Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 182 of 216
Found at i:56905987 original size:11 final size:11
Alignment explanation
Indices: 56905968--56906009 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
56905958 CCGGAGTAGG
*
56905968 TTCATAAAAAA
1 TTCAAAAAAAA
56905979 TTCAAAAAAAA
1 TTCAAAAAAAA
*
56905990 -TCGAAAAAAA
1 TTCAAAAAAAA
56906000 TTCAAAAAAA
1 TTCAAAAAAA
56906010 TCGAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:56905988 original size:10 final size:10
Alignment explanation
Indices: 56905968--56906019 Score: 61
Period size: 10 Copynumber: 5.0 Consensus size: 10
56905958 CCGGAGTAGG
56905968 TTCATAAAAAA
1 TTCA-AAAAAA
56905979 TTCAAAAAAA
1 TTCAAAAAAA
*
56905989 ATCGAAAAAAA
1 TTC-AAAAAAA
56906000 TTCAAAAAAA
1 TTCAAAAAAA
56906010 -TCGAAAAAAA
1 TTC-AAAAAAA
56906020 GGAGACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.05
10 22 0.59
11 13 0.35
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (10 bp):
TTCAAAAAAA
Found at i:56905999 original size:21 final size:20
Alignment explanation
Indices: 56905973--56906019 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
56905963 GTAGGTTCAT
56905973 AAAAAATTCAAAAAAAATCGA
1 AAAAAATTC-AAAAAAATCGA
56905994 AAAAAATTCAAAAAAATCGA
1 AAAAAATTCAAAAAAATCGA
56906014 AAAAAA
1 AAAAAA
56906020 GGAGACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.13
Consensus pattern (20 bp):
AAAAAATTCAAAAAAATCGA
Found at i:56907455 original size:19 final size:18
Alignment explanation
Indices: 56907414--56907455 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
56907404 AGCTTTCAAC
56907414 AAAAAAAAAGAGATTATGG
1 AAAAAAAAAGAGATTAT-G
*
56907433 AAAAAGAAAGAGAATT-TG
1 AAAAAAAAAGAG-ATTATG
56907451 AAAAA
1 AAAAA
56907456 GCAACGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 12 0.57
20 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (18 bp):
AAAAAAAAAGAGATTATG
Found at i:56930131 original size:338 final size:337
Alignment explanation
Indices: 56929509--56930184 Score: 1138
Period size: 338 Copynumber: 2.0 Consensus size: 337
56929499 GGGCACAAAA
* *
56929509 TCCTAACAAGCATATGTTTGAAGACAGTAGTTTACATTCAATTTTGGAAAGATTATTGATTTCAT
1 TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTCAATTTTGAAAAGATTATTGATTTCAT
56929574 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTATGAGATTACCAAGTAGCTCAC
66 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTATGAGATTACCAAGTAGCTCAC
* *
56929639 TATTAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCATCACTAACTT
131 TATGAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCACCACTAACTT
*
56929704 ATGCTACTTTACATGCAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAACC
196 ATGCTACTTTACATGAAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAACC
56929769 AAGAAAACGAGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGCTT
261 AAGAAAACGAGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGCTT
* *
56929834 GTCCTTGCCATT
326 GCCCTTACCATT
* *
56929846 TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTTAGTTTTGAAAAGATTATTGATTTCAT
1 TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTCAATTTTGAAAAGATTATTGATTTCAT
56929911 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTGATGAGATTACCAAGTAGCTCA
66 GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGT-ATGAGATTACCAAGTAGCTCA
* * * ** * * *
56929976 CTACTGA-AATTCCAGCAGCATGTACAAATGGGCAAGATTTCAAGGCTTTATATCTACCACTAGC
130 CTA-TGAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCACCACTAAC
*
56930040 TTATGCTACTTTACATGAAATTTCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAA
194 TTATGCTACTTTACATGAAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAA
* * *
56930105 CTAAGAAAACGGGATAGATTATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGC
259 CCAAGAAAACGAGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGC
56930170 TTGCCCTTACCATT
324 TTGCCCTTACCATT
56930184 T
1 T
56930185 ACATCCTTAA
Statistics
Matches: 316, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
337 104 0.33
338 210 0.66
339 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (337 bp):
TCCTAACAAGCATATGTTTGAAGACACTAGTTTACATTCAATTTTGAAAAGATTATTGATTTCAT
GAATCACTAGTGCATTGATAATGATGAGTTTGGTGAATCCTGTATGAGATTACCAAGTAGCTCAC
TATGAGAATTCAAGCAACATGTACAAATGGGAAAGATTTCAAAACTTTAAATCCACCACTAACTT
ATGCTACTTTACATGAAATTGCTACTGGAAATTGGTTTCCTAATAACCAAAGAAATGTGATAACC
AAGAAAACGAGATAGATGATATTCAATAAGATTGTGAAGCACACTAAGATAAACAATCTAAGCTT
GCCCTTACCATT
Found at i:56930671 original size:37 final size:37
Alignment explanation
Indices: 56930630--56930701 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
56930620 GATGTTTTTA
**
56930630 TTGATGAATCTTAGTTGAGCTTCTTATGTTGTTCTAT
1 TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCTAT
56930667 TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCT
1 TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCT
56930702 GTTTTTTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (37 bp):
TTGATGAATCTTAAATGAGCTTCTTATGTTGTTCTAT
Found at i:56935900 original size:3 final size:3
Alignment explanation
Indices: 56935892--56935931 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
56935882 AAATCTATTG
56935892 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
56935932 TAGTATGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:56939151 original size:30 final size:31
Alignment explanation
Indices: 56939107--56939169 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
56939097 TTGAAATTTG
* * *
56939107 AAAAGTATAGAAACTAAAATTAA-CCAATTA
1 AAAAATATAAAAACTAAAATTAATCAAATTA
56939137 AAAAATATAAAAACTAAAATTAATCAAATTA
1 AAAAATATAAAAACTAAAATTAATCAAATTA
56939168 AA
1 AA
56939170 GTATAAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (31 bp):
AAAAATATAAAAACTAAAATTAATCAAATTA
Found at i:56952235 original size:18 final size:19
Alignment explanation
Indices: 56952212--56952257 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
56952202 TTTAAAATTT
* *
56952212 TATAAATATTGTAA-AAAA
1 TATAAAAATTCTAATAAAA
56952230 TATAAAAATTCTAATAAAA
1 TATAAAAATTCTAATAAAA
*
56952249 TAAAAAAAT
1 TATAAAAAT
56952258 ATTTACAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TATAAAAATTCTAATAAAA
Found at i:56952277 original size:21 final size:21
Alignment explanation
Indices: 56952248--56952297 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
56952238 TTCTAATAAA
*
56952248 ATAAAAAAATATTTACAATTTT
1 ATAAAAAAA-ATTTAAAATTTT
56952270 ATAAAAAAAATTTAAAATTTT
1 ATAAAAAAAATTTAAAATTTT
56952291 ATAAAAA
1 ATAAAAA
56952298 CCATAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAAAAAATTTAAAATTTT
Found at i:56952306 original size:20 final size:21
Alignment explanation
Indices: 56952248--56952323 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
56952238 TTCTAATAAA
* *
56952248 ATAAAAAAATATTTACAATTTT
1 ATAAAAAAA-ATTAAAAATTTT
*
56952270 ATAAAAAAAATTTAAAATTTT
1 ATAAAAAAAATTAAAAATTTT
**
56952291 ATAAAAACCA-TAAAAA--TT
1 ATAAAAAAAATTAAAAATTTT
56952309 ATAAAAAAATATTAA
1 ATAAAAAAA-ATTAA
56952324 GATTAATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.20
19 1 0.02
20 8 0.17
21 19 0.41
22 9 0.20
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAAAAATTAAAAATTTT
Found at i:56952311 original size:39 final size:40
Alignment explanation
Indices: 56952268--56952356 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
56952258 ATTTACAATT
*
56952268 TTATAAAAAAAAT-TTAAAATTTTATAAAAAC-CATAAAAA
1 TTATAAAAAAAATATTAAAA-TTAATAAAAACTCATAAAAA
* * *
56952307 TTAT-AAAAAAATATTAAGATTAATATAAACTTATAAAAA
1 TTATAAAAAAAATATTAAAATTAATAAAAACTCATAAAAA
56952346 TTATAAAAAAA
1 TTATAAAAAAA
56952357 TCATAAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 17 0.40
39 20 0.47
40 6 0.14
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (40 bp):
TTATAAAAAAAATATTAAAATTAATAAAAACTCATAAAAA
Found at i:56952312 original size:9 final size:9
Alignment explanation
Indices: 56952275--56952354 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
56952265 ATTTTATAAA
56952275 AAAAATT-T
1 AAAAATTAT
*
56952283 AAAATTTTAT
1 AAAA-ATTAT
**
56952293 AAAAACCAT
1 AAAAATTAT
56952302 AAAAATTAT
1 AAAAATTAT
*
56952311 AAAAAAATAT
1 -AAAAATTAT
* *
56952321 TAAGATTAAT
1 AAAAATT-AT
*
56952331 ATAAACTTAT
1 A-AAAATTAT
56952341 AAAAATTAT
1 AAAAATTAT
56952350 AAAAA
1 AAAAA
56952355 AATCATAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
8 4 0.08
9 27 0.51
10 18 0.34
11 4 0.08
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:56952362 original size:20 final size:20
Alignment explanation
Indices: 56952283--56952365 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
56952273 AAAAAAATTT
* * *
56952283 AAAATTTTATAAAAACCATA
1 AAAATTATAAAAAAATCATA
*
56952303 AAAATTATAAAAAAAT-ATT
1 AAAATTATAAAAAAATCATA
* * * *
56952322 AAGATTA-ATATAAACTTATA
1 AAAATTATA-AAAAAATCATA
56952342 AAAATTATAAAAAAATCATA
1 AAAATTATAAAAAAATCATA
56952362 AAAA
1 AAAA
56952366 CTTAAACTAG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
18 1 0.02
19 13 0.27
20 33 0.69
21 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAATTATAAAAAAATCATA
Found at i:56957910 original size:42 final size:42
Alignment explanation
Indices: 56957817--56957971 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
56957807 TCATATTTAC
* * * **
56957817 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATTAG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
*
56957859 TTT-TCGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCT-GTTCAGCTCTCA-CGAGCTTCTGTTTAACCCTTATGGG
* * *
56957901 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
* *
56957943 TTTCTGTTTAGCTCTCATGAGCTTCTGTT
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTT
56957972 CAGCCTTCGG
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 92 0.96
43 2 0.02
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
Found at i:56957964 original size:84 final size:84
Alignment explanation
Indices: 56957817--56957971 Score: 197
Period size: 84 Copynumber: 1.8 Consensus size: 84
56957807 TCATATTTAC
* * * * *
56957817 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATTAGTTTTCGTTCAGCTCTATTGAGCT
1 TTTCTGTTCAGCTCTCACAAGCTTCTGTTCAACCCATATGAGTTTTCGTTCAGCTCTATTGAGCT
56957882 TCTGTTTAACCCTTATGGG
66 TCTGTTTAACCCTTATGGG
* * * *
56957901 TTTCTGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATG-GGTTTCTGTTTAGCTCTCA-TGAG
1 TTTCTGTTCAGCTCTCACAAGCTTCTGTTCAACCCATATGAGTTTTC-GTTCAGCTCT-ATTGAG
