Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 177 of 310
Found at i:57597833 original size:30 final size:30
Alignment explanation
Indices: 57597797--57597853 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
57597787 GGTGCAGACT
* *
57597797 TCACACGCCCGGGACACATGCCCGTGTTCC
1 TCACACGCCCGAGACACACGCCCGTGTTCC
* *
57597827 TCACACGGCTGAGACACACGCCCGTGT
1 TCACACGCCCGAGACACACGCCCGTGT
57597854 CTCTGCCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.40, G:0.25, T:0.16
Consensus pattern (30 bp):
TCACACGCCCGAGACACACGCCCGTGTTCC
Found at i:57604883 original size:26 final size:24
Alignment explanation
Indices: 57604852--57604900 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
57604842 AAATAAAAAT
*
57604852 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
57604878 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
57604901 TCAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:57614498 original size:12 final size:13
Alignment explanation
Indices: 57614460--57614498 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
57614450 AAATATTTGA
57614460 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
57614473 ATCTGTTCTTAATT
1 CT-TGTTCTTAATT
57614487 CTTGTT-TTAATT
1 CTTGTTCTTAATT
57614499 TTCCAGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:57615076 original size:27 final size:27
Alignment explanation
Indices: 57615038--57615099 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
57615028 ACTACTGTTC
* *
57615038 AATAGGTACACTTGCCTTTATCGTGAT
1 AATAGTTACACTTGCCTTCATCGTGAT
57615065 AATAGTTACACTTGCCTTCATCGTGAT
1 AATAGTTACACTTGCCTTCATCGTGAT
57615092 AATAGTTA
1 AATAGTTA
57615100 GTTTCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (27 bp):
AATAGTTACACTTGCCTTCATCGTGAT
Found at i:57624476 original size:21 final size:21
Alignment explanation
Indices: 57624450--57624497 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
57624440 ATTGGGTAGA
* *
57624450 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTAT
*
57624471 TCAGCTCTTATGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
57624492 TCAGCT
1 TCAGCT
57624498 TTCAAGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:57627747 original size:29 final size:31
Alignment explanation
Indices: 57627679--57627749 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
57627669 TAACAGAGAC
*
57627679 CAGTGACCAAATTGTTATCAATTGATAACAT
1 CAGTGACCAAATTGTTATCAACTGATAACAT
*
57627710 CTGTGACCAAATTGTTA-CAACTGA-AACAT
1 CAGTGACCAAATTGTTATCAACTGATAACAT
57627739 CAGTGACCAAA
1 CAGTGACCAAA
57627750 ACGTAAACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 15 0.41
30 6 0.16
31 16 0.43
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (31 bp):
CAGTGACCAAATTGTTATCAACTGATAACAT
Found at i:57646640 original size:41 final size:41
Alignment explanation
Indices: 57646554--57646657 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 41
57646544 ACCAGTTTGG
* *
57646554 CACCCAGTGCCTCGTCGGAT-AATTCAAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGGATAAATTCAAAGTAGTAAATTGA
* ** *
57646594 TACCCAGTGTCTCATCGGATAAATTTGAAGTAGTATATTGA
1 CACCCAGTGTCTCATCGGATAAATTCAAAGTAGTAAATTGA
* *
57646635 CACCCAGTGTCACATCGGTTAAA
1 CACCCAGTGTCTCATCGGATAAA
57646658 CCGAAGTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 17 0.31
41 37 0.69
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGGATAAATTCAAAGTAGTAAATTGA
Found at i:57647588 original size:6 final size:6
Alignment explanation
Indices: 57647564--57647618 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
57647554 AGGCCGTGGC
* * * *
57647564 TTTCTT TCTTCTT TCTCTT TTTCTT TCTCTT TTT-AT TTCCTT TTTCTT
1 TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
57647612 TTTCTT T
1 TTTCTT T
57647619 CTTTCTTTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.08
6 30 0.77
7 6 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:57647589 original size:12 final size:12
Alignment explanation
Indices: 57647566--57647628 Score: 74
Period size: 12 Copynumber: 5.1 Consensus size: 12
57647556 GCCGTGGCTT
57647566 TCTTTCTTCTTTC
1 TCTTT-TTCTTTC
57647579 TCTTTTTCTTTC
1 TCTTTTTCTTTC
*
57647591 TCTTTTTATTTC
1 TCTTTTTCTTTC
*
57647603 -CTTTTTCTTTT
1 TCTTTTTCTTTC
57647614 TCTTTCTTTCTTTC
1 TC-TT-TTTCTTTC
57647628 T
1 T
57647629 TGTTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
11 9 0.21
12 19 0.44
13 7 0.16
14 8 0.19
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:57647611 original size:17 final size:18
Alignment explanation
Indices: 57647591--57647654 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
57647581 TTTTTCTTTC
57647591 TCTTTTTATTTCCTT-TT
1 TCTTTTTATTTCCTTCTT
* *
57647608 TCTTTTTCTTTCTTTCTT
1 TCTTTTTATTTCCTTCTT
*
57647626 TCTTGTTTTATTTTCCTTTGTT
1 TC-T-TTTTA-TTTCC-TTCTT
57647648 TCTTTTT
1 TCTTTTT
57647655 TCTATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 13 0.35
18 4 0.11
19 1 0.03
20 8 0.22
21 5 0.14
22 6 0.16
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (18 bp):
TCTTTTTATTTCCTTCTT
Found at i:57647625 original size:37 final size:40
Alignment explanation
Indices: 57647563--57647668 Score: 114
Period size: 37 Copynumber: 2.6 Consensus size: 40
57647553 AAGGCCGTGG
* *
57647563 CTTTCTTTCTTCTTTCTCTTTTTCTTTCTCT-TTTTA-TTTC
1 CTTTGTTTCTT-TTTCTATTTTTCTTTCT-TGTTTTATTTTC
57647603 C-TT-TTTCTTTTTCT-TTCTTTCTTTCTTGTTTTATTTTC
1 CTTTGTTTCTTTTTCTATT-TTTCTTTCTTGTTTTATTTTC
57647641 CTTTGTTTCTTTTTTCTATTTTTTCTTT
1 CTTTGTTTC-TTTTTCTA-TTTTTCTTT
57647669 TATTTATTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
36 3 0.05
37 19 0.33
38 11 0.19
39 4 0.07
40 5 0.09
41 7 0.12
42 7 0.12
43 2 0.03
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (40 bp):
CTTTGTTTCTTTTTCTATTTTTCTTTCTTGTTTTATTTTC
Found at i:57647629 original size:12 final size:12
Alignment explanation
Indices: 57647563--57647668 Score: 57
Period size: 12 Copynumber: 9.0 Consensus size: 12
57647553 AAGGCCGTGG
57647563 CTTTCTTTC-TT
1 CTTTCTTTCTTT
57647574 CTTTCTCTT-TTT
1 CTTTCT-TTCTTT
57647586 CTTTCTCTT-TTT
1 CTTTCT-TTCTTT
* *
57647598 ATTTCCTT-TTT
1 CTTTCTTTCTTT
57647609 C-TT-TTTCTTT
1 CTTTCTTTCTTT
57647619 CTTTCTTTCTTGT
1 CTTTCTTTCTT-T
*
57647632 -TTTATTTTCCTTT
1 CTTT-CTTT-CTTT
*
57647645 GTTTCTTT-TTT
1 CTTTCTTTCTTT
*
57647656 CTATTTTTTCTTT
1 CT-TTCTTTCTTT
57647669 TATTTATTTG
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.03
10 6 0.08
11 17 0.22
12 34 0.45
13 11 0.14
14 6 0.08
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (12 bp):
CTTTCTTTCTTT
Found at i:57647649 original size:22 final size:23
Alignment explanation
Indices: 57647619--57647662 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
57647609 CTTTTTCTTT
57647619 CTTTCTTTCTTGTTT-TATTTTC
1 CTTTCTTTCTTGTTTCTATTTTC
* *
57647641 CTTTGTTTCTTTTTTCTATTTT
1 CTTTCTTTCTTGTTTCTATTTT
57647663 TTCTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.75
Consensus pattern (23 bp):
CTTTCTTTCTTGTTTCTATTTTC
Found at i:57647677 original size:16 final size:16
Alignment explanation
Indices: 57647568--57647669 Score: 52
Period size: 17 Copynumber: 6.5 Consensus size: 16
57647558 CGTGGCTTTC
* *
57647568 TTTCTTCTTTCT-CTT
1 TTTCTTTTTTCTATTT
* *
57647583 TTTC-TTTCTCTTTTT
1 TTTCTTTTTTCTATTT
* *
57647598 ATTTCCTTTTTCTTTTT
1 -TTTCTTTTTTCTATTT
*
57647615 CTTTCTTTCTTTCT-TGT
1 -TTTCTTT-TTTCTATTT
* * *
57647632 TTT-ATTTTCCT-TTG
1 TTTCTTTTTTCTATTT
57647646 TTTCTTTTTTCTATTT
1 TTTCTTTTTTCTATTT
57647662 TTTCTTTT
1 TTTCTTTT
57647670 ATTTATTTGT
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
14 13 0.19
15 14 0.21
16 17 0.25
17 18 0.27
18 5 0.07
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTCTTTTTTCTATTT
Found at i:57653184 original size:22 final size:21
Alignment explanation
Indices: 57653142--57653184 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
57653132 TTTAATCAAG
*
57653142 AATTTTTGATGTTATTTTAAT
1 AATTTTTGATGTTATTCTAAT
57653163 AATTTTATGAT-TTATGTCTAAT
1 AATTTT-TGATGTTAT-TCTAAT
57653185 TTACCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (21 bp):
AATTTTTGATGTTATTCTAAT
Found at i:57657533 original size:14 final size:14
Alignment explanation
Indices: 57657514--57657545 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
57657504 AGGTCATTTA
57657514 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
57657528 GCCCAACCAAACTG
1 GCCCAACCAAACGG
57657542 GCCC
1 GCCC
57657546 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:57661798 original size:14 final size:14
