Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 45 of 313
Found at i:15001256 original size:43 final size:43
Alignment explanation
Indices: 15001203--15001305 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
15001193 TGCATTTCAA
*
15001203 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACATTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
15001246 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
15001289 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
15001306 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:15012522 original size:27 final size:27
Alignment explanation
Indices: 15012480--15012615 Score: 193
Period size: 27 Copynumber: 5.0 Consensus size: 27
15012470 NNNNNNNNNN
15012480 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
15012507 GAGGGTAAAACAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
15012533 TGAGGGTAAAATGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * **
15012561 GAGGGTAAAATGGTAATTTTAAAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
15012588 AAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
15012615 G
1 G
15012616 GGAGTACTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 93 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:15017426 original size:20 final size:19
Alignment explanation
Indices: 15017403--15017494 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 19
15017393 TCACATTCTT
15017403 TTTCTTTTTCATCTTTTTCC
1 TTTCTTTTT-ATCTTTTTCC
*
15017423 TTTCTCGTTT-TC-TTTTCAC
1 TTTCT-TTTTATCTTTTTC-C
* *
15017442 TTTC-TCTTATTGTTTTTCC
1 TTTCTTTTTA-TCTTTTTCC
* *
15017461 TCTCTTTTTATCATTTTTCT
1 TTTCTTTTTATC-TTTTTCC
*
15017481 TTTCTTTTTCTCTT
1 TTTCTTTTTATCTT
15017495 ATTTATTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
17 2 0.04
18 5 0.09
19 15 0.27
20 30 0.55
21 3 0.05
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTCTTTTTATCTTTTTCC
Found at i:15017438 original size:19 final size:19
Alignment explanation
Indices: 15017414--15017461 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
15017404 TTCTTTTTCA
15017414 TCTTTTTCCTTTCTCGTT-T
1 TCTTTTTCCTTTCTC-TTAT
15017433 TC-TTTTCACTTTCTCTTAT
1 TCTTTTTC-CTTTCTCTTAT
*
15017452 TGTTTTTCCT
1 TCTTTTTCCT
15017462 CTCTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
19 13 0.52
20 5 0.20
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.67
Consensus pattern (19 bp):
TCTTTTTCCTTTCTCTTAT
Found at i:15020061 original size:28 final size:28
Alignment explanation
Indices: 15020028--15020129 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
15020018 GGCCTCTTTA
* *
15020028 GGCCCAATCTCATTCATATAGCCCATCG
1 GGCCCAATCACATTCATATGGCCCATCG
* *
15020056 GGCCCAATTACATTCATATGGCCCATTG
1 GGCCCAATCACATTCATATGGCCCATCG
* * *
15020084 GGCCCAATCACTTTCATATGGCCCGTCA
1 GGCCCAATCACATTCATATGGCCCATCG
15020112 GGCCCAATCACATTCATA
1 GGCCCAATCACATTCATA
15020130 GCCACGCAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCG
Found at i:15020100 original size:56 final size:57
Alignment explanation
Indices: 15020010--15020129 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 57
15020000 ATCCATACTT
* * * * *
15020010 ATTCATTTGGCCTCTTTAGGCCCAATCTCATTCATATAGCCCATCGGGCCCAATTAC
1 ATTCATATGGCCTCATTAGGCCCAATCACATTCATATAGCCCATCAGGCCCAATCAC
* * * *
15020067 ATTCATATGGCC-CATTGGGCCCAATCACTTTCATATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCTCATTAGGCCCAATCACATTCATATAGCCCATCAGGCCCAATCAC
15020123 ATTCATA
1 ATTCATA
15020130 GCCACGCAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 43 0.80
57 11 0.20
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (57 bp):
ATTCATATGGCCTCATTAGGCCCAATCACATTCATATAGCCCATCAGGCCCAATCAC
Found at i:15022263 original size:24 final size:24
Alignment explanation
Indices: 15022236--15022343 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
15022226 TTGGAGGCCT
*
15022236 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
15022260 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
*
15022285 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
*
15022310 AG-CCTTTTCGATAAACTAGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
15022334 AGCCCTTTTG
1 AGCCCTTTTG
15022344 CACTTCCTCC
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
23 1 0.01
24 37 0.49
25 38 0.50
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:15022283 original size:25 final size:25
Alignment explanation
Indices: 15022249--15022342 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
15022239 CTCTTTTAAT
*
15022249 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
15022274 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
15022299 AACTGGGGCAAAG-CCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
15022323 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
15022343 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 22 0.34
25 42 0.66
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:15024901 original size:30 final size:31
Alignment explanation
Indices: 15024857--15024916 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15024847 ATAGTAAAAG
*
15024857 AAACGAGCTGGAAAGAAGCTAAATTGAGCTC
1 AAACGAGCTGGAAAGAAGCTAAAGTGAGCTC
* *
15024888 AAACTAGCT-GAAAGAAGCTCAAGTGAGCT
1 AAACGAGCTGGAAAGAAGCTAAAGTGAGCT
15024917 GATTGGACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (31 bp):
AAACGAGCTGGAAAGAAGCTAAAGTGAGCTC
Found at i:15030088 original size:20 final size:21
Alignment explanation
Indices: 15030060--15030098 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15030050 ACTAAAAAAC
*
15030060 AAGTGACTCGT-AATCATCTT
1 AAGTCACTCGTAAATCATCTT
*
15030080 AAGTCACTCTTAAATCATC
1 AAGTCACTCGTAAATCATC
15030099 CATGACCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTCACTCGTAAATCATCTT
Found at i:15031775 original size:9 final size:10
Alignment explanation
Indices: 15031757--15031786 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15031747 TTTTGATACA
15031757 CAATTTTTTT
1 CAATTTTTTT
15031767 CAATTTTTTT
1 CAATTTTTTT
*
15031777 TAATTTTTTT
1 CAATTTTTTT
15031787 AAATACTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (10 bp):
CAATTTTTTT
Found at i:15034614 original size:28 final size:28
Alignment explanation
Indices: 15034574--15034682 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 28
15034564 TGGGAAGTAG
*
15034574 TTAGGCCTGATGGGCCATATGAATGTGA
1 TTAGGCCTAATGGGCCATATGAATGTGA
* *
15034602 TTAGGCTTAATGGGTCATATGAATGTGA
1 TTAGGCCTAATGGGCCATATGAATGTGA
* * * *
15034630 TTGGGCCTAATGGGCCATGTGAACGAGA
1 TTAGGCCTAATGGGCCATATGAATGTGA
* * *
15034658 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTAGGCCT-AATGGGCCATATGAAT
15034683 AAGTGTGGAT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 55 0.82
29 12 0.18
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.27
Consensus pattern (28 bp):
TTAGGCCTAATGGGCCATATGAATGTGA
Found at i:15035045 original size:26 final size:28
Alignment explanation
Indices: 15034981--15035066 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 28
15034971 TAATAAAGAA
* * * *
15034981 AAATTATTGAACTACCCCCAATTTATA-
1 AAATTATCGAAATACCCTCAATTTGTAG
*
15035008 AAATTATCGAAATACCCTCGA-TTGT-G
1 AAATTATCGAAATACCCTCAATTTGTAG
15035034 AAATTA-CTGAAATACCCTCAATTTGTAG
1 AAATTATC-GAAATACCCTCAATTTGTAG
15035062 AAATT
1 AAATT
15035067 CCCCTGATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.02
26 21 0.43
27 21 0.43
28 6 0.12
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (28 bp):
AAATTATCGAAATACCCTCAATTTGTAG
Found at i:15035110 original size:27 final size:27
Alignment explanation
Indices: 15035088--15035388 Score: 334
Period size: 27 Copynumber: 11.1 Consensus size: 27
15035078 TCAAATTATT
*
15035088 GAAACACCCTCGATTTGTAAAATTACT
1 GAAACACCCTCGATTTGTAAAATTACC
* * * * *
15035115 AAAATACCCCCGATTTGTGAAATTAGC
1 GAAACACCCTCGATTTGTAAAATTACC
*
15035142 GAAACACCCTCGATTTGTAAAATTATC
1 GAAACACCCTCGATTTGTAAAATTACC
15035169 GAAACACCCTCGATTTGTAAAATTACC
1 GAAACACCCTCGATTTGTAAAATTACC
* * * * *
15035196 AAAATACCTTCAATTTGTGAAATTACC
1 GAAACACCCTCGATTTGTAAAATTACC
* * *
15035223 GAAACACCATTGATTTGTAAAATTACT
1 GAAACACCCTCGATTTGTAAAATTACC
*
15035250 GAAACACCCTTGATTTGTAAAATTACC
1 GAAACACCCTCGATTTGTAAAATTACC
*
15035277 GAAACACCCTCGATTTGTAAAATTACT
1 GAAACACCCTCGATTTGTAAAATTACC
* * *
15035304 GAAATACCCTCGATTTTTAAAATTATC
1 GAAACACCCTCGATTTGTAAAATTACC
* * * *
15035331 GAAACACCCCCGAATTATAAAATTATC
1 GAAACACCCTCGATTTGTAAAATTACC
* * * *
15035358 GAAATACCTTTG-TAGTGTAAAATTACC
1 GAAACACCCTCGAT-TTGTAAAATTACC
15035385 GAAA
1 GAAA
15035389 TACCATTGTA
Statistics
Matches: 229, Mismatches: 44, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 229 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
GAAACACCCTCGATTTGTAAAATTACC
Found at i:15035165 original size:99 final size:99
