Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 429 of 770
Found at i:132212248 original size:46 final size:46
Alignment explanation
Indices: 132212073--132212248 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
132212063 TGTAACCCGC
* * *
132212073 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
132212119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
132212169 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
132212212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
132212249 TGCCAATATC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:132214653 original size:30 final size:30
Alignment explanation
Indices: 132214609--132214697 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
132214599 CAAAGATAAC
132214609 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
132214638 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
132214668 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
132214698 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:132214657 original size:15 final size:15
Alignment explanation
Indices: 132214609--132214688 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
132214599 CAAAGATAAC
*
132214609 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
132214623 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
132214638 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
132214653 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
132214668 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
132214683 AAGAAA
1 AAGAAA
132214689 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:132214697 original size:15 final size:15
Alignment explanation
Indices: 132214620--132214697 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
132214610 AGAAAACCGA
132214620 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
132214635 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
132214649 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
132214664 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
132214680 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
132214695 ATA
1 ATA
132214698 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:132217722 original size:93 final size:93
Alignment explanation
Indices: 132217610--132217780 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
132217600 GCCCATAAGT
* *
132217610 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
132217675 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
132217703 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
132217768 CGAGTTCGGATGC
66 CGAGTTCGGATGC
132217781 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:132217796 original size:46 final size:46
Alignment explanation
Indices: 132217602--132217782 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
132217592 TGTAACCCGC
* * *
132217602 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
132217648 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
132217698 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
132217741 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
132217783 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:132225489 original size:29 final size:29
Alignment explanation
Indices: 132225447--132225508 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
132225437 AAATAAATGA
132225447 AATTTATGGGCTTCTAGGGGCACTATGGC
1 AATTTATGGGCTTCTAGGGGCACTATGGC
132225476 AATTTATGGGCTTCTAGGGGCACTATGGC
1 AATTTATGGGCTTCTAGGGGCACTATGGC
132225505 AATT
1 AATT
132225509 CGGTTAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (29 bp):
AATTTATGGGCTTCTAGGGGCACTATGGC
Found at i:132225711 original size:16 final size:16
Alignment explanation
Indices: 132225690--132225724 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
132225680 GATCAAGAAA
132225690 AGAGGAATAT-GAAATT
1 AGAGGAAT-TCGAAATT
132225706 AGAGGAATTCGAAATT
1 AGAGGAATTCGAAATT
132225722 AGA
1 AGA
132225725 TTGGGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
AGAGGAATTCGAAATT
Found at i:132232514 original size:27 final size:27
Alignment explanation
Indices: 132232479--132232617 Score: 160
Period size: 27 Copynumber: 5.1 Consensus size: 27
132232469 AGCATGGCTG
** *
132232479 CCAGA-ACAGATAATGTGATAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
132232505 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
132232533 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
132232560 CCAGAT-CAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
132232587 CCAGAT-TAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
132232614 CCAG
1 CCAG
132232618 GACGTTTCCT
Statistics
Matches: 101, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
26 6 0.06
27 79 0.78
28 16 0.16
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:132233050 original size:8 final size:8
Alignment explanation
Indices: 132233034--132233065 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
132233024 CTCAAAATAC
132233034 CGGCTTTT
1 CGGCTTTT
*
132233042 CGGCATTT
1 CGGCTTTT
132233050 CGGCTTTT
1 CGGCTTTT
132233058 CGGCTTTT
1 CGGCTTTT
132233066 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:132242469 original size:34 final size:31
Alignment explanation
Indices: 132242397--132242459 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
132242387 AAGTTCATGT
132242397 GTAAATGTAGTAACATAATTGTTGTTTTAAG
1 GTAAATGTAGTAACATAATTGTTGTTTTAAG
132242428 GTAAATGTAGTAACATAATTGTTGTTTTAAG
1 GTAAATGTAGTAACATAATTGTTGTTTTAAG
132242459 G
1 G
132242460 AATTTAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (31 bp):
GTAAATGTAGTAACATAATTGTTGTTTTAAG
Found at i:132242750 original size:46 final size:46
Alignment explanation
Indices: 132242700--132242824 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
132242690 TGAGCATCTG
*
132242700 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCA
* *
132242746 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCA
*
132242792 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
132242825 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCA
Found at i:132255111 original size:21 final size:21
Alignment explanation
Indices: 132255087--132255128 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
132255077 TATCGAGATA
132255087 GCTTTGATTTAATGTGATGGC
1 GCTTTGATTTAATGTGATGGC
132255108 GCTTTGATTTAATGTGATGGC
1 GCTTTGATTTAATGTGATGGC
132255129 ACTATGTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.43
Consensus pattern (21 bp):
GCTTTGATTTAATGTGATGGC
Found at i:132255816 original size:38 final size:38
Alignment explanation
Indices: 132255764--132255853 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
132255754 AACATAGACA
*
132255764 TGTATGTTCAGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
132255802 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
132255840 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
132255854 TAGGTAGCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:132256689 original size:40 final size:40
Alignment explanation
Indices: 132256450--132256675 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
132256440 TCGAATGATG
* * * *
132256450 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
132256490 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
132256530 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
132256570 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
132256610 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
132256651 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
132256676 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:132263978 original size:34 final size:36
Alignment explanation
Indices: 132263904--132263985 Score: 132
Period size: 38 Copynumber: 2.3 Consensus size: 36
132263894 AACATAGACA
132263904 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAG-ATAT-AGTTGATG
132263942 TGTATGTTCGGCCACATGAATGAG-TAT-GTTGATG
1 TGTATGTTCGGCCACATGAATGAGATATAGTTGATG
132263976 TGTATGTTCG
1 TGTATGTTCG
132263986 CCATATAGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
34 17 0.39
36 3 0.07
38 24 0.55
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (36 bp):
TGTATGTTCGGCCACATGAATGAGATATAGTTGATG
Found at i:132264820 original size:40 final size:40
Alignment explanation
Indices: 132264581--132264806 Score: 332
Period size: 40 Copynumber: 5.7 Consensus size: 40
132264571 TCGAATGATG
* * * *
132264581 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
132264621 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
132264661 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
132264701 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
132264741 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
132264782 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
132264807 AACGAGTAGC
Statistics
Matches: 174, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 163 0.94
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:132281297 original size:44 final size:46
Alignment explanation
Indices: 132281088--132281305 Score: 153
Period size: 47 Copynumber: 4.7 Consensus size: 46
132281078 TGATTTGTAC
* ** * *
132281088 GCCAGTATAAGACCATGTCTGGGACATGGCATCAACATC-CAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGA-GATA
* * * * *
132281136 GCTAGTGAAAGACATGTCTGGGACATGCTTCAGCCAT-ATTATGAG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCA-CA-GAGATA
*
132281182 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGATA
* * * * *
132281229 GCCAGTGTAGGACGTGTCTGGGACATGCATCGG-CT-A-TGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGAT-A
* *