56957964 CTTCTGTT
64 CTTCTGTT
56957972 CAGCCTTCGG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 5 0.08
84 54 0.90
85 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (84 bp):
TTTCTGTTCAGCTCTCACAAGCTTCTGTTCAACCCATATGAGTTTTCGTTCAGCTCTATTGAGCT
TCTGTTTAACCCTTATGGG
Found at i:56957968 original size:21 final size:21
Alignment explanation
Indices: 56957818--56957971 Score: 96
Period size: 21 Copynumber: 7.3 Consensus size: 21
56957808 CATATTTACT
* *
56957818 TTCTGTTTAGCTCTCACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
56957839 TTCTGTTTAACTCATATTAG-
1 TTCTGTTTAGCTCTTATGAGC
* *
56957859 TTTTCGTTCAGCTC-TATTGAGC
1 TTCT-GTTTAGCTCTTA-TGAGC
* * * *
56957881 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
* **
56957902 TTCTGTTCAGCTCTTACAAGC
1 TTCTGTTTAGCTCTTATGAGC
* * * * *
56957923 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
*
56957944 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
56957965 TTCTGTT
1 TTCTGTT
56957972 CAGCCTTCGG
Statistics
Matches: 95, Mismatches: 34, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
20 5 0.05
21 85 0.89
22 5 0.05
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:56960151 original size:22 final size:21
Alignment explanation
Indices: 56960111--56960152 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56960101 CTAGCCTTAT
56960111 CTTTCTTCTTTCTTTCTTTCC
1 CTTTCTTCTTTCTTTCTTTCC
56960132 CTTT-TTCTTTTCTTTTCTTTC
1 CTTTCTTC-TTTC-TTTCTTTC
56960153 TGTTTCGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 8 0.42
22 8 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTCTTCTTTCTTTCTTTCC
Found at i:56960192 original size:21 final size:22
Alignment explanation
Indices: 56960110--56960192 Score: 57
Period size: 25 Copynumber: 3.7 Consensus size: 22
56960100 CCTAGCCTTA
*
56960110 TCTTTCTTCTT-TCTTTCTTTC
1 TCTTTCTTCTTATTTTTCTTTC
* *
56960131 CCTTT-TTCTTTTCTTTTCTTTC
1 TCTTTCTTCTTAT-TTTTCTTTC
*
56960153 TGTTTCGTT-TTAGCTTTTTTCTTTC
1 TCTTTC-TTCTTA---TTTTTCTTTC
56960178 TCTTT-TTCTTATTTT
1 TCTTTCTTCTTATTTT
56960193 GTTTTATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
20 5 0.10
21 9 0.19
22 11 0.23
23 4 0.08
24 5 0.10
25 13 0.27
26 1 0.02
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (22 bp):
TCTTTCTTCTTATTTTTCTTTC
Found at i:56960197 original size:34 final size:35
Alignment explanation
Indices: 56960133--56960198 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
56960123 TTTCTTTCCC
*
56960133 TTTTTCTTTTCTTTTCTTTCTGTTTCGTTTTAGCT
1 TTTTTCTTTTCTTTTCTTTATGTTTCGTTTTAGCT
56960168 TTTTTCTTTCTCTTTT-TCTTAT-TTT-GTTTTA
1 TTTTTCTTT-TCTTTTCT-TTATGTTTCGTTTTA
56960199 TTATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
34 6 0.21
35 13 0.46
36 9 0.32
ACGTcount: A:0.05, C:0.15, G:0.06, T:0.74
Consensus pattern (35 bp):
TTTTTCTTTTCTTTTCTTTATGTTTCGTTTTAGCT
Found at i:56962693 original size:24 final size:24
Alignment explanation
Indices: 56962666--56962717 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56962656 TTAGTAAGTC
*
56962666 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
56962690 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
56962714 AAAT
1 AAAT
56962718 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:56964661 original size:24 final size:24
Alignment explanation
Indices: 56964634--56964685 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56964624 TTAGTAAGTC
*
56964634 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
56964658 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
56964682 AAAT
1 AAAT
56964686 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:56965540 original size:9 final size:9
Alignment explanation
Indices: 56965518--56965616 Score: 83
Period size: 10 Copynumber: 10.6 Consensus size: 9
56965508 TTACTTTTAT
*
56965518 TAAAAATTA
1 TAAAAAATA
*
56965527 GAAAAAATA
1 TAAAAAATA
56965536 T-AAAAATCA
1 TAAAAAAT-A
*
56965545 TAAAAAAAA
1 TAAAAAATA
* *
56965554 TATAAAATTT
1 TA-AAAAATA
*
56965564 TATAAAATCA
1 TAAAAAAT-A
56965574 TAAAAAATA
1 TAAAAAATA
*
56965583 TATAAAATA
1 TAAAAAATA
56965592 TATAAAAATA
1 TA-AAAAATA
56965602 TAAAAAATTA
1 TAAAAAA-TA
56965612 TAAAA
1 TAAAA
56965617 TTTATTGTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
8 6 0.08
9 32 0.45
10 33 0.46
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:56965551 original size:29 final size:28
Alignment explanation
Indices: 56965519--56965616 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
56965509 TACTTTTATT
*
56965519 AAAAATTAGAAAAAATATAAAAATCATA
1 AAAAATTATAAAAAATATAAAAATCATA
* * *
56965547 AAAAA-AATATAAAATTTTATAAAATCATA
1 AAAAATTATA-AAAAATATA-AAAATCATA
*
56965576 AAAAATATATAAAATATATAAAAAT-ATA
1 AAAAAT-TATAAAAAATATAAAAATCATA
56965604 AAAAATTATAAAA
1 AAAAATTATAAAA
56965617 TTTATTGTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 9 0.16
28 21 0.36
29 19 0.33
30 6 0.10
31 3 0.05
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (28 bp):
AAAAATTATAAAAAATATAAAAATCATA
Found at i:56965621 original size:9 final size:9
Alignment explanation
Indices: 56965530--56965617 Score: 81
Period size: 9 Copynumber: 9.6 Consensus size: 9
56965520 AAAATTAGAA
56965530 AAAATATA-
1 AAAATATAT
*
56965538 AAAATCATAA
1 AAAAT-ATAT
*
56965548 AAAAAATAT
1 AAAATATAT
*
56965557 AAAATTTTAT
1 AAAA-TATAT
*
56965567 AAAATCATAA
1 AAAAT-ATAT
56965577 AAAATATAT
1 AAAATATAT
56965586 AAAATATAT
1 AAAATATAT
56965595 AAAA-ATAT
1 AAAATATAT
*
56965603 AAAAAATTAT
1 AAAATA-TAT
56965613 AAAAT
1 AAAAT
56965618 TTATTGTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
8 13 0.20
9 28 0.42
10 25 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATATAT
Found at i:56965770 original size:89 final size:90
Alignment explanation
Indices: 56965672--56965844 Score: 260
Period size: 90 Copynumber: 1.9 Consensus size: 90
56965662 AAGAGCAGGG
** * *
56965672 GCTTAATTGC-TTTTTTGAAAAATTTTGAGGGACTTTTTGATGTATTTTGAAAGTTCGAGTAC-C
1 GCTTAATTGCTTTTTTTGAAAAAGCTTGAGGGACTTTTTGATGCATTTTGAAAGTTCAAGTACTC
*
56965735 TAATTGAGTGGAAAAAAAAAGCATGA
66 -AATTGAGTGCAAAAAAAAAGCATGA
* *
56965761 GCTTAATTGCTTTTTTTGAAGAAGCTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACTC
1 GCTTAATTGCTTTTTTTGAAAAAGCTTGAGGGACTTTTTGATGCATTTTGAAAGTTCAAGTACTC
56965826 AATTGAGTGCAAAAAAAAA
66 AATTGAGTGCAAAAAAAAA
56965845 AAGGTTTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
89 10 0.13
90 64 0.85
91 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (90 bp):
GCTTAATTGCTTTTTTTGAAAAAGCTTGAGGGACTTTTTGATGCATTTTGAAAGTTCAAGTACTC
AATTGAGTGCAAAAAAAAAGCATGA
Found at i:56967424 original size:22 final size:22
Alignment explanation
Indices: 56967395--56967481 Score: 133
Period size: 22 Copynumber: 4.0 Consensus size: 22
56967385 CAATATCACT
56967395 TTCC-TTCAAAAATTCTCTCAA
1 TTCCTTTCAAAAATTCTCTCAA
56967416 TTCCTTTCAAAAATTCTCTCAA
1 TTCCTTTCAAAAATTCTCTCAA
* *
56967438 TTCCCTTCAAAATTTCTCTCAA
1 TTCCTTTCAAAAATTCTCTCAA
56967460 TTTCCTTTC-AAAATTCTCTCAA
1 -TTCCTTTCAAAAATTCTCTCAA
56967482 ACTCTCAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
21 4 0.07
22 49 0.82
23 7 0.12
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.41
Consensus pattern (22 bp):
TTCCTTTCAAAAATTCTCTCAA
Found at i:56967489 original size:30 final size:30
Alignment explanation
Indices: 56967453--56967511 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
56967443 TTCAAAATTT
* * *
56967453 CTCTCAATTTCCTTTCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
56967483 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
56967512 TTTCCTTCAA
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:0.31, C:0.34, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:56967522 original size:21 final size:22
Alignment explanation
Indices: 56967483--56967524 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56967473 TTCTCTCAAA
56967483 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
56967505 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
56967525 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:56967594 original size:22 final size:21
Alignment explanation
Indices: 56967566--56967615 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
56967556 ATTAAATTTC
56967566 ATTTTTTTAAAGAAAATTTTAA
1 ATTTTTTTAAA-AAAATTTTAA
* *
56967588 ATTTTTTTTAAATAATTTTAA
1 ATTTTTTTAAAAAAATTTTAA
*
56967609 AATTTTT
1 ATTTTTT
56967616 AATATTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTTTAAAAAAATTTTAA
Found at i:56969929 original size:23 final size:23
Alignment explanation
Indices: 56969903--56970312 Score: 446
Period size: 23 Copynumber: 16.9 Consensus size: 23
56969893 TAAAAACCCT
56969903 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
56969926 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56969949 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
56969977 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56970000 AACCCTAACCCT-ACTTAATTAAAAA
1 AACCCTAA-CCTAATTTAATT--AAA
56970025 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
56970052 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
56970075 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56970098 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
**
56970126 AACCCTAATATAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56970149 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
56970172 AACCCTAACCTTAACCTAATTTAATTAAA
1 AA--C---CC-TAACCTAATTTAATTAAA
56970201 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56970224 AACCCTAACTTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
56970247 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
56970270 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56970293 AACCCTAAGCTAATTTAATT
1 AACCCTAACCTAATTTAATT
56970313 TAATTAAAAA
Statistics
Matches: 332, Mismatches: 29, Indels: 52
0.80 0.07 0.13
Matches are distributed among these distances:
23 237 0.71
24 9 0.03
25 4 0.01
26 1 0.00
27 8 0.02
28 43 0.13
29 30 0.09
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:56970007 original size:46 final size:46
Alignment explanation
Indices: 56969903--56970312 Score: 491
Period size: 46 Copynumber: 8.4 Consensus size: 46
56969893 TAAAAACCCT
56969903 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
*
56969949 AAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAAAACCCTAACATAACTTAATTAAA
* *
