Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 42 of 362
Found at i:12313183 original size:19 final size:19
Alignment explanation
Indices: 12313159--12313198 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12313149 AGTGTGTTAG
12313159 TTAATTTAATATGTCGAAA
1 TTAATTTAATATGTCGAAA
*
12313178 TTAATTTAATATGTTGAAA
1 TTAATTTAATATGTCGAAA
12313197 TT
1 TT
12313199 GTCCACTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (19 bp):
TTAATTTAATATGTCGAAA
Found at i:12316663 original size:26 final size:26
Alignment explanation
Indices: 12316628--12316678 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
12316618 AAATGTAAAG
*
12316628 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
12316654 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
12316679 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:12316687 original size:102 final size:103
Alignment explanation
Indices: 12316446--12316913 Score: 754
Period size: 102 Copynumber: 4.6 Consensus size: 103
12316436 TTGTATATAA
** * *
12316446 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
12316510 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
*
12316551 AGGGGTTGCTAAGTGCTGATTCCCCGGTTAATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
12316616 TGAAATGT-AAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
12316653 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
12316718 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
12316756 A-GGGTTGCTAAGTGCTGATT-CCCGGTTCATTGGTGG-G-TGAAGTGCGATACTCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCT-AAGTGCGATA-TCCACCATATC
12316817 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCG
64 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* ** *
12316856 A-GGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCA
12316914 ATAACGGCAA
Statistics
Matches: 346, Mismatches: 10, Indels: 18
0.93 0.03 0.05
Matches are distributed among these distances:
99 1 0.00
100 35 0.10
101 82 0.24
102 106 0.31
103 55 0.16
105 66 0.19
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:12316864 original size:24 final size:24
Alignment explanation
Indices: 12316833--12316878 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
12316823 ATGTGAAAGG
*
12316833 GGGTTGCTATGTGCTGATTCCCGA
1 GGGTTGCTAAGTGCTGATTCCCGA
12316857 GGGTTGCTAAGTGCTGATTCCC
1 GGGTTGCTAAGTGCTGATTCCC
12316879 CGATTCAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.33, T:0.33
Consensus pattern (24 bp):
GGGTTGCTAAGTGCTGATTCCCGA
Found at i:12323960 original size:23 final size:24
Alignment explanation
Indices: 12323933--12323977 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
12323923 CGCTGAATCG
*
12323933 GGGAATCAGCAC-TTGCAACCCTC
1 GGGAATCAGCACATAGCAACCCTC
12323956 GGGAATCAGCACATAGCAACCC
1 GGGAATCAGCACATAGCAACCC
12323978 CCTTTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.13
Consensus pattern (24 bp):
GGGAATCAGCACATAGCAACCCTC
Found at i:12324138 original size:103 final size:104
Alignment explanation
Indices: 12323898--12324367 Score: 801
Period size: 103 Copynumber: 4.6 Consensus size: 104
12323888 TTGCCGTTAT
* ** *
12323898 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTT-GCAA-CCCTC--GGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
12323959 AATCAGCACATAGCAACCCCCTTTCACATTT-AAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
12323997 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
12324062 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
12324101 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
12324165 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
12324204 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
12324269 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* * **
12324309 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
12324368 TTATATACAA
Statistics
Matches: 355, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
99 45 0.13
100 4 0.01
101 5 0.01
103 137 0.39
104 92 0.26
105 71 0.20
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:12324249 original size:207 final size:206
Alignment explanation
Indices: 12323898--12324367 Score: 815
Period size: 207 Copynumber: 2.3 Consensus size: 206
12323888 TTGCCGTTAT
* **
12323898 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTT-GCAA-CCCTCGGGAA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGAA
12323961 TCAGCACATAGCAACCCCCTTTCACATTTAAAGATATGGTGGATATCGCACTTAGCACCACCAAT
66 TCAGCACATAGCAACCCCCTTTCACATTTAAAGATATGGTGGATATCGCACTTAGCACCACCAAT
12324026 GAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCC-TTTCACA
131 GAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCACA
12324090 TTTCAAAGATA
196 TTTCAAAGATA
12324101 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC--GGG
12324165 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATATCGCACTTAGCACCACC
64 AATCAGCACATAGCAACCCCCTTTCACATTT-AAAGATATGGTGGATATCGCACTTAGCACCACC
12324230 AATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTC
128 AATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTC
12324295 ACATTTCAAAGATA
193 ACATTTCAAAGATA
* **
12324309 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12324368 TTATATACAA
Statistics
Matches: 253, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
202 16 0.06
203 33 0.13
204 5 0.02
206 34 0.13
207 93 0.37
208 47 0.19
209 25 0.10
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (206 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTAAAGATATGGTGGATATCGCACTTAGCACCACCAAT
GAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCACA
TTTCAAAGATA
Found at i:12324728 original size:29 final size:29
Alignment explanation
Indices: 12324695--12324758 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
12324685 TAATCCACCA
12324695 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
12324724 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
12324754 CCCAA
1 CCCAA
12324759 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:12324732 original size:30 final size:30
Alignment explanation
Indices: 12324702--12324758 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12324692 CCACCCAACT
12324702 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
12324731 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
12324759 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:12327660 original size:19 final size:19
Alignment explanation
Indices: 12327636--12327675 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12327626 TTCAGTGGAC
12327636 AATTTCAACATATTAAATT
1 AATTTCAACATATTAAATT
*
12327655 AATTTCGACATATTAAATT
1 AATTTCAACATATTAAATT
12327674 AA
1 AA
12327676 CTAACACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (19 bp):
AATTTCAACATATTAAATT
Found at i:12330581 original size:34 final size:35
Alignment explanation
Indices: 12330538--12330617 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
12330528 AATGCCACAA
*
12330538 TTCACAACTCAATAT-GGACATACCATACCTACGT
1 TTCACAACTCAATATGGGAAATACCATACCTACGT
**
12330572 TTCACAACTCAATATGGGAAATGTCATACCTACGT
1 TTCACAACTCAATATGGGAAATACCATACCTACGT
12330607 TTCACAACTCA
1 TTCACAACTCA
12330618 GTATATTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 15 0.36
35 27 0.64
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (35 bp):
TTCACAACTCAATATGGGAAATACCATACCTACGT
Found at i:12331722 original size:27 final size:27
Alignment explanation
Indices: 12331690--12331745 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
12331680 TATTTAATCC
*
12331690 TTCTAGCAACTTTTACACCTTTTTTAA
1 TTCTAGCAACTTTTACACCTTTTTCAA
12331717 TTCTAGCAACTTTTACACCTTTTTCAA
1 TTCTAGCAACTTTTACACCTTTTTCAA
12331744 TT
1 TT
12331746 TAGTCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (27 bp):
TTCTAGCAACTTTTACACCTTTTTCAA
Found at i:12333701 original size:25 final size:25
Alignment explanation
Indices: 12333648--12333701 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
12333638 TTTCCTTTCC
* *
12333648 TTTTCCTTTTCATTTTTAATTTAGG
1 TTTTCCTTTTCATTTTTAATGTAGA
12333673 TTTTCTCTTTTC-TTTTTAGA-GTAGA
1 TTTTC-CTTTTCATTTTTA-ATGTAGA
12333698 TTTT
1 TTTT
12333702 ATTCTTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (25 bp):
TTTTCCTTTTCATTTTTAATGTAGA
Found at i:12340817 original size:21 final size:22
Alignment explanation
Indices: 12340788--12340828 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12340778 AGCACTTATC
*
12340788 AACCCTGAACTC-TAAACCCGT
1 AACCCTGAACCCTTAAACCCGT
*
12340809 AACCTTGAACCCTTAAACCC
1 AACCCTGAACCCTTAAACCC
12340829 CGAAGACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.39, G:0.07, T:0.20
Consensus pattern (22 bp):
AACCCTGAACCCTTAAACCCGT
Found at i:12343618 original size:96 final size:98
Alignment explanation
Indices: 12343436--12343619 Score: 212
Period size: 96 Copynumber: 1.9 Consensus size: 98
12343426 TTTAGACAAG
* * ** * * *
12343436 AATTAAATTATAAATTTTTGAATGGATTAAAATATAGTTTTATTATTATATTAATTTCAATTTTT
1 AATTAAATTATAAATTTTTGAATAGATTAAAACATAAATTTATCATTATATTAATTTAAATTTTC
* *
12343501 ATAATTATAAAACTTTTATTTTTAAAATATCAA
66 ATAATTATAAAACGTTAATTTTTAAAATATCAA
* *
12343534 AATTAAATTATAAATTTTTGAA-AG-TTAAAGCATAAATTTATCATTATGTTAATTTAAAATTTT
1 AATTAAATTATAAATTTTTGAATAGATTAAAACATAAATTTATCATTATATTAATTT-AAATTTT
** *
12343597 CATTTTTA-AAAAGGTTAATTTTT
65 CATAATTATAAAACGTTAATTTTT
12343620 TTGTTATTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
96 37 0.52
97 12 0.17
98 22 0.31
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (98 bp):
AATTAAATTATAAATTTTTGAATAGATTAAAACATAAATTTATCATTATATTAATTTAAATTTTC
ATAATTATAAAACGTTAATTTTTAAAATATCAA
Found at i:12347642 original size:24 final size:24
Alignment explanation
Indices: 12347610--12347657 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
12347600 TAGCGTTTAG
12347610 GCCTTATAAATATGTTTGGTGGAA
1 GCCTTATAAATATGTTTGGTGGAA
12347634 GCCTTATAAATATGTTTGGTGGAA
1 GCCTTATAAATATGTTTGGTGGAA
12347658 ATATGGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (24 bp):
GCCTTATAAATATGTTTGGTGGAA
Found at i:12348565 original size:163 final size:163
Alignment explanation
Indices: 12348283--12348608 Score: 537
Period size: 163 Copynumber: 2.0 Consensus size: 163
12348273 TTTCTAAGTT
* *
12348283 CTTTCGTTTCTCCACTCTTAAAAGCCGATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
1 CTTTCGTTTCTACACTCTTAAAAGCCAATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
* * * *
12348348 ACCTATGGTTTCTCCGTTTATTTCTCTTTCTCCCTTTCATTCAAGAGTGTGATCGCTGGCTAAGT
66 ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
12348413 AGTAGTTGATGGAAAATG-GAGGTTCTAGCAGAG
131 AGTAGTTGATGGAAAATGAG-GGTTCTAGCAGAG
* * *
12348446 CTTTTGTTTCTACACTCTTAAAAGCTAATTTTTCTTTATCCTTTCCAATACCATTACTTTCGTTA
1 CTTTCGTTTCTACACTCTTAAAAGCCAATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
* *