132281273 GCTAGTGTAAGACATGTCTAGGACATGCATCGG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG
132281306 AACATATATA
Statistics
Matches: 137, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
43 4 0.03
44 30 0.22
45 4 0.03
46 40 0.29
47 46 0.34
48 11 0.08
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATA
Found at i:132282889 original size:20 final size:20
Alignment explanation
Indices: 132282864--132282901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
132282854 GTTTATTCGC
*
132282864 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
132282884 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
132282902 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:132284562 original size:28 final size:28
Alignment explanation
Indices: 132284530--132284598 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
132284520 GCGTAGATCA
132284530 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
132284558 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
132284586 CGATA-TACCCCTA
1 CGAAATTACCCCTA
132284599 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:132291425 original size:16 final size:16
Alignment explanation
Indices: 132291404--132291436 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
132291394 TCGAAAATAC
132291404 ATTTTCAAATGTCAGA
1 ATTTTCAAATGTCAGA
132291420 ATTTTCAAATGTCAGA
1 ATTTTCAAATGTCAGA
132291436 A
1 A
132291437 GTCATCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
ATTTTCAAATGTCAGA
Found at i:132293491 original size:26 final size:26
Alignment explanation
Indices: 132293455--132293506 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
132293445 TCACATATCG
* *
132293455 ATGCCACTGTCCCAGATAGGGTCTTA
1 ATGCCAATGTCCCAGACAGGGTCTTA
*
132293481 ATGCCAATGTCCCAGACATGGTCTTA
1 ATGCCAATGTCCCAGACAGGGTCTTA
132293507 CACGTAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (26 bp):
ATGCCAATGTCCCAGACAGGGTCTTA
Found at i:132293562 original size:43 final size:43
Alignment explanation
Indices: 132293480--132293564 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
132293470 ATAGGGTCTT
*
132293480 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATG
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATG
* *
132293523 AATGCCAATGTCCCAGACGTGGTCTTACTCG-AGAACACATAT
1 AATGCCAATGTCCCAGACATGGTCTTACACGTA-AACACATAT
132293565 CGAAAATCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATG
Found at i:132293578 original size:69 final size:69
Alignment explanation
Indices: 132293505--132293644 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 69
132293495 GACATGGTCT
132293505 TACACGTAATCACATAT-GAATGCCAATGTCCCAGACGTGGTCTTACTCGAGAACACATATCGAA
1 TACACGTAATCACATATCG-ATGCCAATGTCCCAGACGTGGTCTTACTCGAGAACACATATCGAA
132293569 AATCC
65 AATCC
132293574 TACACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACTCGAGAACACATATCGAAA
1 TACACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACTCGAGAACACATATCGAAA
132293639 ATCC
66 ATCC
132293643 TA
1 TA
132293645 TGTCATGACA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 69 0.99
70 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (69 bp):
TACACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACTCGAGAACACATATCGAAA
ATCC
Found at i:132295882 original size:16 final size:16
Alignment explanation
Indices: 132295861--132295903 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
132295851 GTAGATCGGT
*
132295861 AAAAGCTGAAATGCCG
1 AAAAGCTGAAAAGCCG
**
132295877 AAAAGCCAAAAAGCCG
1 AAAAGCTGAAAAGCCG
132295893 AAAAGCTGAAA
1 AAAAGCTGAAA
132295904 GTTTGGCTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:132295903 original size:8 final size:8
Alignment explanation
Indices: 132295861--132295903 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
132295851 GTAGATCGGT
*
132295861 AAAAGCTG
1 AAAAGCCG
*
132295869 AAATGCCG
1 AAAAGCCG
*
132295877 AAAAGCCA
1 AAAAGCCG
132295885 AAAAGCCG
1 AAAAGCCG
*
132295893 AAAAGCTG
1 AAAAGCCG
132295901 AAA
1 AAA
132295904 GTTTGGCTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.53, C:0.19, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:132296188 original size:29 final size:29
Alignment explanation
Indices: 132296156--132296233 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 29
132296146 TAAAGGTGAT
132296156 TTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTAATGGGCCATATGAA-ATGAGA
* *
132296185 TTGGGCCTGATAGGCCATAT-AAATGAGA
1 TTGGGCCTAATGGGCCATATGAAATGAGA
132296213 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
132296234 CATGTATGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
28 19 0.45
29 18 0.43
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAAATGAGA
Found at i:132303262 original size:29 final size:29
Alignment explanation
Indices: 132303229--132303306 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
132303219 ATAAGGTGAT
132303229 TTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTAATGGGCCATATGAA-ATGAGA
* **
132303258 TTGGGCCTGATGGGTAATAT-AAATGAGA
1 TTGGGCCTAATGGGCCATATGAAATGAGA
132303286 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
132303307 CATGTATGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
27 5 0.12
28 18 0.45
29 17 0.43
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAAATGAGA
Found at i:132308301 original size:28 final size:28
Alignment explanation
Indices: 132308266--132308320 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
132308256 GGGGTATATC
132308266 GGTAATTTTGCTCTTTAGGGGTAATTTT
1 GGTAATTTTGCTCTTTAGGGGTAATTTT
132308294 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
132308321 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.49
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTT
Found at i:132310155 original size:19 final size:18
Alignment explanation
Indices: 132310118--132310161 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
132310108 ATACATACAG
132310118 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
132310135 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
132310154 TACTAATT
1 TAATAATT
132310162 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:132317541 original size:40 final size:40
Alignment explanation
Indices: 132317497--132317609 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
132317487 TGCTGGAAAT
* * *
132317497 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
132317537 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* *
132317577 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
132317610 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:132325540 original size:40 final size:40
Alignment explanation
Indices: 132325474--132325640 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
132325464 AAATTGAATG
* * *
132325474 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
132325513 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
132325553 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
132325593 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
132325633 ATATCCGG
1 ATATCCGG
132325641 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:132374026 original size:37 final size:37
Alignment explanation
Indices: 132373965--132374038 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
132373955 TTTCAGTTTT
* *
132373965 GCTTTAGCCCTGGGGCTGTTGTCAAGAAATACGATCA
1 GCTTTAGCCCTGGGGCTGTAGTCAAGAAATACAATCA
* *
132374002 GCTTTAGCCCTTGGGTTGTAGTCAAGAAATACAATCA
1 GCTTTAGCCCTGGGGCTGTAGTCAAGAAATACAATCA
132374039 CGTTGCATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (37 bp):
GCTTTAGCCCTGGGGCTGTAGTCAAGAAATACAATCA
Found at i:132374360 original size:16 final size:16
Alignment explanation
Indices: 132374336--132374372 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
132374326 TTTTACCTTG
*
132374336 ATTTGTCAAACCCTCA
1 ATTTCTCAAACCCTCA
132374352 ATTTCTCAAACCCTCA
1 ATTTCTCAAACCCTCA
132374368 ATTTC
1 ATTTC
132374373 CCATCTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.32, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTCTCAAACCCTCA
Found at i:132378039 original size:27 final size:28
Alignment explanation
Indices: 132377991--132378044 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
132377981 GTCACATCAA
*
132377991 CAAATAAATCAAAAATTATAAAAATATT
1 CAAAAAAATCAAAAATTATAAAAATATT
* *
132378019 CAAAAAAAT-AAAAATTTTAAATATAT
1 CAAAAAAATCAAAAATTATAAAAATAT
132378045 ATAAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (28 bp):
CAAAAAAATCAAAAATTATAAAAATATT
Found at i:132379359 original size:20 final size:21
Alignment explanation
Indices: 132379334--132379376 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
132379324 TTAATTAAAT
132379334 AAATTA-TTAAAA-ATTCATAA
1 AAATTATTTAAAAGATT-ATAA
132379354 AAATTATTTAAAAGATTATAA
1 AAATTATTTAAAAGATTATAA
132379375 AA
1 AA
132379377 TCGGTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 12 0.57
22 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTATTTAAAAGATTATAA
Found at i:132386112 original size:21 final size:21
Alignment explanation
Indices: 132386086--132386128 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
132386076 TTTGTGTTGG
132386086 TAGCTATTCTTCCTTGAGTTA
1 TAGCTATTCTTCCTTGAGTTA
132386107 TAGCTATTCTTCCTTGAGTTA
1 TAGCTATTCTTCCTTGAGTTA
132386128 T
1 T
132386129 CATTTTTATC
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:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (21 bp):
TAGCTATTCTTCCTTGAGTTA
Found at i:132389929 original size:20 final size:21
Alignment explanation
Indices: 132389863--132389931 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
132389853 TCACTTCGTT
132389863 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