Alignment explanation
Indices: 57661779--57661810 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
57661769 AGGTCATTTA
57661779 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
57661793 GCCCAACCAAACTG
1 GCCCAACCAAACGG
57661807 GCCC
1 GCCC
57661811 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:57662379 original size:17 final size:17
Alignment explanation
Indices: 57662317--57662391 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 17
57662307 TAGGAGAGTG
57662317 AAGAAACAAACAAAATTAA
1 AAGAAA-AAAC-AAATTAA
*
57662336 AA-ACAAAAACCAAAATAA
1 AAGA-AAAAA-CAAATTAA
*
57662354 TAA-ACAAAACGAAATTAA
1 -AAGAAAAAAC-AAATTAA
57662372 AAGAAAAAACAAATTAA
1 AAGAAAAAACAAATTAA
57662389 AAG
1 AAG
57662392 CTAGCCTAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
17 13 0.28
18 26 0.55
19 8 0.17
ACGTcount: A:0.73, C:0.11, G:0.05, T:0.11
Consensus pattern (17 bp):
AAGAAAAAACAAATTAA
Found at i:57673833 original size:39 final size:39
Alignment explanation
Indices: 57673779--57673857 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
57673769 ATTTTTTTGA
*
57673779 AAGAATACATTGTTAGTACTTGAACTTGTACAAAAAATT
1 AAGAACACATTGTTAGTACTTGAACTTGTACAAAAAATT
*
57673818 AAGAACACATTGTTAGTACTTGAACTTGTCCAAAAAATT
1 AAGAACACATTGTTAGTACTTGAACTTGTACAAAAAATT
57673857 A
1 A
57673858 TGCTTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (39 bp):
AAGAACACATTGTTAGTACTTGAACTTGTACAAAAAATT
Found at i:57678727 original size:30 final size:28
Alignment explanation
Indices: 57678693--57678756 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
57678683 GTTTTGGGAT
* *
57678693 AATGTAATATTTGGCATCTATATTTTTATA
1 AATGTAA-ATGTGGCATCTATA-TTTTAAA
*
57678723 AATGTTCAATGTGGCATCTATATTTTAAA
1 AATG-TAAATGTGGCATCTATATTTTAAA
57678752 AATGT
1 AATGT
57678757 CTAATGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 10 0.33
30 17 0.57
31 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (28 bp):
AATGTAAATGTGGCATCTATATTTTAAA
Found at i:57681573 original size:32 final size:32
Alignment explanation
Indices: 57681526--57681587 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
57681516 TGTTTCAAAG
57681526 ACATAAAAAAGTTATGTAAAAAGAAATGAAAA
1 ACATAAAAAAGTTATGTAAAAAGAAATGAAAA
*
57681558 ACATAGAAAAA-TTATGTTAAAAGAAATGAA
1 ACATA-AAAAAGTTATGTAAAAAGAAATGAA
57681588 GAAGAGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.21
Consensus pattern (32 bp):
ACATAAAAAAGTTATGTAAAAAGAAATGAAAA
Found at i:57682340 original size:19 final size:19
Alignment explanation
Indices: 57682303--57682341 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57682293 ATTGAATTGA
* *
57682303 ATATTTAAAATTTTAAAAT
1 ATATTAAAAATCTTAAAAT
*
57682322 ATATTAAAAATCTTCAAAT
1 ATATTAAAAATCTTAAAAT
57682341 A
1 A
57682342 AAAAATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTAAAAATCTTAAAAT
Found at i:57691960 original size:82 final size:82
Alignment explanation
Indices: 57691830--57691987 Score: 282
Period size: 82 Copynumber: 1.9 Consensus size: 82
57691820 TCATTCATCG
57691830 CATCATCAAAACTTTAAGGCTATTCTTCATTGACGATTGTCACATACTCACTTGAAGGATATTTA
1 CATCATCAAAACTTTAAGGCTATTCTTCATTGACGATTGTCACATACTCACTTGAAGGATATTTA
57691895 TTAGATGGTTTTCATTA
66 TTAGATGGTTTTCATTA
* *
57691912 CATCATCAAAACTTTGAGGCTATTCGTT-GTTGACGATTGTCACATACTCACTTGAAGGATATTT
1 CATCATCAAAACTTTAAGGCTATTC-TTCATTGACGATTGTCACATACTCACTTGAAGGATATTT
57691976 ATTAGATGGTTT
65 ATTAGATGGTTT
57691988 CCTTTCATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (82 bp):
CATCATCAAAACTTTAAGGCTATTCTTCATTGACGATTGTCACATACTCACTTGAAGGATATTTA
TTAGATGGTTTTCATTA
Found at i:57700572 original size:33 final size:31
Alignment explanation
Indices: 57700482--57700626 Score: 134
Period size: 27 Copynumber: 5.0 Consensus size: 31
57700472 GATGGTAACG
* *
57700482 TGCCAATTCCAGGCATGGATGGTAA----CA
1 TGCCAATGCCAGGCATGGCTGGTAATTGCCA
* *
57700509 TGCCAATGCCAGGCAAGGATGGT-ATT---A
1 TGCCAATGCCAGGCATGGCTGGTAATTGCCA
57700536 TGCCAATGCCAGGCATGGCTGGTAATT----
1 TGCCAATGCCAGGCATGGCTGGTAATTGCCA
57700563 TGCCAATGCCAGGCATGGCTGGTAATTTGCCAA
1 TGCCAATGCCAGGCATGGCTGGTAA-TTGCC-A
*
57700596 TGCCAATGCCAGGCATGGATGGTAAATTGCC
1 TGCCAATGCCAGGCATGGCTGGT-AATTGCC
57700627 TGGCATGAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 14
0.84 0.04 0.11
Matches are distributed among these distances:
26 1 0.01
27 68 0.66
28 5 0.05
33 27 0.26
34 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (31 bp):
TGCCAATGCCAGGCATGGCTGGTAATTGCCA
Found at i:57700626 original size:27 final size:27
Alignment explanation
Indices: 57700471--57700600 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
57700461 CGGCAGTCAA
** *
57700471 GGATGGTAACGTGCCAATTCCAGGCAT
1 GGATGGTAATTTGCCAATGCCAGGCAT
** *
57700498 GGATGGTAACATGCCAATGCCAGGCAA
1 GGATGGTAATTTGCCAATGCCAGGCAT
57700525 GGATGGT-ATTATGCCAATGCCAGGCAT
1 GGATGGTAATT-TGCCAATGCCAGGCAT
*
57700552 GGCTGGTAATTTGCCAATGCCAGGCAT
1 GGATGGTAATTTGCCAATGCCAGGCAT
*
57700579 GGCTGGTAATTTGCCAATGCCA
1 GGATGGTAATTTGCCAATGCCA
57700601 ATGCCAGGCA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 90 0.96
28 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (27 bp):
GGATGGTAATTTGCCAATGCCAGGCAT
Found at i:57707776 original size:96 final size:97
Alignment explanation
Indices: 57707649--57707826 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 97
57707639 AGTCTTCACC
*
57707649 AAAGGAAACAATGGAGTAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCAAAGC
1 AAAGGAAACAATGGAGTAGACAAGGAGCCCAAGAAGCTTAGTTCGAGCAAGGGAAAAGCCAAAGC
57707714 CAAGAGGGCAAAGAGGAACAAGTCTGTCATTG
66 CAAGAGGGCAAAGAGGAACAAGTCTGTCATTG
* * * * * **
57707746 AAAGG-AACGATGGAGTAGACAAGGATCCCAATAAGCTTAGTTCGAGTAAGGTAAAAGCTGAAGC
1 AAAGGAAACAATGGAGTAGACAAGGAGCCCAAGAAGCTTAGTTCGAGCAAGGGAAAAGCCAAAGC
**
57707810 CAAGAGGGTGAAGAGGA
66 CAAGAGGGCAAAGAGGA
57707827 GAAAAAAGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 66 0.93
97 5 0.07
ACGTcount: A:0.41, C:0.15, G:0.31, T:0.13
Consensus pattern (97 bp):
AAAGGAAACAATGGAGTAGACAAGGAGCCCAAGAAGCTTAGTTCGAGCAAGGGAAAAGCCAAAGC
CAAGAGGGCAAAGAGGAACAAGTCTGTCATTG
Found at i:57710836 original size:24 final size:24
Alignment explanation
Indices: 57710781--57710846 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
57710771 ACTACAAAAG
* *
57710781 TGAGTGGCTTGTCCACAACACTAA
1 TGAGTGGCTTGACCACAACAATAA
** * *
57710805 CAATTGGCTTGACCACAACAATAT
1 TGAGTGGCTTGACCACAACAATAA
*
57710829 TGAGTGGCTTGGCCACAA
1 TGAGTGGCTTGACCACAA
57710847 TGTAAATGAG
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (24 bp):
TGAGTGGCTTGACCACAACAATAA
Found at i:57712047 original size:32 final size:32
Alignment explanation
Indices: 57712011--57712082 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
57712001 CTATAGACTG
*
57712011 TGAAACTACTTATATACTGAAA-TTATAAATTA
1 TGAAACTACATATATACTGAAACTT-TAAATTA
* *
57712043 TGAAACTACATATATACTTAAACTTTAAATTG
1 TGAAACTACATATATACTGAAACTTTAAATTA
57712075 TGAAACTA
1 TGAAACTA
57712083 TAGACTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (32 bp):
TGAAACTACATATATACTGAAACTTTAAATTA
Found at i:57717409 original size:22 final size:23
Alignment explanation
Indices: 57717384--57717427 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
57717374 AAATGTATGT
57717384 TAAAAATA-AAATACATGTGTAG
1 TAAAAATATAAATACATGTGTAG
* *
57717406 TAAAAATATACATACATTTGTA
1 TAAAAATATAAATACATGTGTA
57717428 TTATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (23 bp):
TAAAAATATAAATACATGTGTAG
Found at i:57718283 original size:5 final size:5
Alignment explanation
Indices: 57718268--57718312 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
57718258 TAATTGTAGT
* *
57718268 ATTGAA ATTGA ATTGA GTTGA ATTGA ATTGT ATTGA ATTGGA ATT
1 ATTG-A ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT-GA ATT
57718313 TATGAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:57718293 original size:15 final size:15
Alignment explanation
Indices: 57718266--57718320 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
57718256 GATAATTGTA
57718266 GTATTGAAATTGAATT
1 GTATTG-AATTGAATT
57718282 G-AGTTGAATTGAATT
1 GTA-TTGAATTGAATT
57718297 GTATTGAATTGGAATT
1 GTATTGAATT-GAATT
57718313 -TA-TGAATT
1 GTATTGAATT
57718321 ATTTGAGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 20 0.56
16 10 0.28
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.44
Consensus pattern (15 bp):
GTATTGAATTGAATT
Found at i:57718591 original size:46 final size:46