Alignment explanation
Indices: 15034981--15035165 Score: 243
Period size: 99 Copynumber: 1.9 Consensus size: 99
15034971 TAATAAAGAA
* *
15034981 AAATTATTGAACTACCCCCAATTTATAAAATTATCGAAATACCCTCGATTGTGAAATTACTGAAA
1 AAATTATTGAACTACCCCCAATTTATAAAATTATCAAAATACCCCCGATTGTGAAATTACTGAAA
*
15035046 TACCCTCAATTTGTAGAAATTCCCCTGATATGTC
66 CACCCTCAATTTGTAGAAATTCCCCTGATATGTC
* * *
15035080 AAATTATTGAAAC-ACCCTCGATTTGTAAAATTA-CTAAAATACCCCCGATTTGTGAAATTAGC-
1 AAATTATTG-AACTACCCCCAATTTATAAAATTATC-AAAATACCCCCGA-TTGTGAAATTA-CT
*
15035142 GAAACACCCTCGATTTGTA-AAATT
62 GAAACACCCTCAATTTGTAGAAATT
15035166 ATCGAAACAC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
98 1 0.01
99 42 0.56
100 31 0.41
101 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (99 bp):
AAATTATTGAACTACCCCCAATTTATAAAATTATCAAAATACCCCCGATTGTGAAATTACTGAAA
CACCCTCAATTTGTAGAAATTCCCCTGATATGTC
Found at i:15035389 original size:27 final size:27
Alignment explanation
Indices: 15035348--15035434 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
15035338 CCCCGAATTA
*
15035348 TAAAATTATCGAAATACCTTTGTAGTG
1 TAAAATTATCGAAATACCATTGTAGTG
*
15035375 TAAAATTACCGAAATACCATTGTAGTG
1 TAAAATTATCGAAATACCATTGTAGTG
* * ** *
15035402 TAAAATGATCGACATACCCCTGTAGGG
1 TAAAATTATCGAAATACCATTGTAGTG
15035429 TAAAAT
1 TAAAAT
15035435 CACTATTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (27 bp):
TAAAATTATCGAAATACCATTGTAGTG
Found at i:15036970 original size:46 final size:46
Alignment explanation
Indices: 15036920--15037095 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
15036910 TGTTTGGGCA
*
15036920 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
15036966 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
15037014 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
15037059 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15037096 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 30 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15037075 original size:93 final size:93
Alignment explanation
Indices: 15036916--15037087 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
15036906 AGGATGTTTG
* * *
15036916 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
15036981 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
15037009 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
15037074 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
15037088 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:15040029 original size:15 final size:15
Alignment explanation
Indices: 15039990--15040069 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
15039980 GTATCTTGGG
15039990 TTTCTTTA-TCGTGGA
1 TTTCTTTATTC-TGGA
*
15040005 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
15040020 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
15040035 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
15040050 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
15040064 TTTCTT
1 TTTCTT
15040070 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
14 10 0.19
15 39 0.74
16 4 0.08
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:15042039 original size:46 final size:45
Alignment explanation
Indices: 15041989--15042163 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
15041979 TGTTTGGGCA
*
15041989 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
*** * *
15042034 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAT
*
15042083 T-C-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
* *
15042128 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
15042164 TGTGGGTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 29 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
Found at i:15045581 original size:24 final size:24
Alignment explanation
Indices: 15045554--15045601 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
15045544 GTTAATATGA
*
15045554 ATTATGGTATTTAGATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
15045578 ATTATGGTATTTACATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
15045602 GTGCACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (24 bp):
ATTATGGTATTTACATTAAGACAT
Found at i:15051630 original size:12 final size:12
Alignment explanation
Indices: 15051607--15051638 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
15051597 GTTGATAAAG
15051607 AAAATAAAATAAT
1 AAAAT-AAATAAT
15051620 AAAATAAATAAT
1 AAAATAAATAAT
15051632 AAAATAA
1 AAAATAA
15051639 TAACAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:15051651 original size:20 final size:20
Alignment explanation
Indices: 15051609--15051652 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15051599 TGATAAAGAA
*
15051609 AATAAAATAATAAAATAAAT
1 AATAAAATAATAAAAGAAAT
* *
15051629 AATAAAATAATAACAGAATT
1 AATAAAATAATAAAAGAAAT
15051649 AATA
1 AATA
15051653 TTGCAAAACA
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:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AATAAAATAATAAAAGAAAT
Found at i:15056683 original size:23 final size:23
Alignment explanation
Indices: 15056648--15056782 Score: 134
Period size: 23 Copynumber: 5.7 Consensus size: 23
15056638 AACTCATCAT
15056648 AGCTC-ATAAGAGCTTACTGTTTC
1 AGCTCAAT-AGAGCTTACTGTTTC
* * * *
15056671 AGCTCATTGGAGCTTACCGATTC
1 AGCTCAATAGAGCTTACTGTTTC
15056694 AGCTCGAA-AGAGCTTACTG-TTC
1 AGCTC-AATAGAGCTTACTGTTTC
15056716 AGCTCAATAGAGCTTACCAT-TTTC
1 AGCTCAATAGAGCTTA-C-TGTTTC
15056740 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTG-TT-TC
*
15056765 AGCTCAGTAAGAGCTTAC
1 AGCTCAAT-AGAGCTTAC
15056783 CGACATGTCT
Statistics
Matches: 94, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.02
22 17 0.18
23 33 0.35
24 24 0.26
25 9 0.10
26 9 0.10
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGTTTC
Found at i:15056741 original size:46 final size:45
Alignment explanation
Indices: 15056648--15056785 Score: 163
Period size: 46 Copynumber: 2.9 Consensus size: 45
15056638 AACTCATCAT
* *
15056648 AGCTCATAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTC
1 AGCTCA-AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTC
15056694 AGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACC-ATTTTC
1 AGCTC-AAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGA--TTC
*
15056740 AGCTCAATAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACCGA
1 AGCTCAA-AGAGCTTACTG-TT-TCAGCTCAAT-AGAGCTTACCGA
15056786 CATGTCTTGA
Statistics
Matches: 80, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
44 1 0.01
45 21 0.26
46 36 0.45
47 1 0.01
48 1 0.01
49 9 0.11
50 10 0.12
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
AGCTCAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATTC
Found at i:15056745 original size:24 final size:24
Alignment explanation
Indices: 15056667--15056783 Score: 109
Period size: 24 Copynumber: 4.9 Consensus size: 24
15056657 GAGCTTACTG
* *
15056667 TTTCAGCTCATTGGAGCTTACCGA-
1 TTTCAGCTCAATAGAGCTTACC-AT
15056691 -TTCAGCTCGAA-AGAGCTTA-C-T
1 TTTCAGCTC-AATAGAGCTTACCAT
*
15056712 GTTCAGCTCAATAGAGCTTACCAT
1 TTTCAGCTCAATAGAGCTTACCAT
**
15056736 TTTCAGCTCAATAGAGCTTACTGT
1 TTTCAGCTCAATAGAGCTTACCAT
*
15056760 TTATCAGCTCAGTAAGAGCTTACC
1 TT-TCAGCTCAAT-AGAGCTTACC
15056784 GACATGTCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.03
22 17 0.22
23 16 0.21
24 25 0.32
25 9 0.12
26 9 0.12
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:15059896 original size:25 final size:25
Alignment explanation
Indices: 15059868--15059918 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15059858 GAATTTGATA
15059868 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
15059893 TGATTCTGGGTATGGATTGGCTGAC
1 TGATTCTGGGTATGGATTGGCTGAC
15059918 T
1 T
15059919 ATGCACGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.37
Consensus pattern (25 bp):
TGATTCTGGGTATGGATTGGCTGAC
Found at i:15064283 original size:46 final size:45
Alignment explanation
Indices: 15064216--15064352 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 45
15064206 AAACTCACCA
* * *
15064216 TAGCTCATAAGAGCTTACTGTTTCAGCTTATTGGAGCTTACCGA-TT
1 TAGCTCA-AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACC-ATTT
*
15064262 TAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTATCATTT
1 TAGCTC-AAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCATTT
*
15064307 TCAGCTCAATAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACC
1 T-AGCTCAA-AGAGCTTACTG-TT-TCAGCTCAAT-AGAGCTTACC
15064353 GACCATGTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.01
45 22 0.29
46 34 0.44
47 1 0.01
48 1 0.01
49 9 0.12
50 9 0.12
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (45 bp):
TAGCTCAAAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCATTT
Found at i:15064313 original size:24 final size:24
Alignment explanation