132389884 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
132389905 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
132389926 -CTTTTT
1 TCTTTTT
132389932 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:132392330 original size:18 final size:18
Alignment explanation
Indices: 132392297--132392390 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
132392287 AAGGTTTTCT
132392297 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
132392312 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
132392330 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
132392348 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
132392366 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
132392384 TATTGAT
1 TATTGAT
132392391 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:132400659 original size:14 final size:14
Alignment explanation
Indices: 132400640--132400667 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
132400630 TATATTAGTA
132400640 TTTTCTATTCTATT
1 TTTTCTATTCTATT
132400654 TTTTCTATTCTATT
1 TTTTCTATTCTATT
132400668 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:132400675 original size:6 final size:6
Alignment explanation
Indices: 132400664--132400742 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
132400654 TTTTCTATTC
* *
132400664 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
132400711 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
132400743 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:132400690 original size:11 final size:11
Alignment explanation
Indices: 132400665--132400746 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
132400655 TTTCTATTCT
132400665 ATTAGTATTAG
1 ATTAGTATTAG
132400676 ---AGTATTAG
1 ATTAGTATTAG
**
132400684 ATTAGTATTCT
1 ATTAGTATTAG
*
132400695 ATT-CTATTAG
1 ATTAGTATTAG
132400705 TATTAG-ATTAG
1 -ATTAGTATTAG
132400716 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
132400731 ATTAGTATTAG
1 ATTAGTATTAG
132400742 -TTAGT
1 ATTAGT
132400747 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:132400731 original size:20 final size:21
Alignment explanation
Indices: 132400701--132400746 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
132400691 TTCTATTCTA
132400701 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
132400722 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
132400742 TTAGT
1 TTAGT
132400747 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:132408962 original size:32 final size:32
Alignment explanation
Indices: 132408921--132408982 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
132408911 CATCTATTTT
132408921 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
132408953 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
132408983 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:132416295 original size:13 final size:13
Alignment explanation
Indices: 132416277--132416304 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
132416267 TGAAAATTCG
132416277 TTAATGGTACATT
1 TTAATGGTACATT
132416290 TTAATGGTACATT
1 TTAATGGTACATT
132416303 TT
1 TT
132416305 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:132426234 original size:21 final size:21
Alignment explanation
Indices: 132426210--132426253 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
132426200 GAATCTTTAG
*
132426210 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
132426231 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
132426252 TA
1 TA
132426254 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:132428511 original size:22 final size:22
Alignment explanation
Indices: 132428484--132428527 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
132428474 CTCTCGATTT
132428484 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
132428506 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
132428528 AAAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTATTGCTCCTTTTCAATCA
Found at i:132432682 original size:32 final size:32
Alignment explanation
Indices: 132432646--132432707 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
132432636 AGCTTTTGGT
132432646 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
132432678 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
132432708 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:132440887 original size:6 final size:6
Alignment explanation
Indices: 132440876--132440954 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
132440866 GGGATCACTA
132440876 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
132440919 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
132440955 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:132440898 original size:20 final size:21
Alignment explanation
Indices: 132440872--132440917 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
132440862 AGCCGGGATC
132440872 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
132440893 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
132440913 ACTAA
1 ACTAA
132440918 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:132440942 original size:11 final size:11
Alignment explanation
Indices: 132440872--132440918 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
132440862 AGCCGGGATC
132440872 ACTAA-CTAAT
1 ACTAATCTAAT
132440882 ACTAATCTAAT
1 ACTAATCTAAT
132440893 -CTAA-CTAAT
1 ACTAATCTAAT
132440902 ACTAATCTAAT
1 ACTAATCTAAT
132440913 ACTAAT
1 ACTAAT
132440919 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:132440968 original size:14 final size:14
Alignment explanation
Indices: 132440951--132440978 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
132440941 CTCTAATACT
132440951 AATAGAATAGAAAA
1 AATAGAATAGAAAA
132440965 AATAGAATAGAAAA
1 AATAGAATAGAAAA
132440979 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:132460721 original size:29 final size:29
Alignment explanation
Indices: 132460679--132460736 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
132460669 TAAATAAATT
132460679 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
132460708 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
132460737 TCGGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTTTTTGGAACTACATAGATCTATGGAA
Found at i:132461914 original size:14 final size:14
Alignment explanation
Indices: 132461895--132461922 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
132461885 TATTTACCTT
132461895 CGATCAATATTATC
1 CGATCAATATTATC
132461909 CGATCAATATTATC
1 CGATCAATATTATC
132461923 TTTATCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CGATCAATATTATC
Found at i:132462490 original size:23 final size:23
Alignment explanation
Indices: 132462464--132462509 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
132462454 GGGATATTAG
132462464 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
132462487 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
132462510 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:132467183 original size:14 final size:15
Alignment explanation
Indices: 132467164--132467203 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
132467154 GAAGATGGAT
132467164 AAATAAA-AAAAAAG
1 AAATAAATAAAAAAG
*
132467178 AAATAAATAAAATAG
1 AAATAAATAAAAAAG
132467193 AATATAAATAA
1 AA-ATAAATAA
132467204 GATAAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.30
15 8 0.35
16 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (15 bp):
AAATAAATAAAAAAG
Found at i:132467883 original size:11 final size:11
Alignment explanation
Indices: 132467867--132467891 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
132467857 GCGATTATTG
132467867 TATTTATTGTA
1 TATTTATTGTA
132467878 TATTTATTGTA
1 TATTTATTGTA
132467889 TAT
1 TAT
132467892 AAATATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:132468514 original size:21 final size:21
Alignment explanation
Indices: 132468475--132468514 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
132468465 TTTATTTAAA
*
132468475 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
132468496 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
132468515 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:132468658 original size:14 final size:14
Alignment explanation
Indices: 132468639--132468667 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
132468629 TAGATAAATA
132468639 ATAATCTATATAAC
1 ATAATCTATATAAC
132468653 ATAATCTATATAAC
1 ATAATCTATATAAC
132468667 A
1 A
132468668 AAGTAAAAAG
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:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:132470378 original size:19 final size:19
Alignment explanation
Indices: 132470354--132470393 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
132470344 ATTTTTTTTT
* *
132470354 ATTAGAATCGAAAAGTTTA
1 ATTAGAATAGAAAAGTATA
132470373 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
132470392 AT
1 AT
132470394 AAAAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:132471914 original size:16 final size:16
Alignment explanation
Indices: 132471893--132471925 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
132471883 TCTTATTCCT
*
132471893 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
132471909 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
132471925 T
1 T
132471926 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:132477631 original size:14 final size:14
Alignment explanation
Indices: 132477612--132477640 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
132477602 ACAGATGGAT
132477612 TCGTATAATTCTTA
1 TCGTATAATTCTTA
132477626 TCGTATAATTCTTA
1 TCGTATAATTCTTA
132477640 T
1 T
132477641 ATATATTGTA