Alignment explanation
Indices: 57718538--57718629 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
57718528 GAGGCACTGA
*
57718538 GTGCCGTACTGGTGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
1 GTGCCGTACTGATGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
57718584 GTGCCGTACTGATGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
1 GTGCCGTACTGATGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
57718630 CTAAGTTGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.12, C:0.20, G:0.34, T:0.35
Consensus pattern (46 bp):
GTGCCGTACTGATGTGTTTGGGTTGGATCCGCGTATCCGTCTGAAT
Found at i:57720428 original size:16 final size:18
Alignment explanation
Indices: 57720407--57720441 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57720397 ATGATAAAAT
57720407 AATAT-AAAG-AAAACAA
1 AATATAAAAGAAAAACAA
57720423 AATATAAAAGAAAAACAA
1 AATATAAAAGAAAAACAA
57720441 A
1 A
57720442 GAAACCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 4 0.24
18 8 0.47
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AATATAAAAGAAAAACAA
Found at i:57720901 original size:17 final size:18
Alignment explanation
Indices: 57720879--57720914 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57720869 TAAATGAGTT
57720879 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
57720896 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
57720914 A
1 A
57720915 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:57724363 original size:22 final size:22
Alignment explanation
Indices: 57724338--57724381 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
57724328 TAGTAATATA
*
57724338 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAAAATAATAAAT
*
57724360 ATAATTTATTAAAATAATAAAT
1 ATAAATTATTAAAATAATAAAT
57724382 TATTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAATTATTAAAATAATAAAT
Found at i:57724370 original size:25 final size:22
Alignment explanation
Indices: 57724332--57724389 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 22
57724322 TATATTTAGT
57724332 AATATAATAAATTATTAATATAATA
1 AATATAATAAATTA--AA-ATAATA
**
57724357 AATATAATTTATTAAAATAATA
1 AATATAATAAATTAAAATAATA
*
57724379 AAT-TATTAAAT
1 AATATAATAAAT
57724390 ATTTTAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 5 0.18
22 9 0.32
23 2 0.07
25 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATAAATTAAAATAATA
Found at i:57724493 original size:15 final size:15
Alignment explanation
Indices: 57724473--57724529 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
57724463 ATTCAATATT
57724473 AATATTTTAATAATA
1 AATATTTTAATAATA
*
57724488 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
57724507 AATATATTAATAATA
1 AATATTTTAATAATA
57724522 AATATTTT
1 AATATTTT
57724530 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:57728366 original size:27 final size:28
Alignment explanation
Indices: 57728336--57728389 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
57728326 TTTAATTGGG
*
57728336 GTTTT-AAATTGGGATTTGAGA-TTTGAT
1 GTTTTAAAATT-GAATTTGAGAGTTTGAT
57728363 GTTTTAAAATTGAATTTGAGAGTTTGA
1 GTTTTAAAATTGAATTTGAGAGTTTGA
57728390 AATAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (28 bp):
GTTTTAAAATTGAATTTGAGAGTTTGAT
Found at i:57730483 original size:28 final size:28
Alignment explanation
Indices: 57730452--57730508 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
57730442 AGAAAGAAAG
*
57730452 AAAAAGAGAAAGAGAAAGAAGGAGACGA
1 AAAAAGAAAAAGAGAAAGAAGGAGACGA
*
57730480 AAAAAGAAAAAGAGAAAGAAGGTGACGA
1 AAAAAGAAAAAGAGAAAGAAGGAGACGA
57730508 A
1 A
57730509 GGGCTTAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.65, C:0.04, G:0.30, T:0.02
Consensus pattern (28 bp):
AAAAAGAAAAAGAGAAAGAAGGAGACGA
Found at i:57734194 original size:103 final size:104
Alignment explanation
Indices: 57734015--57734279 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
57734005 AACCGTTATT
* * * *
57734015 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
57734080 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
57734118 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
57734182 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
57734222 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
57734280 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:57734641 original size:30 final size:29
Alignment explanation
Indices: 57734607--57734671 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
57734597 TAATCCACCA
57734607 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
57734637 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
57734667 CCCAA
1 CCCAA
57734672 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:57734645 original size:31 final size:30
Alignment explanation
Indices: 57734614--57734671 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57734604 CCACCCAACT
57734614 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
57734644 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
57734672 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:57737199 original size:21 final size:21
Alignment explanation
Indices: 57737170--57737214 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57737160 TCTGTTTGGT
*
57737170 TGGTGAGAAAACTAAAGAAAA
1 TGGTAAGAAAACTAAAGAAAA
* *
57737191 TGGTAAGAAAATTGAAGAAAA
1 TGGTAAGAAAACTAAAGAAAA
57737212 TGG
1 TGG
57737215 AATTTATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.18
Consensus pattern (21 bp):
TGGTAAGAAAACTAAAGAAAA
Found at i:57745705 original size:6 final size:6
Alignment explanation
Indices: 57745694--57745725 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
57745684 GGTGCTTCCA
57745694 CAACAG CAACAG CAACAG CAACAG CAACAG CA
1 CAACAG CAACAG CAACAG CAACAG CAACAG CA
57745726 GCAGTTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:57746272 original size:3 final size:3
Alignment explanation
Indices: 57746257--57746290 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
57746247 TTCCAAATAT
*
57746257 GCA GCA ACA GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
57746291 TTAATGGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:57749871 original size:18 final size:19
Alignment explanation
Indices: 57749844--57749892 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
57749834 AACAACNAAA
* *
57749844 CAGCAACAACAGCGGC-AG
1 CAGCAGCAACAGCAGCAAG
57749862 CAGCAGCAACAGCAGCAAG
1 CAGCAGCAACAGCAGCAAG
*
57749881 CA-AAGCAACAGC
1 CAGCAGCAACAGC
57749893 TGTCCACTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.43, C:0.33, G:0.24, T:0.00
Consensus pattern (19 bp):
CAGCAGCAACAGCAGCAAG
Found at i:57749876 original size:9 final size:9
Alignment explanation
Indices: 57749842--57749892 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
57749832 ACAACAACNA
*
57749842 AACAGCAAC
1 AACAGCAGC
*
57749851 AACAGCGGC
1 AACAGCAGC
*
57749860 AGCAGCAGC
1 AACAGCAGC
57749869 AACAGCAGC
1 AACAGCAGC
*
57749878 AAGCA-AAGC
1 AA-CAGCAGC
57749887 AACAGC
1 AACAGC
57749893 TGTCCACTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
8 2 0.06
9 29 0.88
10 2 0.06
ACGTcount: A:0.45, C:0.31, G:0.24, T:0.00
Consensus pattern (9 bp):
AACAGCAGC
Found at i:57757737 original size:20 final size:20
Alignment explanation
Indices: 57757712--57757758 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
57757702 TTTGTCTTGA
57757712 TTTTGGTTGAAGGGTTAGCC
1 TTTTGGTTGAAGGGTTAGCC
* **
57757732 TTTTGG-TGAAGTGTTAGGT
1 TTTTGGTTGAAGGGTTAGCC
57757751 TTTTGGTT
1 TTTTGGTT
57757759 TTGTGTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.13, C:0.04, G:0.34, T:0.49
Consensus pattern (20 bp):
TTTTGGTTGAAGGGTTAGCC
Found at i:57759089 original size:26 final size:26
Alignment explanation
Indices: 57759059--57759108 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
57759049 CTCTTTGGTG
* * *
57759059 TAAGGATGAAAGTATCCCCCCGATGT
1 TAAGGAAGAAAGTATACACCCGATGT
57759085 TAAGGAAGAAAGTATACACCCGAT
1 TAAGGAAGAAAGTATACACCCGAT
57759109 ATTGGAGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
TAAGGAAGAAAGTATACACCCGATGT
Found at i:57759181 original size:42 final size:43
Alignment explanation
Indices: 57759081--57759190 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
57759071 TATCCCCCCG
*
57759081 ATGTTAAGGAAGAAAGTATACACCCGATATTGGAGTTCACCCA
1 ATGTTAAGGAAGAAAGTATACACCCGATATTAGAGTTCACCCA
* *
57759124 ATGTTAAGGAAGAAAGTATACACCCGATATTAGAG-TCGCTCA
1 ATGTTAAGGAAGAAAGTATACACCCGATATTAGAGTTCACCCA