56970000 AACCCTAACCCT-ACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAAAACCCTAA--C--A--TAACTTAATTAAA
56970052 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
* * *
56970098 AAACCTAACCTAACTTAATTAAATTAAAAACCCTAATATAATTTAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAAAACCCTAACATAACTTAATTAAA
* *
56970149 AACCCTAACCCT-ACTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAAAACCCTAA-C---A--TAACTTAATTAAA
* *
56970201 AACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
56970247 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
*
56970293 AACCCTAAGCTAATTTAATT
1 AACCCTAACCTAATTTAATT
56970313 TAATTAAAAA
Statistics
Matches: 321, Mismatches: 17, Indels: 52
0.82 0.04 0.13
Matches are distributed among these distances:
46 142 0.44
47 4 0.01
48 4 0.01
50 7 0.02
51 81 0.25
52 83 0.26
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (46 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA
Found at i:56970123 original size:126 final size:124
Alignment explanation
Indices: 56969891--56970445 Score: 519
Period size: 126 Copynumber: 4.4 Consensus size: 124
56969881 ACATTATTTG
* * *
56969891 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
* *
56969956 ACCTAACTTAATTAAATTAAA-AACCCTAACATAACTTAATTAAAAACCCTAACCCT-ACTTA
66 ACCTAACTTAATTAAA--AAACAA-CCTAACTTAATTTAATTAAAAACCCTAA-CCTAACTTA
56970017 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
* * ** *
56970082 ACATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAATATAATTTA
66 ACCTAACTTAATTAAAAAA-C-AACCTAACTTAATTTAATTAAAAACCCTAACCTAACTTA
* *
56970143 ATTAAAAACCCTAACCCT-ACTTAA-TTAA--AAACCCTAACCTTAACCTAATTTAATTAAAAAC
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAA----AACCCTAACCTAATTTAATTAAAAAC
* *
56970204 CCTAACCTAATTTAATT-AAAAAC--CCTAACTTAATTTAATTAAAAACCCTAACCTAATTTA
62 CCTAACCTAACTTAATTAAAAAACAACCTAACTTAATTTAATTAAAAACCCTAACCTAACTTA
* *
56970264 ATTAAAAACCCTAA--C--A--TAACTTAATTAAAAACCCTAAGCTAATTTAATTTAATTAAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-C----CTAATTTAATTAAAAA
* * * * *
56970323 CCATAACCCTAACCTAATTTAATTGAAATCCCTAACCTAACCTAATTTAATTAAAAACCCCAACC
61 CCCTAA-CCTAACTTAA-TTAA---AAA--AC-AACCTAACTTAATTTAATTAAAAACCCTAA-C
*
56970388 CTAACCTA
117 CTAACTTA
* * *
56970396 TTTTACATGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACC
1 -ATT--A--AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC
56970446 CTAACCTAAT
Statistics
Matches: 358, Mismatches: 32, Indels: 66
0.79 0.07 0.14
Matches are distributed among these distances:
115 7 0.02
116 4 0.01
117 4 0.01
118 1 0.00
119 4 0.01
120 20 0.06
121 56 0.16
122 5 0.01
123 1 0.00
124 8 0.02
125 11 0.03
126 167 0.47
127 2 0.01
128 1 0.00
131 26 0.07
132 7 0.02
133 2 0.01
135 1 0.00
137 10 0.03
139 1 0.00
141 1 0.00
142 1 0.00
143 18 0.05
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (124 bp):
ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
ACCTAACTTAATTAAAAAACAACCTAACTTAATTTAATTAAAAACCCTAACCTAACTTA
Found at i:56970167 original size:149 final size:149
Alignment explanation
Indices: 56969903--56970362 Score: 732
Period size: 149 Copynumber: 3.1 Consensus size: 149
56969893 TAAAAACCCT
56969903 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
56969968 TAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACC
66 TAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACC
56970033 CTAACCTAATTTAATTAAA
131 CTAACCTAATTTAATTAAA
56970052 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
* *
56970117 TAAATTAAAAACCCTAATATAATTTAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACC
66 TAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACC
*
56970182 TTAACCTAATTTAATTAAA
131 CTAACCTAATTTAATTAAA
* * *
56970201 AACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTTAATTAAAAACCCTAACCTAA--T--T
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
** * *
56970262 T-AATTAAAAACCCTAACATAACTTAATTAAAAACCCTAAGCTAATTTAATTTAATTAAAAACCA
66 TAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAA-C---CCT-ACTTAATTAAAAACCC
*
56970326 TAACCCTAACCTAATTTAATTGAA
126 TAACCCTAACCTAATTTAATTAAA
*
56970350 ATCCCTAACCTAA
1 AACCCTAACCTAA
56970363 CCTAATTTAA
Statistics
Matches: 291, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
144 36 0.12
145 3 0.01
147 1 0.00
148 1 0.00
149 250 0.86
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.29
Consensus pattern (149 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
TAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACC
CTAACCTAATTTAATTAAA
Found at i:56970207 original size:172 final size:168
Alignment explanation
Indices: 56969903--56970387 Score: 604
Period size: 172 Copynumber: 2.8 Consensus size: 168
56969893 TAAAAACCCT
56969903 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAA---AACCTAA-TTAAT
* * *
56969968 TAAATTAAAAACCCTAA-CATAACTTAATTAAAAACCCTAACCCT-ACTTAA-TTAA--AAACCC
62 TTAATTAAAAACCCTAACCCTAACTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAA---
56970028 TAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
123 -AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
* * * *
56970075 AACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAATATAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAA--AAAAA-CCTAAT-TAAT
56970140 TTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAAC
62 TTAATTAAAAACCCTAACCCTAACTTAATTAAAAACCCTAACC-TAACCTAATTTAATTAAAAAC
*
56970204 CCTAACCTAATTTAATTAAAAACCCTAACTTAATTTAATTAAA
126 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
* *
56970247 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAAGCTAATTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAA---AAACCTAA-TTAAT
* *
56970312 TTAATTAAAAACCATAACCCTAACCTAATTTAATTGAAATCCCTAACCTAACCTAATTTAATTAA
62 TTAATTAAAAACCCTAACCCTAACTTAA-TTAA---AAA-CCCTAACCTAACCTAATTTAATTAA
*
56970377 AAACCCCAACC
122 AAACCCTAACC
56970388 CTAACCTATT
Statistics
Matches: 276, Mismatches: 17, Indels: 35
0.84 0.05 0.11
Matches are distributed among these distances:
170 2 0.01
171 5 0.02
172 202 0.73
173 15 0.05
174 11 0.04
176 3 0.01
177 30 0.11
178 8 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (168 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAAAACCTAATTAATTTAA
TTAAAAACCCTAACCCTAACTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
CCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
Found at i:56970446 original size:58 final size:57
Alignment explanation
Indices: 56969886--56970467 Score: 424
Period size: 51 Copynumber: 11.2 Consensus size: 57
56969876 TTTTGACATT
* * * *
56969886 ATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTA
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
56969943 A-TTAA---AAAA-CCTAACCTAACTTAATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
56969989 ACTTAATTAAAAACCCTAA-C---CCT-ACTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
56970041 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
56970092 A-TTAA---AAAA-CCTAACCTAACTTAATTAAATTAAAAACCCTAA---T-A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
56970138 ATTTAATTAAAAACCCTAA-C---CCT-ACTTAATTAAAAACCCTAACCTTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
56970190 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA--CT----TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
56970236 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * ** *
56970282 ACTTAATTAAAAACCCTAAGCTAATTTAATTTAATTAAAAACCATAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
56970339 ATTTAATTGAAATCCCTAACCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
56970396 TTTTACA-TGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTA-ATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
56970454 ATTTAATTAAAAAC
1 ATTTAATTGAAAAC
56970468 TCTTACCCTG
Statistics
Matches: 433, Mismatches: 42, Indels: 99
0.75 0.07 0.17
Matches are distributed among these distances:
46 94 0.22
47 18 0.04
48 9 0.02
49 2 0.00
50 17 0.04
51 110 0.25
52 60 0.14
53 5 0.01
55 1 0.00
56 3 0.01
57 68 0.16
58 46 0.11
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (57 bp):
ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:56973223 original size:19 final size:19
Alignment explanation
Indices: 56973199--56973236 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56973189 TTAATGTGCG
* *
56973199 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
56973218 AATATATATATATATGTGT
1 AATATATATATATATGTGT
56973237 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:56973504 original size:41 final size:41
Alignment explanation
Indices: 56973447--56973624 Score: 275
Period size: 41 Copynumber: 4.3 Consensus size: 41
56973437 AAGTTTGGAA
* *
56973447 CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCG
1 CCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCG
* *
56973488 CCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTG
1 CCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCG
* *
56973529 CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCG
1 CCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCG
* *
56973570 CCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTG
1 CCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCG
*
56973611 CCGGTGATCCGAAT
1 CCGGTGATCTGAAT
56973625 ATGATGAATT
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
CCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCG
Found at i:56973584 original size:82 final size:82
Alignment explanation
Indices: 56973447--56973618 Score: 344
Period size: 82 Copynumber: 2.1 Consensus size: 82
56973437 AAGTTTGGAA
56973447 CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAA
1 CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAA
56973512 GCCTAGCAGGCTAAGTG
66 GCCTAGCAGGCTAAGTG
56973529 CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAA
1 CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAA
56973594 GCCTAGCAGGCTAAGTG
66 GCCTAGCAGGCTAAGTG
56973611 CCGGTGAT
1 CCGGTGAT
56973619 CCGAATATGA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (82 bp):
CCGGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAA
GCCTAGCAGGCTAAGTG
Found at i:56976516 original size:99 final size:100
Alignment explanation
Indices: 56976345--56976546 Score: 388
Period size: 99 Copynumber: 2.0 Consensus size: 100
56976335 TCGCACCGTA
56976345 TTCTCCGACAAAAAAACAACACCATTCTCGGTGTGGCAAACCTCACCATCGTAGTAAATAACAGC