12348511 ACTTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCTAGAGTGTGATCGCTGGCTAAGT
66 ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
12348576 AGTAGTTGATGGAAAATGAGGGTTCTAGCAGAG
131 AGTAGTTGATGGAAAATGAGGGTTCTAGCAGAG
12348609 AGGTTGGGAT
Statistics
Matches: 151, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 150 0.99
164 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (163 bp):
CTTTCGTTTCTACACTCTTAAAAGCCAATTTTTCTTTATCCTTTCCAACACCATTACTTTCGTTA
ACCTATGGCTTCTCCATTTATTTCACTTTCTCCCTCTCATTCAAGAGTGTGATCGCTGGCTAAGT
AGTAGTTGATGGAAAATGAGGGTTCTAGCAGAG
Found at i:12349229 original size:29 final size:30
Alignment explanation
Indices: 12349187--12349276 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 30
12349177 ACATGGCTTG
*
12349187 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
12349215 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
* *
12349244 -AATGAGA-TTAGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
12349271 GCATGT
1 GAATGT
12349277 ATGCAGACTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 18 0.34
28 13 0.25
29 21 0.40
30 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:12349265 original size:27 final size:29
Alignment explanation
Indices: 12349204--12349271 Score: 95
Period size: 27 Copynumber: 2.4 Consensus size: 29
12349194 TTCGGGCCAG
* *
12349204 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTAGGCCTA
12349233 ATGGGCCATAT-AATGAGA-TTAGGCCTA
1 ATGGGCCATATGAATGAGATTTAGGCCTA
*
12349260 GTGGGCCATATG
1 ATGGGCCATATG
12349272 CATGTATGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.51
28 6 0.17
29 11 0.31
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTAGGCCTA
Found at i:12350612 original size:16 final size:17
Alignment explanation
Indices: 12350580--12350612 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12350570 TTTAAAGAAG
12350580 GGTTTTCAATGAAAACAA
1 GGTTTTCAA-GAAAACAA
12350598 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
12350613 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAA
Found at i:12353392 original size:13 final size:14
Alignment explanation
Indices: 12353361--12353395 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
12353351 AATCACACCC
12353361 TTAAAATTAAAATA
1 TTAAAATTAAAATA
*
12353375 TTAAAATTAAATTA
1 TTAAAATTAAAATA
12353389 -TAAAATT
1 TTAAAATT
12353396 TTTAAAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAATTAAAATA
Found at i:12357539 original size:46 final size:46
Alignment explanation
Indices: 12357496--12357623 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
12357486 TCATCTCGTA
* * *
12357496 GCCGATACATGTCCCAAACATGTCTTACACT-GGCTTACGTCTCGAG
1 GCCGATACATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCGAG
* * * *
12357542 GCTGATACATGTCCCTGACATGTCTTACACTAGCCCTCGTCTCAAT
1 GCCGATACATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAG
*
12357588 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGC
12357624 TCTCACAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 40 0.58
47 16 0.23
48 13 0.19
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATACATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCGAG
Found at i:12366222 original size:5 final size:6
Alignment explanation
Indices: 12366209--12366255 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
12366199 ATAATTTAAT
*
12366209 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
12366256 AATATAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:12366256 original size:20 final size:20
Alignment explanation
Indices: 12366209--12366259 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
12366199 ATAATTTAAT
**
12366209 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
*
12366229 AACTAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
12366249 ATAA-AAAAATA
1 A-AATAAAAATA
12366260 TAATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:12366295 original size:9 final size:9
Alignment explanation
Indices: 12366274--12366332 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
12366264 TTTATACGAA
*
12366274 TAATTCGGT
1 TAATTCGGG
*
12366283 TAATTTGGG
1 TAATTCGGG
12366292 TAATTCGGG
1 TAATTCGGG
**
12366301 TAATTCGAT
1 TAATTCGGG
**
12366310 TAATTCGAT
1 TAATTCGGG
*
12366319 TAATTCGGT
1 TAATTCGGG
12366328 TAATT
1 TAATT
12366333 TTATACTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGG
Found at i:12366305 original size:27 final size:27
Alignment explanation
Indices: 12366274--12366332 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
12366264 TTTATACGAA
* * *
12366274 TAATTCGGTTAATTTGGGTAATTCGGG
1 TAATTCGATTAATTCGAGTAATTCGGG
* *
12366301 TAATTCGATTAATTCGATTAATTCGGT
1 TAATTCGATTAATTCGAGTAATTCGGG
12366328 TAATT
1 TAATT
12366333 TTATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (27 bp):
TAATTCGATTAATTCGAGTAATTCGGG
Found at i:12367491 original size:7 final size:7
Alignment explanation
Indices: 12367479--12367515 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
12367469 CTAAAGCTAC
12367479 CACTTAT
1 CACTTAT
12367486 CACTTAT
1 CACTTAT
12367493 CACTTAT
1 CACTTAT
*
12367500 CACTTGT
1 CACTTAT
*
12367507 CACTGAT
1 CACTTAT
12367514 CA
1 CA
12367516 GATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:12367503 original size:58 final size:58
Alignment explanation
Indices: 12367438--12367568 Score: 262
Period size: 58 Copynumber: 2.3 Consensus size: 58
12367428 CTGATCACAT
12367438 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCAC
12367496 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCAC
12367554 TTATCACTTGTCACT
1 TTATCACTTGTCACT
12367569 AGCTAAGCTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (58 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCAC
Found at i:12367549 original size:7 final size:7
Alignment explanation
Indices: 12367537--12367568 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
12367527 CTAAAGCTAC
12367537 CACTTAT
1 CACTTAT
12367544 CACTTAT
1 CACTTAT
12367551 CACTTAT
1 CACTTAT
*
12367558 CACTTGT
1 CACTTAT
12367565 CACT
1 CACT
12367569 AGCTAAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (7 bp):
CACTTAT
Found at i:12369293 original size:21 final size:21
Alignment explanation
Indices: 12369269--12369320 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
12369259 CTTTTTATTC
12369269 AATTAAC-TATCGAAACTTTAA
1 AATTAACTTA-CGAAACTTTAA
*
12369290 AATT-TCTTGACGAAACTTTAA
1 AATTAACTT-ACGAAACTTTAA
*
12369311 TATTAACTTA
1 AATTAACTTA
12369321 TTAACACTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (21 bp):
AATTAACTTACGAAACTTTAA
Found at i:12372411 original size:20 final size:20
Alignment explanation
Indices: 12372379--12372417 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12372369 ATTTAATGGT
12372379 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
12372398 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
12372418 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:12376892 original size:24 final size:24
Alignment explanation
Indices: 12376863--12376918 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
12376853 TTCTAATTAA
*
12376863 ATTTTATAAATAATTAATATTTAT
1 ATTTTATAAATAATTAAAATTTAT
* *
12376887 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATAATTAAAATTTAT
12376911 ATTTTATA
1 ATTTTATA
12376919 TATTAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:12377134 original size:13 final size:13
Alignment explanation
Indices: 12377118--12377170 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
12377108 TTTTAAAAAC
*
12377118 ACTTATCAAAAGT
1 ACTTTTCAAAAGT
* *
12377131 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGT
*
12377144 ACTTTTAAAAAGT
1 ACTTTTCAAAAGT
12377157 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
12377170 A
1 A
12377171 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
12 4 0.13
13 23 0.74
14 4 0.13
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:12377134 original size:26 final size:26
Alignment explanation
Indices: 12377105--12377167 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
12377095 TTTAAATTAA
*
12377105 ACTTTTTAAAAACACTTATCAAAAGT
1 ACTTTTTAAAAACACTTATAAAAAGT
* * * *
12377131 ACTTTTTCACAGCACTTTTAAAAAGT
1 ACTTTTTAAAAACACTTATAAAAAGT
*
12377157 ACTTTTCAAAA
1 ACTTTTTAAAA
12377168 GTATTGCCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (26 bp):
ACTTTTTAAAAACACTTATAAAAAGT
Found at i:12378225 original size:30 final size:30
Alignment explanation
Indices: 12378189--12378247 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
12378179 TATTTTCTTA
12378189 TTAATTTTGATATTATTTTAAAGGCATTTG
1 TTAATTTTGATATTATTTTAAAGGCATTTG
** *
12378219 TTAATTTTTTTATTATTTTAGAGGCATTT
1 TTAATTTTGATATTATTTTAAAGGCATTT
12378248 ACTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTGATATTATTTTAAAGGCATTTG
Found at i:12387252 original size:32 final size:32
Alignment explanation
Indices: 12387206--12387267 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
12387196 GCTGTGTGGA
*
12387206 CCACATGGCCAAGGCCAATTTGGGCATGTGTG
1 CCACACGGCCAAGGCCAATTTGGGCATGTGTG
* *
12387238 CCACACGGCTAAGGCCAATTTGGGCGTGTG
1 CCACACGGCCAAGGCCAATTTGGGCATGTG
12387268 GGCCTATACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (32 bp):
CCACACGGCCAAGGCCAATTTGGGCATGTGTG
Found at i:12394114 original size:96 final size:94
Alignment explanation
Indices: 12393992--12394828 Score: 1282
Period size: 96 Copynumber: 8.8 Consensus size: 94
12393982 GTGTGTATAC
12393992 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
12394057 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
62 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
12394090 GTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATGAGATGAATGTGAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
12394155 GATAAGGCCTAACGGCCGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
*
12394184 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
12394249 GCGATAAGGCCTAATGGCCGATGTGATGAAT
64 GTGATAAGGCCTAATGGCCGATGTGATGAAT
12394280 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TAT
*
12394345 ATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
60 ATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12394380 GTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATATGATGAATGTGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
* *
12394445 GTGATAAGGCCTAACGACCGATGTGATGAAT
64 GTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394476 GTGAAAGTGTATATATATGTGATAAGGCCTAAGGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
12394541 GTGATAAGGCCTAATGGCCGATGTGATGAAT
64 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
12394572 GTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
12394637 GATAAGG-C-AATAGCCGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
*
12394664 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
12394729 GATAAGGCCTAATGGTCGATGTGATGAAT