57759166 ATGTTAAGGAAGAAAGTATACACCC
1 ATGTTAAGGAAGAAAGTATACACCC
57759191 TGTAATAGCC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (43 bp):
ATGTTAAGGAAGAAAGTATACACCCGATATTAGAGTTCACCCA
Found at i:57759426 original size:36 final size:36
Alignment explanation
Indices: 57759378--57759489 Score: 176
Period size: 36 Copynumber: 3.1 Consensus size: 36
57759368 ATAATTTTCA
57759378 ATATGCAATCTTAGATATGATACAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATG
*
57759414 GTATGCAATCTTAGATATGATACAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTTAGATATG
57759450 AT-TGCAATCTTAGATATGATATGCAATCTTAGA-A-G
1 ATATGCAATCTTAGATATGATA--CAATCTTAGATATG
57759485 ATATG
1 ATATG
57759490 ATTTTGTAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
35 22 0.31
36 39 0.55
37 10 0.14
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (36 bp):
ATATGCAATCTTAGATATGATACAATCTTAGATATG
Found at i:57759489 original size:17 final size:19
Alignment explanation
Indices: 57759378--57759482 Score: 166
Period size: 17 Copynumber: 5.8 Consensus size: 19
57759368 ATAATTTTCA
57759378 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
57759397 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
57759414 GTATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
57759433 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
57759450 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
57759468 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
57759483 AGATATGATT
Statistics
Matches: 79, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.41
18 16 0.20
19 31 0.39
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:57759508 original size:22 final size:22
Alignment explanation
Indices: 57759378--57759505 Score: 80
Period size: 17 Copynumber: 6.7 Consensus size: 22
57759368 ATAATTTTCA
57759378 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
57759397 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
*
57759414 GTATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
57759433 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
57759450 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
57759468 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
57759490 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
57759506 GATTTAATTT
Statistics
Matches: 96, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
17 32 0.33
18 16 0.17
19 28 0.29
22 8 0.08
23 12 0.12
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:57766304 original size:16 final size:15
Alignment explanation
Indices: 57766280--57766336 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 15
57766270 CTTCTATTTC
57766280 AAAAA-AAAAAGAAA
1 AAAAAGAAAAAGAAA
57766294 ATAAAAGAAAAAGAGAAA
1 A-AAAAG-AAAA-AGAAA
*
57766312 AAAAAGAAAAA-AGA
1 AAAAAGAAAAAGAAA
57766326 AAAAAGAAAAA
1 AAAAAGAAAAA
57766337 ATGGAGAGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 14 0.37
15 5 0.13
16 4 0.11
17 9 0.24
18 6 0.16
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAAGAAAAAGAAA
Found at i:57766312 original size:7 final size:6
Alignment explanation
Indices: 57766280--57766336 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 6
57766270 CTTCTATTTC
* *
57766280 AAAAA- AAAAAG -AAAA- TAAAAG AAAAAG AGAAA- AAAAAG AAAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG
57766325 AAAAAAG AAAAA
1 -AAAAAG AAAAA
57766337 ATGGAGAGGC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
5 17 0.39
6 14 0.32
7 13 0.30
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:57766330 original size:18 final size:18
Alignment explanation
Indices: 57766280--57766335 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
57766270 CTTCTATTTC
*
57766280 AAAA-AAAAAAG-AAAAT
1 AAAAGAAAAAAGAAAAAA
*
57766296 AAAAG-AAAAAGAGAAAA
1 AAAAGAAAAAAGAAAAAA
57766313 AAAAGAAAAAAGAAAAAA
1 AAAAGAAAAAAGAAAAAA
57766331 GAAAA
1 -AAAA
57766336 AATGGAGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 10 0.30
17 8 0.24
18 11 0.33
19 4 0.12
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAA
Found at i:57766337 original size:7 final size:7
Alignment explanation
Indices: 57766296--57766337 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
57766286 AAAAGAAAAT
57766296 AAAAGAA
1 AAAAGAA
57766303 AAAGAGAAAA
1 AAA-AG--AA
57766313 AAAAGAA
1 AAAAGAA
57766320 AAAAGAA
1 AAAAGAA
57766327 AAAAGAA
1 AAAAGAA
57766334 AAAA
1 AAAA
57766338 TGGAGAGGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 23 0.72
8 2 0.06
9 2 0.06
10 5 0.16
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:57766337 original size:16 final size:16
Alignment explanation
Indices: 57766280--57766330 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 16
57766270 CTTCTATTTC
57766280 AAAA-AAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
57766295 TAAAAGAAAAAGAGAAAA
1 -AAAAGAAAAA-AGAAAA
57766313 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
57766329 AA
1 AA
57766331 GAAAAAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.36
17 15 0.45
18 6 0.18
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAA
Found at i:57767353 original size:44 final size:44
Alignment explanation
Indices: 57767305--57767472 Score: 273
Period size: 44 Copynumber: 3.8 Consensus size: 44
57767295 AATCCAAGAT
* *
57767305 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
57767349 GATTTGGCATCTCTATATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
57767393 GATTTGGTATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
57767437 AATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA
57767473 GGACATAGCT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 115 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:57767912 original size:87 final size:87
Alignment explanation
Indices: 57767438--57767910 Score: 759
Period size: 87 Copynumber: 5.4 Consensus size: 87
57767428 AAGACAACAA
* * *
57767438 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAGGACATAGCTGATTTGGTTTTCATGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
57767503 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * *
57767525 ATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGCGTTT
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
57767590 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
57767612 ATTTGGCGTCTCTGTATTGGCA-AGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 ATTTGGCGTCTCTGTATTGGCAGA-GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
57767676 TACGTTGAAGCAAATCTAAGATG
65 TACGTTGAAGCAAATCTAAGATG
** * * * * **
57767699 ATTTTACGTCTATGTATTGGCAGGGTGCAGATCGAGGACATAGCTGATTTGTTTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
57767764 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* * *
57767786 ATTTGGCGTCTCTGTATTGGCAGGGAGCATATCGAAGATATAGCTGATTTGGCTTTCACGTGTTT
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
57767851 ACGTTGAAGCAAATCTAAGATG
66 ACGTTGAAGCAAATCTAAGATG
* *
57767873 ATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGA
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
57767911 TAACAGATCT
Statistics
Matches: 354, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 354 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (87 bp):
ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
ACGTTGAAGCAAATCTAAGATG
Found at i:57769336 original size:61 final size:61
Alignment explanation
Indices: 57769255--57769371 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
57769245 AAGGAATTTA
57769255 ATATTAAATTAAATTAAATATTTACCTAGATAGA-ATTTTATTAATTTAATATTAATATATG
1 ATATTAAATTAAATTAAATATTTACCTAGATA-ATATTTTATTAATTTAATATTAATATATG
* * * * *
57769316 ATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTTATTTGATATTAAT
1 ATATTAAATTAAATTAAATATTTACCTAGATAATATTTTATTAATTTAATATTAAT
57769372 GTGATTAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 1 0.02
61 49 0.98
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTACCTAGATAATATTTTATTAATTTAATATTAATATATG
Found at i:57770268 original size:12 final size:12
Alignment explanation
Indices: 57770251--57770276 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57770241 TCTCTTTTTA
57770251 AATTTTGAATTT
1 AATTTTGAATTT
57770263 AATTTTGAATTT
1 AATTTTGAATTT
57770275 AA
1 AA
57770277 ATATTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (12 bp):
AATTTTGAATTT
Found at i:57771249 original size:3 final size:3
Alignment explanation