1 TTCTCCGACAAAAAAACAACACCATTCTCGGTGTGGCAAACCTCACCATCGTAGTAAATAACAGC
56976410 ACTAATACG-CACTCATTTTGAAACTCTAACTTTC
66 ACTAATACGTCACTCATTTTGAAACTCTAACTTTC
56976444 TTCTCCGACAAAAAAACAACACCATTCTCGGTGTGGCAAACCTCACCATCGTAGTAAATAACAGC
1 TTCTCCGACAAAAAAACAACACCATTCTCGGTGTGGCAAACCTCACCATCGTAGTAAATAACAGC
56976509 ACTAATACGTTCACTCATTTTGAAACTCTAACTTTC
66 ACTAATACG-TCACTCATTTTGAAACTCTAACTTTC
56976545 TT
1 TT
56976547 AGCCTCTCTA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 74 0.73
101 27 0.27
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.27
Consensus pattern (100 bp):
TTCTCCGACAAAAAAACAACACCATTCTCGGTGTGGCAAACCTCACCATCGTAGTAAATAACAGC
ACTAATACGTCACTCATTTTGAAACTCTAACTTTC
Found at i:56976880 original size:125 final size:125
Alignment explanation
Indices: 56976658--56976900 Score: 398
Period size: 125 Copynumber: 1.9 Consensus size: 125
56976648 CCACAAGGGC
56976658 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * *
56976723 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTAATATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAATATCA
* * *
56976783 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAG
* *
56976847 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCT
65 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCT
56976901 GGTAGAAGCG
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
125 77 0.71
126 32 0.29
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (125 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAATATCA
Found at i:56978639 original size:18 final size:18
Alignment explanation
Indices: 56978616--56978658 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
56978606 GAATAGGTTT
56978616 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
56978634 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
56978652 TTAATTA
1 TTAATTA
56978659 CATATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:56980111 original size:2 final size:2
Alignment explanation
Indices: 56980104--56980142 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
56980094 TGAGTAACCA
56980104 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
56980143 GTTTGAAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:56985532 original size:82 final size:82
Alignment explanation
Indices: 56985387--56985547 Score: 220
Period size: 82 Copynumber: 2.0 Consensus size: 82
56985377 AAAAAAAAAA
* * *
56985387 TTGTTCATAGAAAATTTAGATGGTGGTGAAACTGAGAGCTGACTGATTTTGATTCTTGATATCTA
1 TTGTTCATACAAAATTTAGATGGTGGTGAAACTGAGAGCTGACTGATTTTAATTCTCGATATCTA
*
56985452 A-AATTATAAAATTTATT
66 AGAA-AATAAAATTTATT
* *
56985469 TTGTTCATACAAAATTTAGATGGTGGTGAAATTGAGAGTTGA-TCGATTTTAATTCTCCG-TATC
1 TTGTTCATACAAAATTTAGATGGTGGTGAAACTGAGAGCTGACT-GATTTTAATTCT-CGATATC
56985532 TAAGAAAATAAAATTT
64 TAAGAAAATAAAATTT
56985548 TGTTATTCTA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
81 1 0.01
82 66 0.94
83 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (82 bp):
TTGTTCATACAAAATTTAGATGGTGGTGAAACTGAGAGCTGACTGATTTTAATTCTCGATATCTA
AGAAAATAAAATTTATT
Found at i:56986526 original size:50 final size:49
Alignment explanation
Indices: 56986471--56986621 Score: 139
Period size: 50 Copynumber: 3.0 Consensus size: 49
56986461 AAATTCAAAG
*
56986471 AAATATATAAAATTACATAAATATTTTCAAAATATATAATAATAAATTTA
1 AAATATATAAAATTA-ATAAATATTTTCAAAAAATATAATAATAAATTTA
* * * *
56986521 AAATATATAAAATTAAAAAATATTATTTACAAGAA-ATAATAAT--ATATA
1 AAATATATAAAATTAATAAATATT-TTCA-AAAAATATAATAATAAATTTA
* * * *
56986569 AAATACA-AAAATATATAGTACATACTTTCAAAAAATATAATAACAAATTTA
1 AAATATATAAAAT-TA-A-TAAATATTTTCAAAAAATATAATAATAAATTTA
56986620 AA
1 AA
56986622 TTAATATTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
47 5 0.06
48 16 0.20
49 19 0.24
50 31 0.39
51 9 0.11
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (49 bp):
AAATATATAAAATTAATAAATATTTTCAAAAAATATAATAATAAATTTA
Found at i:56986658 original size:25 final size:24
Alignment explanation
Indices: 56986625--56986672 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
56986615 ATTTAAATTA
56986625 ATATTAATATTAAATAAAGATAAAT
1 ATATTAATATTAAATAAA-ATAAAT
*
56986650 ATATTAATATTAGATAAAATAAA
1 ATATTAATATTAAATAAAATAAA
56986673 AATCCCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATTAATATTAAATAAAATAAAT
Found at i:56989987 original size:41 final size:41
Alignment explanation
Indices: 56989926--56990110 Score: 169
Period size: 41 Copynumber: 4.5 Consensus size: 41
56989916 TTAACATATC
56989926 CACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGAT
1 CACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGAT
* * *
56989967 CACAGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGAT
1 CACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGAT
* * * * * **
56990008 TACCGGCAGTTAGCCTGCT-GGACTTAAAGTCTGAATCATTT
1 CACCGGCACTTAGCCTGCTAGG-CTTATAGCCTGATTCAGAT
* * * * * **
56990049 CACCGGC-CTTAAGCCTGCTAGACATAAAGTCTGAATCATTT
1 CACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGAT
56990090 CACCGGC-CTTAAGCCTGCTAG
1 CACCGGCACTT-AGCCTGCTAG
56990111 ACATAAAGTC
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 4 0.03
41 119 0.96
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
CACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGAT
Found at i:56990206 original size:41 final size:41
Alignment explanation
Indices: 56990009--56990192 Score: 248
Period size: 41 Copynumber: 4.5 Consensus size: 41
56989999 GATTCAGATT
* * *
56990009 ACCGGCAGTT-AGCCTGCTGGACTTAAAGTCTG-AATCATTTC
1 ACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAAT-AATTC
* *
56990050 ACCGGCCTTAAGCCTGCTAGACATAAAGTCTG-AATCATTTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAAT-AATTC
*
56990091 ACCGGCCTTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
56990132 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
* *
56990173 ACCGGTATTAAACCTGCTAG
1 ACCGGCATTAAGCCTGCTAG
56990193 GCATCGAGCC
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 2 0.01
41 129 0.96
42 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAATTC
Found at i:56990809 original size:201 final size:196
Alignment explanation
Indices: 56990525--56990938 Score: 704
Period size: 201 Copynumber: 2.1 Consensus size: 196
56990515 AATTCAATAC
* *
56990525 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACTCAGCATATAT
1 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
*
56990590 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTATCTTAT-AAACTCAAATATACAT
66 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAATATACAT
56990654 TGACTAACACACACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAA
131 TGACT-----A-ACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAA
56990719 CATATAT
190 CATATAT
*
56990726 ATACATTCAGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
1 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
* *
56990791 ATATTCGGCTAAATATATATAGAATTTCTGTAATTTATTTTAACTTATAAAACTCAAATATACAT
66 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAATATACAT
*
56990856 TGACTAACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATTTA
131 TGACTAACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATATA
56990921 T
196 T
56990922 ATACATTCGGCTAACAT
1 ATACATTCGGCTAACAT
56990939 TTTTATACAA
Statistics
Matches: 204, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
196 75 0.37
197 1 0.00
201 107 0.52
202 21 0.10
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (196 bp):
ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAATATACAT
TGACTAACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATATA
T
Found at i:56991931 original size:13 final size:13
Alignment explanation
Indices: 56991913--56991937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56991903 ACAAACAATA
56991913 AAATTTTCACACG
1 AAATTTTCACACG
56991926 AAATTTTCACAC
1 AAATTTTCACAC
56991938 AAGTAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:57018787 original size:51 final size:51
Alignment explanation
Indices: 57018716--57018851 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
57018706 GGAATGATAG
* **
57018716 GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTTTC-
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGTAACA
* * * * *
57018766 GATCACGTGTGTAGTACTATGTGCAGACTACTACGTGTATCGAATGGTAACA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGTAACA
* *
57018818 GTCACATGTGTAATACTATGTGTAGGCTACTATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATG
57018852 TAAACCGAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.01
51 69 0.97
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGTAACA
Found at i:57018925 original size:45 final size:45
Alignment explanation
Indices: 57018855--57018949 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
57018845 TACTATGTAA
* * * *
57018855 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGCTTGCTATGTGCTGAATCC
* *
57018900 ACCGGACATCATTGATTAATGAGGTGCTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGCTTGCTATGTGCTGAATCC
57018945 ACCGA
1 ACCGA
57018950 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGCTTGCTATGTGCTGAATCC
Found at i:57020171 original size:33 final size:33
Alignment explanation
Indices: 57020129--57020212 Score: 87
Period size: 41 Copynumber: 2.3 Consensus size: 33
57020119 TTAAATTTAT
57020129 AAAAGTATGCATTGAGATGGTAAATGTCTAGATG
1 AAAA-TATGCATTGAGATGGTAAATGTCTAGATG
57020163 AAAATATGCTTGTGATCATTGAGATGGTAAATGTCTAGATG
1 AAAATA------TG--CATTGAGATGGTAAATGTCTAGATG
57020204 AAAATATGC
1 AAAATATGC
57020213 TTGTGATCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
33 3 0.07
34 4 0.10
35 2 0.05
39 2 0.05
41 31 0.74
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (33 bp):
AAAATATGCATTGAGATGGTAAATGTCTAGATG
Found at i:57020195 original size:41 final size:41
Alignment explanation
Indices: 57020138--57020222 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
57020128 TAAAAGTATG
57020138 CATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGAT
1 CATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGAT
57020179 CATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGAT
1 CATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGAT
57020220 CAT
1 CAT
57020223 AAAAGGGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (41 bp):
CATTGAGATGGTAAATGTCTAGATGAAAATATGCTTGTGAT
Found at i:57022033 original size:21 final size:21
Alignment explanation