66 GATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * * *
12394758 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
12394823 GATAAG
66 GATAAG
12394829 TCCCGAAGGG
Statistics
Matches: 689, Mismatches: 40, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
92 86 0.12
93 2 0.00
94 184 0.27
96 272 0.39
98 98 0.14
100 47 0.07
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:12394121 original size:47 final size:47
Alignment explanation
Indices: 12393992--12394828 Score: 1282
Period size: 47 Copynumber: 17.5 Consensus size: 47
12393982 GTGTGTATAC
12393992 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12394041 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
12394090 GTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATGAGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394137 GTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394184 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394233 GTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12394280 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394329 GTGAAAGTGTATATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12394380 GTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATATGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12394427 GTGAAAGTGTATATATATGTGATAAGGCCTAACGACCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394476 GTGAAAGTGTATATATATGTGATAAGGCCTAAGGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12394525 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12394572 GTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12394619 GCGAAAGTGTATATATGTGATAAGG-C-AATAGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394664 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394711 GTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
12394758 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12394805 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
12394829 TCCCGAAGGG
Statistics
Matches: 739, Mismatches: 39, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
45 43 0.06
46 2 0.00
47 406 0.55
49 240 0.32
51 48 0.06
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:12395018 original size:37 final size:37
Alignment explanation
Indices: 12394947--12395025 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
12394937 CCGAGCTCTA
* * * *
12394947 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATATCCGGGT
* *
12394984 AAGACCCGATAACTTCGTGTGGAGATTATATCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATATCCGGGT
12395021 AAGAC
1 AAGAC
12395026 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATATCCGGGT
Found at i:12396589 original size:40 final size:40
Alignment explanation
Indices: 12396228--12396577 Score: 569
Period size: 40 Copynumber: 8.8 Consensus size: 40
12396218 GAGAATTGAG
12396228 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
12396268 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
12396308 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
12396348 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
12396388 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
12396428 AGTGATATATCCAGGTTAAAT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
12396467 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
12396507 AGTGATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
12396546 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
12396578 ATCATGCTGG
Statistics
Matches: 287, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 67 0.23
40 220 0.77
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:12400294 original size:47 final size:47
Alignment explanation
Indices: 12400165--12401336 Score: 1862
Period size: 47 Copynumber: 24.5 Consensus size: 47
12400155 GTGTGTATAC
12400165 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400214 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12400263 GTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
12400310 ATGAAAGTGTATATATGTGATAAAGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400357 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12400406 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12400453 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12400500 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400549 GTGAAAGTGTATATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12400600 GTGAAAGTGTATATATGGGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400647 GTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12400696 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12400743 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400792 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12400841 GTGAATGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400888 GTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400937 GTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12400986 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12401033 GTGAAGGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12401080 GCGAAAGTGTATATATGTGATAAGG-C-AATAGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12401125 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
12401172 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12401219 GTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
12401266 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12401313 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
12401337 TCCCGAAGGG
Statistics
Matches: 1064, Mismatches: 45, Indels: 30
0.93 0.04 0.03
Matches are distributed among these distances:
45 43 0.04
46 2 0.00
47 588 0.55
49 383 0.36
51 48 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:12400372 original size:96 final size:96
Alignment explanation
Indices: 12400165--12401336 Score: 1881
Period size: 96 Copynumber: 12.3 Consensus size: 96
12400155 GTGTGTATAC
12400165 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
12400230 ATGTGATAAGGCCTAATGGCAGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
12400263 GTG-AAG-GTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
12400326 GTGATAAAGCCTAACGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400357 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
12400422 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
12400453 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
12400516 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400549 GTGAAAGTGTATATATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
12400614 ATGGGATAAGGCCTAACGGCCGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400647 GTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
12400712 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
12400743 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
12400808 ATGCGATAAGGCCTAATGGCCGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
12400841 GTG-AA-TGTGTATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
12400904 ATGTGATAAGGCCTAACGGCCGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12400937 GTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
12401002 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
12401033 GTG-AAG-GTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
12401096 GTGATAAGG-C-AATAGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12401125 GCGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
12401188 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
*
12401219 GTGAAA-T-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
12401282 GTGACAGGGCCGAGTGGCCAACGTGATGGAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
12401313 GTGAAAGTGTATA-A-ATGTGATAAG
1 GTGAAAGTGTATATATATGTGATAAG
12401337 TCCCGAAGGG
Statistics
Matches: 1008, Mismatches: 46, Indels: 44
0.92 0.04 0.04
Matches are distributed among these distances:
92 81 0.08
93 6 0.01
94 264 0.26
95 8 0.01
96 458 0.45
97 7 0.01
98 138 0.14
100 46 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:12401497 original size:37 final size:37
Alignment explanation
Indices: 12401455--12401533 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
12401445 CCGAGCTCTA
* * *
12401455 AAGACCCGATGACTACGCGTGGGGATTTTATCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATATCCGGGT
* * *
12401492 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATATCCGGGT
12401529 AAGAC
1 AAGAC
12401534 TTCATAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATATCCGGGT
Found at i:12408119 original size:16 final size:17
Alignment explanation
Indices: 12408095--12408127 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12408085 AAAACACAAG
12408095 TTTAATGGA-AAGAAAA
1 TTTAATGGAGAAGAAAA
*
12408111 TTTATTGGAGAAGAAAA
1 TTTAATGGAGAAGAAAA
12408128 GAAACAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (17 bp):
TTTAATGGAGAAGAAAA
Found at i:12408647 original size:17 final size:17
Alignment explanation
Indices: 12408620--12408654 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12408610 TCCTAATGTG
12408620 ATTTTTCTGATTAGTTTT
1 ATTTTTCTGATTA-TTTT
12408638 ATTTTT-TGATTATTTT
1 ATTTTTCTGATTATTTT
12408654 A
1 A
12408655 AAAGAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (17 bp):
ATTTTTCTGATTATTTT
Found at i:12416149 original size:21 final size:21
Alignment explanation
Indices: 12416118--12416159 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12416108 ACACTATAAG
12416118 ATTATTTTATCATATATATATT
1 ATTATTTTATCATATAT-TATT
*
12416140 ATTA-TTTATCGTATATTATT
1 ATTATTTTATCATATATTATT
12416160 TTTCACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATTTTATCATATATTATT
Found at i:12420637 original size:27 final size:28
Alignment explanation
Indices: 12420607--12420676 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
12420597 ATATTAAGTC
*
12420607 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
12420634 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
12420662 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12420677 GAACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:12421167 original size:18 final size:18
Alignment explanation
Indices: 12421140--12421180 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
12421130 CACGAATGGG
*
12421140 CATACCTATGTATATATA
1 CATACATATGTATATATA
12421158 CATACATATGTATATATA
1 CATACATATGTATATATA
*
12421176 TATAC
1 CATAC
12421181 TTCGGAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (18 bp):
CATACATATGTATATATA
Found at i:12432210 original size:210 final size:209
Alignment explanation
Indices: 12431844--12432646 Score: 1086
Period size: 210 Copynumber: 3.9 Consensus size: 209
12431834 TAAGCCGCAG
*
12431844 CATAGCAGATCTCACCTTCAGATGTTAACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* *