Indices: 15064217--15064351 Score: 88
Period size: 24 Copynumber: 5.7 Consensus size: 24
15064207 AACTCACCAT
*
15064217 AGCTC-ATAAGAGCTTACT-GTTTC
1 AGCTCAAT-AGAGCTTACTATTTTC
* * * *
15064240 AGCTTATTGGAGCTTACCGA-TTT-
1 AGCTCAATAGAGCTTA-CTATTTTC
*
15064263 AGCTCGAA-AGAGCTTAC--TGTTC
1 AGCTC-AATAGAGCTTACTATTTTC
15064285 AGCTCAATAGAGCTTA-TCATTTTC
1 AGCTCAATAGAGCTTACT-ATTTTC
*
15064309 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTATTT-TC
*
15064334 AGCTCAGTAAGAGCTTAC
1 AGCTCAAT-AGAGCTTAC
15064352 CGACCATGTC
Statistics
Matches: 88, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
21 4 0.05
22 14 0.16
23 22 0.25
24 29 0.33
25 10 0.11
26 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACTATTTTC
Found at i:15080782 original size:40 final size:40
Alignment explanation
Indices: 15080727--15080802 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
15080717 AAAAATAGTA
15080727 GAAATTGAATCAGAGATTGAATGAGATATCAAATTATAGC
1 GAAATTGAATCAGAGATTGAATGAGATATCAAATTATAGC
15080767 GAAATTGAATCAGAGATTGAATGAGATATCAAATTA
1 GAAATTGAATCAGAGATTGAATGAGATATCAAATTA
15080803 GAGCTTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (40 bp):
GAAATTGAATCAGAGATTGAATGAGATATCAAATTATAGC
Found at i:15083162 original size:51 final size:49
Alignment explanation
Indices: 15083059--15083224 Score: 170
Period size: 49 Copynumber: 3.3 Consensus size: 49
15083049 AAACAATCTG
* ** * * * *
15083059 GTACTACACACGTGACGCAACCATCTGATACACGTAGTAGCCTGCATTTA
1 GTACTACACACGTGAC-TAATAATCCGGTACACATAGTAGCCTGCACTTA
* * * * *
15083109 GTACTACACACGTGATTGAAGTTATCGGGTACGCATAGTAGCCTACACTTA
1 GTACTACACACGTGACT-AA-TAATCCGGTACACATAGTAGCCTGCACTTA
* * *
15083160 GTACTACACATGCGACTAATAATCCGGTACACGTAGTAGCCTGCACTTA
1 GTACTACACACGTGACTAATAATCCGGTACACATAGTAGCCTGCACTTA
15083209 GTACTACACACGTGAC
1 GTACTACACACGTGAC
15083225 CTCACAATAG
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 39 0.41
50 19 0.20
51 36 0.38
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
GTACTACACACGTGACTAATAATCCGGTACACATAGTAGCCTGCACTTA
Found at i:15083207 original size:49 final size:51
Alignment explanation
Indices: 15083087--15083220 Score: 173
Period size: 49 Copynumber: 2.7 Consensus size: 51
15083077 AACCATCTGA
* * * * *
15083087 TACACGTAGTAGCCTGCATTTAGTACTACACACGTGATTGAAGTTATCGGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTGAAGTAATCCGG
* * * *
15083138 TACGCATAGTAGCCTACACTTAGTACTACACATGCGACT-AA-TAATCCGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTGAAGTAATCCGG
15083187 TACACGTAGTAGCCTGCACTTAGTACTACACACG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACG
15083221 TGACCTCACA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 36 0.51
50 2 0.03
51 32 0.46
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTGAAGTAATCCGG
Found at i:15085544 original size:8 final size:8
Alignment explanation
Indices: 15085533--15085562 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15085523 AGAGAGAGAG
15085533 AGTGAGTC
1 AGTGAGTC
15085541 AGTGAGTC
1 AGTGAGTC
*
15085549 AGTGAGTA
1 AGTGAGTC
15085557 AGTGAG
1 AGTGAG
15085563 AGAATTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.40, T:0.23
Consensus pattern (8 bp):
AGTGAGTC
Found at i:15101877 original size:12 final size:11
Alignment explanation
Indices: 15101851--15101876 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15101841 GGCTTCTTTG
15101851 TTTTCTTTTTT
1 TTTTCTTTTTT
15101862 TTTTCTTTTTT
1 TTTTCTTTTTT
15101873 TTTT
1 TTTT
15101877 TGACTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:15104008 original size:43 final size:43
Alignment explanation
Indices: 15103960--15104096 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
15103950 CGTGATTACA
**
15103960 TGTAAGACCATGTCTGAGACATTGGCATT-ATATTATGAATAA-G
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATA-TATG-ATAACG
* * *
15104003 TGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAACG
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
* * * * *
15104046 TGTAAGACCTTGTCTAAGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
*
15104089 CGTAAGAC
1 TGTAAGAC
15104097 TATATATGGG
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
42 4 0.05
43 74 0.91
44 3 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGAGGCATTGATATATGATAACG
Found at i:15109002 original size:32 final size:33
Alignment explanation
Indices: 15108972--15109085 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
15108962 GGTGTACATT
* **
15108972 CCTTTTCAAGTGGTACACACAGAGTATACATTT
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
* ** * *
15109005 CCTCTTCATTTGGTAGACACAAAGTATACCTAA
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
* *
15109038 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACATAA
*
15109070 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
15109086 CACTTAGGTA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
32 28 0.44
33 36 0.56
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACATAA
Found at i:15111039 original size:43 final size:43
Alignment explanation
Indices: 15110991--15111106 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
15110981 TGTGATTACA
*
15110991 TGTAAGACCATGTCTAGGACATTGGCATTG-TATT-ATGAATACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCA--AATACG
* * *
15111034 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
**
15111077 TGTAAGACCATGTCTAGGACAGAGGCATCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG
15111107 ATATGTGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 59 0.92
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCAAATACG
Found at i:15111500 original size:10 final size:10
Alignment explanation
Indices: 15111485--15111509 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15111475 CTAGCTCAGA
15111485 CATCAGGAAT
1 CATCAGGAAT
15111495 CATCAGGAAT
1 CATCAGGAAT
15111505 CATCA
1 CATCA
15111510 TCACACTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (10 bp):
CATCAGGAAT
Found at i:15116703 original size:24 final size:24
Alignment explanation
Indices: 15116676--15116722 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
15116666 ATACTAATTT
15116676 AGTTAACTATTTAAATAATAATAC
1 AGTTAACTATTTAAATAATAATAC
15116700 AGTTAACTATTTAAATAATAATA
1 AGTTAACTATTTAAATAATAATA
15116723 TATATTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AGTTAACTATTTAAATAATAATAC
Found at i:15130070 original size:34 final size:34
Alignment explanation
Indices: 15130027--15130094 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
15130017 CATAGACACA
15130027 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
1 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
15130061 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
1 TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
15130095 GTAATGTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (34 bp):
TGGAAAACATTATGAATTCTGTCAAGCTCTGGTG
Found at i:15130478 original size:43 final size:43
Alignment explanation
Indices: 15130429--15130629 Score: 341
Period size: 43 Copynumber: 4.7 Consensus size: 43
15130419 TGAAAAAAAT
*
15130429 GCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGG-AGAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAG-AGC
*
15130472 GCCGCTAAAGGTCAAGGCTTTTAGTGGCGTTTGTGGGAAGAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
*
15130515 GCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
15130558 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
* *
15130601 GCCGCTAAAGGTTAAAGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
15130630 CTTTTTCTAC
Statistics
Matches: 150, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
43 148 0.99
44 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAGAGC
Found at i:15130739 original size:31 final size:31
Alignment explanation
Indices: 15130704--15130770 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
15130694 CTTCCTGCAT
* *
15130704 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
15130735 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
15130766 TAAAA
1 TAAAA
15130771 AATATAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:15136554 original size:9 final size:9
Alignment explanation
Indices: 15136540--15136580 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
15136530 TTTTTATGTT
15136540 TTATGTAAG
1 TTATGTAAG
15136549 TTATGTAAG
1 TTATGTAAG
15136558 TTATGT-AG
1 TTATGTAAG
15136566 ATTATGTAAG
1 -TTATGTAAG
15136576 TTATG
1 TTATG
15136581 AAATTTGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15136657 original size:9 final size:9
Alignment explanation
Indices: 15136643--15136770 Score: 103
Period size: 9 Copynumber: 13.6 Consensus size: 9
15136633 ATGTATTAGT
15136643 TAAGTTATG
1 TAAGTTATG
15136652 TAAGTTGTTATG
1 TAA---GTTATG
*
15136664 TACGTTATG
1 TAAGTTATG