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:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:132481873 original size:20 final size:21
Alignment explanation
Indices: 132481807--132481875 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
132481797 TCACTTCGTT
132481807 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
132481828 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
132481849 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
132481870 -CTTTTT
1 TCTTTTT
132481876 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:132484274 original size:18 final size:18
Alignment explanation
Indices: 132484241--132484334 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
132484231 AAGGTTTTCT
132484241 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
132484256 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
132484274 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
132484292 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
132484310 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
132484328 TATTGAT
1 TATTGAT
132484335 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:132492601 original size:14 final size:14
Alignment explanation
Indices: 132492582--132492609 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
132492572 TATATTAGTA
132492582 TTTTCTATTCTATT
1 TTTTCTATTCTATT
132492596 TTTTCTATTCTATT
1 TTTTCTATTCTATT
132492610 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:132492617 original size:6 final size:6
Alignment explanation
Indices: 132492606--132492684 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
132492596 TTTTCTATTC
* *
132492606 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
132492653 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
132492685 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:132492632 original size:11 final size:11
Alignment explanation
Indices: 132492607--132492688 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
132492597 TTTCTATTCT
132492607 ATTAGTATTAG
1 ATTAGTATTAG
132492618 ---AGTATTAG
1 ATTAGTATTAG
**
132492626 ATTAGTATTCT
1 ATTAGTATTAG
*
132492637 ATT-CTATTAG
1 ATTAGTATTAG
132492647 TATTAG-ATTAG
1 -ATTAGTATTAG
132492658 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
132492673 ATTAGTATTAG
1 ATTAGTATTAG
132492684 -TTAGT
1 ATTAGT
132492689 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:132492673 original size:20 final size:21
Alignment explanation
Indices: 132492643--132492688 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
132492633 TTCTATTCTA
132492643 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
132492664 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
132492684 TTAGT
1 TTAGT
132492689 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:132499548 original size:22 final size:24
Alignment explanation
Indices: 132499505--132499552 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 24
132499495 AACTCGGCAA
132499505 AAATAGCCCCGTAACCTTCGGGAG
1 AAATAGCCCCGTAACCTTCGGGAG
132499529 AAATAG-CCCGTAA-CTTCGGGAG
1 AAATAGCCCCGTAACCTTCGGGAG
132499551 AA
1 AA
132499553 GGGGTGCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.46
23 7 0.29
24 6 0.25
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (24 bp):
AAATAGCCCCGTAACCTTCGGGAG
Found at i:132500849 original size:29 final size:30
Alignment explanation
Indices: 132500798--132500856 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
132500788 GCCTCTATTT
132500798 TCATTGTTCAACTCTTTGACAACACGAAAA
1 TCATTGTTCAACTCTTTGACAACACGAAAA
*
132500828 TCATTGTTCAA-TCTTTGACAACATGAAAA
1 TCATTGTTCAACTCTTTGACAACACGAAAA
132500857 CCAAAGCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.32
Consensus pattern (30 bp):
TCATTGTTCAACTCTTTGACAACACGAAAA
Found at i:132512725 original size:40 final size:40
Alignment explanation
Indices: 132512670--132512879 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
132512660 AACATTGGAA
132512670 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
132512710 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
132512750 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
132512790 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
132512829 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
132512870 CTATATCCGG
1 ATATATCCGG
132512880 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:132520708 original size:54 final size:54
Alignment explanation
Indices: 132520565--132520712 Score: 138
Period size: 55 Copynumber: 2.7 Consensus size: 54
132520555 TATCCTTGCT
* * * *
132520565 TTAT-GAACTCACCATTGCCATGCCTTGGCACGGTCTTACATGGGATCTTAGCC
1 TTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCTTAGCC
** * * * * **
132520618 TTATAGTAGTTTATCAATTCCATGTCTTGACATGGTCTTACATGATCTCCTTA-CC
1 TTATAG-AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGAT-CTTAGCC
* *
132520673 TTGTAGAACTTACCAATGCCATGCCTTGGTATGGTCTTAC
1 TTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
132520713 TCGGTATCCT
Statistics
Matches: 72, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
53 4 0.06
54 28 0.39
55 36 0.50
56 4 0.06
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCTTAGCC
Found at i:132520723 original size:54 final size:53
Alignment explanation
Indices: 132520513--132520724 Score: 153
Period size: 54 Copynumber: 4.0 Consensus size: 53
132520503 CCTTTCCTTT
* * ** * * * *
132520513 TTTA-AACTTACCATTTCCATATCTTGACATTGTCTTACGTGGTATCCTT-GC
1 TTTAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACC
* * * *
132520564 TTTATGAACTCACCATTGCCATGCCTTGGCACGGTCTTACATGGGAT-CTTAGCC
1 TTTA-GAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTA-CC
** * * * * * *
132520618 TTATAGTAGTTTATCAATTCCATGTCTTGACATGGTCTTACATGATCTCCTTACC
1 TT-TAG-AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACC
*
132520673 TTGTAGAACTTACCAATGCCATGCCTTGGTATGGTCTTAC-TCGGTATCCTTA
1 TT-TAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACAT-GGTATCCTTA
132520725 AACCCTAATG
Statistics
Matches: 121, Mismatches: 32, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
51 4 0.03
52 3 0.02
53 33 0.27
54 39 0.32
55 38 0.31
56 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (53 bp):
TTTAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTACC
Found at i:132525541 original size:12 final size:12
Alignment explanation
Indices: 132525526--132525551 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
132525516 TCTATTCTCC
132525526 TCTCTCACTTTT
1 TCTCTCACTTTT
132525538 TCTCTCACTTTT
1 TCTCTCACTTTT
132525550 TC
1 TC
132525552 CATCCCATTT
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:0.08, C:0.35, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTCTCACTTTT
Found at i:132537188 original size:17 final size:17
Alignment explanation
Indices: 132537151--132537188 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
132537141 CTTTTCATGG
132537151 CGTG-GTTTTAGTTTAT
1 CGTGTGTTTTAGTTTAT
132537167 CGTGTGTTTTCAGTTTAT
1 CGTGTGTTTT-AGTTTAT
132537185 -GTGT
1 CGTGT
132537189 CCGCCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 9 0.45
18 7 0.35
ACGTcount: A:0.11, C:0.08, G:0.26, T:0.55
Consensus pattern (17 bp):
CGTGTGTTTTAGTTTAT
Found at i:132542528 original size:49 final size:48
Alignment explanation
Indices: 132542468--132542706 Score: 244
Period size: 49 Copynumber: 4.8 Consensus size: 48
132542458 AAGCTATCTG
* *
132542468 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC
*** ** *
132542516 AGTACACGTAGTAGCCTGCACTTAGTACTACACACATTACCTAACCATCT
1 -GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCC
* * * * *
132542566 GATACACGTAGTAGCCTTCACTTAGTACTATACACGTGATCAAAGTTATCGG
1 G-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATC-C
* * * *
132542618 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC
* *
132542666 GTTACACGTAGTAGCCTGCACTTTGTACTACACACGTGACC
1 G-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
132542707 TCACAATAGA
Statistics
Matches: 154, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 74 0.48
50 43 0.28
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (48 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCC
Found at i:132542650 original size:99 final size:98
Alignment explanation
Indices: 132542463--132542705 Score: 265
Period size: 99 Copynumber: 2.4 Consensus size: 98
132542453 AGCCAAAGCT
* * * * * *
132542463 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGT
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACATAGT
* *
132542528 AGCCTGCACTTAGTACTACACACAT-TACCTAACC
66 AGCCTACACTTAGTACTA-ACACATCGACC-AACC
* * ** *
132542562 ATCTGATACACGTAGTAGCCTTCACTTAGTACTATACACGTGATCAAAGTTATCGGGTACGCATA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCAGTACACATA
**
132542627 GTAGCCTACACTTAGTACT-ACACATGCGACCAATT
64 GTAGCCTACACTTAGTACTAACACAT-CGACCAACC
* * *
132542662 ATCCGTTACACGTAGTAGCCTGCACTTTGTACTACACACGTGAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
132542706 CTCACAATAG
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
99 44 0.37
100 43 0.36
101 33 0.28
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (98 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTACACATAGT
AGCCTACACTTAGTACTAACACATCGACCAACC
Found at i:132548304 original size:40 final size:40
Alignment explanation
Indices: 132548235--132548438 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
132548225 AACCCAAGTA
* ** *
132548235 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
132548274 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
132548314 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
132548354 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