Indices: 57022007--57022046 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57021997 ATGCACCCGA
*
57022007 GCGTGTGGAGAAGTCACACAG
1 GCGTGTGGAGAAGCCACACAG
*
57022028 GCGTGTGGAGTAGCCACAC
1 GCGTGTGGAGAAGCCACAC
57022047 TGCCATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.15
Consensus pattern (21 bp):
GCGTGTGGAGAAGCCACACAG
Found at i:57023513 original size:103 final size:103
Alignment explanation
Indices: 57023341--57023543 Score: 277
Period size: 103 Copynumber: 2.0 Consensus size: 103
57023331 GTTCCAACAC
* * * *
57023341 CTAATTTTTTTTAATCTGGTACTGGGGTGCCAGCCATCAGTGTCCCAGCATCCAATTTATTTTTA
1 CTAATTTTTTTTAACCTGGTACTGGGGTGCCAGACATCAGTGTCCCAACACCCAATTTATTTTTA
*
57023406 AATCTGGTACAAGAGTGTC-GGCCATCAATGTCCTAGCA
66 AATCTGGTACAAGAGTG-CAGACCATCAATGTCCTAGCA
*
57023444 CTAATTTTTTTTAAACCTGGTACTGGGGTGTC-GACATCAGTGTCCCAACACCCAATTT-TTCTT
1 CTAATTTTTTTT-AACCTGGTACTGGGGTGCCAGACATCAGTGTCCCAACACCCAATTTATT-TT
* * *
57023507 TTAATCTGGTATAAGGGTGCAGACCATCAATGTCCTA
64 TAAATCTGGTACAAGAGTGCAGACCATCAATGTCCTA
57023544 ACACCCAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
102 3 0.03
103 68 0.77
104 17 0.19
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (103 bp):
CTAATTTTTTTTAACCTGGTACTGGGGTGCCAGACATCAGTGTCCCAACACCCAATTTATTTTTA
AATCTGGTACAAGAGTGCAGACCATCAATGTCCTAGCA
Found at i:57023535 original size:53 final size:53
Alignment explanation
Indices: 57023289--57023551 Score: 204
Period size: 51 Copynumber: 5.0 Consensus size: 53
57023279 ACCCTAAAAA
* * * *
57023289 AATTGTTTTTTTAAATTTGGTATAAAGGTGCCA-ACCATCAGTGTTCCAACACCT
1 AATT-TTTTTTT-AATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* * *
57023343 AA-TTTTTTTTAATCTGGTACT-GGGGTGCCAG-CCATCAGTGTCCCAGCATCC
1 AATTTTTTTTTAATCTGGTA-TAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* * * * * * * * *
57023394 AATTTATTTTTAAATCTGGTACAAGAGTGTC-GGCCATCAATGTCCTAGCA-CT
1 AATTT-TTTTTTAATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* * * *
57023446 AATTTTTTTTAAACCTGGTACT-GGGGTGTC-GA-CATCAGTGTCCCAACACCC
1 AATTTTTTTTTAATCTGGTA-TAAGGGTGCCAGACCATCAGTGTCCCAACACCC
* *
57023497 AATTTTTCTTTTAATCTGGTATAAGGGTG-CAGACCATCAATGTCCTAACACCC
1 AATTTTT-TTTTAATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
57023550 AA
1 AA
57023552 AAAAGATATT
Statistics
Matches: 168, Mismatches: 29, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
50 13 0.08
51 64 0.38
52 35 0.21
53 54 0.32
54 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (53 bp):
AATTTTTTTTTAATCTGGTATAAGGGTGCCAGACCATCAGTGTCCCAACACCC
Found at i:57026165 original size:3 final size:3
Alignment explanation
Indices: 57026157--57026186 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57026147 GATCTAAAAC
57026157 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57026187 CAGCAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:57033547 original size:18 final size:16
Alignment explanation
Indices: 57033524--57033558 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
57033514 AATTTAACTT
57033524 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
57033542 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
57033558 T
1 T
57033559 TATAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:57033848 original size:15 final size:15
Alignment explanation
Indices: 57033828--57033864 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
57033818 TTAAGTTCAG
57033828 TGTTTAAGGATTTGA
1 TGTTTAAGGATTTGA
*
57033843 TGTTT-AGGGTTTGA
1 TGTTTAAGGATTTGA
57033857 -GTTTAAGG
1 TGTTTAAGG
57033865 TTTAAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (15 bp):
TGTTTAAGGATTTGA
Found at i:57034333 original size:7 final size:7
Alignment explanation
Indices: 57034321--57034347 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57034311 ATGATTTGAT
57034321 TTTGTTG
1 TTTGTTG
57034328 TTTGTTG
1 TTTGTTG
57034335 TTTGTTG
1 TTTGTTG
57034342 TTTGTT
1 TTTGTT
57034348 TAGAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (7 bp):
TTTGTTG
Found at i:57037114 original size:24 final size:24
Alignment explanation
Indices: 57037087--57037138 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
57037077 TTAGTAAGTC
*
57037087 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
***
57037111 AAATATGTTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
57037135 AAAT
1 AAAT
57037139 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:57039742 original size:23 final size:23
Alignment explanation
Indices: 57039716--57039791 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
57039706 ATAAGTGCAA
57039716 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
57039739 CACTGTTATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
57039762 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
57039785 TACTGAT
1 CACTGAT
57039792 CAATAACACT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:57041700 original size:24 final size:24
Alignment explanation
Indices: 57041673--57041724 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57041663 TTAGTAAGTC
*
57041673 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
57041697 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
57041721 AAAT
1 AAAT
57041725 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:57041877 original size:22 final size:22
Alignment explanation
Indices: 57041829--57041879 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
57041819 TATTTTCTTG
*
57041829 CTATTTTTTTGTTGTTTTACTA
1 CTATTTTCTTGTTGTTTTACTA
*
57041851 TTATTTTCTTGTTGTTTT-CTCA
1 CTATTTTCTTGTTGTTTTACT-A
57041873 CTATTTT
1 CTATTTT
57041880 GCTACCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.69
Consensus pattern (22 bp):
CTATTTTCTTGTTGTTTTACTA
Found at i:57042101 original size:17 final size:17
Alignment explanation
Indices: 57042051--57042104 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
57042041 GGAAAATATT
57042051 TATTTTAATATTTTTAGTA
1 TATTTTAA-ATTTTTA-TA
* *
57042070 -ATTTTAAAGTATTATA
1 TATTTTAAATTTTTATA
*
57042086 TTTTTTAAATTTTTATA
1 TATTTTAAATTTTTATA
57042103 TA
1 TA
57042105 AAAAATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 2 0.07
17 19 0.68
18 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TATTTTAAATTTTTATA
Found at i:57042542 original size:18 final size:19
Alignment explanation
Indices: 57042509--57042545 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
57042499 TCCTCTTCCT
*
57042509 TCTTCCATATAAAAATAAA
1 TCTTCCATACAAAAATAAA
57042528 TCTTCCA-ACAAAAATAAA
1 TCTTCCATACAAAAATAAA
57042546 AATAATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (19 bp):
TCTTCCATACAAAAATAAA
Found at i:57043648 original size:25 final size:24
Alignment explanation
Indices: 57043595--57043648 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
57043585 ACAATCATCT
* * *
57043595 TAAATTTTTATAATAATATTTAAG
1 TAAAATTTTATAATAATAATTAAA
*
57043619 GAAAATTTTATAATAATTAATTAAA
1 TAAAATTTTATAATAA-TAATTAAA
57043644 TAAAA
1 TAAAA
57043649 AATAACCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAAATTTTATAATAATAATTAAA
Found at i:57043723 original size:20 final size:21
Alignment explanation
Indices: 57043700--57043746 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
57043690 ACAAGAGTAA
57043700 AGATTTTAAGG-TTTA-AGGTT
1 AGATTTT-AGGATTTAGAGGTT
57043720 AGA-TTTAGGATTTAGAGGTT
1 AGATTTTAGGATTTAGAGGTT
57043740 AGGATTT
1 A-GATTT
57043747 GGATTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.13
19 7 0.30
20 9 0.39
21 2 0.09
22 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (21 bp):
AGATTTTAGGATTTAGAGGTT
Found at i:57043783 original size:18 final size:19
Alignment explanation
Indices: 57043760--57043797 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57043750 TTTTAAGGTT
57043760 TAGGA-TTAA-GTTCTAAAA
1 TAGGATTTAAGGTT-TAAAA
57043778 TAGGATTTAAGGTTTAAAA
1 TAGGATTTAAGGTTTAAAA
57043797 T
1 T
57043798 TGGCTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 10 0.56
20 3 0.17
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (19 bp):
TAGGATTTAAGGTTTAAAA
Found at i:57045627 original size:29 final size:29
Alignment explanation
Indices: 57045595--57045664 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
57045585 GCCCAGTAAC
*
57045595 AAATTTTAAAAATA-AAAGAAAACTCTTTA
1 AAATTTTAAAAATATAAA-AAAACTCATTA
* * *
57045624 AAATTTAAAAAATATTTAAAAAAGTCATTA
1 AAATTTTAAAAATA-TAAAAAAACTCATTA
57045654 AAATTTTAAAA
1 AAATTTTAAAA
57045665 TTTCTATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.38
30 19 0.56
31 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (29 bp):
AAATTTTAAAAATATAAAAAAACTCATTA
Found at i:57046087 original size:16 final size:17
Alignment explanation
Indices: 57046066--57046099 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57046056 ATTGAATTGA
*
57046066 ATTTTTA-ATAATTTTT
1 ATTTTTATAAAATTTTT
57046082 ATTTTTATAAAATTTTT
1 ATTTTTATAAAATTTTT
57046099 A
1 A
57046100 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATAAAATTTTT
Found at i:57048928 original size:9 final size:9
Alignment explanation
Indices: 57048916--57048942 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
57048906 TTAATTTTTT
57048916 AAATATTAA
1 AAATATTAA
57048925 AAATATTAA
1 AAATATTAA
57048934 AAATATTAA
1 AAATATTAA
57048943 TAATTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATATTAA
Found at i:57048972 original size:28 final size:29
Alignment explanation
Indices: 57048941--57048998 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
57048931 TAAAAATATT
*
57048941 AATAATTTA-ATGAT-TTTTAGTTTTTAAA
1 AATAATTTATAT-ATATTTTAATTTTTAAA
*
57048969 AATAGTTTATATATATTTTAATTTTTAAA
1 AATAATTTATATATATTTTAATTTTTAAA
57048998 A
1 A
57048999 TTAAAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
AATAATTTATATATATTTTAATTTTTAAA
Found at i:57052804 original size:41 final size:41
Alignment explanation
Indices: 57052747--57052841 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
57052737 ATTGAAATTT
57052747 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
*
57052788 GTGATCTGAATCAGGCTATAAGCTTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
57052829 GTGATCTGAATCA
1 GTGATCTGAATCA
57052842 AAGGAACGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:57053076 original size:41 final size:41
Alignment explanation
Indices: 57053014--57053190 Score: 282
Period size: 41 Copynumber: 4.3 Consensus size: 41
57053004 AGTTTGGAAT
*