12431909 TGTATTTGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGAA
66 TGTATTTGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
** * *
12431974 AATCTAAGATGATTTGTCGCCTCTGTATTGCCAGAGAACAAATCGAAGTCTGACATTTCCACTAT
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACT-T
* *
12432039 GATGAAAGGCAGACA
195 GATGAAAGGTAGATA
*
12432054 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAAATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* *
12432119 TGTATTCGACGGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCA
66 TGTATTTGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
*
12432184 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCAC-TT
* *
12432249 GATGGAAGGTAGATG
195 GATGAAAGGTAGATA
*
12432264 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAAATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
* *
12432329 TGTATTTGACGTGGAGCAGATCGAAGATATAGCTGATTTTACTTTCACGTG-TTACGATGAAGCA
66 TGTATTTGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
* * * *
12432393 AATCTAAGATGATTTGTCATCTCTGTATTGTCGGAGAACAAATCGAAGTTTGGCATCTCTACTTC
131 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTT-
* *
12432458 AAT-AGAGAGTAGATA
195 GATGAAAG-GTAGATA
* * * * ** *
12432473 CATAGCAGATCTGACCTTCAGACGATTA-GACTGAAACAAGATCCAAGATGATTTG-GC--ATC-
1 CATAGCAGATCTCACCTTCAGATGTTTACG-CTGAAGC-AGATCCAAGATGA-CAGATCTTATCT
** ** * * * * * * *
12432533 CT-TGTGCTT-ACAAGGAGCAAATCAAAGACATAGTTGATTT-AGTTTTCACGTGCTTATGATGA
63 CTCTGTATTTGACGGGGAGCAGATCGAAGATATAGCTGATTTGA-CTTTCACGTGTTTACGATGA
12432595 AGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
127 AGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAG
12432647 AAGTAGATTT
Statistics
Matches: 538, Mismatches: 47, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
204 1 0.00
205 34 0.06
206 64 0.12
207 2 0.00
208 8 0.01
209 109 0.20
210 318 0.59
211 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (209 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
TGTATTTGACGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCA
AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTG
ATGAAAGGTAGATA
Found at i:12434394 original size:31 final size:31
Alignment explanation
Indices: 12434320--12434402 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 31
12434310 TTTTATCATA
12434320 TATATATTATTATTATTTATCGTATATTATTTT
1 TATATATTATTATTATTT-TCG-ATATTATTTT
* * *
12434353 TCACAAATTATTATTATTTTC-ATCATTGTTTT
1 T-ATATATTATTATTATTTTCGAT-ATTATTTT
12434385 TATATATTATTA-TATTTT
1 TATATATTATTATTATTTT
12434403 ACTTGTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
30 6 0.14
31 11 0.26
32 8 0.19
33 3 0.07
34 15 0.35
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (31 bp):
TATATATTATTATTATTTTCGATATTATTTT
Found at i:12434416 original size:28 final size:31
Alignment explanation
Indices: 12434318--12434430 Score: 76
Period size: 34 Copynumber: 3.6 Consensus size: 31
12434308 TATTTTATCA
*
12434318 TATATATATTATTATTATTTATCGTAT-ATTATT
1 TATATATATTATTATTATTT-TC--ATCATTGTT
* * *
12434351 TTTCACAAATTATTATTATTTTCATCATTGTT
1 TAT-ATATATTATTATTATTTTCATCATTGTT
*
12434383 TTTATATATTATTA-TATTTT-A-C-TTGTAT
1 TATATATATTATTATTATTTTCATCATTGT-T
*
12434411 TATATAT-TTAGTAATTATTT
1 TATATATATTA-TTATTATTT
12434431 ATATATATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
27 7 0.10
28 10 0.15
29 6 0.09
30 6 0.09
31 11 0.16
32 8 0.12
33 4 0.06
34 15 0.22
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (31 bp):
TATATATATTATTATTATTTTCATCATTGTT
Found at i:12446453 original size:53 final size:53
Alignment explanation
Indices: 12446369--12446485 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 53
12446359 AGGTGCAGGG
* * *
12446369 GACACACAGCCTAACCACATGCTCGTGTACCAGACCATG-TGTCACACATGGTTTA
1 GACACAC-G-CTAACCACACGCTCGTCTACCAGACCATGAT-TCACACACGGTTTA
*
12446424 GACACACGCTAACCACACGCTCGTCTACCAGGCCATGATTCACACACGGTTTA
1 GACACACGCTAACCACACGCTCGTCTACCAGACCATGATTCACACACGGTTTA
*
12446477 GACGCACGC
1 GACACACGC
12446486 CCGTGTGTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 47 0.84
54 2 0.04
55 7 0.12
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (53 bp):
GACACACGCTAACCACACGCTCGTCTACCAGACCATGATTCACACACGGTTTA
Found at i:12455953 original size:24 final size:24
Alignment explanation
Indices: 12455926--12455976 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
12455916 CAAGAACACC
* *
12455926 TCAAATTGCCATTCATTTTTTTAA
1 TCAAATTCCCATTCAATTTTTTAA
* * *
12455950 TCAATTTCCCCTTTAATTTTTTAA
1 TCAAATTCCCATTCAATTTTTTAA
12455974 TCA
1 TCA
12455977 GTATGGTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (24 bp):
TCAAATTCCCATTCAATTTTTTAA
Found at i:12459657 original size:13 final size:13
Alignment explanation
Indices: 12459616--12459648 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12459606 CTTAAACAAG
12459616 TTTAATTTAAATA
1 TTTAATTTAAATA
*
12459629 TTAAATTTAAATA
1 TTTAATTTAAATA
12459642 TTTAATT
1 TTTAATT
12459649 CAAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTAATTTAAATA
Found at i:12462554 original size:15 final size:15
Alignment explanation
Indices: 12462534--12462564 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12462524 GACATGAAAT
*
12462534 AAAGAAAGGAAAAAA
1 AAAGAAAAGAAAAAA
12462549 AAAGAAAAGAAAAAA
1 AAAGAAAAGAAAAAA
12462564 A
1 A
12462565 CATAATGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAA
Found at i:12468518 original size:43 final size:45
Alignment explanation
Indices: 12468457--12468576 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 45
12468447 TCTCGAGGCT
*
12468457 GATACATGTCCCAGACATGTCTTATACTAGCTCTC-TCAA-T-GCC
1 GATACATGTCCCAGACATGTCTTACACTAGCTCTCAT-AAGTGGCC
* *
12468500 GATACATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTGGCC
1 GATACATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GTGGCC
*
12468546 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATACATGTCCCAGACATGTCTTACACTAGC
12468577 ACACACAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 34 0.51
44 1 0.01
45 1 0.01
46 31 0.46
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (45 bp):
GATACATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCC
Found at i:12476737 original size:40 final size:40
Alignment explanation
Indices: 12476536--12476729 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
12476526 ATTCGGATTG
12476536 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
12476575 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
12476615 ATAACCGGGCCAAGTTCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
12476655 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
12476695 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
12476730 AAGCTATATC
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.09
40 132 0.91
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:12476737 original size:80 final size:80
Alignment explanation
Indices: 12476536--12476756 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
12476526 ATTCGGATTG
12476536 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
12476600 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
12476615 ATAACCGGGCCAAGTTCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
12476680 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * **
12476695 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
12476757 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 28 0.22
80 99 0.78
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:12480558 original size:16 final size:16
Alignment explanation
Indices: 12480537--12480570 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12480527 CCAATATCCA
* *
12480537 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
12480553 ATTATCACATTTACAC
1 ATTATCACATTTACAC
12480569 AT
1 AT
12480571 ATATTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:12484115 original size:19 final size:19
Alignment explanation
Indices: 12484086--12484128 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
12484076 ATACAAGCAA
*
12484086 CAAGTTTAACCGAATGCTC
1 CAAGCTTAACCGAATGCTC
*
12484105 TAAGCTTAACCGAATGCTC
1 CAAGCTTAACCGAATGCTC
12484124 CAAGC
1 CAAGC
12484129 CTTCTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (19 bp):
CAAGCTTAACCGAATGCTC
Found at i:12485395 original size:114 final size:114
Alignment explanation
Indices: 12485195--12485422 Score: 438
Period size: 114 Copynumber: 2.0 Consensus size: 114
12485185 GATGTTCAAA
12485195 AGATTAATTCATTAAGGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCAGAAAAGAGG
1 AGATTAATTCATTAAGGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCAGAAAAGAGG
12485260 TGGTGAGTCCATCAGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAAT
66 TGGTGAGTCCATCAGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAAT
*
12485309 AGATTAATTCATTAAGGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGAGG
1 AGATTAATTCATTAAGGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCAGAAAAGAGG
*
12485374 TGGTGAGTCCATCGGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAAT
66 TGGTGAGTCCATCAGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAAT
12485423 CCTAGACATG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (114 bp):
AGATTAATTCATTAAGGGTTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCAGAAAAGAGG
TGGTGAGTCCATCAGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAAT
Found at i:12486146 original size:27 final size:28
Alignment explanation
Indices: 12486109--12486248 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
12486099 AGCATGGCTG
* *
12486109 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
12486135 CCAGATACAGATA-ATCATGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
12486163 CTAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
12486190 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
12486217 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
12486244 CCAGA
1 CCAGA
12486249 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:12486201 original size:54 final size:55
Alignment explanation
Indices: 12486109--12486248 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
12486099 AGCATGGCTG
* *
12486109 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCATGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* * **
12486163 CTAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* * *
12486217 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
12486249 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 57 0.76
55 18 0.24
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:12487904 original size:26 final size:26
Alignment explanation
Indices: 12487868--12487977 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
12487858 CATGAAATTT
12487868 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12487894 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12487920 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