*
15136673 TGAGTTATG
1 TAAGTTATG
*
15136682 TAAATTATG
1 TAAGTTATG
*
15136691 TAAATTATG
1 TAAGTTATG
* *
15136700 TGATTTATG
1 TAAGTTATG
15136709 TAAGTTGTTATG
1 TAA---GTTATG
*
15136721 TAAATTATG
1 TAAGTTATG
*
15136730 TAAGTTATA
1 TAAGTTATG
*
15136739 TGAGTTATG
1 TAAGTTATG
15136748 TAAGTTATG
1 TAAGTTATG
* *
15136757 TAATTTATT
1 TAAGTTATG
15136766 TAAGT
1 TAAGT
15136771 AATGATCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 79 0.83
12 16 0.17
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:15136719 original size:57 final size:57
Alignment explanation
Indices: 15136647--15136770 Score: 167
Period size: 57 Copynumber: 2.2 Consensus size: 57
15136637 ATTAGTTAAG
** * * *
15136647 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAATTATGTGAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTAAT
* * *
15136704 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTAAT
*
15136761 TTATTTAAGT
1 TTATGTAAGT
15136771 AATGATCAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.48
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAATTATGTAAT
Found at i:15140522 original size:11 final size:11
Alignment explanation
Indices: 15140508--15140557 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
15140498 AATATTTTAA
15140508 AAATTCTTGAC
1 AAATTCTTGAC
* *
15140519 AAATTATTTTGTC
1 AAA-T-TCTTGAC
15140532 AAATTCTTGAC
1 AAATTCTTGAC
15140543 AAATTCTTGAC
1 AAATTCTTGAC
15140554 AAAT
1 AAAT
15140558 ATACAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:15140957 original size:18 final size:19
Alignment explanation
Indices: 15140936--15140971 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15140926 TTTGAAATTC
15140936 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
15140954 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
15140972 CAGAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:15142800 original size:41 final size:43
Alignment explanation
Indices: 15142718--15142803 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
15142708 GATAACAAAC
* *
15142718 CCGGCCCATACCATTAACTTAATATATATACTATACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
* * *
15142761 CCGGCCTAAACCATAAACTTAA-A-ATATATTCTACCATTGAA
1 CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
15142802 CC
1 CC
15142804 CTAAACCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 18 0.47
42 1 0.03
43 19 0.50
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (43 bp):
CCGGCCCAAACCATAAACTTAATATATATACTATACCATTGAA
Found at i:15143020 original size:28 final size:28
Alignment explanation
Indices: 15142984--15143050 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
15142974 AGTTTATGGA
* *
15142984 TTAGTGTTTATGGTTT-ATGTTTTAAAAT
1 TTAGGGTTTAGGGTTTAATG-TTTAAAAT
*
15143012 TTAGGGTTTAGGGTTTAATGTTTAAGAT
1 TTAGGGTTTAGGGTTTAATGTTTAAAAT
15143040 TTAAGGGTTTA
1 TT-AGGGTTTA
15143051 CAGAAAGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTAATGTTTAAAAT
Found at i:15143035 original size:21 final size:21
Alignment explanation
Indices: 15142988--15143050 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
15142978 TATGGATTAG
* * *
15142988 TGTTTATGGTTTATGTTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
** *
15143009 AATTTAGGGTTTAGGGTTTAA
1 TGTTTAAGGTTTAGGGTTTAA
*
15143030 TGTTTAAGATTTAAGGGTTTA
1 TGTTTAAGGTTT-AGGGTTTA
15143051 CAGAAAGCCA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (21 bp):
TGTTTAAGGTTTAGGGTTTAA
Found at i:15143634 original size:41 final size:41
Alignment explanation
Indices: 15143359--15143668 Score: 306
Period size: 41 Copynumber: 7.7 Consensus size: 41
15143349 CCAAAAATGT
*
15143359 CGCTATTGATCAGTTTTTAGTGGTGTTTTGGATAAAAACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * *
15143400 CACAATTGATCAGTTTTTAGTGGCGTTTTGGATAAAGACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * * * *
15143441 CACAATTGATCACTTTTTAGTGGCGTTTGGGAT-GAAACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * *
15143481 CGCAATTGATCAGTTTTTAGTGGCGTTTGGGATTAAAACG-
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* ** *
15143521 C-CTATTGATCAGCTTTTAGTGGCG-TTTGGCGAAAAAGGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * * **
15143560 CGCTA-TGACCAATTTTTAGTGGCTTTTTGGCCAAAAACGC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * * ** * *
15143600 TGCTATTGACCAGTTTTTAGTGGCGTTTTTGCCAAAAGCAC
1 CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
* * *
15143641 CGCTATAGTTTAGTTTTTAGTGGCGTTT
1 CGCTATTGATCAGTTTTTAGTGGCGTTT
15143669 CGGACAAACG
Statistics
Matches: 229, Mismatches: 35, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
38 9 0.04
39 37 0.16
40 57 0.25
41 126 0.55
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
CGCTATTGATCAGTTTTTAGTGGCGTTTTGGATAAAAACGC
Found at i:15153735 original size:9 final size:9
Alignment explanation
Indices: 15153701--15153757 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
15153691 TTTGGTTAAA
*
15153701 AATTAACAG
1 AATTAACCG
**
15153710 AATTAAAAG
1 AATTAACCG
15153719 AATTAACCG
1 AATTAACCG
15153728 AATTAACCG
1 AATTAACCG
* *
15153737 -ATCACCCG
1 AATTAACCG
15153745 AATTAACCG
1 AATTAACCG
15153754 AATT
1 AATT
15153758 GAATCACTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
8 6 0.15
9 34 0.85
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:15153787 original size:17 final size:17
Alignment explanation
Indices: 15153765--15153899 Score: 72
Period size: 17 Copynumber: 7.4 Consensus size: 17
15153755 ATTGAATCAC
15153765 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
15153782 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
15153802 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
15153819 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
*
15153839 TACATAAATAAAAACAT
1 TACATAATTAAAAACAT
** * *
15153856 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
15153876 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
15153893 TACATAA
1 TACATAA
15153900 GTCTTGAAAT
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 43 0.52
18 3 0.04
19 2 0.02
20 35 0.42
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:15153807 original size:20 final size:20
Alignment explanation
Indices: 15153782--15153882 Score: 70
Period size: 20 Copynumber: 5.3 Consensus size: 20
15153772 TTAAAAACAT
15153782 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
15153802 TACATAA-T-TAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
*
15153819 TACATAAGTCTATGAATCAC
1 TACATAAGTCTTTGAATCAC
* ** * *
15153839 TACATAA---ATAAAAACAT
1 TACATAAGTCTTTGAATCAC
15153856 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
15153876 TACATAA
1 TACATAA
15153883 TTAAAAACAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 19 0.33
18 5 0.09
19 6 0.11
20 27 0.47
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.32
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:15153921 original size:37 final size:37
Alignment explanation
Indices: 15153756--15153904 Score: 271
Period size: 37 Copynumber: 4.0 Consensus size: 37
15153746 ATTAACCGAA
15153756 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
15153793 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
15153830 ATGAATCACTACATAAATAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
15153867 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
15153904 T
1 T
15153905 GAAATTAACA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:15160835 original size:14 final size:14
Alignment explanation
Indices: 15160816--15160885 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
15160806 ATGAAGTTTG
15160816 AAATTATTATATTA
1 AAATTATTATATTA
*
15160830 AAATTATTATAAT-
1 AAATTATTATATTA
* * *
15160843 AAA-TA-GAAATTTG
1 AAATTATTATA-TTA
15160856 AAATTATTATATTA
1 AAATTATTATATTA
*
15160870 AAATTATTATAATA
1 AAATTATTATATTA
15160884 AA
1 AA
15160886 TAGAAATTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
11 2 0.05
12 3 0.07
13 6 0.14
14 31 0.70
15 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
AAATTATTATATTA
Found at i:15160856 original size:40 final size:40
Alignment explanation
Indices: 15160812--15160894 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
15160802 TATTATGAAG
15160812 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
1 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
15160852 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
1 TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
15160892 TTT
1 TTT
15160895 CAATTGTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (40 bp):
TTTGAAATTATTATATTAAAATTATTATAATAAATAGAAA
Found at i:15161080 original size:21 final size:21
Alignment explanation
Indices: 15161003--15161082 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
15160993 CTATCAAATG