57053014 CGGTGATCTGAATCTGGCTATAAGCCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
*
57053055 CGGTGATCTGAATCAGTCTATAAGCCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
* *
57053096 CGGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
* * * *
57053137 CGGTGATATGAATTAGGTTATAAACCTAGCAGGCTAAGTGC
1 CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
57053178 CGGTGATCTGAAT
1 CGGTGATCTGAAT
57053191 ATGTTAAATT
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGC
Found at i:57060598 original size:18 final size:20
Alignment explanation
Indices: 57060562--57060600 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
57060552 AGTAATAATA
*
57060562 TATAAATATATATATGTGTT
1 TATAAATATATATAAGTGTT
57060582 TATAAAT-T-TATAAGTGTT
1 TATAAATATATATAAGTGTT
57060600 T
1 T
57060601 GAATTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TATAAATATATATAAGTGTT
Found at i:57061003 original size:41 final size:41
Alignment explanation
Indices: 57060946--57061121 Score: 307
Period size: 41 Copynumber: 4.3 Consensus size: 41
57060936 GTTTGGAATT
57060946 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
57060987 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
57061028 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
57061069 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
57061110 GGTGATCTGAAT
1 GGTGATCTGAAT
57061122 ATGTTAAATT
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:57063078 original size:71 final size:71
Alignment explanation
Indices: 57063002--57063155 Score: 193
Period size: 71 Copynumber: 2.2 Consensus size: 71
57062992 CGACTAACAT
* * * *
57063002 TGGGTGCAAAACATCGTCGGTTTATCCTACCAGTACAGGGCACAACTATTGTTGGTTTA-TCCAA
1 TGGGTGCAAAACATCGTCGGTTTAACCAACCAGTACAGGGCACAACTATTGTCGGTATACT-CAA
57063066 CCAGCGC
65 CCAGCGC
* ** * * *
57063073 TGGGTGCAAAACATTGTCTTTTTAACCAACCAGTGCAGGGCACAATTATTGTCGGTATACTCGAC
1 TGGGTGCAAAACATCGTCGGTTTAACCAACCAGTACAGGGCACAACTATTGTCGGTATACTCAAC
*
57063138 TAGCGC
66 CAGCGC
57063144 TGGGTGCAAAAC
1 TGGGTGCAAAAC
57063156 TTTACTACGG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 70 0.99
72 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (71 bp):
TGGGTGCAAAACATCGTCGGTTTAACCAACCAGTACAGGGCACAACTATTGTCGGTATACTCAAC
CAGCGC
Found at i:57067563 original size:20 final size:20
Alignment explanation
Indices: 57067525--57067563 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57067515 CTGCCTACTC
*
57067525 TAAAATGCATGGATTTCAAA
1 TAAAATGCATGGATCTCAAA
* *
57067545 TAAAATGCCTTGATCTCAA
1 TAAAATGCATGGATCTCAA
57067564 TAATGGGCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
TAAAATGCATGGATCTCAAA
Found at i:57083365 original size:25 final size:25
Alignment explanation
Indices: 57083287--57083375 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
57083277 CCAAATATCA
* *
57083287 GGAAGCTCAT-ACGAGC-CATAAACG
1 GGAAGCTCATGA-GAGCTAATAATCG
* *
57083311 GGAAGCTCAAGAGAGCTATTAATCG
1 GGAAGCTCATGAGAGCTAATAATCG
*
57083336 AGAAGCTCATGAGAGCTAAATAAT-G
1 GGAAGCTCATGAGAGCT-AATAATCG
*
57083361 GGAAGCTCGTGAGAG
1 GGAAGCTCATGAGAG
57083376 ATAAGTATCG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
24 13 0.25
25 35 0.66
26 5 0.09
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCTAATAATCG
Found at i:57085282 original size:46 final size:46
Alignment explanation
Indices: 57085214--57085343 Score: 224
Period size: 46 Copynumber: 2.8 Consensus size: 46
57085204 GTATCTATAA
*
57085214 ACTTAACTTTTTTTTCTAATTATCTTCATAATAATCATGCATTAATT
1 ACTTAAC-TTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
57085261 ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
1 ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
* *
57085307 GCTTAACTTTTTTTCTAATTATCTTCCCAATAATCAT
1 ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCAT
57085344 TCAATCATAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 73 0.91
47 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (46 bp):
ACTTAACTTTTTTTCTAATTATCTTCCTAATAATCATGCATTAATT
Found at i:57087729 original size:14 final size:15
Alignment explanation
Indices: 57087701--57087729 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57087691 ATTACTTTAA
57087701 TAAAATAATATTATT
1 TAAAATAATATTATT
57087716 TAAAATAA-ATTATT
1 TAAAATAATATTATT
57087730 AATTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATAATATTATT
Found at i:57087739 original size:11 final size:11
Alignment explanation
Indices: 57087723--57087753 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
57087713 ATTTAAAATA
57087723 AATTATTAATT
1 AATTATTAATT
57087734 AATTATTAATT
1 AATTATTAATT
57087745 AATTATTAA
1 AATTATTAA
57087754 AAATATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTATTAATT
Found at i:57088247 original size:83 final size:83
Alignment explanation
Indices: 57088108--57088280 Score: 346
Period size: 83 Copynumber: 2.1 Consensus size: 83
57088098 CAACTTTCAT
57088108 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
1 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
57088173 AACAATATATGCCAGAGC
66 AACAATATATGCCAGAGC
57088191 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
1 TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
57088256 AACAATATATGCCAGAGC
66 AACAATATATGCCAGAGC
57088274 TTGAAAT
1 TTGAAAT
57088281 GATATCTAAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.23
Consensus pattern (83 bp):
TTGAAATCACATAGATATGGCTGATATGCACAAAACAAATGCAACACCATTATAGTAGTAAGAAC
AACAATATATGCCAGAGC
Found at i:57099185 original size:18 final size:17
Alignment explanation
Indices: 57099164--57099224 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
57099154 GAAATAACTA
57099164 AAAATGCATCTGTAACAT
1 AAAA-GCATCTGTAACAT
*
57099182 AAAAGCAT-T-TAAAACT
1 AAAAGCATCTGTAACA-T
57099198 AAAAATGCATCTGTAACAT
1 -AAAA-GCATCTGTAACAT
57099217 AAAAGCAT
1 AAAAGCAT
57099225 TTAAAACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
15 4 0.11
16 2 0.06
17 12 0.33
18 12 0.33
19 2 0.06
20 4 0.11
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.25
Consensus pattern (17 bp):
AAAAGCATCTGTAACAT
Found at i:57099198 original size:35 final size:35
Alignment explanation
Indices: 57099159--57099233 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
57099149 AAACTGAAAT
57099159 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
1 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
57099194 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
1 AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
57099229 AACTA
1 AACTA
57099234 CAAACTCCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (35 bp):
AACTAAAAATGCATCTGTAACATAAAAGCATTTAA
Found at i:57102590 original size:15 final size:13
Alignment explanation
Indices: 57102565--57102613 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
57102555 AGGCACGCCC
57102565 AGAAAAAAAGAAAA
1 AGAAAAAAAG-AAA
57102579 AGAAAAATAAGAAA
1 AGAAAAA-AAGAAA
*
57102593 AGAAAAGAA-AAA
1 AGAAAAAAAGAAA
*
57102605 TGAAAAAAA
1 AGAAAAAAA
57102614 TTAAGAGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 10 0.32
13 2 0.06
14 16 0.52
15 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (13 bp):
AGAAAAAAAGAAA
Found at i:57102612 original size:19 final size:19
Alignment explanation
Indices: 57102568--57102612 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
57102558 CACGCCCAGA
57102568 AAAAAAGAAAAAGAAAAAT
1 AAAAAAGAAAAAGAAAAAT
57102587 AAGAAAAG-AAAAGAAAAAT
1 AA-AAAAGAAAAAGAAAAAT
57102606 GAAAAAA
1 -AAAAAA
57102613 ATTAAGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAAAAGAAAAAGAAAAAT
Found at i:57102613 original size:20 final size:21
Alignment explanation
Indices: 57102566--57102613 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
57102556 GGCACGCCCA
57102566 GAAAAAAAGAAAAAGAAAAAT
1 GAAAAAAAGAAAAAGAAAAAT
*
57102587 -AAGAAAAG-AAAAGAAAAAT
1 GAAAAAAAGAAAAAGAAAAAT
57102606 GAAAAAAA
1 GAAAAAAA
57102614 TTAAGAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (21 bp):
GAAAAAAAGAAAAAGAAAAAT
Found at i:57102813 original size:28 final size:27
Alignment explanation
Indices: 57102751--57102813 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
57102741 ATTAGTTGAC
*
57102751 GGAAAAAAAAATTTAAGTACTAAACTG
1 GGAAAAAAAAATTTAAGTACTAAACTA
* *
57102778 GGACAAAAAAAATTATAGGTACTAATCTA
1 GGA-AAAAAAAATT-TAAGTACTAAACTA
57102807 GGAAAAA
1 GGAAAAA
57102814 TGAATAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 3 0.10
28 14 0.45
29 14 0.45
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.21
Consensus pattern (27 bp):
GGAAAAAAAAATTTAAGTACTAAACTA
Found at i:57103678 original size:23 final size:23
Alignment explanation
Indices: 57103652--57103699 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
57103642 TGACCCCATA
57103652 ATCCTAATATATCTCTTTTATAT
1 ATCCTAATATATCTCTTTTATAT
* * *
57103675 ATCCTAATATCTGTCTTTTGTAT
1 ATCCTAATATATCTCTTTTATAT
57103698 AT
1 AT
57103700 GCACGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.52
Consensus pattern (23 bp):
ATCCTAATATATCTCTTTTATAT
Found at i:57108601 original size:17 final size:16
Alignment explanation
Indices: 57108579--57108615 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
57108569 AAATACGCTC
57108579 TCTCTTTGCTCTTCTAT
1 TCTCTTTGCTCTT-TAT
*
57108596 TCTCTTTGTTCTTTAT
1 TCTCTTTGCTCTTTAT
57108612 TCTC
1 TCTC
57108616 CGTCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.05, C:0.27, G:0.05, T:0.62
Consensus pattern (16 bp):
TCTCTTTGCTCTTTAT
Found at i:57109210 original size:26 final size:27
Alignment explanation
Indices: 57109159--57109210 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
57109149 AAGGAGCTTC
*
57109159 ATTTTTTTTGTTTTTTGAGGTATGATT
1 ATTTTTTTTGTTTTTTGAAGTATGATT
*
57109186 ATTTTTTATT-TTTTTT-AAGTCTGAT
1 ATTTTTT-TTGTTTTTTGAAGTATGAT
57109211 CAAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 13 0.59
28 2 0.09
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.67
Consensus pattern (27 bp):
ATTTTTTTTGTTTTTTGAAGTATGATT
Found at i:57110939 original size:30 final size:30
Alignment explanation
Indices: 57110905--57110976 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
57110895 CAAAAAATAA
57110905 AAAATTACATTTTAACCCATAAAATTTTTC-
1 AAAATTACATTTTAACCCAT-AAATTTTTCT
* * *
57110935 AAAATTACATTTTGACCCCTAATTTTTTCT
1 AAAATTACATTTTAACCCATAAATTTTTCT
*
57110965 AAATTTACATTT
1 AAAATTACATTT