Indices: 57771241--57771272 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
57771231 TAGAGCTTGG
57771241 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA A
57771273 ATTGAGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:57775403 original size:2 final size:2
Alignment explanation
Indices: 57775324--57775385 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
57775314 AGGCCATTTG
57775324 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
57775366 CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA
57775386 TATATATATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:57781436 original size:26 final size:26
Alignment explanation
Indices: 57781407--57781456 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
57781397 ATTTTTTTCA
*
57781407 AGTCAAGTCGAATGAAATGAAATTTG
1 AGTCAAGTCGAATCAAATGAAATTTG
*
57781433 AGTCAAGTCGAATCAAGTGAAATT
1 AGTCAAGTCGAATCAAATGAAATT
57781457 GTTTGAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (26 bp):
AGTCAAGTCGAATCAAATGAAATTTG
Found at i:57781694 original size:20 final size:19
Alignment explanation
Indices: 57781654--57781718 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 19
57781644 TTTTTGAAAA
*
57781654 TTTTTAAAAA-TTTA-ACT
1 TTTTTAAAAATTTTATAAT
* * *
57781671 TTTTTATATATTTTTTAAT
1 TTTTTAAAAATTTTATAAT
57781690 ATTTTTAAAAATTTTATAAT
1 -TTTTTAAAAATTTTATAAT
57781710 TTTTTAAAA
1 TTTTTAAAA
57781719 TATAAAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 11 0.29
20 16 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAAAATTTTATAAT
Found at i:57781773 original size:18 final size:19
Alignment explanation
Indices: 57781710--57781773 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 19
57781700 ATTTTATAAT
57781710 TTTTTAAAATATAAAATTTGAAA
1 TTTTTAAAA-AT--AATTTG-AA
* *
57781733 TTTTTATACATAATTTGAA
1 TTTTTAAAAATAATTTGAA
*
57781752 -TTTTAAAAATTATTT-AA
1 TTTTTAAAAATAATTTGAA
57781769 TTTTT
1 TTTTT
57781774 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 2 0.06
18 16 0.46
19 2 0.06
20 6 0.17
22 2 0.06
23 7 0.20
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAATAATTTGAA
Found at i:57786098 original size:18 final size:20
Alignment explanation
Indices: 57786053--57786098 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
57786043 AAAAATACAA
57786053 AAATTAAATTCTCTAAAAAT
1 AAATTAAATTCTCTAAAAAT
* *
57786073 ATATTAAATT-TC-AAATAT
1 AAATTAAATTCTCTAAAAAT
57786091 AAATTAAA
1 AAATTAAA
57786099 CCCTTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 2 0.09
20 9 0.39
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTAAATTCTCTAAAAAT
Found at i:57792726 original size:10 final size:12
Alignment explanation
Indices: 57792698--57792728 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57792688 AATGATATAT
57792698 AATATATTCCTA
1 AATATATTCCTA
57792710 AATATATTCCTA
1 AATATATTCCTA
57792722 AATATAT
1 AATATAT
57792729 GGAAAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:57804911 original size:2 final size:2
Alignment explanation
Indices: 57804906--57804940 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
57804896 ATGGGTGAAT
57804906 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
57804941 AGCAGAAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57810161 original size:37 final size:37
Alignment explanation
Indices: 57810130--57810298 Score: 212
Period size: 37 Copynumber: 4.6 Consensus size: 37
57810120 AAATCTACTA
* * * * *
57810130 ATATACTGAATAAAGTTTAAGTGAGCGAAATCTACGG
1 ATATACTGAATAAAGCTCAATTGAGAGAAATCTATGG
* *
57810167 ATATACTGAATAAAGCTCAATTGAGAAAAATATATGG
1 ATATACTGAATAAAGCTCAATTGAGAGAAATCTATGG
* *
57810204 ATATACTGAATAAATCTCAATTGAGAGAAATCTATGA
1 ATATACTGAATAAAGCTCAATTGAGAGAAATCTATGG
* * * * *
57810241 ATATACTAAATAAAGCTCAACTGAGCGATATCTATCG
1 ATATACTGAATAAAGCTCAATTGAGAGAAATCTATGG
57810278 ATATACTGAATAAAGCTCAAT
1 ATATACTGAATAAAGCTCAAT
57810299 CGAGTATTAT
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 112 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (37 bp):
ATATACTGAATAAAGCTCAATTGAGAGAAATCTATGG
Found at i:57810310 original size:37 final size:35
Alignment explanation
Indices: 57810119--57810325 Score: 148
Period size: 37 Copynumber: 5.6 Consensus size: 35
57810109 TCAAACAAAC
* * *
57810119 AAAATCTACTAATATACTGAATAAAGTTTAAGT-GAG
1 AAAATCTA-TGATATACTGAATAAAGCTCAA-TCGAG
* * *
57810155 CGAAATCTACGGATATACTGAATAAAGCTCAATTGAG
1 -AAAATCTA-TGATATACTGAATAAAGCTCAATCGAG
* * *
57810192 AAAAATATATGGATATACTGAATAAATCTCAATTGAG
1 -AAAATCTAT-GATATACTGAATAAAGCTCAATCGAG
*
57810229 AGAAATCTATGAATATACTAAATAAAGCTCAA-CTGAG
1 A-AAATCTATG-ATATACTGAATAAAGCTCAATC-GAG
* *
57810266 CGATATCTATCGATATACTGAATAAAGCTCAATCGAG
1 -AAAATCTAT-GATATACTGAATAAAGCTCAATCGAG
**
57810303 TATTATCTATTGAATATACTGAA
1 -AAAATCTA-TG-ATATACTGAA
57810326 CTACTGTATT
Statistics
Matches: 140, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
36 3 0.02
37 124 0.89
38 13 0.09
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (35 bp):
AAAATCTATGATATACTGAATAAAGCTCAATCGAG
Found at i:57810311 original size:74 final size:75
Alignment explanation
Indices: 57810130--57810322 Score: 196
Period size: 74 Copynumber: 2.6 Consensus size: 75
57810120 AAATCTACTA
* * * * * * *
57810130 ATATACTGAATAAAGTTTAAGT-GAGCGAAATCTA-CGGATATACTGAATAAAGCTCAATTGAGA
1 ATATACTGAATAAAGCTCAA-TCGAGAGAAATCTATTGAATATACTAAATAAAGCTCAACTGAGA
*
57810193 AAAATATATGG
65 AAAATATATCG
* * **
57810204 ATATACTGAATAAATCTCAATTGAGAGAAATCTA-TGAATATACTAAATAAAGCTCAACTGAGCG
1 ATATACTGAATAAAGCTCAATCGAGAGAAATCTATTGAATATACTAAATAAAGCTCAACTGAGAA
* *
57810268 ATATCTATCG
66 AAATATATCG
**
57810278 ATATACTGAATAAAGCTCAATCGAGTA-TTATCTATTGAATATACT
1 ATATACTGAATAAAGCTCAATCGAG-AGAAATCTATTGAATATACT
57810323 GAACTACTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
73 1 0.01
74 87 0.88
75 11 0.11
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (75 bp):
ATATACTGAATAAAGCTCAATCGAGAGAAATCTATTGAATATACTAAATAAAGCTCAACTGAGAA
AAATATATCG
Found at i:57832111 original size:25 final size:23
Alignment explanation
Indices: 57832082--57832146 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
57832072 AATAAAAAAC
*
57832082 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
57832107 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
57832128 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
57832147 AATAATAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:57832145 original size:19 final size:20
Alignment explanation
Indices: 57832108--57832146 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
57832098 TCAAATACAT
57832108 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
57832128 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
57832147 AATAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:57832185 original size:41 final size:42
Alignment explanation
Indices: 57832126--57832211 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
57832116 TAAAAACAAA
57832126 TATTAAAACAAAAAATAAA-TAAATAATAGAACT-AAAA-TAAT
1 TATTAAAACAAAAAATAAATTAAA-AATAGAA-TAAAAAGTAAT
* * * *
57832167 TATTAAAATAATACATAAATTAAAAATATAATAAAAAGTAAT
1 TATTAAAACAAAAAATAAATTAAAAATAGAATAAAAAGTAAT
57832209 TAT
1 TAT
57832212 ATTAAAATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
40 1 0.03
41 26 0.68
42 11 0.29
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (42 bp):
TATTAAAACAAAAAATAAATTAAAAATAGAATAAAAAGTAAT
Found at i:57843820 original size:19 final size:19
Alignment explanation
Indices: 57843796--57843840 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
57843786 TAAGTATTCA
57843796 ATTCAACCTCTTAACAAGC
1 ATTCAACCTCTTAACAAGC
57843815 ATTCAACCTCTTAACAAGC
1 ATTCAACCTCTTAACAAGC
57843834 ATTCAAC
1 ATTCAAC
57843841 ACTTATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (19 bp):
ATTCAACCTCTTAACAAGC
Found at i:57857693 original size:18 final size:15
Alignment explanation
Indices: 57857663--57857710 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
57857653 ATAAAATTTT
57857663 TAAAAATATAATATA
1 TAAAAATATAATATA
57857678 T-AAAATACTAATAATAA
1 TAAAAATA-TAAT-AT-A
57857695 TAAAAATATAATATA
1 TAAAAATATAATATA
57857710 T
1 T
57857711 CAATAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 4 0.14
17 6 0.21
18 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATATAATATA
Found at i:57857717 original size:19 final size:18
Alignment explanation
Indices: 57857663--57857717 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
57857653 ATAAAATTTT