132548394 CCTTCGGGACTTAACCCAGATATAGTCACTAGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
132548434 CCTTC
1 CCTTC
132548439 AGATCTTAGT
Statistics
Matches: 151, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.09
40 138 0.91
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:132550258 original size:25 final size:24
Alignment explanation
Indices: 132550218--132550271 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
132550208 TAGTTTTCTC
132550218 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAATTTTATTCAATTA
*
132550242 GTTAATTTTTCAA-TTTATTGAATTA
1 -TTAATTTTT-AATTTTATTCAATTA
132550267 TTAAT
1 TTAAT
132550272 AATTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.74
26 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
TTAATTTTTAATTTTATTCAATTA
Found at i:132551830 original size:40 final size:40
Alignment explanation
Indices: 132551793--132551978 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
132551783 GCTACTCGTT
*
132551793 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
132551833 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
132551873 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
132551913 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
132551954 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
132551979 CATCATTCGA
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 118 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:132552625 original size:38 final size:38
Alignment explanation
Indices: 132552574--132552663 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
132552564 AGGCTACCTA
132552574 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
132552612 TGGCCGAACATACACATCAACTCATATACTCATTCATG
1 TGGCCGAACATACACATCAACTCATATACTCATTCATG
132552650 TGGCCGAACATACA
1 TGGCCGAACATACA
132552664 TGTCTATGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTCATATACTCATTCATG
Found at i:132556144 original size:40 final size:39
Alignment explanation
Indices: 132556099--132556228 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
132556089 CGGAATATAA
132556099 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
132556139 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
132556179 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
132556219 CCGGATATAA
1 CCGGATATAA
132556229 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:132556243 original size:40 final size:40
Alignment explanation
Indices: 132556115--132556266 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
132556105 ATAACCATGT
* * *
132556115 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
132556155 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
132556195 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
132556235 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
132556267 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:132556249 original size:80 final size:80
Alignment explanation
Indices: 132556115--132556264 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
132556105 ATAACCATGT
*
132556115 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
132556179 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
132556195 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
132556258 CCCGGAT
64 CCCGGAT
132556265 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:132557524 original size:58 final size:59
Alignment explanation
Indices: 132557448--132557567 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 59
132557438 AAATCCTCCC
* *
132557448 CTTTCCTTAGTATTTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTTCTTTT
1 CTTTCCTTAGGATATTCGGCCAAGAAGATGGAGAAA-GATGAACAAATTTTTTTTCTTTT
*** ** *
132557507 CTTT-CTTAGGATATTCGGCCAAGCCTATGGAGAAAGATGAACACTTTTTTTTTTTTTT
1 CTTTCCTTAGGATATTCGGCCAAGAAGATGGAGAAAGATGAACAAATTTTTTTTCTTTT
132557565 CTT
1 CTT
132557568 CCTACTAACA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
58 42 0.81
59 10 0.19
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (59 bp):
CTTTCCTTAGGATATTCGGCCAAGAAGATGGAGAAAGATGAACAAATTTTTTTTCTTTT
Found at i:132564149 original size:40 final size:40
Alignment explanation
Indices: 132564104--132564231 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
132564094 CGGAATATAA
132564104 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
* *
132564144 CCGGATA-GA--ATGTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
132564182 CCGGATGTAGCCACT-AGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
132564222 CCGGATATAA
1 CCGGATATAA
132564232 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
37 4 0.06
38 29 0.40
39 1 0.01
40 36 0.50
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:132564246 original size:40 final size:40
Alignment explanation
Indices: 132564120--132564269 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
132564110 ATAACCATGT
* * *
132564120 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGT-C-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* ** * *
132564158 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
132564198 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
132564238 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
132564270 CATTCAATTT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 28 0.31
39 4 0.04
40 57 0.63
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:132568420 original size:39 final size:40
Alignment explanation
Indices: 132568327--132568437 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 40
132568317 TTCACAATTT
* * *
132568327 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
132568367 GCACAATTGCCTTC-GGTCTTAACCCGGATATAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
132568406 GCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
132568438 CATTCAATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 31 0.53
40 28 0.47
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:132576343 original size:40 final size:40
Alignment explanation
Indices: 132576299--132576408 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
132576289 TTCACAATTT
* *
132576299 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132576339 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132576379 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
132576409 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:132584381 original size:40 final size:40
Alignment explanation
Indices: 132584337--132584446 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
132584327 TTCACAATTT
* *
132584337 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132584377 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132584417 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
132584447 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:132592188 original size:44 final size:44
Alignment explanation
Indices: 132592105--132592188 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
132592095 CAGGCTTTAT
* *
132592105 ATTGAGATTACTCGCCCGAGCTAAATCCTTTCTATAACAAGATC
1 ATTGAGATTACTCGCCCGAGCTAAATCCTGTCTACAACAAGATC
* ** *
132592149 ATTGGGATTACTCGTTCGAGCTAAAT-CTCGTCTGCAACAA
1 ATTGAGATTACTCGCCCGAGCTAAATCCT-GTCTACAACAA
132592189 ATGCAGGACC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.06
44 31 0.94
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
ATTGAGATTACTCGCCCGAGCTAAATCCTGTCTACAACAAGATC
Found at i:132614477 original size:40 final size:40
Alignment explanation
Indices: 132614433--132614542 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
132614423 TTCACAATTT
* *
132614433 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132614473 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132614513 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
132614543 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:132622533 original size:40 final size:40
Alignment explanation
Indices: 132622489--132622598 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
132622479 TTCACAATTT
* *
132622489 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132622529 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
132622569 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
132622599 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:132628531 original size:58 final size:59
Alignment explanation
Indices: 132628440--132628560 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
132628430 CCCTCCCCAA
* *
132628440 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
* * *
132628499 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
132628557 TCCC
1 TCCC
132628561 TGTCCCTCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 53 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
Found at i:132628982 original size:24 final size:24
Alignment explanation
Indices: 132628955--132629008 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
132628945 CCGGTTAGGT
*
132628955 TCCCGGCGGTGCTCCGGCGATCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132628979 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132629003 TCCCGG
1 TCCCGG
132629009 AATATCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.35, T:0.15
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:132629284 original size:41 final size:42
Alignment explanation
Indices: 132629193--132629916 Score: 863
Period size: 41 Copynumber: 17.5 Consensus size: 42
132629183 CACATTGCTG
* * * * * *
132629193 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGAC
1 CTTGGTCGTGCGGGAGCCTCGG-CACCATCGGCAACCTAGGCC
*
132629236 GTT-GTCGTGCGGGAGCCTCGGCACCATCGG-AACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