57110977 CGGCCCCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 8 0.22
30 29 0.78
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.44
Consensus pattern (30 bp):
AAAATTACATTTTAACCCATAAATTTTTCT
Found at i:57110984 original size:30 final size:29
Alignment explanation
Indices: 57110929--57111014 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
57110919 ACCCATAAAA
* * *
57110929 TTTTTCAAAATTACATTTTGACCCCTAAT
1 TTTTTCTAAATTACATTTCGGCCCCTAAT
57110958 TTTTTCTAAATTTACATTTCGGCCCCTAAT
1 TTTTTCTAAA-TTACATTTCGGCCCCTAAT
* *
57110988 ATTTTCATAAATTACATTTGGGCCCCT
1 TTTTTC-TAAATTACATTTCGGCCCCT
57111015 GAACTTTCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTTCTAAATTACATTTCGGCCCCTAAT
Found at i:57111616 original size:26 final size:26
Alignment explanation
Indices: 57111585--57111645 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
57111575 GAAGAAGAAG
57111585 AAGAAAAAGAAAG-GAA-AAAAAAAGA
1 AAGAAAAA-AAAGAGAAGAAAAAAAGA
* *
57111610 ACAGAAAAAAGAGAGAAGAAAAAGAGA
1 A-AGAAAAAAAAGAGAAGAAAAAAAGA
57111637 AAGAAAAAA
1 AAGAAAAAA
57111646 TATCTTACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.13
26 18 0.58
27 9 0.29
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (26 bp):
AAGAAAAAAAAGAGAAGAAAAAAAGA
Found at i:57111617 original size:13 final size:12
Alignment explanation
Indices: 57111582--57111645 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 12
57111572 CCCGAAGAAG
57111582 AAGAAGAAAAAGA
1 AAGAA-AAAAAGA
57111595 AAGGAAAAAAAAAGA
1 AA-G--AAAAAAAGA
57111610 ACAGAAAAAAGAGA
1 A-AGAAAAAA-AGA
*
57111624 GAAGAAAAAGAGA
1 -AAGAAAAAAAGA
57111637 AAGAAAAAA
1 AAGAAAAAA
57111646 TATCTTACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 8 0.19
13 11 0.26
14 11 0.26
15 10 0.23
16 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:57111618 original size:27 final size:26
Alignment explanation
Indices: 57111588--57111645 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
57111578 GAAGAAGAAG
57111588 AAAAAGAAAGGAA-AAAAAAAGAACAGA
1 AAAAAGAAA-GAAGAAAAAAAGAA-AGA
* *
57111615 AAAAAGAGAGAAGAAAAAGAGAAAGA
1 AAAAAGAAAGAAGAAAAAAAGAAAGA
57111641 AAAAA
1 AAAAA
57111646 TATCTTACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (26 bp):
AAAAAGAAAGAAGAAAAAAAGAAAGA
Found at i:57111632 original size:15 final size:14
Alignment explanation
Indices: 57111576--57111645 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 14
57111566 TTCGGCCCCG
57111576 AAGAAGAAGAAGAAA
1 AAGAAGAAGAA-AAA
*
57111591 AAGAA-AGGAAAAA
1 AAGAAGAAGAAAAA
*
57111604 AA-AAGAACAGAAAA
1 AAGAAGAAGA-AAAA
57111618 AAGAGAGAAGAAAAA
1 AAGA-AGAAGAAAAA
*
57111633 GAG-A-AAGAAAAA
1 AAGAAGAAGAAAAA
57111645 A
1 A
57111646 TATCTTACAC
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
12 10 0.22
13 8 0.18
14 10 0.22
15 12 0.27
16 5 0.11
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (14 bp):
AAGAAGAAGAAAAA
Found at i:57112317 original size:20 final size:20
Alignment explanation
Indices: 57112275--57112318 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
57112265 GAAAATGTTC
* *
57112275 AAAATTTCTCGTGTTTTAAT
1 AAAAATTCTCGTGTTTGAAT
*
57112295 AAAAATTCTCGTGTTTGATT
1 AAAAATTCTCGTGTTTGAAT
57112315 AAAA
1 AAAA
57112319 TCCCGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (20 bp):
AAAAATTCTCGTGTTTGAAT
Found at i:57112567 original size:24 final size:22
Alignment explanation
Indices: 57112540--57112608 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 22
57112530 AAAAAATAAT
57112540 AATAAAATTTCCTGTGTTTCAAAA
1 AATAAAATTT-C-GTGTTTCAAAA
*
57112564 AAT-ATATATTCGTGATTT-AAAA
1 AATAAAAT-TTCGTG-TTTCAAAA
57112586 AATAATAATTTTCGTGTTTCAAA
1 AATAA-AA-TTTCGTGTTTCAAA
57112609 TTTTCGTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
22 10 0.27
23 11 0.30
24 15 0.41
25 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
AATAAAATTTCGTGTTTCAAAA
Found at i:57112610 original size:15 final size:15
Alignment explanation
Indices: 57112592--57112642 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 15
57112582 AAAAAATAAT
57112592 AATTTTCGTGTTTCA
1 AATTTTCGTGTTTCA
57112607 AATTTTCGTGTTTTCAAA
1 AATTTTCGTG-TTTC--A
57112625 AATTTCTCGTGTTTCA
1 AATTT-TCGTGTTTCA
57112641 AA
1 AA
57112643 AAAAATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.31
16 7 0.22
18 10 0.31
19 5 0.16
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (15 bp):
AATTTTCGTGTTTCA
Found at i:57112629 original size:18 final size:18
Alignment explanation
Indices: 57112592--57112926 Score: 158
Period size: 17 Copynumber: 18.1 Consensus size: 18
57112582 AAAAAATAAT
57112592 AATTTTCGTG-TTTC--A
1 AATTTTCGTGTTTTCAAA
57112607 AATTTTCGTGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
57112625 AATTTCTCGTG-TTTCAAAAAAA
1 AATTT-TCGTGTTTTC----AAA
*
57112647 ATTTGACTTTTCGCGTTTT-AAA
1 A----A-TTTTCGTGTTTTCAAA
*
57112669 AAATTTCGTGTTTTCAAAA
1 AATTTTCGTGTTTTC-AAA
* * *
57112688 AATTCTCATG-CTTCAAA
1 AATTTTCGTGTTTTCAAA
*
57112705 AATCTTCGTGTTTTC-AA
1 AATTTTCGTGTTTTCAAA
* *
57112722 AATTCTAGTG-TTTCAAAA
1 AATTTTCGTGTTTTC-AAA
57112740 AATTTTCGTGTTTTC-AA
1 AATTTTCGTGTTTTCAAA
*
57112757 AATTTCTCGTGTTTTCGAA
1 AATTT-TCGTGTTTTCAAA
** *
57112776 AATTCCCGT-TTTTCGAA
1 AATTTTCGTGTTTTCAAA
*
57112793 AATTTTCTTGTTTTCAAAAA
1 AATTTTCGTGTTTTC--AAA
57112813 ATATTTTCGTG-TTTCAAA
1 A-ATTTTCGTGTTTTCAAA
* **
57112831 AATTTCCGTGTTTGAAAAAAAA
1 AATTTTCGTGTTT----TCAAA
* **
57112853 AATTCTCG-CCTTTCAAAAA
1 AATTTTCGTGTTTTC--AAA
*
57112872 AATTTCCGTGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
** *
57112890 AATTGACCGTG-TTTCATA
1 AATT-TTCGTGTTTTCAAA
57112908 AATTTTCGTG-TTTCAAA
1 AATTTTCGTGTTTTCAAA
57112925 AA
1 AA
57112927 AAATCTTCGT
Statistics
Matches: 244, Mismatches: 41, Indels: 68
0.69 0.12 0.19
Matches are distributed among these distances:
15 10 0.04
16 8 0.03
17 70 0.29
18 68 0.28
19 39 0.16
20 11 0.05
21 10 0.04
22 17 0.07
26 5 0.02
27 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (18 bp):
AATTTTCGTGTTTTCAAA
Found at i:57112643 original size:17 final size:19
Alignment explanation
Indices: 57112606--57112926 Score: 164
Period size: 18 Copynumber: 17.2 Consensus size: 19
57112596 TTCGTGTTTC
57112606 AAATTT-TCGTGTTTTCAA
1 AAATTTCTCGTGTTTTCAA
57112624 AAATTTCTCGTG-TTTCAAAAA
1 AAATTTCTCGTGTTTTC---AA
*
57112645 AAATTTGACTTTTCGCGTTTT-AA
1 AAATTT--C---TCGTGTTTTCAA
*
57112668 AAAATT-TCGTGTTTTCAA
1 AAATTTCTCGTGTTTTCAA
* * *
57112686 AAAATTCTCATG-CTTCAA
1 AAATTTCTCGTGTTTTCAA
*
57112704 AAATCT-TCGTGTTTTC-A
1 AAATTTCTCGTGTTTTCAA
*
57112721 AAA-TTCTAGTG-TTTCAAA
1 AAATTTCTCGTGTTTTC-AA
57112739 AAATTT-TCGTGTTTTC-A
1 AAATTTCTCGTGTTTTCAA
*
57112756 AAATTTCTCGTGTTTTCGA
1 AAATTTCTCGTGTTTTCAA
* *
57112775 AAA-TTCCCGT-TTTTCGA
1 AAATTTCTCGTGTTTTCAA
*
57112792 AAATTT-TCTTGTTTTCAAA
1 AAATTTCTCGTGTTTTC-AA
*
57112811 AAATATTTTCGTG-TTTCAA
1 AAAT-TTCTCGTGTTTTCAA
**
57112830 AAATTTC-CGTGTTTGAAAAAA
1 AAATTTCTCGTGTTT---TCAA
* **
57112851 AAAATTCTCG-CCTTTCAAAA
1 AAATTTCTCGTGTTTTC--AA
57112871 AAATTTC-CGTGTTTTCAA
1 AAATTTCTCGTGTTTTCAA
* *
57112889 AAATTGAC-CGTG-TTTCAT
1 AAATT-TCTCGTGTTTTCAA
57112907 AAATTT-TCGTG-TTTCAA
1 AAATTTCTCGTGTTTTCAA
57112924 AAA
1 AAA
57112927 AAATCTTCGT
Statistics
Matches: 236, Mismatches: 32, Indels: 71
0.70 0.09 0.21
Matches are distributed among these distances:
16 5 0.02
17 55 0.23
18 82 0.35
19 37 0.16
20 18 0.08
21 22 0.09
22 2 0.01
23 8 0.03
26 4 0.02
27 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (19 bp):
AAATTTCTCGTGTTTTCAA
Found at i:57112789 original size:35 final size:36
Alignment explanation
Indices: 57112661--57112812 Score: 120
Period size: 35 Copynumber: 4.3 Consensus size: 36
57112651 GACTTTTCGC
* * * *
57112661 GTTTTAAAAAATT-TCGTGTTTTCAAAAAATTCTCAT
1 GTTTTCAAAAATTCCCGTGTTTTC-AAAATTTCTCGT
* * *
57112697 G-CTTCAAAAA-TCTTCGTGTTTTCAAAA-TTCTAGT
1 GTTTTCAAAAATTC-CCGTGTTTTCAAAATTTCTCGT
**
57112731 G-TTTCAAAAAATTTTCGTGTTTTCAAAATTTCTCGT
1 GTTTTC-AAAAATTCCCGTGTTTTCAAAATTTCTCGT
* *
57112767 GTTTTCGAAAATTCCCGT-TTTTCGAAAATTT-TCTT
1 GTTTTCAAAAATTCCCGTGTTTTC-AAAATTTCTCGT
57112802 GTTTTCAAAAA
1 GTTTTCAAAAA
57112813 ATATTTTCGT
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
34 10 0.10
35 48 0.49
36 35 0.36
37 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (36 bp):
GTTTTCAAAAATTCCCGTGTTTTCAAAATTTCTCGT
Found at i:57112795 original size:53 final size:53
Alignment explanation
Indices: 57112680--57112850 Score: 145
Period size: 53 Copynumber: 3.2 Consensus size: 53
57112670 AATTTCGTGT
* * * * *
57112680 TTTCAAAAAATTCTCATG-CTTCAAAA-ATCTTCGTGTTTTCAAAATTCTAGTG
1 TTTCAAAAAATTTTCGTGTTTTCAAAATTTC-TCGTGTTTTCAAAATTCCAGTG
* *
57112732 TTTCAAAAAATTTTCGTGTTTTCAAAATTTCTCGTGTTTTCGAAAATTCCCGTT
1 TTTCAAAAAATTTTCGTGTTTTCAAAATTTCTCGTGTTTTC-AAAATTCCAGTG
* * *
57112786 TTTC-GAAAATTTTCTTGTTTTCAAAAAATATTTTCGTG-TTTCAAAAATTTCC-GTG
1 TTTCAAAAAATTTTCGTGTTTTC--AAAAT-TTCTCGTGTTTTC-AAAA-TTCCAGTG
*
57112841 TTTGAAAAAA
1 TTTCAAAAAA
57112851 AAAATTCTCG
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
52 16 0.16
53 33 0.34
54 15 0.15
55 18 0.19
56 15 0.15
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (53 bp):
TTTCAAAAAATTTTCGTGTTTTCAAAATTTCTCGTGTTTTCAAAATTCCAGTG
Found at i:57112820 original size:21 final size:20
Alignment explanation
Indices: 57112794--57112941 Score: 71
Period size: 20 Copynumber: 7.7 Consensus size: 20
57112784 TTTTTCGAAA
*
57112794 ATTTTCTTGTTTTCAAAAAAT
1 ATTTTCGTG-TTTCAAAAAAT
57112815 ATTTTCGTGTTTC--AAAA-
1 ATTTTCGTGTTTCAAAAAAT
* * *
57112832 ATTTCCGTGTTTGAAAAAAAAA
1 ATTTTCGTGTTT--CAAAAAAT
* **
57112854 ATTCTCGCCTTTCAAAAAA-
1 ATTTTCGTGTTTCAAAAAAT
*
57112873 ATTTCCGTGTTTTC-AAAAAT
1 ATTTTCGTG-TTTCAAAAAAT
*** *
57112893 -TGACCGTGTTTC--ATAA-
1 ATTTTCGTGTTTCAAAAAAT
*
57112909 ATTTTCGTGTTTCAAAAAAA
1 ATTTTCGTGTTTCAAAAAAT
*
57112929 ATCTTCGTGTTTC
1 ATTTTCGTGTTTC
57112942 GTTTTTTATC
Statistics
Matches: 96, Mismatches: 20, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
17 23 0.24
18 8 0.08
19 19 0.20
20 26 0.27
21 12 0.12
22 8 0.08
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTTTCGTGTTTCAAAAAAT
Found at i:57113027 original size:20 final size:21
Alignment explanation
Indices: 57112999--57113042 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
57112989 AATTTTCATG
57112999 TTTCAAAAAGAAAAT-TCGTGT
1 TTTCAAAAA-AAAATCTCGTGT
57113020 TTTC-AAAAAAAATCTCGTGT
1 TTTCAAAAAAAAATCTCGTGT
57113040 TTT
1 TTT
57113043 AGAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