12487946 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12487972 TTATCA
1 TTATCA
12487978 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12491202 original size:46 final size:48
Alignment explanation
Indices: 12491005--12491317 Score: 204
Period size: 46 Copynumber: 6.6 Consensus size: 48
12490995 TGGGGTAACT
* * *
12491005 GCCGATGCCATGTCCCCGACATGGTCTTACATTGGC-TATCATCATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TCGAG
* * * * * *
12491054 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGCATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTCGAG
** * ** * *
12491104 GTTGATGCCATGTCCCAGACGTGGTCTTACACTAAC--ACATCGCTTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-GAG
12491151 G-CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * * ** *
12491196 GTCGATG-CATGTCCCAAACAT-ATCTTACACTAGCACTTGTATCT--AT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTTACATCTCGAG
* * *
12491242 GCCGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAG
*
12491290 GCCGATG-CATGTCCCAAACAT-GTCTTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTAC
12491318 TAGCTCCCAA
Statistics
Matches: 209, Mismatches: 41, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 59 0.28
47 32 0.15
48 22 0.11
49 32 0.15
50 33 0.16
51 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:12491267 original size:138 final size:144
Alignment explanation
Indices: 12491007--12491271 Score: 346
Period size: 138 Copynumber: 1.9 Consensus size: 144
12490997 GGGTAACTGC
* * * *
12491007 CGATGCCATGTCCCCGACATGGTCTTACATTGGCTATCATCATCGTGGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAA
* * * ** *
12491072 ACATGGTCTTATACTAGCTCTCGCATATCCATGTTGATGCCATGTCCCAGACGTGGTCTTACACT
66 ACATGATCTTACACTAGCACTCG-ATATCCATGCCGATGCCATGTCCCAGACATGGTCTTACACT
12491137 AACACATCGCTTAGG
130 AACACATCGCTTAGG
*
12491152 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATC-TCGAGGTCGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCA
* *
12491212 AACAT-ATCTTACACTAGCACTTG-TATCTATGCCGATGCCATGTCCCAGACATGGTCTTAC
65 AACATGATCTTACACTAGCACTCGATATCCATGCCGATGCCATGTCCCAGACATGGTCTTAC
12491272 GCTGGCTCTC
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 33 0.31
140 14 0.13
141 13 0.12
142 11 0.10
143 17 0.16
144 13 0.12
145 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAA
ACATGATCTTACACTAGCACTCGATATCCATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
ACACATCGCTTAGG
Found at i:12502481 original size:25 final size:23
Alignment explanation
Indices: 12502419--12502481 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 23
12502409 TATATCTTTG
12502419 TATTATAT-T-TTATAATTATAT
1 TATTATATATATTATAATTATAT
12502440 TATTATATACTATT-TATATTATATT
1 TATTATATA-TATTATA-ATTATA-T
12502465 TATTTACTATATATTAT
1 TA-TTA-TATATATTAT
12502482 TTTTCACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
21 8 0.24
23 3 0.09
24 8 0.24
25 3 0.09
26 7 0.21
27 5 0.15
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATATATATTATAATTATAT
Found at i:12502528 original size:27 final size:26
Alignment explanation
Indices: 12502496--12502573 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
12502486 CACAAATTAG
*
12502496 TATTATTTTACAT-TATTATTTATATAA
1 TATTATTATA-ATGTATTATTTATAT-A
*
12502523 TATTATTATATTGTATTATTTATATA
1 TATTATTATAATGTATTATTTATATA
*
12502549 TATTA-TAT-AT-TATT-TTTACATA
1 TATTATTATAATGTATTATTTATATA
12502571 TAT
1 TAT
12502574 ACTTTCATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 10 0.22
23 4 0.09
24 1 0.02
25 3 0.07
26 7 0.15
27 21 0.46
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (26 bp):
TATTATTATAATGTATTATTTATATA
Found at i:12502531 original size:13 final size:13
Alignment explanation
Indices: 12502509--12502562 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
12502499 TATTTTACAT
12502509 TATTATTTATATAA
1 TATTA-TTATATAA
**
12502523 TATTATTATATTG
1 TATTATTATATAA
12502536 TATTATT-TAT-A
1 TATTATTATATAA
*
12502547 TA-TATTATATAT
1 TATTATTATATAA
12502559 TATT
1 TATT
12502563 TTTACATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 5 0.15
13 14 0.42
14 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATAA
Found at i:12502561 original size:20 final size:19
Alignment explanation
Indices: 12502424--12502661 Score: 77
Period size: 20 Copynumber: 12.2 Consensus size: 19
12502414 CTTTGTATTA
12502424 TATTTTATA-A-T-TATAT
1 TATTTTATATATTATATAT
*
12502440 TATTATATACTATT-TATAT
1 TATTTTATA-TATTATATAT
* *
12502459 TATATTTATTTACTATATAT
1 TAT-TTTATATATTATATAT
* * *
12502479 TATTTTTCACAAATTA-GTAT
1 TA-TTTT-ATATATTATATAT
*
12502499 TATTTTACATTATTATTTATAT
1 TATTTTATA-TATTA--TATAT
* * *
12502521 AATATTAT-TA-TATTGTAT
1 TATTTTATATATTA-TATAT
12502539 TATTTATATATATTATATAT
1 TATTT-TATATATTATATAT
*
12502559 TATTTT-TACA-TATATACTT
1 TATTTTATATATTATATA--T
*
12502578 TCATATTATATATTATA-AT
1 T-ATTTTATATATTATATAT
* *
12502597 TATTTTAAATTATTATGTCAT
1 TATTTTATA-TATTATAT-AT
* *
12502618 T-TTTCATACCATTATATAT
1 TATTTTATA-TATTATATAT
*
12502637 ATACTTTTATCTA-TATATTAT
1 -TA-TTTTATATATTATA-TAT
12502658 TATT
1 TATT
12502662 AAAAGTTTTA
Statistics
Matches: 164, Mismatches: 32, Indels: 49
0.67 0.13 0.20
Matches are distributed among these distances:
16 8 0.05
17 6 0.04
18 21 0.13
19 40 0.24
20 54 0.33
21 18 0.11
22 17 0.10
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (19 bp):
TATTTTATATATTATATAT
Found at i:12502610 original size:48 final size:49
Alignment explanation
Indices: 12502496--12502612 Score: 116
Period size: 50 Copynumber: 2.4 Consensus size: 49
12502486 CACAAATTAG
* * * *
12502496 TATTATTTTACATTATTATTTATATAATATTATTATATTGTATTATTTA
1 TATTATTTTAAATTATTATTTACATAATATTATCATATTATATTATTTA
* *
12502545 TATATATTATATATTATT-TTTACATATATACTT-TCATATTATA-TA-TTA
1 TAT-TATTTTAAATTATTATTTACATA-ATA-TTATCATATTATATTATTTA
12502593 TAATTATTTTAAATTATTAT
1 T-ATTATTTTAAATTATTAT
12502613 GTCATTTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
48 16 0.29
49 15 0.27
50 23 0.41
51 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (49 bp):
TATTATTTTAAATTATTATTTACATAATATTATCATATTATATTATTTA
Found at i:12506623 original size:14 final size:14
Alignment explanation
Indices: 12506604--12506633 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12506594 AAGATATTCT
12506604 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
12506618 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
12506632 TT
1 TT
12506634 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:12515194 original size:207 final size:206
Alignment explanation
Indices: 12514698--12515247 Score: 768
Period size: 205 Copynumber: 2.7 Consensus size: 206
12514688 CAGATCTGGC
**
12514698 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGATGTAGCTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
12514763 ATTTGGCTTTCACGTGGTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *** * * **
12514828 GAACAAA-CGAAGTTTGGCGTCTCCATATTTGGTGGAGAGTAGACACATAGTAGATCTGGCCTTC
131 GAACAAATAGAAGTTTAGCGTCTCCATATTCGACAGAGAGAAGACACATAGCAGATCTCACCTTC
*
12514892 ATATGTTTATA
196 AGATGTTTATA
* * *
12514903 CTGAAGC-GGATCCAAGATGATTTGGCATCCTTGTGTTTACAATGAACAAATCGAA-ATCATAGC
1 -TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
*
12514966 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTTGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
12515031 GAGAACAAATAGAAGTTTAGCGTCTTCATATTCGACAGAGGGAAGACACATAGCAGATCTCACCT
129 GAGAACAAATAGAAGTTTAGCGTCTCCATATTCGACAGAGAGAAGACACATAGCAGATCTCACCT
12515096 TCAGATGATTTCAT-
194 TCAGATG-TTT-ATA
* *
12515110 TGAAGCAAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * * *
12515175 ATTTGGTTTTCGA-GTGCTTACGCTAAAGCAAATCTAAGATGATTTGGAATCTCTGTATTATCAG
66 ATTTGGCTTTC-ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
12515239 AGAACAAAT
130 AGAACAAAT
12515248 CAAAGAAGCA
Statistics
Matches: 305, Mismatches: 32, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
204 1 0.00
205 120 0.39
206 61 0.20
207 119 0.39
208 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (206 bp):
TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATAGAAGTTTAGCGTCTCCATATTCGACAGAGAGAAGACACATAGCAGATCTCACCTTC
AGATGTTTATA
Found at i:12517126 original size:43 final size:42
Alignment explanation
Indices: 12517079--12517220 Score: 107
Period size: 40 Copynumber: 3.3 Consensus size: 42
12517069 TATATCTTTG
12517079 TATTATATATTATAATTATATTATTATATATTATTTATATTAT
1 TATTATATATTATAATTATATTATTATATATTATTTATA-TAT
* * * *
12517122 TATTATTTACTATATATTATTTTCACAAATTA-ATATTATTT-TACAT
1 TATTATATATTATA-ATTATATT-----ATTATATATTATTTATATAT
* *
12517168 TATTATTTA-TATAA-TATTATTA-TATTGTATTATTTATATA-
1 TATTATATATTATAATTA-TATTATTA-TATATTATTTATATAT
12517208 TATTATATATTAT
1 TATTATATATTAT
12517221 TTTTACATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 24
0.71 0.07 0.21
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 16 0.20
41 6 0.08
43 14 0.17
44 11 0.14
45 4 0.05
46 11 0.14
47 2 0.03
48 9 0.11
49 4 0.05
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (42 bp):
TATTATATATTATAATTATATTATTATATATTATTTATATAT
Found at i:12517135 original size:27 final size:27
Alignment explanation
Indices: 12517088--12517213 Score: 77
Period size: 27 Copynumber: 4.6 Consensus size: 27
12517078 GTATTATATA
12517088 TTATAATT-ATATTA-TTA-TATATTAT
1 TTAT-ATTAATATTATTTACTATATTAT
*
12517113 TTATATTATTATTATTTACTATATATTATT
1 TTATATTAATATTATTTAC--TATATTA-T
*
12517143 TTCACAAATTAATATTATTTTAC-ATTATTAT
1 TT---ATATTAATATTA-TTTACTA-TATTAT
* *
12517174 TTATA-TAATATTATTATATTGTATTAT
1 TTATATTAATATTATT-TACTATATTAT
12517201 TTATA-T-ATATTAT
1 TTATATTAATATTAT
12517214 ATATTATTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
24 3 0.04
25 9 0.11
26 12 0.15
27 22 0.27
28 2 0.02
29 7 0.09
30 3 0.04
31 4 0.05
32 5 0.06
33 10 0.12
34 5 0.06
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (27 bp):
TTATATTAATATTATTTACTATATTAT
Found at i:12517140 original size:36 final size:35
Alignment explanation
Indices: 12517065--12517222 Score: 103
Period size: 36 Copynumber: 4.4 Consensus size: 35
12517055 TCGCGTAATG
* *
12517065 ATTATATA-TCTTTGTATTATATATTATAATTATAT-T
1 ATTATATATTATTTATATTAT-TATTAT--TTATATAT
12517101 ATTATATATTATTTATATTATTATTATTTACTATAT
1 ATTATATATTATTTATATTATTATTATTTA-TATAT
* ** * *
12517137 ATTATTTTCACAAATTAATATTATT-TTACATTAT-TAT
1 ATTA-TAT-A-TTATTTATATTATTATTA-TTTATATAT
* *
12517174 -TTATATAATATTATTATATT-GTATTATTTATATAT
1 ATTATATATTA-T-TTATATTATTATTATTTATATAT
12517209 ATTATATATTATTT
1 ATTATATATTATTT
12517223 TTACATATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
33 2 0.02
34 12 0.12
35 18 0.19
36 31 0.32
37 15 0.15
38 5 0.05
39 14 0.14
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (35 bp):
ATTATATATTATTTATATTATTATTATTTATATAT