57857663 TAAAAATA-TAAT-AT-A
1 TAAAAATACTAATAATAA
57857678 T-AAAATACTAATAATAA
1 TAAAAATACTAATAATAA
57857695 TAAAAATA-TAATATATCAA
1 TAAAAATACTAATA-AT-AA
57857714 TAAA
1 TAAA
57857718 TTTTTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 2 0.06
17 7 0.21
18 8 0.24
19 6 0.18
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATACTAATAATAA
Found at i:57861342 original size:96 final size:96
Alignment explanation
Indices: 57861189--57861369 Score: 353
Period size: 96 Copynumber: 1.9 Consensus size: 96
57861179 GCCGGCTAAC
57861189 TTCACCCAACATAGCGATGAAATCAATGACTTAATGTTAAAATCGGTACATTGCCTTATTCTTAA
1 TTCACCCAACATAGCGATGAAATCAATGACTTAATGTTAAAATCGGTACATTGCCTTATTCTTAA
57861254 AATTAAAATGTAAAAAGTTTAGCCGATTAAT
66 AATTAAAATGTAAAAAGTTTAGCCGATTAAT
*
57861285 TTCACCCAACATAGTGATGAAATCAATGACTTAATGTTAAAATCGGTACATTGCCTTATTCTTAA
1 TTCACCCAACATAGCGATGAAATCAATGACTTAATGTTAAAATCGGTACATTGCCTTATTCTTAA
57861350 AATTAAAATGTAAAAAGTTT
66 AATTAAAATGTAAAAAGTTT
57861370 CTAAAATGAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (96 bp):
TTCACCCAACATAGCGATGAAATCAATGACTTAATGTTAAAATCGGTACATTGCCTTATTCTTAA
AATTAAAATGTAAAAAGTTTAGCCGATTAAT
Found at i:57861460 original size:16 final size:15
Alignment explanation
Indices: 57861434--57861468 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
57861424 TGATGTGAAT
57861434 AATATAAAATATTAA
1 AATATAAAATATTAA
*
57861449 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
57861465 AATA
1 AATA
57861469 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:57864872 original size:16 final size:16
Alignment explanation
Indices: 57864819--57864874 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
57864809 ATGTTTATTC
*
57864819 ACTGTAATGGAATAGG
1 ACTGTAATGGAATAGA
57864835 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
*
57864851 GCTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
*
57864867 ATTGTAAT
1 ACTGTAAT
57864875 CAATAATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:57864954 original size:20 final size:20
Alignment explanation
Indices: 57864915--57864956 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
57864905 GGAATATAAC
*
57864915 TGTAATAGTATTCGTGTGTT
1 TGTAATAGTATTCGTATGTT
*
57864935 TGTAATAGTATTCTTATGTT
1 TGTAATAGTATTCGTATGTT
57864955 TG
1 TG
57864957 GTTGAATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.52
Consensus pattern (20 bp):
TGTAATAGTATTCGTATGTT
Found at i:57865146 original size:58 final size:58
Alignment explanation
Indices: 57865078--57865196 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 58
57865068 AAGATTCTTT
* *
57865078 TTAAAAATAATTTAATAAAAATAATAAATAATTT-ATCTATATT-TTAACATAATTATTA
1 TTAAAAATAATTTAAT-AAAATAATAAATAATTTAAT-AAAATTCTTAACATAATTATTA
* * *
57865136 TTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTA
1 TTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAATTATTA
57865194 TTA
1 TTA
57865197 TACGAATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
57 20 0.37
58 34 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (58 bp):
TTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAATTATTA
Found at i:57867436 original size:13 final size:14
Alignment explanation
Indices: 57867418--57867519 Score: 115
Period size: 13 Copynumber: 7.2 Consensus size: 14
57867408 CTTACTTATA
57867418 TATTTTATACT-TT
1 TATTTTATACTATT
57867431 TATTTTATA-TATAT
1 TATTTTATACTAT-T
57867445 TATTTATATACTTATT
1 TATTT-TATAC-TATT
57867461 TATTTTATACT-TT
1 TATTTTATACTATT
57867474 TATTTTATA-TATAT
1 TATTTTATACTAT-T
57867488 TATTTATATACTTATT
1 TATTT-TATAC-TATT
57867504 TATTTTATACT-TT
1 TATTTTATACTATT
57867517 TAT
1 TAT
57867520 CACTTATTTA
Statistics
Matches: 79, Mismatches: 0, Indels: 20
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.03
13 27 0.34
14 14 0.18
15 18 0.23
16 12 0.15
17 6 0.08
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTATACTATT
Found at i:57867457 original size:43 final size:43
Alignment explanation
Indices: 57867371--57867519 Score: 237
Period size: 43 Copynumber: 3.4 Consensus size: 43
57867361 TTTTACTTCG
* *
57867371 TTTATTTTATACTTTTATTTCAAATATATATTATTCACT-TACTTA
1 TTTATTTTATACTTTTATTT--TATATATATTATTTA-TATACTTA
*
57867416 TATATTTTATACTTTTATTTTATATATATTATTTATATACTTA
1 TTTATTTTATACTTTTATTTTATATATATTATTTATATACTTA
57867459 TTTATTTTATACTTTTATTTTATATATATTATTTATATACTTA
1 TTTATTTTATACTTTTATTTTATATATATTATTTATATACTTA
57867502 TTTATTTTATACTTTTAT
1 TTTATTTTATACTTTTAT
57867520 CACTTATTTA
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
42 1 0.01
43 79 0.80
45 19 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (43 bp):
TTTATTTTATACTTTTATTTTATATATATTATTTATATACTTA
Found at i:57867472 original size:58 final size:61
Alignment explanation
Indices: 57867409--57867551 Score: 144
Period size: 58 Copynumber: 2.4 Consensus size: 61
57867399 TATTATTCAC
57867409 TTACTTATATATTTTATACT-T-TTATTT-TATA-TATATTATTTATATACTTATT-T-A-TT-T
1 TTACTTAT-TATTTTATACTATATTATTTATATACTAT-TTATTT-TATACTT-TTATCACTTAT
57867466 TATACTT-TTATTTTATA-TATATTATTTATATACTTATTTATTTTATACTTTTATCACTTAT
1 T-TACTTATTATTTTATACTATATTATTTATATAC-TATTTATTTTATACTTTTATCACTTAT
57867527 TTACTTATTTATTTTATACATATAT
1 TTACTTA-TTATTTTATAC-TATAT
57867552 ATACATGTTG
Statistics
Matches: 72, Mismatches: 0, Indels: 21
0.77 0.00 0.23
Matches are distributed among these distances:
55 1 0.01
56 10 0.14
57 10 0.14
58 17 0.24
59 7 0.10
60 10 0.14
61 2 0.03
62 10 0.14
64 5 0.07
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (61 bp):
TTACTTATTATTTTATACTATATTATTTATATACTATTTATTTTATACTTTTATCACTTAT
Found at i:57867513 original size:15 final size:15
Alignment explanation
Indices: 57867410--57867545 Score: 121
Period size: 15 Copynumber: 9.2 Consensus size: 15
57867400 ATTATTCACT
*
57867410 TACTTATATATTTTA
1 TACTTATTTATTTTA
57867425 TAC-T-TTTATTTTA
1 TACTTATTTATTTTA
57867438 TA--TATATTATTTATA
1 TACTTAT-TTATTT-TA
57867453 TACTTATTTATTTTA
1 TACTTATTTATTTTA
57867468 TAC-T-TTTATTTTA
1 TACTTATTTATTTTA
57867481 TA--TATATTATTTATA
1 TACTTAT-TTATTT-TA
57867496 TACTTATTTATTTTA
1 TACTTATTTATTTTA
57867511 TACTT-TTATCACTTATT-
1 TACTTATT-T-A-TT-TTA
57867528 TACTTATTTATTTTA
1 TACTTATTTATTTTA
57867543 TAC
1 TAC
57867546 ATATATATAC
Statistics
Matches: 104, Mismatches: 1, Indels: 32
0.76 0.01 0.23
Matches are distributed among these distances:
12 2 0.02
13 23 0.22
14 18 0.17
15 29 0.28
16 14 0.13
17 14 0.13
18 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
TACTTATTTATTTTA
Found at i:57867716 original size:3 final size:3
Alignment explanation
Indices: 57867647--57867696 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
57867637 CATTTTACTT
* * * *
57867647 TTA TTA TTA TTA TTA ATA TCA CTA TTA -TA TCA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57867693 TTA T
1 TTA T
57867697 AATACCTCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:57867852 original size:21 final size:20
Alignment explanation
Indices: 57867797--57867853 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 20
57867787 TTAGCACATT
*
57867797 TATTTTATTTATATATCATT
1 TATTTTATTTATATATCATC
* *
57867817 TACTCTTATTATTATTTCATCATC
1 TA-TTTTA-T-TTATAT-ATCATC
57867841 TATTTTATTTATA
1 TATTTTATTTATA
57867854 GTTTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
20 2 0.07
21 8 0.29
22 2 0.07
23 9 0.32
24 7 0.25
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTATTTATATATCATC
Found at i:57876321 original size:31 final size:31
Alignment explanation
Indices: 57876233--57876321 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 31
57876223 AAAGATAAAC
* **
57876233 AAATTTAGCCTTCAATATTTACAAAATTTAT
1 AAATTTAGCTTTCAATATTTACAAAATCAAT
* * *
57876264 CATTTTAG-TTT-AA-ATTCTAAAAAAAATCAAT
1 AAATTTAGCTTTCAATATT-T--ACAAAATCAAT
57876295 AAATTTAGCTTTCAATATTTACAAAAT
1 AAATTTAGCTTTCAATATTTACAAAAT
57876322 GACAAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
28 3 0.07
29 3 0.07
30 2 0.05
31 26 0.60
32 3 0.07
33 3 0.07
34 3 0.07
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (31 bp):
AAATTTAGCTTTCAATATTTACAAAATCAAT
Found at i:57876451 original size:20 final size:20
Alignment explanation
Indices: 57876422--57876463 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
57876412 ACCGCAGACC
*
57876422 CAGAGTTAGTTTGTGAACCT
1 CAGAGCTAGTTTGTGAACCT
57876442 CAGAGCTAGTTTGTGAACCT
1 CAGAGCTAGTTTGTGAACCT
57876462 CA
1 CA
57876464 ACTTGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
CAGAGCTAGTTTGTGAACCT