*
15161003 AATTAATTTATGAAAAATAATTAT
1 AATTAATTT-T-AAAAATAA-TAA
* *
15161027 AATTAATTGTAAAAAAAAT-A
1 AATTAATTTTAAAAATAATAA
* * *
15161047 ATTTTATTATAAAAATAATAA
1 AATTAATTTTAAAAATAATAA
15161068 AATTAATTTTAAAAA
1 AATTAATTTTAAAAA
15161083 AAGGCCTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 15 0.33
21 14 0.31
22 7 0.16
23 1 0.02
24 8 0.18
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (21 bp):
AATTAATTTTAAAAATAATAA
Found at i:15165880 original size:14 final size:15
Alignment explanation
Indices: 15165852--15165889 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15165842 AAGAAAAGGG
*
15165852 GGTTTGGTTGCAGAT
1 GGTTGGGTTGCAGAT
15165867 GGTTGGGTTG-AGAT
1 GGTTGGGTTGCAGAT
15165881 GGATTGGGT
1 GG-TTGGGT
15165890 GGTGGTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.13, C:0.03, G:0.47, T:0.37
Consensus pattern (15 bp):
GGTTGGGTTGCAGAT
Found at i:15167336 original size:35 final size:34
Alignment explanation
Indices: 15167249--15167336 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 34
15167239 ATATACTCAA
* * *
15167249 TCAGATACAGATATAGATTCGGGTATAAGCCCAT
1 TCAGATACAGATACAGATTCGAGCATAAGCCCAT
* * *
15167283 TACCGATACAGATGCAGATTCGAGCCTAAGCCCAT
1 T-CAGATACAGATACAGATTCGAGCATAAGCCCAT
*
15167318 CTCAGATATAGATACAGAT
1 -TCAGATACAGATACAGAT
15167337 GTAAAAATCA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (34 bp):
TCAGATACAGATACAGATTCGAGCATAAGCCCAT
Found at i:15169565 original size:26 final size:27
Alignment explanation
Indices: 15169536--15169604 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
15169526 AGATAAATAT
*
15169536 ATTAATTTGAATATTTT-TTAAA-AAAA
1 ATTAATTT-AATATTTTAATAAAGAAAA
* *
15169562 ATT-ATTTCAAAATTTTAATAAAGTAAA
1 ATTAATTT-AATATTTTAATAAAGAAAA
*
15169589 ATCAATTTAATATTTT
1 ATTAATTTAATATTTT
15169605 CTACATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 11 0.32
26 7 0.21
27 12 0.35
28 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTAATTTAATATTTTAATAAAGAAAA
Found at i:15179996 original size:21 final size:22
Alignment explanation
Indices: 15179944--15179996 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
15179934 CCCAGATGCA
15179944 TATAAA-ATATATTATAAATAT
1 TATAAATATATATTATAAATAT
*
15179965 TATACAT-TATATTATAAAT-T
1 TATAAATATATATTATAAATAT
*
15179985 TTTAAATATATA
1 TATAAATATATA
15179997 AAATCCAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAAATATATATTATAAATAT
Found at i:15180206 original size:22 final size:22
Alignment explanation
Indices: 15180178--15180222 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15180168 TTGGGGAATC
15180178 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
15180200 CCCGACTTCCTCCCAGTGAAGT
1 CCCGACTTCCTCCCAGTGAAGT
15180222 C
1 C
15180223 TATTGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.22
Consensus pattern (22 bp):
CCCGACTTCCTCCCAGTGAAGT
Found at i:15182588 original size:20 final size:18
Alignment explanation
Indices: 15182550--15182584 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15182540 CAACTGAATC
15182550 ATATTTTATAAAATTTTA
1 ATATTTTATAAAATTTTA
*
15182568 ATATTTTATATAATTTT
1 ATATTTTATAAAATTTT
15182585 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTATAAAATTTTA
Found at i:15183698 original size:26 final size:22
Alignment explanation
Indices: 15183649--15183693 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15183639 TCAACTGACA
15183649 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTGCTGCT
15183671 TAGAGATGCAGTCAGTGCTGCT
1 TAGAGATGCAGTCAGTGCTGCT
15183693 T
1 T
15183694 CCTTACTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (22 bp):
TAGAGATGCAGTCAGTGCTGCT
Found at i:15183741 original size:12 final size:12
Alignment explanation
Indices: 15183720--15183752 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15183710 GCACACACGC
15183720 AAAA-AAAAAAA
1 AAAAGAAAAAAA
15183731 AAAAGAAAAAAA
1 AAAAGAAAAAAA
15183743 AAAAGAAAAA
1 AAAAGAAAAA
15183753 CAAACTGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:15192643 original size:20 final size:19
Alignment explanation
Indices: 15192600--15192668 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
15192590 AAAAAAAATC
*
15192600 AAAGAAAAAGAAGAGAATTAGA
1 AAAGAAAAAG-A-AGAA-GAGA
15192622 AAAGAAAAAGAAGAAGAGGA
1 AAAGAAAAAGAAGAAGA-GA
* **
15192642 AAAGGAGGAGAAGAAGAGA
1 AAAGAAAAAGAAGAAGAGA
15192661 AAA-AAAAA
1 AAAGAAAAA
15192669 TTCTAGAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 20 0.51
21 1 0.03
22 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
AAAGAAAAAGAAGAAGAGA
Found at i:15193237 original size:29 final size:31
Alignment explanation
Indices: 15193177--15193238 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
15193167 GGAGAAGAAG
*
15193177 AAGTATAAACATATTGGGTCATTTATGCAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
*
15193208 AAGTA-AAA-ATATTGGGTCATTTATTAAAA
1 AAGTATAAACATATTGGGTCATTTATGAAAA
15193237 AA
1 AA
15193239 TGGAAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.72
30 3 0.10
31 5 0.17
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (31 bp):
AAGTATAAACATATTGGGTCATTTATGAAAA
Found at i:15199908 original size:21 final size:21
Alignment explanation
Indices: 15199867--15199909 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
15199857 TAAAGTGGTT
*
15199867 GAGATTGAGGGGTAAGTGGGA
1 GAGATTGAGGGATAAGTGGGA
*
15199888 GAGATTTGAGGGATTAG-GGGA
1 GAGA-TTGAGGGATAAGTGGGA
15199909 G
1 G
15199910 TTAATATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.51, T:0.21
Consensus pattern (21 bp):
GAGATTGAGGGATAAGTGGGA
Found at i:15200623 original size:13 final size:13
Alignment explanation
Indices: 15200605--15200630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15200595 CGTGTGGACC
15200605 CACACAGACGTGT
1 CACACAGACGTGT
15200618 CACACAGACGTGT
1 CACACAGACGTGT
15200631 GGATCTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACAGACGTGT
Found at i:15203035 original size:30 final size:31
Alignment explanation
Indices: 15203010--15203068 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
15203000 ATAAATACTC
* *
15203010 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
15203040 AAAATTTGAAGGACTAATAGTGTAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
15203069 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:15204622 original size:51 final size:51
Alignment explanation
Indices: 15204535--15204646 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
15204525 TATCCGGATC
* * **
15204535 AAATATGAAGCTCTTGTTGAAGTTAGAGTAACAAAGTAATAATTCCAGATG
1 AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
** **
15204586 AAATATGAAGCTCTTATTGAAGCTAGAACATTAAAGTAATAATTCTGGATG
1 AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
*
15204637 AAGTATGAAG
1 AAATATGAAG
15204647 TAAGTTTGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (51 bp):
AAATATGAAGCTCTTATTGAAGCTAGAACAACAAAGTAATAATTCCAGATG
Found at i:15209612 original size:21 final size:22
Alignment explanation
Indices: 15209582--15209622 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
15209572 TAGTAAAAGT
15209582 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
15209604 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
15209623 CAAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:15216693 original size:35 final size:35
Alignment explanation
Indices: 15216653--15216809 Score: 242
Period size: 35 Copynumber: 4.5 Consensus size: 35
15216643 ATGGCAAAGG
15216653 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
* * *
15216688 CTGAAACATAGGTATGGTATCATCCATACCGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
* *
15216723 GTGAAACGTAGGTATGGTATAAACCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
*
15216758 GTGAAACGTAGGTATGGTATTATCCATACTGAGTT
1 GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
**
15216793 AAGAAACGTAGGTATGG
1 GTGAAACGTAGGTATGG
15216810 CGTTTCCCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 110 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (35 bp):
GTGAAACGTAGGTATGGTATCATCCATACTGAGTT
Found at i:15216827 original size:35 final size:35
Alignment explanation
Indices: 15216655--15216827 Score: 150
Period size: 35 Copynumber: 4.9 Consensus size: 35
15216645 GGCAAAGGGT
* * * **
15216655 GAAACGTAGGTATGGTATCATCCATACTGAGTTCT
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* * * **
15216690 GAAACATAGGTATGGTATCATCCATACCGAGTTGT
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* * * * **
15216725 GAAACGTAGGTATGGTATAAACCATACTGAGTTGT
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* *
15216760 GAAACGTAGGTATGGTATTATCCATACTGAGTTAA
1 GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
* *
15216795 GAAACGTAGGTATGGCGTT-TCCCATGCCGAGTT
1 GAAACGTAGGTATGGCATTAT-CCATACCGAGTT
15216828 GTCAAATTAG