Found at i:12517161 original size:3 final size:3
Alignment explanation
Indices: 12517079--12517142 Score: 51
Period size: 3 Copynumber: 20.3 Consensus size: 3
12517069 TATATCTTTG
*
12517079 TAT TAT ATAT TAT AAT TA- TAT TAT TAT ATAT TAT T-T ATAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT
*
12517125 TATT TAC TAT ATAT TAT T
1 TA-T TAT TAT -TAT TAT T
12517143 TTCACAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
2 3 0.06
3 34 0.68
4 13 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:12517190 original size:13 final size:13
Alignment explanation
Indices: 12517152--12517221 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 13
12517142 TTTCACAAAT
*
12517152 TAATATTATTTTA
1 TAATATTATTATA
* *
12517165 CATTATTATTTATA
1 TAATATTA-TTATA
12517179 TAATATTATTATA
1 TAATATTATTATA
**
12517192 TTGTATTATT-TA
1 TAATATTATTATA
12517204 T-ATA-TATTATA
1 TAATATTATTATA
*
12517215 TATTATT
1 TAATATT
12517222 TTTACATATA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 4 0.09
11 5 0.11
12 5 0.11
13 20 0.45
14 10 0.23
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:12517251 original size:79 final size:75
Alignment explanation
Indices: 12517084--12517269 Score: 175
Period size: 79 Copynumber: 2.4 Consensus size: 75
12517074 CTTTGTATTA
12517084 TATATTATA-ATTATATTATTATATATTATTTATATTATTATTATTTACTATATATTATTTTCAC
1 TATATTATATATTATATTATTATATATTATTTATATTATTATTATTTACTATATATTATTTTCAC
12517148 AAATTAATAT
66 AAATTAATAT
* * *
12517158 TATTTTACATTATTAT-TTA-TATAATATTA-TTATATTGTATTATTTATATATATTATATATTA
1 TATATTATA-TATTATATTATTAT-ATATTATTTATA-T-TATTA-TTAT-T-TACTATATATTA
* * *
12517220 TTTTTACATATATACT-T
59 TTTTCACAAAT-TAATAT
* *
12517237 TCATATTATATATTATAATTATTTTAAATTATT
1 T-ATATTATATATTAT-ATTATTATATATTATT
12517270 ATGTCATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
74 15 0.17
75 10 0.11
76 10 0.11
77 4 0.05
78 1 0.01
79 28 0.32
80 9 0.10
81 8 0.09
82 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (75 bp):
TATATTATATATTATATTATTATATATTATTTATATTATTATTATTTACTATATATTATTTTCAC
AAATTAATAT
Found at i:12517269 original size:48 final size:49
Alignment explanation
Indices: 12517085--12517271 Score: 126
Period size: 50 Copynumber: 3.9 Consensus size: 49
12517075 TTTGTATTAT
*
12517085 ATATTAT-A-ATTATATTATTATATATTATTTATATTATTATTATTTAC-TA
1 ATATTATCATATTATATTATT-TATATTATTT-TA-AATTATTATTTACATA
* * * * *
12517134 TATATTAT--T-TTCACA-AATTAATATTATTTTACATTATTATTTATATA
1 -ATATTATCATATT-ATATTATTTATATTATTTTAAATTATTATTTACATA
* * * *
12517181 ATATTATTATATTGTATTATTTATATATATTATATATTATT-TTTACATA
1 ATATTATCATATTATATTATTTATAT-TATTTTAAATTATTATTTACATA
12517230 TATACTT-TCATATTATA-TA-TTATAATTATTTTAAATTATTAT
1 -ATA-TTATCATATTATATTATTTAT-ATTATTTTAAATTATTAT
12517272 GTCATTTTTC
Statistics
Matches: 109, Mismatches: 16, Indels: 25
0.73 0.11 0.17
Matches are distributed among these distances:
46 18 0.17
47 4 0.04
48 27 0.25
49 26 0.24
50 32 0.29
51 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (49 bp):
ATATTATCATATTATATTATTTATATTATTTTAAATTATTATTTACATA
Found at i:12517590 original size:19 final size:18
Alignment explanation
Indices: 12517568--12517610 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
12517558 AAAATCATTA
*
12517568 TATTTTTGTTTTATATAAT
1 TATTTTTCTTTTATA-AAT
*
12517587 TATTATTCTTTTATAAAT
1 TATTTTTCTTTTATAAAT
12517605 T-TTTTT
1 TATTTTT
12517611 ATATATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 13 0.62
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTTTTCTTTTATAAAT
Found at i:12524798 original size:18 final size:19
Alignment explanation
Indices: 12524761--12524798 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12524751 ACAATATCCC
*
12524761 ATTATCTTTCCATTAAGCT
1 ATTATCTTTCCATGAAGCT
*
12524780 ATTATGTTTCC-TGAAGCT
1 ATTATCTTTCCATGAAGCT
12524798 A
1 A
12524799 AGATGTGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (19 bp):
ATTATCTTTCCATGAAGCT
Found at i:12537344 original size:26 final size:26
Alignment explanation
Indices: 12537308--12537365 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
12537298 CATGAAATTC
12537308 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
12537334 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12537360 TTATCA
1 TTATCA
12537366 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12544046 original size:40 final size:40
Alignment explanation
Indices: 12543845--12544038 Score: 318
Period size: 40 Copynumber: 4.9 Consensus size: 40
12543835 ATTCGGATTG
12543845 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
12543884 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
12543924 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
12543964 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
12544004 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
12544039 AAGCTATATC
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.09
40 130 0.91
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:12544046 original size:80 final size:80
Alignment explanation
Indices: 12543845--12544065 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 80
12543835 ATTCGGATTG
*
12543845 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
12543909 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
12543924 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
12543989 ATTGTGTGAGTTACT
66 ATTGTGCGAGTTACT
* * **
12544004 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
12544066 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 28 0.22
80 99 0.78
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:12556476 original size:65 final size:65
Alignment explanation
Indices: 12556395--12556519 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
12556385 CATATAATAA
*
12556395 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATAAAGTAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAAGTAT
* * * * *
12556460 CACATTTAGTTGGGAGCATTTGATTTATTTCAATCATAGCATCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAA
12556520 GCATAGATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAAGTAT
Found at i:12556865 original size:133 final size:133
Alignment explanation
Indices: 12556624--12556889 Score: 415
Period size: 133 Copynumber: 2.0 Consensus size: 133
12556614 GGGGCAACAA
*
12556624 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAGACAGCGGATCTAG
1 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAAACAGCGGATCTAG
* ** * *
12556689 GCTTCCTGATATTGCAGTGAAGCGGATTTAAGCCACCATCCTAGCTCTCTAAAATTGTAGTGGAG
66 GCTTCCTGATATTGCAGCGAAGCAAATTTAAGCCACCACCCTAGCTCCCTAAAATTGTAGTGGAG
12556754 TAG
131 TAG
* **
12556757 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAAATGGCGGATCTAG
1 GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAAACAGCGGATCTAG
* * * *
12556822 GTTTCCTGATGTTGCAGCGAAGCAAATTTAAGTCACCACCCTAGCTCCCTAAAGTTGTAGTGGAG
66 GCTTCCTGATATTGCAGCGAAGCAAATTTAAGCCACCACCCTAGCTCCCTAAAATTGTAGTGGAG
12556887 TAG
131 TAG
12556890 ACCCAAGATT
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 120 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (133 bp):
GTTGAAGATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAACAGATCGAAAACAGCGGATCTAG
GCTTCCTGATATTGCAGCGAAGCAAATTTAAGCCACCACCCTAGCTCCCTAAAATTGTAGTGGAG
TAG
Found at i:12556973 original size:44 final size:44
Alignment explanation
Indices: 12556923--12557057 Score: 142
Period size: 44 Copynumber: 3.2 Consensus size: 44
12556913 CCAGTGGAGT
*
12556923 AGATCAAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
1 AGATCGAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
* * **
12556967 AGATC------AA-AGATTTGGC-ATATCTGTAGCTGCAAAGAGC
1 AGATCGAAGATAACAGATTTGGCGA-CTCTGTAGCGGCGGAGAGC
* *
12557004 AGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGC
1 AGATCGAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
12557048 AGATCGAAGA
1 AGATCGAAGA
12557058 CGGTGAATCT
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
36 1 0.01
37 29 0.40
38 2 0.03
43 2 0.03
44 38 0.53
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGC
Found at i:12560366 original size:132 final size:131
Alignment explanation
Indices: 12560114--12560366 Score: 302
Period size: 132 Copynumber: 1.9 Consensus size: 131
12560104 AAAGGTGATA
* *
12560114 TTCGATATTTGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCA
1 TTCGATATTCGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTGGCTCA
* * *
12560179 AAACAATCAAATGTCCCTCTGGAATTCCATTCATGTATTCTAAAAACTATTTAAAATGAAAGTAA
66 AAACAATCAAATCTCCCTCTAGAATTCCACTCATGTATTCTAAAAAC-ATTTAAAATGAAAGTAA
12560244 TG
130 TG
* * *
12560246 TTCGATGTTCGACAATTC-AGAGAATCGTGCCCTATCGTGCTGGGTTGCAATTTC-CTGTTGGTT
1 TTCGATATTCGACAATTCGAG-GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTC-GTTGGCT
* *
12560309 CAAAATAATCGAACA-CTCCCTTTAGAATTTCC-CTCATGT-TTCTTAAAAA-ATTCTAAAA
64 CAAAACAATC-AA-ATCTCCCTCTAGAA-TTCCACTCATGTATTC-TAAAAACATT-TAAAA
12560367 AATAGATAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
131 6 0.06
132 70 0.67
133 23 0.22
134 5 0.05
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (131 bp):
TTCGATATTCGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTGGCTCA
AAACAATCAAATCTCCCTCTAGAATTCCACTCATGTATTCTAAAAACATTTAAAATGAAAGTAAT
G
Found at i:12560383 original size:132 final size:129
Alignment explanation
Indices: 12560096--12560439 Score: 299
Period size: 132 Copynumber: 2.6 Consensus size: 129
12560086 TTAAGAATTC
* * * * *
12560096 TTTAAAACAAAGGTGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTG
1 TTTAAAAGAAA-GTAATACTCGATGTTAGACAATTCGA-GAATCGTGCCCTAACGTGCTGGGTTG
* * * *
12560161 CAATTTCTCGTTTGCTCAAAACAATCAAATGTCCCTCTGGAATTCCATTCATGTATTCTAAAAAC
64 CAATTTCTCGTTGGCTCAAAACAATCAAATCTCCCTCTAGAATTCCACTCATGTATTCTAAAAAC
12560226 TA
129 -A
** * *
12560228 TTTAAAATGAAAGTAATGTTCGATGTTCGACAATTCAGAGAATCGTGCCCTATCGTGCTGGGTTG
1 TTTAAAA-GAAAGTAATACTCGATGTTAGACAATTC-GAGAATCGTGCCCTAACGTGCTGGGTTG
* * *
12560293 CAATTTC-CTGTTGGTTCAAAATAATCGAACA-CTCCCTTTAGAATTTCC-CTCATGT-TTCTTA
64 CAATTTCTC-GTTGGCTCAAAACAATC-AA-ATCTCCCTCTAGAA-TTCCACTCATGTATTC-TA
12560354 AAAA-A
124 AAAACA
* *
12560359 TTCTAAAA-AATAGATAATACTCGATGTTTAGA-AATTCGAAGAACCGTGCCCT-ACTGTGTTGG
1 TT-TAAAAGAA-AG-TAATACTCGATG-TTAGACAATTCG-AGAATCGTGCCCTAAC-GTGCTGG
* *
12560421 GTTTCGATTCTCTCGTTGG
60 GTTGCAATT-TCTCGTTGG
12560440 ACTAAATAAT
Statistics
Matches: 176, Mismatches: 21, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
130 2 0.01
131 8 0.05
132 121 0.69
133 39 0.22
134 6 0.03
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (129 bp):
TTTAAAAGAAAGTAATACTCGATGTTAGACAATTCGAGAATCGTGCCCTAACGTGCTGGGTTGCA
ATTTCTCGTTGGCTCAAAACAATCAAATCTCCCTCTAGAATTCCACTCATGTATTCTAAAAACA
Found at i:12561704 original size:6 final size:6
Alignment explanation
Indices: 12561674--12561714 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