Found at i:57878008 original size:4 final size:4
Alignment explanation
Indices: 57877999--57878029 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
57877989 AAAATAAAGA
*
57877999 AAAT AAAT AAAT AAAT AAGT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
57878030 ACACATATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:57879807 original size:44 final size:44
Alignment explanation
Indices: 57879759--57879860 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
57879749 TTCGACCCAT
* *
57879759 TCCACTGTAACTTCA-GAGAGATAAGACTTGTATCTTCAATCTGC
1 TCCACTGTAACTTCATG-GAGATAAGACTTGTAACTTCAACCTGC
* ** *
57879803 TCCACGGTAACTTCATGGAGATAAGGTTTGTAACTTTAACCTGC
1 TCCACTGTAACTTCATGGAGATAAGACTTGTAACTTCAACCTGC
* *
57879847 TCCATTGCAACTTC
1 TCCACTGTAACTTC
57879861 GGTTCCATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
TCCACTGTAACTTCATGGAGATAAGACTTGTAACTTCAACCTGC
Found at i:57882459 original size:19 final size:20
Alignment explanation
Indices: 57882428--57882481 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
57882418 GATCTTTTTG
* *
57882428 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGTA
*
57882447 TGCAATGTAATGCAAATGTA
1 TGAAATGTAATGCAAATGTA
57882467 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
57882482 AAGAGGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGTA
Found at i:57884156 original size:47 final size:47
Alignment explanation
Indices: 57884033--57884191 Score: 192
Period size: 47 Copynumber: 3.2 Consensus size: 47
57884023 CATGACAACA
* * *
57884033 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCTGAAAG
1 TGTGATATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATC----AG
* *
57884085 ATGTGATTATGTGCTTCCGTATAAGACCAGATCTGGGATATGGCATCAG
1 -TGTGA-TATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
* *
57884134 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCTG
1 TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
57884181 TGTGATATGTG
1 TGTGATATGTG
57884192 ATCTATGTAA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
47 49 0.51
48 5 0.05
49 2 0.02
53 34 0.35
54 6 0.06
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (47 bp):
TGTGATATGTGCTTCTGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:57884221 original size:46 final size:46
Alignment explanation
Indices: 57884106--57884207 Score: 150
Period size: 47 Copynumber: 2.2 Consensus size: 46
57884096 TGCTTCCGTA
* * * * *
57884106 TAAGACCAGATCTGGGATATGGCATCAGTGTGATATGTGCTACTGTA
1 TAAGACCATATCTGGGATATGGCATCTGTGTGATATGTGAT-CTATG
57884153 TAAGACCATATCTGGGATATGGCATCTGTGTGATATGTGATCTATG
1 TAAGACCATATCTGGGATATGGCATCTGTGTGATATGTGATCTATG
57884199 TAAGACCAT
1 TAAGACCAT
57884208 GGTTGGACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 12 0.24
47 38 0.76
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (46 bp):
TAAGACCATATCTGGGATATGGCATCTGTGTGATATGTGATCTATG
Found at i:57889250 original size:22 final size:22
Alignment explanation
Indices: 57889197--57889302 Score: 99
Period size: 24 Copynumber: 4.6 Consensus size: 22
57889187 CTGAGCTGAC
* *
57889197 GAACAGTAAACTCTATTGAGAT
1 GAACAGTAAGCTCTATTGAGCT
57889219 GAAAACAGTAAGCTCTATTGAGCT
1 G--AACAGTAAGCTCTATTGAGCT
57889243 GAACAGTAAGCTCT-TTCGAGCT
1 GAACAGTAAGCTCTATT-GAGCT
* *
57889265 GAATC-GATAAGCTCCAATGAGCT
1 GAA-CAG-TAAGCTCTATTGAGCT
*
57889288 AAAACAGTAAGCTCT
1 -GAACAGTAAGCTCT
57889303 TACGAGTTGT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.03
22 23 0.33
23 21 0.30
24 24 0.34
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (22 bp):
GAACAGTAAGCTCTATTGAGCT
Found at i:57889298 original size:23 final size:23
Alignment explanation
Indices: 57889198--57889301 Score: 79
Period size: 23 Copynumber: 4.5 Consensus size: 23
57889188 TGAGCTGACG
* * *
57889198 AACAGTAAACTCTATTGAGATGAA
1 AACAGTAAGCTCCATTGAGCT-AA
* *
57889222 AACAGTAAGCTCTATTGAGCT-G
1 AACAGTAAGCTCCATTGAGCTAA
* *
57889244 AACAGTAAGCT-CTTTCGAGCTGA
1 AACAGTAAGCTCCATT-GAGCTAA
* *
57889267 ATC-GATAAGCTCCAATGAGCTAA
1 AACAG-TAAGCTCCATTGAGCTAA
57889290 AACAGTAAGCTC
1 AACAGTAAGCTC
57889302 TTACGAGTTG
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.03
22 17 0.27
23 23 0.36
24 22 0.34
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCCATTGAGCTAA
Found at i:57893407 original size:26 final size:26
Alignment explanation
Indices: 57893370--57893477 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
57893360 TGATACAAAT
57893370 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
57893396 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57893422 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57893448 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57893474 TGAT
1 TGAT
57893478 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57899014 original size:46 final size:46
Alignment explanation
Indices: 57898938--57899061 Score: 130
Period size: 46 Copynumber: 2.7 Consensus size: 46
57898928 AAGCTCCTCC
* *
57898938 TAAGCTGATAAACAGTAAGCTCTATT-GAGCTGAAA-AAGGTAAGCTCTAT
1 TAAGCTG--AAACAGTAAGCTCT-TTCGAGCTGAAACAA--TAAGCTCCAA
*
57898987 TGAGCTG-AACAGTAAGCTCTTTCGAGCT-AAATCAATAAGCTCCAA
1 TAAGCTGAAACAGTAAGCTCTTTCGAGCTGAAA-CAATAAGCTCCAA
*
57899032 TAAGCTGAAACAGTAAGCTCTTACGAGCTG
1 TAAGCTGAAACAGTAAGCTCTTTCGAGCTG
57899062 TGGTGAGTCT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
45 19 0.29
46 38 0.58
47 2 0.03
49 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (46 bp):
TAAGCTGAAACAGTAAGCTCTTTCGAGCTGAAACAATAAGCTCCAA
Found at i:57899060 original size:23 final size:22
Alignment explanation
Indices: 57898947--57899061 Score: 99
Period size: 23 Copynumber: 5.0 Consensus size: 22
57898937 CTAAGCTGAT
57898947 AAACAGTAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCTA-TGAGCTG
*
57898970 AAAAAGGTAAGCTCTATTGAGCTG
1 AAACA-GTAAGCTCTA-TGAGCTG
*
57898994 -AACAGTAAGCTCTTTCGAGCT-
1 AAACAGTAAGCTCTAT-GAGCTG
* * *
57899015 AAATCAATAAGCTCCAATAAGCTG
1 AAA-CAGTAAGCT-CTATGAGCTG
*
57899039 AAACAGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTC-TATGAGCTG
57899062 TGGTGAGTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.01
22 17 0.23
23 33 0.45
24 23 0.31
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (22 bp):
AAACAGTAAGCTCTATGAGCTG
Found at i:57900930 original size:25 final size:25
Alignment explanation
Indices: 57900900--57900951 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
57900890 CTCATTTAAT
57900900 AAACCATAGCTATTTAATACTTTTA
1 AAACCATAGCTATTTAATACTTTTA
57900925 AAACCATAGCTATTTAATACTTTTA
1 AAACCATAGCTATTTAATACTTTTA
57900950 AA
1 AA
57900952 CAATAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (25 bp):
AAACCATAGCTATTTAATACTTTTA
Found at i:57900957 original size:24 final size:24
Alignment explanation
Indices: 57900899--57900957 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
57900889 TCTCATTTAA
57900899 TAAACCATAGCTATTTAATACTTT
1 TAAACCATAGCTATTTAATACTTT
57900923 TAAAACCATAGCTATTTAATACTTT
1 T-AAACCATAGCTATTTAATACTTT
*
57900948 TAAACAATAG
1 TAAACCATAG
57900958 AAATCAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.37
Consensus pattern (24 bp):
TAAACCATAGCTATTTAATACTTT
Found at i:57902249 original size:60 final size:57
Alignment explanation
Indices: 57902123--57902280 Score: 142
Period size: 60 Copynumber: 2.6 Consensus size: 57
57902113 ACACATATAC
* * *
57902123 ATAATACTAAATTTAAGTATTCTAAAAGTAAAAGAATAATAAACAGGTAAATTAGTAGAAC
1 ATAATA-TAAATTTAAGTATT-TAAAAAT-AAAGAATAATAAACAGGTAAA-TAATAGAAA
57902184 A-AATATAAAATTTAAGTATTTAAAAATAAAGAATAATAAACAATGGATATAA-AATA-AAA
1 ATAATAT-AAATTTAAGTATTTAAAAATAAAGAATAATAAAC-A-GG-TA-AATAATAGAAA
* * * *
57902243 ATAATATTAACTTAGGTATTTAAGAAATGAAGAATAAT
1 ATAATATAAATTTAAGTATTTAA-AAATAAAGAATAAT
57902281 TAATGAATAA
Statistics
Matches: 83, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
58 14 0.17
59 24 0.29
60 40 0.48
61 3 0.04
62 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (57 bp):
ATAATATAAATTTAAGTATTTAAAAATAAAGAATAATAAACAGGTAAATAATAGAAA
Found at i:57903572 original size:27 final size:27
Alignment explanation
Indices: 57903542--57903595 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
57903532 TATTTATGAT
* *
57903542 TATTGAAACACTATAAATATTTGAAAA
1 TATTCAAACACTACAAATATTTGAAAA
* * *
57903569 TATTCTAACACTCCAAATGTTTGAAAA
1 TATTCAAACACTACAAATATTTGAAAA
57903596 GATGAAAACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (27 bp):
TATTCAAACACTACAAATATTTGAAAA
Found at i:57904188 original size:16 final size:15