*
132629276 CTTGGTCGTGC-GGAGCCTAGGCACCATCGG-AACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
*
132629316 CCTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGG-CACCATCGGCAACCTAGGCC
132629358 CTTGGTCGTGC-GGAGCCTCGGCCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGG-CACCATCGGCAACCTAGGCC
*
132629400 CTTGGTCGTGCGAGAGCCTCGGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
132629441 C-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGCC
*
132629483 CTTGGTCGTGC-GGAGCCTCGGGACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
132629524 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
132629565 CTTGGT-GTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGCC
132629606 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
*
132629647 CTTGATCGTGC--GAGCCTCGGGCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGCC
* * **
132629687 C-TGATCGTGC--GAGCCTCGGGCACCATCGGC-A-CTTGGTG
1 CTTGGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGCC
* *
132629725 CTTGGAT-GTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGG-TCGTGCGGGAGCCTCG-GCACCATCGGCAACCTAGGCC
* *
132629768 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGC
1 CTTGGTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGG-CC
* * * **
132629811 CTTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCG-GCACCATCGGCAACCTAGGCC
*
132629853 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGAC
1 CTTGG-TCGTGCGGGAGCCTCGG-CACCATCGGCAACCTAGGCC
* *
132629896 GTTGGAT-GTGCGGGTGCCTCG
1 CTTGG-TCGTGCGGGAGCCTCG
132629917 AGCAGCAGGG
Statistics
Matches: 615, Mismatches: 37, Indels: 58
0.87 0.05 0.08
Matches are distributed among these distances:
37 4 0.01
38 2 0.00
39 42 0.07
40 103 0.17
41 190 0.31
42 152 0.25
43 120 0.20
44 2 0.00
ACGTcount: A:0.15, C:0.33, G:0.34, T:0.18
Consensus pattern (42 bp):
CTTGGTCGTGCGGGAGCCTCGGCACCATCGGCAACCTAGGCC
Found at i:132629456 original size:124 final size:123
Alignment explanation
Indices: 132629199--132629893 Score: 880
Period size: 124 Copynumber: 5.6 Consensus size: 123
132629189 GCTGCTTGGA
* * * * * * *
132629199 CGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGACGTT-GTCGTGCGGGAGCCTCGGCACCAT
1 CGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCAT
* *
132629263 CGG-AACCTAGGCCCTTGGTCGTGCGGAGCCTAGGCACCATCGGAACCTAGGCCCCTGGT
65 CGGCAACCTAGGCCCTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGG-CCCTGGT
*
132629322 CGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGG-CCTTGGTCGTGC-GGAGCCTCGGCCACCA
1 CGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG-CACCA
132629385 TCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGCACCATCGGCACCTAGGCCCTGGT
64 TCGGCAACCTAGGCCCTTGGTCGTGCG-GAGCCTCGGCACCATCGGCACCTAGGCCCTGGT
*
132629446 CGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGGACCAT
1 CGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCAT
132629510 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCACCTAGGCCCTTGGT
65 CGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGCACCATCGGCACCTAGGCCC-TGGT
132629571 -GTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATC
1 CGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATC
* *
132629635 GGCAACCTAGG-CCTTGATCGTGC-GAGCCTCGGGCACCATCGGCAACCTAGG-CCTGAT
66 GGCAACCTAGGCCCTTGGTCGTGCGGAGCCTC-GGCACCATCGGC-ACCTAGGCCCTGGT
* ** *
132629692 CGTGC--GAGCCTCGGGCACCATCGGCA-CTTGGTGCTTGGAT-GTGCGGGAGCCTCGAACACCA
1 CGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-GCACCA
* * *
132629753 TCGGCAACCTCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
64 TCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTC-GGCACCATCGGCACC-TAG-GCCCTGG-T
* * * * **
132629818 -GTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCA
1 CGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-CACCA
132629881 TCGGCAACCTAGG
64 TCGGCAACCTAGG
132629894 ACGTTGGATG
Statistics
Matches: 520, Mismatches: 27, Indels: 45
0.88 0.05 0.08
Matches are distributed among these distances:
119 23 0.04
120 39 0.08
121 21 0.04
122 34 0.07
123 105 0.20
124 176 0.34
125 58 0.11
126 1 0.00
127 18 0.03
128 45 0.09
ACGTcount: A:0.15, C:0.34, G:0.34, T:0.18
Consensus pattern (123 bp):
CGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATC
GGCAACCTAGGCCCTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCCCTGGT
Found at i:132637790 original size:24 final size:24
Alignment explanation
Indices: 132637751--132637804 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
132637741 CCGGTTAGGT
* * *
132637751 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGATGATCCGACGAGCCA
*
132637775 TCCCGGCGATGATCCGGCGAGCCA
1 TCCCGGCGATGATCCGACGAGCCA
132637799 TCCCGG
1 TCCCGG
132637805 GATACACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (24 bp):
TCCCGGCGATGATCCGACGAGCCA
Found at i:132637929 original size:58 final size:59
Alignment explanation
Indices: 132637838--132637958 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
132637828 CCCTCCCCAA
* *
132637838 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
* *
132637897 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
132637955 TCCC
1 TCCC
132637959 TGTCCCTCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
Found at i:132638382 original size:24 final size:24
Alignment explanation
Indices: 132638355--132638408 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
132638345 CCGGTTAGGT
*
132638355 TCCCGGCGGTGCTCCGGCGATCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132638379 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132638403 TCCCGG
1 TCCCGG
132638409 AATATCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.35, T:0.15
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:132638886 original size:43 final size:43
Alignment explanation
Indices: 132638593--132639309 Score: 839
Period size: 42 Copynumber: 17.5 Consensus size: 43
132638583 CACATTGCTG
* * * * * *
132638593 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132638636 CTT-GTCGTGCGGGAGCCTCGGCCACCATCGG-AACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638677 C-TGGTCGTGC-GGAGCCTC-GGCACCATCGG--ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132638715 CCTGGTCGT---GGAG-CTCGGCCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638753 CTTGGTCGTGC-GGAGCCTC-GGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638793 CTTGGTCGTGC-GGAGCCTC-GGCACCATCGGC-ACCTAGG--
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638831 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638874 CTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132638916 CTTGGTCGTGC-GGAGCCTCGGCCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638957 CTTGGTCGTGCGGGAGCCTC-GGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132638998 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132639040 CTTGATCGTGC--GAGCCTCGGGCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * **
132639080 C-TGATCGTGC--GAGCCTCGGGCACCATCGGC-A-CTTGGTG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
** *
132639118 CTTGGAT-GTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132639161 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CC
* * * * **
132639204 CTTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132639246 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGAC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132639289 GTTGGAT-GTGCGGGTGCCTCG
1 CTTGG-TCGTGCGGGAGCCTCG
132639310 AGCAGCAGGG
Statistics
Matches: 608, Mismatches: 38, Indels: 56
0.87 0.05 0.08
Matches are distributed among these distances:
36 3 0.00
37 18 0.03
38 32 0.05
39 74 0.12
40 106 0.17
41 106 0.17
42 153 0.25
43 115 0.19
44 1 0.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (43 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
Found at i:132639147 original size:287 final size:289
Alignment explanation
Indices: 132638593--132639309 Score: 952
Period size: 287 Copynumber: 2.5 Consensus size: 289
132638583 CACATTGCTG
* * * * * *
132638593 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGCCCTT-GTCGTGCGGGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
* *
132638657 CCACCATCGGAACCTAGGCCC-TGGTCGTGC-GGAGCCTCGGCACCATCGG-ACCTAGGCCCCTG
66 CCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCACCTAGGCCCTTG
*
132638719 GTCGT---GGAG-CTCGGCCACCATCGGCAACCTAGGCCTTGGTCGTGCGGAGCCTCGGCACCAT
131 GTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCTTGATCGTGCGGAGCCTCGGCACCAT
*
132638780 CGGCACCTAGGCCCTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCTTGGTCGTGCGGG
196 CGGCACCTAGGCCCTTGATCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCTTGGTCGTGCGGG
**
132638845 AGCCTCGGGCACCATCGGCAACCTAGGCC
261 AGCCTCGAACACCATCGGCAACCTAGGCC
132638874 CTTGGTCGTGC-GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGC-GGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
132638937 CCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCACCTAGGCCCTTG
66 CCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCACCTAGGCCCTTG
*
132639002 GTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCTTGATCGTGC-GAGCCTCGGGCACCA
131 GTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCTTGATCGTGCGGAGCCTC-GGCACCA
* *
132639066 TCGGCAACCTAGG-CC-TGATCGTGC-GAGCCTCGGGCACCATCGGCACTTGGTGCTTGGAT-GT
195 TCGGC-ACCTAGGCCCTTGATCGTGCGGAGCCTC-GGCACCATCGGCACCTAG-GCTTGG-TCGT
*
132639127 GCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
256 GCGGGAGCCTCGAACACCATCGGCAACCTAGGCC
* *
132639161 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTTGGAT-GTGCGGGAGCCTC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTGCGGGAGCCTC