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
34 1 0.01
35 121 0.99
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (35 bp):
GAAACGTAGGTATGGCATTATCCATACCGAGTTAA
Found at i:15216827 original size:70 final size:70
Alignment explanation
Indices: 15216655--15216847 Score: 208
Period size: 70 Copynumber: 2.8 Consensus size: 70
15216645 GGCAAAGGGT
* * * * * *
15216655 GAAACGTAGGTATGGTATCATCCATACTGAGTTCTGAAACATAGGTATGGTATCATCCATACCGA
1 GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATACCGA
**
15216720 GTTGT
66 GTTAA
* * * *
15216725 GAAACGTAGGTATGGTATAAACCATACTGAGTTGTGAAACGTAGGTATGGTATTATCCATACTGA
1 GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATACCGA
15216790 GTTAA
66 GTTAA
* *** * * *
15216795 GAAACGTAGGTATGGCGTTTCCCATGCCGAGTTGTCAAA-TTAGGTATGGTATT
1 GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATT
15216848 TCAATGAGGA
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
69 13 0.12
70 93 0.88
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (70 bp):
GAAACGTAGGTATGGCATAAACCATACCGAGTTGTGAAACATAGGTATGGTATTATCCATACCGA
GTTAA
Found at i:15220245 original size:48 final size:48
Alignment explanation
Indices: 15220174--15220319 Score: 265
Period size: 48 Copynumber: 3.0 Consensus size: 48
15220164 AGATAAATAT
15220174 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
*
15220222 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGGAATATGTATGAG
1 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
* *
15220270 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
15220318 AT
1 AT
15220320 GTGTGTATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
Found at i:15220510 original size:37 final size:37
Alignment explanation
Indices: 15220460--15220562 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
15220450 GGAAATATAT
15220460 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
15220497 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
15220534 CCCGAGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
15220563 GGACTATTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:15221729 original size:43 final size:43
Alignment explanation
Indices: 15221681--15221766 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
15221671 TGCAATTTTG
*
15221681 AAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCTAT
1 AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTAT
15221724 AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTAT
1 AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTAT
15221767 GAAACTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (43 bp):
AAAGAGTGTTATGACTATAAATGTGATCTTTGTATGTGGCTAT
Found at i:15222235 original size:40 final size:40
Alignment explanation
Indices: 15221875--15222223 Score: 635
Period size: 40 Copynumber: 8.7 Consensus size: 40
15221865 AGAATTGAGA
15221875 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
15221915 GTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
15221955 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
15221995 GCTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
15222035 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
15222075 GCTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
15222115 GTTATATCTGGGCTAAGTCCCGAAGAGCATTCATGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
15222155 GTTATATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
15222195 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GTTATATCCGGGCTAAGTCCCGAAGAGCA
15222224 ATCATGTTGG
Statistics
Matches: 296, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 296 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:15222449 original size:25 final size:25
Alignment explanation
Indices: 15222399--15222449 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
15222389 TGTGTAACAA
* *
15222399 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
15222424 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
15222449 C
1 C
15222450 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:15224861 original size:23 final size:23
Alignment explanation
Indices: 15224832--15224878 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15224822 CCTGCAAAAC
15224832 ATATAAGTTGGCAGTCTTTCCCT
1 ATATAAGTTGGCAGTCTTTCCCT
15224855 ATATAAGTTGGCAGTCTTTCCCT
1 ATATAAGTTGGCAGTCTTTCCCT
15224878 A
1 A
15224879 CCCTTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (23 bp):
ATATAAGTTGGCAGTCTTTCCCT
Found at i:15226142 original size:5 final size:5
Alignment explanation
Indices: 15226132--15226171 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
15226122 CCAATTAGTG
*
15226132 AAAAT AAAAT AAAAT AAAGTAA AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA--AT AAAAT AAAAT AAAAT AAA
15226172 GAACACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 27 0.87
7 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:15226159 original size:17 final size:17
Alignment explanation
Indices: 15226137--15226171 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15226127 TAGTGAAAAT
*
15226137 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAATAA
15226154 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
15226171 A
1 A
15226172 GAACACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:15226823 original size:27 final size:27
Alignment explanation
Indices: 15226792--15226847 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15226782 GGCCATGTGG
*
15226792 AATATGAGACTATGTTATTATGAGGGA
1 AATATGAGACTATGTAATTATGAGGGA
15226819 AATATGAGACTATGTAATTATGAGGGA
1 AATATGAGACTATGTAATTATGAGGGA
15226846 AA
1 AA
15226848 GAGTATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (27 bp):
AATATGAGACTATGTAATTATGAGGGA
Found at i:15231693 original size:27 final size:26
Alignment explanation
Indices: 15231656--15231767 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
15231646 AGCATGGCTG
* * *
15231656 CCAGAACAGATAATGAGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
15231682 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
15231710 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
15231737 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
15231764 CCAG
1 CCAG
15231768 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:15233736 original size:17 final size:17
Alignment explanation
Indices: 15233706--15233738 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15233696 CTCTAATTCC
15233706 TTATCACCAGATGATAG
1 TTATCACCAGATGATAG
15233723 TTATCTACCA-ATGATA
1 TTATC-ACCAGATGATA
15233739 AGAATCTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TTATCACCAGATGATAG
Found at i:15238231 original size:20 final size:20
Alignment explanation
Indices: 15238206--15238269 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
15238196 GGTTTTAACT
15238206 TTATGTAGTGATTCATAGAC
1 TTATGTAGTGATTCATAGAC
* **
15238226 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCATAGAC
*
15238243 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATAGAC
15238263 TTATGTA
1 TTATGTA
15238270 ATGTTTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCATAGAC
Found at i:15238250 original size:37 final size:37
Alignment explanation
Indices: 15238206--15238276 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
15238196 GGTTTTAACT
*
15238206 TTATGTAGTGATTCATAGACTTATGTAATATTTTTAA
1 TTATGTAGTGATTCAAAGACTTATGTAATATTTTTAA
*
15238243 TTATGTAGTGATTCAAAGACTTATGTAATGTTTT
1 TTATGTAGTGATTCAAAGACTTATGTAATATTTT
15238277 ATTTAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (37 bp):
TTATGTAGTGATTCAAAGACTTATGTAATATTTTTAA
Found at i:15245150 original size:26 final size:25
Alignment explanation
Indices: 15245113--15245165 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
15245103 TCTGCTTCAA
*
15245113 AATCTAGAATAATGAAATCAGCAGG
1 AATCTAAAATAATGAAATCAGCAGG
15245138 ANATCTAAAATAATGAAATCAGCAGG
1 A-ATCTAAAATAATGAAATCAGCAGG
15245164 AA
1 AA
15245166 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.19
Consensus pattern (25 bp):
AATCTAAAATAATGAAATCAGCAGG
Found at i:15245172 original size:26 final size:26
Alignment explanation
Indices: 15245120--15245172 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15245110 CAAAATCTAG
* **
15245120 AATAATGAAATCAGCAGGANATCTAA
1 AATAATGAAATCAGCAGGAAAAATAA
15245146 AATAATGAAATCAGCAGGAAAAATAA
1 AATAATGAAATCAGCAGGAAAAATAA
15245172 A
1 A
15245173 TTTATTGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.17
Consensus pattern (26 bp):
AATAATGAAATCAGCAGGAAAAATAA
Found at i:15246629 original size:53 final size:53
Alignment explanation
Indices: 15246544--15246647 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
15246534 TTATAAGACT
* *
15246544 TAGACAAAATTGCACCATTCATAGAAGTATCTACTATCAAACTTGTATGTGCA