Alignment explanation
Indices: 57904167--57904196 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57904157 AATTTTGATT
57904167 GAAAATATATAAAAAA
1 GAAAATATA-AAAAAA
57904183 GAAAATATAAAAAA
1 GAAAATATAAAAAA
57904197 GTCCAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
GAAAATATAAAAAAA
Found at i:57905958 original size:34 final size:34
Alignment explanation
Indices: 57905920--57906029 Score: 89
Period size: 34 Copynumber: 3.1 Consensus size: 34
57905910 TAAGAATAAA
57905920 AATTAGACATTAATAATGATGTGTTGGAATATTC
1 AATTAGACATTAATAATGATGTGTTGGAATATTC
* * * * * **
57905954 AATTATTGTAAATTAATATTAAAT-TATTAAGAATA-AA
1 AATTA--G-ACATTAATAAT-GATGTGTT-GGAATATTC
*
57905991 AATTAGACATTAATACTGATGTGTTGGAATATTC
1 AATTAGACATTAATAATGATGTGTTGGAATATTC
57906025 AATTA
1 AATTA
57906030 TTGTGGTTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
33 7 0.13
34 22 0.40
35 1 0.02
36 1 0.02
37 17 0.31
38 7 0.13
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.39
Consensus pattern (34 bp):
AATTAGACATTAATAATGATGTGTTGGAATATTC
Found at i:57906011 original size:71 final size:71
Alignment explanation
Indices: 57905891--57906033 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
57905881 TAAAAATTAA
*
57905891 TAAATTAATATTAGATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
1 TAAATTAATATTAAATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
57905956 TTATTG
66 TTATTG
*
57905962 TAAATTAATATTAAATTATTAAGAATAAAAATTAGACATTAATACTGATGTGTTGGAATATTCAA
1 TAAATTAATATTAAATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
57906027 TTATTG
66 TTATTG
57906033 T
1 T
57906034 GGTTTTGATC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (71 bp):
TAAATTAATATTAAATTATTAAGAATAAAAATTAGACATTAATAATGATGTGTTGGAATATTCAA
TTATTG
Found at i:57906274 original size:18 final size:18
Alignment explanation
Indices: 57906253--57906289 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57906243 TTAATTTAAA
57906253 ATAATTTTTTATGATAGT
1 ATAATTTTTTATGATAGT
*
57906271 ATAATTTTTTATGGTAGT
1 ATAATTTTTTATGATAGT
57906289 A
1 A
57906290 AATAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATAATTTTTTATGATAGT
Found at i:57909907 original size:54 final size:54
Alignment explanation
Indices: 57909825--57909935 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
57909815 TCAATCTTCA
57909825 TTTGAAGGTATTTGCTAAATCTGGTGACATCTGTAGTTGATAATTTTCTGTGCC
1 TTTGAAGGTATTTGCTAAATCTGGTGACATCTGTAGTTGATAATTTTCTGTGCC
57909879 TTTGAAGGTATTTGCTAAATCTGGTGACATCTGTAGTTGATAATTTTCTGTGCC
1 TTTGAAGGTATTTGCTAAATCTGGTGACATCTGTAGTTGATAATTTTCTGTGCC
57909933 TTT
1 TTT
57909936 TATGCTCTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.44
Consensus pattern (54 bp):
TTTGAAGGTATTTGCTAAATCTGGTGACATCTGTAGTTGATAATTTTCTGTGCC
Found at i:57911703 original size:35 final size:33
Alignment explanation
Indices: 57911632--57911696 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
57911622 ATGAAAGATG
*
57911632 ATTTATTACTAAATAATTAACTAATTATATAGT
1 ATTTATTACTAAATAATTAACTAATTACATAGT
*
57911665 ATTTATT-GTAAATAATTTATACTAAATTACAT
1 ATTTATTACTAAATAA-TTA-ACT-AATTACAT
57911697 TATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 7 0.26
33 10 0.37
34 3 0.11
35 7 0.26
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
ATTTATTACTAAATAATTAACTAATTACATAGT
Found at i:57918233 original size:48 final size:48
Alignment explanation
Indices: 57918127--57918395 Score: 259
Period size: 47 Copynumber: 5.6 Consensus size: 48
57918117 TTTGTGTGCT
* * *
57918127 AGTGTCAGA-CATGTCTGGGACAT-GCACCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATA-GAGAGTC
* * *
57918173 AGTGTAAGACCATGTTTGGGACATGGCATCAGCACG-TATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATAGA-GAGTC
57918221 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATATGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATA-GAGAGTC
* * * * *
57918270 TAGTGTAAGACCATGTCTGGGACATGGCTTCGGCCTCGATTTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATAGAGAGTC
* * * *
57918320 AGTGTAAGACCATGTCTGGGACATGACATC-G-AC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATAGA-GAGTC
57918367 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
57918396 TGGAATTATA
Statistics
Matches: 187, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 12 0.06
47 50 0.27
48 44 0.24
49 34 0.18
50 42 0.22
51 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATAGAGAGTC
Found at i:57918364 original size:98 final size:97
Alignment explanation
Indices: 57918127--57918395 Score: 295
Period size: 98 Copynumber: 2.8 Consensus size: 97
57918117 TTTGTGTGCT
* * * *
57918127 AGTGTCAGA-CATGTCTGGGACATG-CACCGGC-CACAT-TATGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATAGATGAGAGCCAGTGTAAGACCATGT
*
57918188 TTGGGACATGGCATCAGCACGTATAGAGGTGTC
66 CTGGGACATGGCATCAGCACGTATAGA-GTGTC
* * *
57918221 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATAGATGAGAGCCAGTGTAAGACCATGT
* * * * *
57918286 CTGGGACATGGCTTCGGCCTCGATTTTGA-TAGTC
66 CTGGGACATGGCATCAG-CACG-TATAGAGT-GTC
* *
57918320 AGTGTAAGACCATGTCTGGGACATGACATC-G-ACTTGATGGAT--GAGCCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCAC-AGATAGATGAGAGCCAGTGTAAGACCATG
57918381 TCTGGGACATGGCAT
65 TCTGGGACATGGCAT
57918396 TGGAATTATA
Statistics
Matches: 151, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
94 8 0.05
95 15 0.10
96 38 0.25
97 6 0.04
98 45 0.30
99 35 0.23
100 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATAGATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAGCACGTATAGAGTGTC
Found at i:57926555 original size:21 final size:22
Alignment explanation
Indices: 57926521--57926563 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57926511 TTTTAAAGAC
*
57926521 TTTTTATTTATTAT-TTCTATTT
1 TTTTTACTTATTATCTT-TATTT
57926543 TTTTTACTT-TTATCTTTATTT
1 TTTTTACTTATTATCTTTATTT
57926564 ATATCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTACTTATTATCTTTATTT
Found at i:57930055 original size:21 final size:21
Alignment explanation
Indices: 57930030--57930072 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
57930020 AAATAGATTA
57930030 GAAGTAAATAGAAAAAAATAG
1 GAAGTAAATAGAAAAAAATAG
57930051 GAAGTAAATAGAAAAAAATAG
1 GAAGTAAATAGAAAAAAATAG
57930072 G
1 G
57930073 TTTACTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (21 bp):
GAAGTAAATAGAAAAAAATAG
Found at i:57933784 original size:16 final size:16
Alignment explanation
Indices: 57933763--57933816 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
57933753 CGGGTTAGAT
57933763 AATTAAAATAATTAAG
1 AATTAAAATAATTAAG
* * *
57933779 AATT-AATTAAATAAA
1 AATTAAAATAATTAAG
57933794 ATATTAAAA-AATT-AG
1 A-ATTAAAATAATTAAG
57933809 AATTAAAA
1 AATTAAAA
57933817 AAATAGGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 7 0.23
15 11 0.37
16 10 0.33
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
AATTAAAATAATTAAG
Found at i:57933839 original size:27 final size:26
Alignment explanation
Indices: 57933783--57933840 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
57933773 ATTAAGAATT
*
57933783 AATTAAATAAAATATTAAAAAATTAG
1 AATTAAATAAAATATTAAAAAATTAA
*
57933809 AATTAAA-AAAATAGGTTAAGAAATTAA
1 AATTAAATAAAATA--TTAAAAAATTAA
57933836 AATTA
1 AATTA
57933841 TGTGTCCGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 7 0.25
27 15 0.54
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTAAATAAAATATTAAAAAATTAA
Found at i:57936967 original size:43 final size:42
Alignment explanation
Indices: 57936888--57936997 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 42
57936878 TACCATACCA
** * * *
57936888 ATGCCATATCCCAGATATGGTCTTATATGGATTCTCATATCG
1 ATGCCATAGACCAGATATGGTCTTAAATGAAATCTCATATCG
* *
57936930 ATTCCAATAGACCAGCTATGGTCTTAAATGAAATCTCATATCG
1 ATGCC-ATAGACCAGATATGGTCTTAAATGAAATCTCATATCG
**
57936973 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATAGACCAGATATGGTCTTA
57936998 CTCGTAATCT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATAGACCAGATATGGTCTTAAATGAAATCTCATATCG
Found at i:57938699 original size:21 final size:21
Alignment explanation
Indices: 57938673--57938725 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
57938663 AGCGGTGGCA
*
57938673 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGTTACTATAGCG
* * *
57938694 GTGAGATTGGATACTATAGTG
1 GTGAGATTAGTTACTATAGCG
57938715 GTGAGATTAGT
1 GTGAGATTAGT
57938726 GTAACGCCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGAGATTAGTTACTATAGCG
Done.