* * * **
132639224 GAG-CAGCATTGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGG
64 G-GCCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-CACCATCGGC-ACCTAGG
* * *
132639287 ACGTTGGAT-GTGCGGGTGCCTCG
125 CCCTTGG-TCGTGCGGGAGCCTCG
132639310 AGCAGCAGGG
Statistics
Matches: 389, Mismatches: 25, Indels: 34
0.87 0.06 0.08
Matches are distributed among these distances:
280 60 0.15
281 26 0.07
282 19 0.05
283 17 0.04
285 7 0.02
286 35 0.09
287 104 0.27
288 39 0.10
289 44 0.11
290 12 0.03
291 25 0.06
292 1 0.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (289 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
CCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCTTGATCGTGCGGAGCCTCGGCACCAT
CGGCACCTAGGCCCTTGATCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCTTGGTCGTGCGGG
AGCCTCGAACACCATCGGCAACCTAGGCC
Found at i:132647183 original size:24 final size:24
Alignment explanation
Indices: 132647144--132647197 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
132647134 CCGGTTAGGT
* * *
132647144 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGATGATCCGACGAGCCA
*
132647168 TCCCGGCGATGATCCGGCGAGCCA
1 TCCCGGCGATGATCCGACGAGCCA
132647192 TCCCGG
1 TCCCGG
132647198 GATACACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (24 bp):
TCCCGGCGATGATCCGACGAGCCA
Found at i:132647322 original size:58 final size:59
Alignment explanation
Indices: 132647231--132647351 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
132647221 CCCTCCCCAA
* *
132647231 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
* *
132647290 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
132647348 TCCC
1 TCCC
132647352 TGTCCCTCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
Found at i:132647775 original size:24 final size:24
Alignment explanation
Indices: 132647748--132647801 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
132647738 CCGGTTAGGT
*
132647748 TCCCGGCGGTGCTCCGGCGATCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132647772 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132647796 TCCCGG
1 TCCCGG
132647802 AATATCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.35, T:0.15
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:132648203 original size:162 final size:164
Alignment explanation
Indices: 132647988--132648705 Score: 873
Period size: 162 Copynumber: 4.4 Consensus size: 164
132647978 CACATTGCTG
* * * *
132647988 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGCCCTT-GTCGTGCGGGAGCCTCGG
1 CTTGGTCGTGC-GGAGCCTCGG-CACCATCGG-CACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
*
132648052 CACCATCGGCAACCTAGGCCC-TGGTCGTGC-GGAGCCTCGGCCACCATCGGC-ACCTAGGCCCC
63 CACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCC
*
132648114 TGGTCGTGCGAG-CTCGGCCACCATCGGCAACCTAGGCC
126 TGGTCGTGCGAGCCTCGGGCACCATCGGCAACCTAGGCC
132648152 CTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCCCTTGGTCGTGC-GGAGCCTCGGCAC
1 CTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCAC
132648216 CATCGGCACCTAGG--CTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTGGTC
66 CATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTGGTC
132648278 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
131 GTGC--GAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132648314 CTTGGTCGTGCGGAGCCTCGGGACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGC-C
1 CTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCAC
* *
132648378 CATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCTTGATC
66 CATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTGGTC
132648443 GTGCGAGCCTCGGGCACCATCGGCAACCTAGG-C
131 GTGCGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * ** *
132648476 C-TGATCGTGC-GAGCCTCGGGCACCATCGGCA-CTTGGTGCTTGGAT-GTGCGGGAGCCTCGAA
1 CTTGGTCGTGCGGAGCCTC-GGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG-G
* *
132648537 CACCATCGGCAACCTCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCC
63 CACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC-TAG-GCC
* * * * * **
132648601 TTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTG
125 CTGG-TCGTGC--GAGCCTCGGGCACCATCGGCAACCTAGGCC
* * *
132648642 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGACGTTGGAT-GTGCGGGTGCCTC
1 CTTGG-TCGTGC-GGAGCCTCGG-CACCATCGGC-ACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
132648705 G
61 G
132648706 AGCAGCAGGG
Statistics
Matches: 496, Mismatches: 29, Indels: 51
0.86 0.05 0.09
Matches are distributed among these distances:
158 5 0.01
159 36 0.07
160 44 0.09
161 57 0.11
162 118 0.24
163 91 0.18
164 26 0.05
165 51 0.10
166 18 0.04
167 6 0.01
168 3 0.01
169 17 0.03
170 1 0.00
171 23 0.05
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (164 bp):
CTTGGTCGTGCGGAGCCTCGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCAC
CATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTGGTC
GTGCGAGCCTCGGGCACCATCGGCAACCTAGGCC
Found at i:132648659 original size:42 final size:41
Alignment explanation
Indices: 132647988--132648705 Score: 777
Period size: 40 Copynumber: 17.5 Consensus size: 41
132647978 CACATTGCTG
* * * * * *
132647988 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGG-C
132648031 CTT-GTCGTGCGGGAGCCTC-GGCACCATCGGCAACCTAGGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGC
* *
132648071 CCTGGTCGTGC-GGAGCCTCGGCCACCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-C
* *
132648112 CCTGGTCGTGC--GAG-CTCGGCCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGG-C
132648152 CTTGGTCGTGC-GGAGCCTC-GGCACCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-C
132648192 CTTGGTCGTGC-GGAGCCTC-GGCACCATCGGCACCTAGG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGC
132648230 CTTGGT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGC
*
132648271 CCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGG-C
132648314 CTTGGTCGTGC-GGAGCCTCGGG-ACCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-C
132648354 CTTGGTCGTGCGGGAGCCTC-GGC-CCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-C
132648394 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGC
*
132648436 CTTGATCGTGC--GAGCCTCGGGCACCATCGGCAACCTAGGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGC
* * *
132648476 C-TGATCGTGC--GAGCCTCGGGCACCATCGGCA-CTTGGTG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-C
** *
132648514 CTTGGAT-GTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGG-C
*
132648557 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACC-TAG-GC
* * * * *
132648600 CTTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-C
*
132648642 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGAC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGG-C
* *
132648685 GTTGGAT-GTGCGGGTGCCTCG
1 CTTGG-TCGTGCGGGAGCCTCG
132648706 AGCAGCAGGG
Statistics
Matches: 606, Mismatches: 38, Indels: 62
0.86 0.05 0.09
Matches are distributed among these distances:
37 8 0.01
38 16 0.03
39 63 0.10
40 184 0.30
41 104 0.17
42 116 0.19
43 113 0.19
44 2 0.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (41 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGC
Found at i:132648735 original size:43 final size:43
Alignment explanation
Indices: 132648159--132648741 Score: 339
Period size: 43 Copynumber: 14.2 Consensus size: 43
132648149 GCCCTTGGTC
**
132648159 GTGC-GGAGCCTCG-GCACCATCGGCA-CCTAGG-CCCTTGG-T
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
*
132648198 CGTGC-GGAGCCTCG-GCACCATCGGCA-CCT--AGGCTTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * * * *
132648236 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAG-GCCCTGG-T
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * **
132648277 CGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* **
132648320 CGTGC-GGAGCCTCG-GGACCATCGGCA-CCTAGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
**
132648360 CGTGCGGGAGCCTCG-GC-CCATCGGCA-CCTAGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* * * *
132648400 CGTGCGGGAGCCTCGGGCACCATCGGCAACCTAG-GCCTT-GAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * * *
132648442 CGTGC--GAGCCTCGGGCACCATCGGCAACCT--AGGCCT-GAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* *
132648481 CGTGC--GAGCCTCGGGCACCATCGGCA-CTTGGT-GCTTGGAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * **
132648521 GTGCGGGAGCCTCGAACACCATCGGCAACCTCGG-CCCTTGG-T
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* * *
132648563 CGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * *
132648607 GTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGT-GCTTGGAT
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * *
132648649 GTGCGGGAGCCTCG-GACACCATCGGCAACCTAG-GACGTTGGAT
1 GTGCGGGAGCCTCGAG-CACCATCGGCACCCTGGTGGC-TTGGAT
* * ** *
132648692 GTGCGGGTGCCTCGAGCAGCAGGGGCACCCTGGTGGCTCGGAT
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
132648735 GTGCGGG
1 GTGCGGG
132648742 CTAAAGAAAA
Statistics
Matches: 470, Mismatches: 43, Indels: 57
0.82 0.08 0.10
Matches are distributed among these distances:
37 4 0.01
38 17 0.04
39 51 0.11
40 116 0.25
41 50 0.11
42 99 0.21
43 129 0.27
44 4 0.01
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (43 bp):
GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
Found at i:132656173 original size:179 final size:177
Alignment explanation
Indices: 132655836--132656189 Score: 507
Period size: 179 Copynumber: 2.0 Consensus size: 177
132655826 GTAAGGAGTT
* * *
132655836 AGTTAAACACTTGGCCGTGCCGCCTCCCGGGAAACATGGCACAACGGGGGCCGTGGTGGTGCGGG
1 AGTTAAACACTTGGCCGTGCCGCCCCCCGGGAAACATCGCACAACGGGGGCCGTGGTGGTGCGAG
* * * * * *