TTTCAAAAAAAAATCTCGTGT
Found at i:57121284 original size:20 final size:20
Alignment explanation
Indices: 57121243--57121312 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 20
57121233 TATTATGCCT
* *
57121243 AAAAAAACAAAAAA-ATAGA
1 AAAAAAACAAAAAACAAACA
* * *
57121262 AAAAAAA-TAGAAAGAAACA
1 AAAAAAACAAAAAACAAACA
57121281 AAAAAAACAAAAAACAAAC-
1 AAAAAAACAAAAAACAAACA
57121300 AAAAAAACAAAAA
1 AAAAAAACAAAAA
57121313 TGGAAAAATC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.10
19 30 0.71
20 8 0.19
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.03
Consensus pattern (20 bp):
AAAAAAACAAAAAACAAACA
Found at i:57122487 original size:157 final size:154
Alignment explanation
Indices: 57122180--57122713 Score: 693
Period size: 157 Copynumber: 3.4 Consensus size: 154
57122170 AAGAAATATT
* * * *
57122180 TTTTAATTTTCGTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCACAT
1 TTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACAT
57122245 GCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
66 GCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
*
57122310 CCTCGGGTCACATGCCGAGGTATTTC
131 CCTCGGGTCAC--GCTGAGGTATTTC
*
57122336 TTTTAAATTTCTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
57122401 TGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTT
65 TGCCGAGGTATTTCTTTTAAATTTCTTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTT
57122466 GAGCCTCGGGTCACGCTGAGGTATTTC
128 GAGCCTCGGGTCACGCTGAGGTATTTC
* * * *
57122493 TTTTAAATTTCTACTTTTCAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACA
1 TTTTAAATTTCT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACA
** * * *
57122558 CACCGAGGTA--TC-TTT-AATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAAGTGTGTTG
65 TGCCGAGGTATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTG
* * * **
57122619 AACCTTGGGCCGCACATTGAGGTA-TT-
129 AGCCTCGGG--TCACGCTGAGGTATTTC
* * * * *
57122645 TTTCAAATTTTGTTTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGCCAC
1 TTTTAAA-TTT-CTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCAC
57122710 ATGC
64 ATGC
57122714 TAAGCTATTT
Statistics
Matches: 338, Mismatches: 31, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
152 43 0.13
153 57 0.17
154 20 0.06
155 2 0.01
156 16 0.05
157 151 0.45
158 5 0.01
159 44 0.13
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (154 bp):
TTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACAT
GCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAG
CCTCGGGTCACGCTGAGGTATTTC
Found at i:57122725 original size:78 final size:78
Alignment explanation
Indices: 57122180--57122713 Score: 692
Period size: 78 Copynumber: 6.9 Consensus size: 78
57122170 AAGAAATATT
* * *
57122180 TTTTAATTTTCGTTTTTCAAAAATCAACTCATAATGCGAGAGATGAGTTGAGCCTCGGGTCACAT
1 TTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
57122245 GCCGAGGTATTTC
66 GCCGAGGTATTTC
57122258 TTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
57122323 GCCGAGGTATTTC
66 GCCGAGGTATTTC
57122336 TTTTAAATTTCTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
57122401 TGCCGAGGTATTTC
65 TGCCGAGGTATTTC
*
57122415 TTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTCAC
1 TTTTAAATTTCTTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
57122480 --GCTGAGGTATTTC
64 ATGCCGAGGTATTTC
* * * * *
57122493 TTTTAAATTTCTACTTTTCAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCACA
1 TTTTAAATTTCT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA
**
57122558 CACCGAGGTA--TC
65 TGCCGAGGTATTTC
* * * * * *
57122570 -TTT-AATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAAGTGTGTTGAACCTTGGGCCGCA
1 TTTTAAATTTCT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG--TCA
*
57122633 CAT--TGAGGTA-TT-
63 CATGCCGAGGTATTTC
* * * * * *
57122645 TTTCAAATTTTGTTTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGCCAC
1 TTTTAAA-TTT-CTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAC
57122710 ATGC
64 ATGC
57122714 TAAGCTATTT
Statistics
Matches: 407, Mismatches: 35, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
75 52 0.13
76 11 0.03
77 48 0.12
78 160 0.39
79 91 0.22
80 45 0.11
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (78 bp):
TTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
GCCGAGGTATTTC
Found at i:57123594 original size:11 final size:11
Alignment explanation
Indices: 57123572--57123634 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 11
57123562 CCCGAAGAAG
57123572 AAGAAGAAAAAA
1 AAGAA-AAAAAA
*
57123584 AGGAAAAAAAA
1 AAGAAAAAAAA
57123595 AAGAAAAGAAAA
1 AAGAAAA-AAAA
57123607 AAGAGAGAAGAAAA
1 AAGA-A-AA-AAAA
57123621 AGAGAAAGAAAAA
1 A-AGAAA-AAAAA
57123634 A
1 A
57123635 TATCTTACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
11 12 0.27
12 12 0.27
13 7 0.16
14 10 0.23
15 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:57123595 original size:12 final size:13
Alignment explanation
Indices: 57123573--57123634 Score: 65
Period size: 12 Copynumber: 4.9 Consensus size: 13
57123563 CCGAAGAAGA
*
57123573 AGAAGAAAAAAAG
1 AGAAAAAAAAAAG
57123586 -GAAAAAAAAAAG
1 AGAAAAAAAAAAG
*
57123598 A-AAAGAAAAAAG
1 AGAAAAAAAAAAG
* *
57123610 AGAGAAGAAAAAG
1 AGAAAAAAAAAAG
*
57123623 AGAAAGAAAAAA
1 AGAAAAAAAAAA
57123635 TATCTTACAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 22 0.56
13 17 0.44
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:57123607 original size:26 final size:25
Alignment explanation
Indices: 57123569--57123634 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
57123559 GGCCCCGAAG
*
57123569 AAGAAGAAGAAAAAAAGGAAAAAAAA
1 AAGAA-AAGAAAAAAAAGAAAAAAAA
* * *
57123595 AAGAAAAGAAAAAAGAGAGAAGAAA
1 AAGAAAAGAAAAAAAAGAAAAAAAA
57123620 AAGAGAAAGAAAAAA
1 AAGA-AAAGAAAAAA
57123635 TATCTTACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
AAGAAAAGAAAAAAAAGAAAAAAAA
Found at i:57124317 original size:20 final size:21
Alignment explanation
Indices: 57124287--57124330 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
57124277 GAAAATGTTC
57124287 AAAATTCCTCGTGTTTTAATA
1 AAAATTCCTCGTGTTTTAATA
*
57124308 AAAATT-CTCGTGTTTTATTA
1 AAAATTCCTCGTGTTTTAATA
57124328 AAA
1 AAA
57124331 TCTCGGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (21 bp):
AAAATTCCTCGTGTTTTAATA
Found at i:57124597 original size:22 final size:24
Alignment explanation
Indices: 57124544--57124612 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
57124534 CATGTTCCAA
* *
57124544 AAAATAATAATAAAATTTCCTGTATTT
1 AAAA-AATAATAATA-TTCGTG-ATTT
*
57124571 CAAAAA-AAT-ATATTCGTGATTT
1 AAAAAATAATAATATTCGTGATTT
*
57124593 AAAAAATAATAATTTTCGTG
1 AAAAAATAATAATATTCGTG
57124613 TTTCAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 9 0.26
23 8 0.23
24 10 0.29
25 3 0.09
26 2 0.06
27 3 0.09
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (24 bp):
AAAAAATAATAATATTCGTGATTT
Found at i:57124621 original size:15 final size:15
Alignment explanation
Indices: 57124603--57124668 Score: 87
Period size: 15 Copynumber: 4.1 Consensus size: 15
57124593 AAAAAATAAT
57124603 AATTTTCGTGTTTCA
1 AATTTTCGTGTTTCA
57124618 AATTTTCGTGTTTCA
1 AATTTTCGTGTTTCA
*
57124633 AATTTTCGTCTTTTCAAA
1 AATTTTCGT-GTTTC--A
57124651 AATTTCTCGTGTTTCA
1 AATTT-TCGTGTTTCA
57124667 AA
1 AA
57124669 AAAATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
15 24 0.53
16 7 0.16
18 10 0.22
19 4 0.09
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (15 bp):
AATTTTCGTGTTTCA
Found at i:57124655 original size:18 final size:18
Alignment explanation
Indices: 57124603--57124982 Score: 181
Period size: 18 Copynumber: 21.1 Consensus size: 18
57124593 AAAAAATAAT
57124603 AATTTTCGTG-TTTC--A
1 AATTTTCGTGTTTTCAAA
57124618 AATTTTCGTG-TTTC--A
1 AATTTTCGTGTTTTCAAA
*
57124633 AATTTTCGTCTTTTCAAA
1 AATTTTCGTGTTTTCAAA
57124651 AATTTCTCGTG-TTTCAAA
1 AATTT-TCGTGTTTTCAAA
** * *
57124669 AA-AAT-AT-TTTTC--G
1 AATTTTCGTGTTTTCAAA
*
57124682 AATTTTCGCGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
*
57124700 AAATTTCGTGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
57124718 AATTTCTCGTG-TTTCAAAAAA
1 AATTT-TCGTGTTTTC---AAA
57124739 ATTTTGACTTTTCGTGTTTTCAAA
1 A-----A-TTTTCGTGTTTTCAAA
* * *
57124763 AATTCTCATG-CTTCAAA
1 AATTTTCGTGTTTTCAAA
*
57124780 AATCTTCGTGTTTTC-AA
1 AATTTTCGTGTTTTCAAA
* * *
57124797 AATTCTAGT-ATTTCAAAA
1 AATTTTCGTGTTTTC-AAA
*
57124815 AATTTTCGTGTTTTCGAA
1 AATTTTCGTGTTTTCAAA
**
57124833 AATTCCCGT-TTTTCAAA
1 AATTTTCGTGTTTTCAAA
*
57124850 AATTTTCTTGTTTTCAAAA
1 AATTTTCGTGTTTTC-AAA
*
57124869 AATATTTCCGTG-TTTCATA
1 AAT-TTT-CGTGTTTTCAAA
* **
57124888 AATTTCCGTGTTTGAAAAAAA
1 AATTTTCGTGTTT---TCAAA
* *
57124909 AATTCTCGT-CTTTCAAAAA
1 AATTTTCGTGTTTTC--AAA
57124928 AATTTTCGTGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
** *
57124946 AATTGACAGTG-TTTCATA
1 AATTTTC-GTGTTTTCAAA
57124964 AATTTTCGTG-TTTCAAA
1 AATTTTCGTGTTTTCAAA
57124981 AA
1 AA
57124983 AAAAATCTTC
Statistics
Matches: 274, Mismatches: 54, Indels: 72
0.69 0.14 0.18
Matches are distributed among these distances:
13 2 0.01
14 1 0.00
15 29 0.11
16 14 0.05
17 49 0.18
18 94 0.34
19 39 0.14
20 13 0.05
21 16 0.06
24 4 0.01
26 6 0.02
27 7 0.03
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTTTCGTGTTTTCAAA
Found at i:57124795 original size:35 final size:35
Alignment explanation
Indices: 57124747--57124982 Score: 163
Period size: 35 Copynumber: 6.5 Consensus size: 35
57124737 AAATTTTGAC
**
57124747 TTTTCGTGTTTTCAAAAATTCTCATGCTTCAAAAA
1 TTTTCGTGTTTTCAAAAATTCTCATATTTCAAAAA
*
57124782 TCTTCGTGTTTTC-AAAATTCT-AGTATTTCAAAAAA
1 TTTTCGTGTTTTCAAAAATTCTCA-TATTTC-AAAAA
* * * *
57124817 TTTTCGTGTTTTCGAAAATTCCCGTTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAATTCTCATATTTCAAAAA
* * * * *
57124852 TTTTCTTGTTTTCAAAAAATATTTCCGTGTTTCATAAA
1 TTTTCGTGTTTTC-AAAAAT-TCT-CATATTTCAAAAA
* ** * *
57124890 TTTCCGTGTTTGAAAAAAAAATTCTCGTCTTTCAAAAAAA
1 TTTTCGTGTTT---TCAAAAATTCTCATATTTC--AAAAA
** * *
57124930 TTTTCGTGTTTTCAAAAATTGACAGTGTTTCATAAA
1 TTTTCGTGTTTTCAAAAATTCTCA-TATTTCAAAAA
57124966 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
57124983 AAAAATCTTC
Statistics
Matches: 160, Mismatches: 28, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
33 1 0.01
34 12 0.08
35 55 0.34
36 29 0.18
37 9 0.06
38 32 0.20
39 2 0.01
40 20 0.12
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (35 bp):
TTTTCGTGTTTTCAAAAATTCTCATATTTCAAAAA
Done.