1 TAGACAAAATTGCACCATTCATAGAAGCATCTACCATCAAACTTGTATGTGCA
* * *
15246597 TAGACAAAATTGCACCATTCGTAGAAGCATCTACCATCTATCTTGTATGTG
1 TAGACAAAATTGCACCATTCATAGAAGCATCTACCATCAAACTTGTATGTG
15246648 TATTGAGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (53 bp):
TAGACAAAATTGCACCATTCATAGAAGCATCTACCATCAAACTTGTATGTGCA
Found at i:15250693 original size:6 final size:6
Alignment explanation
Indices: 15250682--15250838 Score: 137
Period size: 6 Copynumber: 25.8 Consensus size: 6
15250672 AACCAAAATG
*
15250682 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
15250730 AGTAA-C AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
15250779 ACAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGAT- AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
15250828 AGAATC AGAAT
1 AGAATC AGAAT
15250839 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
5 10 0.08
6 103 0.82
7 9 0.07
8 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:15250697 original size:30 final size:29
Alignment explanation
Indices: 15250661--15250838 Score: 161
Period size: 30 Copynumber: 6.1 Consensus size: 29
15250651 AAGAAACATT
* * *
15250661 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
15250691 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
15250721 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* * *
15250751 ATTAGAATTAGGTGACAGAATCAGAATCACA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
15250782 ATC---A--GTAACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
* *
15250806 ATCAGAATTACGTGATAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
15250837 AT
1 AT
15250839 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
24 21 0.17
27 1 0.01
28 1 0.01
29 1 0.01
30 54 0.44
31 44 0.36
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:15250813 original size:55 final size:54
Alignment explanation
Indices: 15250682--15250834 Score: 195
Period size: 55 Copynumber: 2.8 Consensus size: 54
15250672 AACCAAAATG
* * *
15250682 AGAATCAGAATCAGAATCAGTAA-CAG-AATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATCAG-AATTAGTGA-CAGAATCAGAATCAATATCAGTAAC
*
15250736 AGAATCAGAATCAGAATTAGAATTAGGTGACAGAATCAGAATCACA-ATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCA-ATATCAGTAAC
*
15250791 AGAATCAGAATCAGAATCAGAATTACGTGATAGAATCAGAATCA
1 AGAATCAGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCA
15250835 GAATGTGAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
53 2 0.02
54 20 0.23
55 64 0.73
56 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (54 bp):
AGAATCAGAATCAGAATCAGAATTAGTGACAGAATCAGAATCAATATCAGTAAC
Found at i:15250993 original size:27 final size:26
Alignment explanation
Indices: 15250956--15251021 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
15250946 AGCATGGCTG
*
15250956 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
15250982 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
15251009 CCAGAATCAGATA
1 CCAGAA-CAGATA
15251022 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:15251026 original size:27 final size:27
Alignment explanation
Indices: 15250956--15251029 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
15250946 AGCATGGCTG
* *
15250956 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
15250982 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
15251009 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
15251030 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:15251036 original size:27 final size:27
Alignment explanation
Indices: 15250980--15251037 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15250970 GTGACAGAGT
* * *
15250980 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
15251007 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
15251034 CACC
1 CACC
15251038 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:15251379 original size:27 final size:26
Alignment explanation
Indices: 15251340--15251423 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
15251330 TCGATCGGTC
*
15251340 AACAGATATTGTGGCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
*
15251366 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAA
* *
15251393 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAA
15251420 AACA
1 AACA
15251424 CTTCCTCCGT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 8 0.15
27 45 0.85
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:15251814 original size:54 final size:54
Alignment explanation
Indices: 15251621--15251816 Score: 234
Period size: 54 Copynumber: 3.6 Consensus size: 54
15251611 GGGGCAAAAT
* * ** *
15251621 GGTAAGTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGAGTATTTC
1 GGTAA-TTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
* * *
15251675 GGTATTTCTACCTTACAAGGGTATTTT-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
15251729 GGTAATTCTATCCTATAAGGGTATTTGAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
* *
15251783 GGAAATTCTACCCTACAGGGGTATTTTAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTTAGTAATT
15251817 TCACAATCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.03
54 116 0.97
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
Found at i:15251816 original size:27 final size:27
Alignment explanation
Indices: 15251620--15251816 Score: 209
Period size: 27 Copynumber: 7.3 Consensus size: 27
15251610 AGGGGCAAAA
* * *
15251620 TGGTAAGTT-TACCCCACAAGGGTATCT
1 TGGTAA-TTCTACCCTACAGGGGTATTT
* *
15251647 CGGTAATTCTACCCTACAGGAGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
15251674 CGGTATTTCTACCTTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
15251701 TGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
15251728 TGGTAATTCTATCCTATAAGGGTA-TT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
15251754 TGAGTAATTCTACCCTATAGGGGTATTT
1 TG-GTAATTCTACCCTACAGGGGTATTT
* *
15251782 CGGAAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
15251809 TAGTAATT
1 TGGTAATT
15251817 TCACAATCAA
Statistics
Matches: 141, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.04
27 132 0.94
28 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:15251851 original size:27 final size:27
Alignment explanation
Indices: 15251821--15252363 Score: 673
Period size: 27 Copynumber: 20.1 Consensus size: 27
15251811 GTAATTTCAC
* *
15251821 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15251848 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15251875 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
15251902 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15251929 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15251956 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15251983 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
15252010 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15252037 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
15252064 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15252091 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
15252118 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15252145 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15252172 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15252199 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
15252226 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15252253 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
15252280 AATTGAGGGTAAAACGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15252307 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15252334 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15252361 AAT
1 AAT
15252364 TGGGAGTACT
Statistics
Matches: 443, Mismatches: 63, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.01
27 434 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:15259119 original size:43 final size:42
Alignment explanation
Indices: 15258950--15259121 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 42
15258940 ACATATCGTA
* * *
15258950 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACATAT
15258993 CGAA-GCC-ACTGTCCCAGACAG-GGTCTTACACGAATTACA-AT-T
1 C-AATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAA--ACACATAT
* * * * * *
15259035 ACGATGCCGATGTCCTAGACATGGTCTTACTCGAAATCACATAT
1 -CAATGCCAACGTCCCAGACGTGGTCTTACACGAAA-CACATAT
*
15259079 CAATGCCAACGTCCCAGATGTGGTCTTACACGAGAACACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGA-AACACATAT
15259122 TAGAAATCCT
Statistics
Matches: 102, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 84 0.82
44 9 0.09
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAACACATAT
Found at i:15259150 original size:41 final size:41
Alignment explanation
Indices: 15259098--15259178 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