12561664 GGGAAAACAA
* * *
12561674 GCATAG GCCTAG GCATAA GCGTAG GCATAG GCATAG GCATA
1 GCATAG GCATAG GCATAG GCATAG GCATAG GCATAG GCATA
12561715 AGGAGATGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.17
Consensus pattern (6 bp):
GCATAG
Found at i:12564096 original size:18 final size:17
Alignment explanation
Indices: 12564073--12564115 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
12564063 ATAATTATAT
12564073 ATTTTAATGA-TATAATAA
1 ATTTTAAT-ATTATAAT-A
12564091 ATTTTAATATTTATAATA
1 ATTTTAATA-TTATAATA
12564109 ATTTTAA
1 ATTTTAA
12564116 ATCTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAATATTATAATA
Found at i:12564497 original size:157 final size:156
Alignment explanation
Indices: 12564288--12564746 Score: 610
Period size: 156 Copynumber: 3.0 Consensus size: 156
12564278 TCTAACTCCA
* *
12564288 ATGTGCTACTATCCACTCCCGCATATGTAATATATG-AAGGTCAAATTAAGTTTTAATTAAGAAT
1 ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAG-AT
* *
12564352 TTTTTATTATTAAGATTATATAATTTATTATTTATTATAAAATATGATCTTATTA-AAACAT-AA
65 TTTTT-TTATTAAGATTATATAAATTATTAATTATTATAAAATATGATCTTATTATAAA-ATAAA
* * *
12564415 TTTCGGTTGCCGCAGTGAAATAATTCTAT
128 TTTCGATTGCCGCAATGAAATAATTCGAT
* **
12564444 ATGTGCTACTATCCACTCTCACATATGAAACGTATGTAAGGTCAAATTAAGTTTTAATTAAGATT
1 ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGATT
*
12564509 TTTTGTTATTAAGATTATATAAAATGA-TAATTATTATAAAATATGATCTTATTATAAAATAAAT
66 TTTT-TTATTAAGATTATAT-AAATTATTAATTATTATAAAATATGATCTTATTATAAAATAAAT
* *
12564573 TTCGATTGTCGCAATGAAATACTTCGAT
129 TTCGATTGCCGCAATGAAATAATTCGAT
* * * *
12564601 ATGTGCTACTATCCA--CTCACATATGTAATATATGTAAGGTCAAATTTAGCTTCAATTAATATT
1 ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGATT
* *
12564664 GTTTTTATTAAGTTTATATAAGA-TATTAATTATTATAAAA-ATGATCTTATTATAAAATAAATT
66 TTTTTTATTAAGATTATATAA-ATTATTAATTATTATAAAATATGATCTTATTATAAAATAAATT
* * *
12564727 TCAATTTCCACAATGAAATA
130 TCGATTGCCGCAATGAAATA
12564747 CTTTTATAAT
Statistics
Matches: 269, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
153 42 0.16
154 29 0.11
155 44 0.16
156 81 0.30
157 73 0.27
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (156 bp):
ATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGATT
TTTTTTATTAAGATTATATAAATTATTAATTATTATAAAATATGATCTTATTATAAAATAAATTT
CGATTGCCGCAATGAAATAATTCGAT
Found at i:12564546 original size:19 final size:18
Alignment explanation
Indices: 12564522--12564569 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
12564512 TGTTATTAAG
12564522 ATTATATAAA-ATGATAATT
1 ATTATA-AAATATGAT-ATT
*
12564541 ATTATAAAATATGATCTT
1 ATTATAAAATATGATATT
12564559 ATTATAAAATA
1 ATTATAAAATA
12564570 AATTTCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTATAAAATATGATATT
Found at i:12565812 original size:18 final size:18
Alignment explanation
Indices: 12565772--12565814 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12565762 GGGAAAACAA
* * *
12565772 GCATAGGCATATGCATAT
1 GCATAAGCATAAGCATAG
*
12565790 TCATAAGCATAAGCATAG
1 GCATAAGCATAAGCATAG
12565808 GCATAAG
1 GCATAAG
12565815 GAGATGACAC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (18 bp):
GCATAAGCATAAGCATAG
Found at i:12572756 original size:13 final size:13
Alignment explanation
Indices: 12572738--12572768 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
12572728 AATTATAGAG
12572738 ATTGAATGTCAAA
1 ATTGAATGTCAAA
12572751 ATTGAATGTCAAA
1 ATTGAATGTCAAA
12572764 ATTGA
1 ATTGA
12572769 GTATAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (13 bp):
ATTGAATGTCAAA
Found at i:12574487 original size:14 final size:14
Alignment explanation
Indices: 12574468--12574497 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12574458 GTGTTTAAGG
12574468 TTTAGGGATCAAGA
1 TTTAGGGATCAAGA
*
12574482 TTTAGGGTTCAAGA
1 TTTAGGGATCAAGA
12574496 TT
1 TT
12574498 CAGAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (14 bp):
TTTAGGGATCAAGA
Found at i:12577098 original size:28 final size:28
Alignment explanation
Indices: 12577066--12577121 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12577056 ATACCTAAGT
12577066 ATGTATCAAAACAAAATGCAAAAACATG
1 ATGTATCAAAACAAAATGCAAAAACATG
*
12577094 ATGTATCAAAGCAAAATGCAAAAACATG
1 ATGTATCAAAACAAAATGCAAAAACATG
12577122 TCAACTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.18
Consensus pattern (28 bp):
ATGTATCAAAACAAAATGCAAAAACATG
Found at i:12589727 original size:16 final size:18
Alignment explanation
Indices: 12589701--12589737 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12589691 AAAATCAACC
*
12589701 TTTTTATCTTTCTTTC-T
1 TTTTTATCTTTATTTCAT
12589718 TTTTTA-CTTTATTTCAT
1 TTTTTATCTTTATTTCAT
12589735 TTT
1 TTT
12589738 AATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATCTTTATTTCAT
Found at i:12593462 original size:27 final size:27
Alignment explanation
Indices: 12593431--12593496 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
12593421 CGAACTATCC
*
12593431 CGTGTTTAATGTC-CTATTAGACCATCAT
1 CGTGTTTAATGTCTC-ATTAAACCATC-T
*
12593459 -GTGTTTAATGTCTCATTAAACTATCT
1 CGTGTTTAATGTCTCATTAAACCATCT
12593485 CGTGTTTAATGT
1 CGTGTTTAATGT
12593497 TCTGTCAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (27 bp):
CGTGTTTAATGTCTCATTAAACCATCT
Found at i:12593659 original size:45 final size:43
Alignment explanation
Indices: 12593610--12593715 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 43
12593600 TATTTCAATC
* ** *
12593610 ATGGTTTTACTCATTTACGTCATGACACCATAGCATCTTTTAGCA
1 ATGGTCTTACTCATTTA--TCATGACACCATAGCATCTCATAACA
* *
12593655 ATGGTCTTACTCATCCTTATCATGACGCCATAGCATCTCATAACT
1 ATGGTCTTACTCAT--TTATCATGACACCATAGCATCTCATAACA
12593700 ATGGTCTTACTCATTT
1 ATGGTCTTACTCATTT
12593716 TCGGCACATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.04
45 48 0.91
47 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (43 bp):
ATGGTCTTACTCATTTATCATGACACCATAGCATCTCATAACA
Found at i:12595052 original size:17 final size:17
Alignment explanation
Indices: 12594993--12595052 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
12594983 CAATAAATTT
12594993 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
12595012 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
12595026 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
12595044 AAAATATAA
1 AAAATATAA
12595053 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:12595573 original size:18 final size:18
Alignment explanation
Indices: 12595537--12595680 Score: 211
Period size: 18 Copynumber: 7.9 Consensus size: 18
12595527 AATCATATCT
*
12595537 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
12595556 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
12595574 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
12595591 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
12595609 TCTAAGATTACAATCATA
1 TCTAAGATTGCAATCATA
*
12595627 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
12595644 TCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
12595663 TCTAAGATTGCAGATCAT
1 TCTAAGATTGCA-ATCAT
12595681 TGAAGATTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.28
18 48 0.42
19 34 0.30
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:12595595 original size:35 final size:36
Alignment explanation
Indices: 12595537--12595680 Score: 213
Period size: 35 Copynumber: 4.0 Consensus size: 36
12595527 AATCATATCT
12595537 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
12595574 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
* *
12595609 TCTAAGATT-ACAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGA-TATCATATCTAAGATTGCAATCATA
12595644 TCTAAGATTGCATATCATATCTAAGATTGCAGATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
12595681 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
35 49 0.51
36 32 0.33
37 11 0.11
38 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:12595688 original size:53 final size:54
Alignment explanation
Indices: 12595537--12595680 Score: 254
Period size: 53 Copynumber: 2.7 Consensus size: 54
12595527 AATCATATCT
*
12595537 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
12595591 TCTAAGATTGCA-ATCATATCTAAGATTACAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
12595644 TCTAAGATTGCATATCATATCTAAGATTGCAGATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
12595681 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 52 0.61
54 28 0.33
55 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:12598233 original size:18 final size:18
Alignment explanation
Indices: 12598204--12598311 Score: 173
Period size: 18 Copynumber: 5.9 Consensus size: 18
12598194 ATAATTTTCA
12598204 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
12598223 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
12598241 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
12598259 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
12598276 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
12598294 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
12598312 AGATATGATT
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
17 16 0.19
18 52 0.62
19 16 0.19
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:12598276 original size:35 final size:35
Alignment explanation
Indices: 12598204--12598311 Score: 171
Period size: 35 Copynumber: 3.0 Consensus size: 35
12598194 ATAATTTTCA
*
12598204 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGA-TACAATCTTAGAT
12598241 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
12598276 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
12598312 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
35 33 0.49
36 17 0.25
37 18 0.26
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:12598670 original size:7 final size:7
Alignment explanation
Indices: 12598653--12598758 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
12598643 AAATTTGTAA
12598653 ATTAT-T
1 ATTATAT
12598659 ATTATAT
1 ATTATAT
12598666 ATTATAT
1 ATTATAT
12598673 -TT-TA-
1 ATTATAT
12598677 ACTTATAT
1 A-TTATAT
12598685 ATCTTATAT
1 A--TTATAT
*
12598694 ATTTATTT
1 A-TTATAT
12598702 ATT-TAT
1 ATTATAT
*
12598708 ATTATAC
1 ATTATAT
12598715 ATTAT-T
1 ATTATAT
*
12598721 -TTA-AA
1 ATTATAT
*
12598726 ACTTACAT
1 A-TTATAT
*
12598734 -TTTTAT
1 ATTATAT
12598740 ATTATAT
1 ATTATAT
*
12598747 ATTATAA
1 ATTATAT
12598754 ATTAT
1 ATTAT
12598759 TTCATTTATT
Statistics
Matches: 77, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 38 0.49
8 8 0.10
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:12598703 original size:21 final size:21
Alignment explanation
Indices: 12598661--12598794 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
12598651 AAATTATTAT
*
12598661 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
12598682 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
12598703 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * *
