACCCTAAACCCTTAACTTAAA
* * *
3904776 AACCCTAAACCATTAACTTAAAACCCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
* *
3904819 AACCCTAAACCCTTAAATTAAAAACACTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAAATT-AAAACCCTAAACCCTTAACTTAAA
* *
3904863 AACCCTAGCCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAA-ATTAAAACCCTAAACCCTTAACTTAAA
** *
3904906 AACTATAACCCTTAAATTAAAACCCTAAACCCTTAACTTTAA
1 AACCCTAACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
* * *
3904948 AACCGTAACCCTTAAATAAAAAACCCTAATCCCTTAACTTAAA
1 AACCCTAACCCTTAAAT-TAAAACCCTAAACCCTTAACTTAAA
* * *
3904991 AACCCAAACCCTTAAATTTAAAACCCTAAACCATTAAATTAAA
1 AACCCTAACCCTTAAA-TTAAAACCCTAAACCCTTAACTTAAA
*
3905034 AACCCTAAGCCCTTAAATTAAAAACCATAAACCCTTAACTTAAA
1 AACCCTAA-CCCTTAAATT-AAAACCCTAAACCCTTAACTTAAA
* * *
3905078 AACCATAACCCTTAAATTAAAACCCTAAACCTTTAACTTTAA
1 AACCCTAACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
* * * *
3905120 AATCGTAACCCTTAAATAAAAACCCCT-AACACTTAACTTAAA
1 AACCCTAACCCTTAAATTAAAA-CCCTAAACCCTTAACTTAAA
*
3905162 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
3905183 TATAGTTTGA
Statistics
Matches: 351, Mismatches: 46, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
42 123 0.35
43 156 0.44
44 72 0.21
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (42 bp):
AACCCTAACCCTTAAATTAAAACCCTAAACCCTTAACTTAAA
Found at i:3907168 original size:18 final size:18
Alignment explanation
Indices: 3907145--3907179 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3907135 CTTTTTTCTC
3907145 TAAAAACCCTAAAAATCT
1 TAAAAACCCTAAAAATCT
*
3907163 TAAAAACCTTAAAAATC
1 TAAAAACCCTAAAAATC
3907180 CTAACGTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAACCCTAAAAATCT
Done.