132655901 TGCGAGCTCCCAAGTGTTGGCGGCCCGGGCACTTGTTCAATTTTCTGCCGTGCCCTGCCGTGCCA
66 TGCGAGCTCCCAACTGTTGGCGGCCCGAGCACTTGTTCAATTATCTACCGTGCCAT-CCATGCCA
*
132655966 TGCCATATACTTCTTGTATTTGTTTTGGGCCAACAGAAAAAATTTCTA
130 TGCCATATACTTCTTGTATTTCTTTTGGGCCAACAGAAAAAATTTCTA
*
132656014 AGTTAAACACTTGGCCGTGCCGCCCCCTCGGGAAACATCGCACAGCGGGGGCCGTGGTGGTGCGA
1 AGTTAAACACTTGGCCGTGCCGCCCCC-CGGGAAACATCGCACAACGGGGGCCGTGGTGGTGCGA
132656079 GTGCGAGC-CCCAACTGTTGGCGGCCCGAGCACTTGTTCAATTATCTACCGTGCCAT-CATGCCA
65 GTGCGAGCTCCCAACTGTTGGCGGCCCGAGCACTTGTTCAATTATCTACCGTGCCATCCATGCC-
** *
132656142 TATTTCAT-TCGGCTTCTTGTATTTCTTTTGGGCCAACAGAAAAAATTT
129 -ATGCCATAT--ACTTCTTGTATTTCTTTTGGGCCAACAGAAAAAATTT
132656190 TCAATTAAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
176 5 0.03
177 1 0.01
178 74 0.47
179 77 0.49
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.26
Consensus pattern (177 bp):
AGTTAAACACTTGGCCGTGCCGCCCCCCGGGAAACATCGCACAACGGGGGCCGTGGTGGTGCGAG
TGCGAGCTCCCAACTGTTGGCGGCCCGAGCACTTGTTCAATTATCTACCGTGCCATCCATGCCAT
GCCATATACTTCTTGTATTTCTTTTGGGCCAACAGAAAAAATTTCTA
Found at i:132656587 original size:24 final size:24
Alignment explanation
Indices: 132656548--132656601 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
132656538 CCGGTTAGGT
* * *
132656548 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGATGATCCGACGAGCCA
*
132656572 TCCCGGCGATGATCCGGCGAGCCA
1 TCCCGGCGATGATCCGACGAGCCA
132656596 TCCCGG
1 TCCCGG
132656602 GATACACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (24 bp):
TCCCGGCGATGATCCGACGAGCCA
Found at i:132656726 original size:58 final size:59
Alignment explanation
Indices: 132656635--132656755 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
132656625 CCCTCCCCAA
* *
132656635 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
* *
132656694 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
132656752 TCCC
1 TCCC
132656756 TGTCCCTCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
Found at i:132657179 original size:24 final size:24
Alignment explanation
Indices: 132657152--132657229 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
132657142 CCGGTTAGGT
* *
132657152 TCCCGGCGGTGCTCCGGCGATCTA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132657176 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132657200 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
132657224 TCCCGG
1 TCCCGG
132657230 AATATCGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.08, C:0.41, G:0.36, T:0.15
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:132657550 original size:85 final size:86
Alignment explanation
Indices: 132657416--132658155 Score: 903
Period size: 85 Copynumber: 8.7 Consensus size: 86
132657406 CACATTGCTG
* * * * *
132657416 CTTGGA-CGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGG-CACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
132657480 GCCACCATCGGCAACCTAGGCGC
65 GCCACCATCGGCAACCTAGGC-C
* * * ** *
132657503 C-TGG-TCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGCCCCTGGTCATGTAGGAGCTTCGG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
132657566 CCACCATCGGCAACCTAGGCC
66 CCACCATCGGCAACCTAGGCC
*
132657587 CTTGG-TCGTGCGAGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
* * **
132657651 GCACCATCGGC-ACCTTGGTG
66 CCACCATCGGCAACCTAGGCC
132657671 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCC-TGGTCGTGCGGGAGCCTCG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
*
132657734 GGCACCATCGGCAACCTAGGCC
65 GCCACCATCGGCAACCTAGGCC
*
132657756 CTTGG-TCGTGCGAGAGCCTCGGG-ACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
132657819 CCACCATCGGC-ACCTAGGCC
66 CCACCATCGGCAACCTAGGCC
132657839 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CC-TGGTCGTGCGGGAGCCTCG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
*
132657901 GGCACCATCGGCAACCTAGG--
65 GCCACCATCGGCAACCTAGGCC
* * **
132657921 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACTTTGGTGCTTGGAT-GTGCGGGAGCCTCG
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG
** *
132657985 AACACCATCGGCAACCTCGGCC
65 GCCACCATCGGCAACCTAGGCC
* *
132658007 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGCCTTGGAT-GTGCGGGAGCCTC
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGG-CCCTTGG-TCGTGCGGGAGCCTC
* * * **
132658070 GAG-CAGCATTGGC-ACCTTGGTG
64 G-GCCACCATCGGCAACCTAGGCC
* * * *
132658092 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGACGTTGGAT-GTGCGGGTGCCTC
1 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGG-TCGTGCGGGAGCCTC
132658155 G
64 G
132658156 AGCAGCAGGG
Statistics
Matches: 583, Mismatches: 49, Indels: 44
0.86 0.07 0.07
Matches are distributed among these distances:
82 12 0.02
83 96 0.16
84 162 0.28
85 246 0.42
86 66 0.11
87 1 0.00
ACGTcount: A:0.14, C:0.33, G:0.35, T:0.18
Consensus pattern (86 bp):
CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
CCACCATCGGCAACCTAGGCC
Found at i:132658026 original size:43 final size:43
Alignment explanation
Indices: 132657416--132658155 Score: 901
Period size: 42 Copynumber: 17.5 Consensus size: 43
132657406 CACATTGCTG
* * * * * *
132657416 CTTGGACGTGCTGGAGCCTTGGACGCCATCGGAAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132657459 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGC-C
*
132657503 C-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * ** * *
132657544 CCTGGTCATGTAGGAGCTTCGGCCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132657587 CTTGGTCGTGCGAGAGCCTCGGGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* **
132657629 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132657671 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132657714 C-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132657756 CTTGGTCGTGCGAGAGCCTCGGG-ACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
132657797 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132657839 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-C
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
132657881 C-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG--
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * **
132657921 CTTGGATCGTGCGGGAGCCTCGGGCACCATCGGC-ACTTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
** *
132657964 CTTGGAT-GTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132658007 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTTGGTGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CC
* * * * **
132658050 CTTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132658092 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGAC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
132658135 GTTGGAT-GTGCGGGTGCCTCG
1 CTTGG-TCGTGCGGGAGCCTCG
132658156 AGCAGCAGGG
Statistics
Matches: 623, Mismatches: 54, Indels: 40
0.87 0.08 0.06
Matches are distributed among these distances:
40 2 0.00
41 78 0.13
42 300 0.48
43 240 0.39
44 3 0.00
ACGTcount: A:0.14, C:0.33, G:0.35, T:0.18
Consensus pattern (43 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
Found at i:132662914 original size:35 final size:35
Alignment explanation
Indices: 132662875--132662946 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
132662865 CATCTCCGGA
*
132662875 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
132662910 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
132662945 GC
1 GC
132662947 GATCTTAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:132663047 original size:23 final size:24
Alignment explanation
Indices: 132663008--132663061 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
132662998 GATTTGATAT
132663008 CTTGATG-ACTTTAGATCT-TAGCC
1 CTTGATGTACTTTAGATCTGTA-CC
*
132663031 CTTGATGTA-TTTCGATCTGTACC
1 CTTGATGTACTTTAGATCTGTACC
*
132663054 GTTGATGT
1 CTTGATGT
132663062 TGGGAAGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (24 bp):
CTTGATGTACTTTAGATCTGTACC
Found at i:132668143 original size:35 final size:35
Alignment explanation
Indices: 132668104--132668175 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
132668094 CATCTCCGGA
*
132668104 GCTTGGCAAATATGGAAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGGAGATCTTCAAAGATAT
132668139 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
132668174 GC
1 GC
132668176 GATCTTAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:132668276 original size:23 final size:24
Alignment explanation
Indices: 132668237--132668290 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
132668227 GATTTGATAT
132668237 CTTGATG-ACTTTAGATCT-TAGCC
1 CTTGATGTACTTTAGATCTGTA-CC
*
132668260 CTTGATGTA-TTTCGATCTGTACC
1 CTTGATGTACTTTAGATCTGTACC
*
132668283 GTTGATGT
1 CTTGATGT
132668291 TGGGAAGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (24 bp):
CTTGATGTACTTTAGATCTGTACC
Found at i:132671927 original size:24 final size:24
Alignment explanation
Indices: 132671888--132671941 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
132671878 CCGGTTAGGT
* * *
132671888 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGATGATCCGACGAGCCA
*
132671912 TCCCGGCGATGATCCGGCGAGCCA
1 TCCCGGCGATGATCCGACGAGCCA
132671936 TCCCGG
1 TCCCGG
132671942 GATACACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (24 bp):
TCCCGGCGATGATCCGACGAGCCA
Found at i:132672066 original size:58 final size:59
Alignment explanation
Indices: 132671975--132672095 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
132671965 CCCTCCCCAA
* *
132671975 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
* *
132672034 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
132672092 TCCC
1 TCCC
132672096 TGTCCCTCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
Done.