12598722 TA-AAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
12598742 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
12598763 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
12598779 TATACTATCATATATT
1 TATA-TATTATATATT
12598795 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 17, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 4 0.05
19 22 0.26
20 20 0.24
21 29 0.35
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:12600443 original size:45 final size:45
Alignment explanation
Indices: 12600335--12600518 Score: 205
Period size: 43 Copynumber: 4.2 Consensus size: 45
12600325 GGAAGAATTT
* * * * *
12600335 GTGGCTTCATCCACAACTTATATGGCAGCTTATCTAC-AAAATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* *
12600379 GTGG-TTTATCCACAACCTACATGGTAGCTTGTCTGCGAATATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* * * *
12600423 GTGGCTTCATCCCCAACCTACATGGAAGCTTGTTTGCGAAT-TTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
* * * *
12600467 GTGGATT-ATCCACAACCTACATGGTAGCTCATTTGCAAATATTG
1 GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
12600511 GTGGCTTC
1 GTGGCTTC
12600519 GACCACATAT
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
43 54 0.46
44 32 0.27
45 32 0.27
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
GTGGCTTCATCCACAACCTACATGGTAGCTTATCTGCGAATATTG
Found at i:12600484 original size:88 final size:88
Alignment explanation
Indices: 12600335--12600518 Score: 242
Period size: 88 Copynumber: 2.1 Consensus size: 88
12600325 GGAAGAATTT
* * * *
12600335 GTGGCTTCATCCACAACTTATATGGCAGCTTATCTACAAAATTGGTGGTTTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
** *
12600400 TGGTAGCTTGTCTGCGAATATTG
66 TGGTAGCTCATCTGCAAATATTG
* * * * * *
12600423 GTGGCTTCATCCCCAACCTACATGGAAGCTTGTTTGCGAATTTGGTGGATTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
*
12600488 TGGTAGCTCATTTGCAAATATTG
66 TGGTAGCTCATCTGCAAATATTG
12600511 GTGGCTTC
1 GTGGCTTC
12600519 GACCACATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (88 bp):
GTGGCTTCATCCACAACCTACATGGAAGCTTATCTACAAAATTGGTGGATTATCCACAACCTACA
TGGTAGCTCATCTGCAAATATTG
Found at i:12605300 original size:26 final size:26
Alignment explanation
Indices: 12605264--12605319 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
12605254 TGAAATTCCA
12605264 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12605290 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12605316 ATCA
1 ATCA
12605320 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12611992 original size:25 final size:26
Alignment explanation
Indices: 12611938--12611996 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
12611928 AATTTCTAAA
12611938 ATTAAAT-TGAATAATTAATAATACT
1 ATTAAATATGAATAATTAATAATACT
12611963 ATTAAATAT-AATAATTAATAAATA-T
1 ATTAAATATGAATAATTAAT-AATACT
*
12611988 TTTAAATAT
1 ATTAAATAT
12611997 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTAAATATGAATAATTAATAATACT
Found at i:12613493 original size:17 final size:17
Alignment explanation
Indices: 12613471--12613510 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12613461 GTAATATATA
* *
12613471 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
12613488 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
12613505 AAAATA
1 AAAATA
12613511 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:12615568 original size:44 final size:44
Alignment explanation
Indices: 12615501--12615655 Score: 220
Period size: 44 Copynumber: 3.5 Consensus size: 44
12615491 CTCGACCCGT
* * * *
12615501 TCTCTGTCCATACAGAGATGCCAAATCTGCAATCTTCGATCTGC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
* * *
12615545 TCTCTAACCATACAGAGACGCCAAATCTGCTATCTTCGATCTAC
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
* * *
12615589 TCTTTGACAATACAGAGACGCCAAATCTGCTATCTTCTATCTGT
1 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
12615633 TCTCTGACAATACAGAGACGCCA
1 TCTCTGACAATACAGAGACGCCA
12615656 GGTCATCTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 99 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (44 bp):
TCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
Found at i:12615733 original size:88 final size:88
Alignment explanation
Indices: 12615608--12616274 Score: 1027
Period size: 88 Copynumber: 7.6 Consensus size: 88
12615598 ATACAGAGAC
* * * * * **
12615608 GCCAAATCTGCTA--TCTTCTATCTGTTCTCTGAC-AATACAGAGACGCCAGGTCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
12615670 TGCTTCAACGTAAACATGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* * * *
12615693 GTCAAATCAGCTATGTCTTCAACCTGCTCCCTGTCGAATACAGAGACACCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
12615758 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
*
12615781 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCAAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
12615846 TTCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
*
12615869 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
12615934 TGCTTCAATGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
12615957 GCCAAATCAGCTATGTCTTCGATTTTCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
* *
12616022 TGCTTCAACATAAACACGCGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
12616045 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGGCGAATACAGAGACGCCAAATTATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
12616110 TGCTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* ** * * *
12616133 GCCAAATCAGCTATGTTTTTTATTTGCTCCCTGGCAAATACAGAGACGCCAAATCATCTTAGATT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
*
12616198 TGTTTCAACGTAAACACGTGAAA
66 TGCTTCAACGTAAACACGTGAAA
* *
12616221 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATC
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATC
12616275 TGTTTCTTCA
Statistics
Matches: 535, Mismatches: 44, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
85 11 0.02
87 34 0.06
88 490 0.92
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (88 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGACGCCAAATCATCTTAGATT
TGCTTCAACGTAAACACGTGAAA
Found at i:12615923 original size:47 final size:46
Alignment explanation
Indices: 12615781--12616318 Score: 153
Period size: 47 Copynumber: 12.2 Consensus size: 46
12615771 ACACGTGAAA
*
12615781 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGTCAAATACAGAGAC
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTC-AATACAGAGAC
* * * * *
12615828 GCCAAAT---C-A--TCTTAGATTTTCTTCAAC-GT-AA-ACACGTGAAA
1 GCCAAATCAGCTATGTCTTCGATTTGC-TC-CCTGTCAATACA-GAG-AC
12615869 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCGAATACAGAGAC
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTC-AATACAGAGAC
* ** * *
12615916 GCCAAAT---C-A--TCTTAGATTTGCTTCAATGT-AA-ACACGTGAAA
1 GCCAAATCAGCTATGTCTTCGATTTGC-TCCCTGTCAATACA-GAG-AC
*
12615957 GCCAAATCAGCTATGTCTTCGATTTTCTCCCTGTCGAATACAGAGAC
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTC-AATACAGAGAC
* * * * *
12616004 GCCAAAT---C-A--TCTTAGATTTGCTTCAAC-AT-AA-ACACGCGAAA
1 GCCAAATCAGCTATGTCTTCGATTTGC-TC-CCTGTCAATACA-GAG-AC
* *
12616045 GCCAAATCAGCTATGTCTTCGATCTGCTCCCTGGCGAATACAGAGAC
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTC-AATACAGAGAC
* * * *
12616092 GCCAAAT----TA--TCTTAGATTTGCTTCAAC-GT-AA-ACACGTGAAA
1 GCCAAATCAGCTATGTCTTCGATTTGC-TC-CCTGTCAATACA-GAG-AC
* ** *
12616133 GCCAAATCAGCTATGTTTTTTATTTGCTCCCTGGCAAATACAGAGAC
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTC-AATACAGAGAC
* ** * *
12616180 GCCAAATCATCT-TAGAT-TT-G-TTT-C-AAC-GT-AA-ACACGTGAAA
1 GCCAAATCAGCTAT-G-TCTTCGATTTGCTCCCTGTCAATACA-GAG-AC
* * *
12616221 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCAATACAGAGAC
* * * * * *
12616267 GCCAAATCTG-T-T-TCTTCAATTTGTTCTCTGACAATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCAATACAGAGAC
*
12616310 GTCAAATCA
1 GCCAAATCA
12616319 TCTTGGATCT
Statistics
Matches: 355, Mismatches: 69, Indels: 138
0.63 0.12 0.25
Matches are distributed among these distances:
39 15 0.04
40 21 0.06
41 87 0.25
42 18 0.05
43 45 0.13
44 9 0.03
45 13 0.04
46 26 0.07
47 89 0.25
48 20 0.06
49 12 0.03
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (46 bp):
GCCAAATCAGCTATGTCTTCGATTTGCTCCCTGTCAATACAGAGAC
Found at i:12615961 original size:41 final size:41
Alignment explanation
Indices: 12615741--12615965 Score: 127
Period size: 41 Copynumber: 5.2 Consensus size: 41
12615731 TACAGAGACA
*
12615741 CCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
* * ** * * *
12615782 CCAAATCAGCTATGTCTTCGATCTGC-TCCCTGTCAAATAC-AGAGACG
1 CCAAAT---C-A--TCTTAGATTTGCTTCAATGT-AAACACGTGA-AAG
* *
12615829 CCAAATCATCTTAGATTTTCTTCAACGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
* ** * *
12615870 CCAAATCAGCTATGTCTTCGATTTGC-TCCCTGTCGAATACA-GAG-ACG
1 CCAAAT---C-A--TCTTAGATTTGCTTCAATGT--AA-ACACGTGAAAG
12615917 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
1 CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
12615958 CCAAATCA
1 CCAAATCA
12615966 GCTATGTCTT
Statistics
Matches: 133, Mismatches: 29, Indels: 44
0.65 0.14 0.21
Matches are distributed among these distances:
39 3 0.02
40 4 0.03
41 49 0.37
42 11 0.08
43 2 0.02
44 4 0.03
45 2 0.02
46 10 0.08
47 41 0.31
48 4 0.03
49 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (41 bp):
CCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAG
Found at i:12625086 original size:46 final size:45
Alignment explanation
Indices: 12625029--12625201 Score: 143
Period size: 46 Copynumber: 3.8 Consensus size: 45
12625019 TTGGGCATCC
*
12625029 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-GTCT
* *** * * *
12625075 GAACTCGTTGAGTTGCGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGAAGTCT
* * * * *
12625122 GAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAACGACT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-GTCT
* *
12625168 GAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12625202 GCAGGTTACA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 1 0.01
46 63 0.63
47 29 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAAGTCT
Found at i:12625181 original size:93 final size:93
Alignment explanation
Indices: 12625022--12625193 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
12625012 AGGATATTTG
* * *
12625022 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACGACTGAACTCGTTGAG
*
12625087 TTGCGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
12625115 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAACGACTGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACGACTGAACTCGTTGAG
*
12625180 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
12625194 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGACGCAAACGACTGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Done.