15259088 CGTCCCAGAT
15259098 GTGGTCTTACACGAGAACACATATTAGAAATCCTATGTCAC
1 GTGGTCTTACACGAGAACACATATTAGAAATCCTATGTCAC
15259139 GTGGTCTTACACGAGAACACATATTAGAAATCCTATGTCA
1 GTGGTCTTACACGAGAACACATATTAGAAATCCTATGTCA
15259179 TGACATATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (41 bp):
GTGGTCTTACACGAGAACACATATTAGAAATCCTATGTCAC
Found at i:15262885 original size:40 final size:40
Alignment explanation
Indices: 15262830--15262909 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
15262820 TACGAAGTTA
*
15262830 GTTGTGTAGTTAATTAGATTTTGGTTAAGTGAAATTGCAT
1 GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
15262870 GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
1 GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
15262910 AAATTAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.44
Consensus pattern (40 bp):
GTTGTGTAGTTAATTAGATTTCGGTTAAGTGAAATTGCAT
Found at i:15267242 original size:18 final size:18
Alignment explanation
Indices: 15267219--15267260 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15267209 TTTTTTATTA
* *
15267219 TCAAAAACCGATTATTTT
1 TCAAAAACAGAATATTTT
*
15267237 TCAAAAATAGAATATTTT
1 TCAAAAACAGAATATTTT
15267255 TCAAAA
1 TCAAAA
15267261 TTTAGATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (18 bp):
TCAAAAACAGAATATTTT
Found at i:15268269 original size:28 final size:28
Alignment explanation
Indices: 15268238--15268312 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
15268228 TCAACATGTA
**
15268238 ATGCATGTTATATTTGATTCAGTGCTTT
1 ATGCATGTTATATTTGATTCAGCACTTT
*
15268266 ATGCATGTTATATTTGACTCAGCACTTT
1 ATGCATGTTATATTTGATTCAGCACTTT
* * *
15268294 ATTCATGGTATACTTGATT
1 ATGCATGTTATATTTGATT
15268313 AAGCTTAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (28 bp):
ATGCATGTTATATTTGATTCAGCACTTT
Found at i:15269715 original size:13 final size:13
Alignment explanation
Indices: 15269699--15269741 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
15269689 AAAGAAAGAA
15269699 CTTGAAGAGATAT
1 CTTGAAGAGATAT
15269712 CTTG-A-AGA-A-
1 CTTGAAGAGATAT
15269721 CTTGAAGAGATAT
1 CTTGAAGAGATAT
15269734 CTTGAAGA
1 CTTGAAGA
15269742 TAGAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 4 0.15
10 2 0.08
11 6 0.23
12 2 0.08
13 12 0.46
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (13 bp):
CTTGAAGAGATAT
Found at i:15269722 original size:22 final size:22
Alignment explanation
Indices: 15269694--15269741 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
15269684 TACATAAAGA
15269694 AAGAACTTGAAGAGATATCTTG
1 AAGAACTTGAAGAGATATCTTG
15269716 AAGAACTTGAAGAGATATCTTG
1 AAGAACTTGAAGAGATATCTTG
15269738 AAGA
1 AAGA
15269742 TAGAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (22 bp):
AAGAACTTGAAGAGATATCTTG
Found at i:15272701 original size:27 final size:27
Alignment explanation
Indices: 15272663--15272742 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
15272653 ACACACACAC
15272663 ACAATACAACACTAAATTAAAACCATA
1 ACAATACAACACTAAATTAAAACCATA
15272690 ACAATACAACACTAAATTAAAACCATA
1 ACAATACAACACTAAATTAAAACCATA
* * * *
15272717 ATAACA-AACACTACATTAAAAACATA
1 ACAATACAACACTAAATTAAAACCATA
15272743 GTTAATGTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 18 0.37
27 31 0.63
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (27 bp):
ACAATACAACACTAAATTAAAACCATA
Found at i:15276882 original size:23 final size:23
Alignment explanation
Indices: 15276838--15276885 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
15276828 AATTTTTTAT
* * *
15276838 ATTTTTCAAGTTTAGATATCAAA
1 ATTTGTCAAGTTCAAATATCAAA
*
15276861 ATTTGTCAAGTTCAAATGTCAAA
1 ATTTGTCAAGTTCAAATATCAAA
15276884 AT
1 AT
15276886 GAACAATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (23 bp):
ATTTGTCAAGTTCAAATATCAAA
Found at i:15277419 original size:3 final size:3
Alignment explanation
Indices: 15277411--15277438 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15277401 TTTTAAAACT
15277411 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15277439 GCAAACAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15278248 original size:28 final size:28
Alignment explanation
Indices: 15278208--15278265 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
15278198 AGATAGTTTG
15278208 TATTAGTAGATGAACCTAAACATGTCCT
1 TATTAGTAGATGAACCTAAACATGTCCT
15278236 TATTAGTAGATGAACCTAAACATGTCCT
1 TATTAGTAGATGAACCTAAACATGTCCT
15278264 TA
1 TA
15278266 GTCTAATCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (28 bp):
TATTAGTAGATGAACCTAAACATGTCCT
Found at i:15279448 original size:26 final size:26
Alignment explanation
Indices: 15279412--15279472 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
15279402 ATATATTTTC
15279412 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTACCAGGGGTAAAATCG
* * *
15279438 TCAAACTTTTACTAGGGGTAAAATTG
1 TCAAAATTTTACCAGGGGTAAAATCG
15279464 TCAAAATTT
1 TCAAAATTT
15279473 GTTAGGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCG
Found at i:15279484 original size:25 final size:25
Alignment explanation
Indices: 15279412--15279486 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 25
15279402 ATATATTTTC
*
15279412 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTA-TAGGGGTAAAATCG
* *
15279438 TCAAACTTTTACTAGGGGTAAAATTG
1 TCAAAATTTTA-TAGGGGTAAAATCG
15279464 TCAAAATTTGT-TAGGGGTAAAAT
1 TCAAAATTT-TATAGGGGTAAAAT
15279487 AAGCATGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 12 0.27
26 31 0.70
27 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTATAGGGGTAAAATCG
Found at i:15286085 original size:16 final size:16
Alignment explanation
Indices: 15286064--15286121 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
15286054 GTAATAGATG
15286064 TAATTTTATCATATAT
1 TAATTTTATCATATAT
*
15286080 TAATTTTTGAGATCA-AAAT
1 TAA-TTTT---ATCATATAT
15286099 GTAATTTTATCATATAT
1 -TAATTTTATCATATAT
15286116 TAATTT
1 TAATTT
15286122 ATAATTCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 13 0.38
17 7 0.21
19 7 0.21
20 7 0.21
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (16 bp):
TAATTTTATCATATAT
Found at i:15286629 original size:22 final size:24
Alignment explanation
Indices: 15286604--15286660 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
15286594 AATAATTTTA
15286604 TATTAAAATTATTA-TAA-AATAT
1 TATTAAAATTATTACTAAGAATAT
*
15286626 TATTAATAATTA-TACTAAGAATGT
1 TATTAA-AATTATTACTAAGAATAT
15286650 TATT-AAATTAT
1 TATTAAAATTAT
15286661 ATATTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 13 0.43
23 9 0.30
24 8 0.27
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
TATTAAAATTATTACTAAGAATAT
Found at i:15288046 original size:4 final size:4
Alignment explanation
Indices: 15288032--15288061 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
15288022 AATGATGAAA
*
15288032 TCCC CCCC TCCC TCCC TCCC TCCC TCCC TC
1 TCCC TCCC TCCC TCCC TCCC TCCC TCCC TC
15288062 TCTCTCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (4 bp):
TCCC
Found at i:15288255 original size:99 final size:99
Alignment explanation
Indices: 15288116--15288323 Score: 371
Period size: 99 Copynumber: 2.1 Consensus size: 99
15288106 GCCTCCCAGG
* *
15288116 AACCCTAAACCCTCGACCGAACAGGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
1 AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
15288181 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
* **
15288215 AACCCTAACCCCTCGACCGAACCCGAGTCGATAGCCCAAGAGGAATCCGAACCCATAACAGCCAA
1 AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
15288280 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
15288314 AACCCTAACC
1 AACCCTAACC
15288324 TGCAAAATCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.32, C:0.40, G:0.15, T:0.13
Consensus pattern (99 bp):
AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
Found at i:15288366 original size:99 final size:98
Alignment explanation
Indices: 15288159--15288366 Score: 226
Period size: 99 Copynumber: 2.1 Consensus size: 98
15288149 GCCCAAGAAC
*
15288159 AATCCGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAAC
1 AATCAGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAA-
** * *** * **
15288224 CCCTCGACCGAACCCGAGTCGATAGCCCAAGAGG
65 CCCTCGACAAAACCCGAGACGATAGAAAAACACA
*
15288258 AATCCGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAA-
1 AATCAGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAAC
*
15288322 CCT-G-CAAAATCCCCTAGACGA-AGAAAAACCATCA
66 CCTCGACAAAA--CCCGAGACGATAGAAAAA-CA-CA
15288356 AAGTCAGAACC
1 AA-TCAGAACC
15288367 AAATTCAACT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
95 3 0.03
96 5 0.05
97 12 0.13
98 2 0.02
99 71 0.76
ACGTcount: A:0.34, C:0.38, G:0.14, T:0.13
Consensus pattern (98 bp):
AATCAGAACCCATAACAGCCAAAACCACGATGGGTCCTCCGCCACCTCTTCCCATAAACCCTAAC
CCTCGACAAAACCCGAGACGATAGAAAAACACA
Done.