Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 82 of 332
Found at i:25655851 original size:14 final size:14
Alignment explanation
Indices: 25655834--25655863 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25655824 TGTTTTATAT
25655834 TATAATATAACATA
1 TATAATATAACATA
*
25655848 TATAATATAATATA
1 TATAATATAACATA
25655862 TA
1 TA
25655864 ACTTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAATATAACATA
Found at i:25661044 original size:27 final size:26
Alignment explanation
Indices: 25661014--25661175 Score: 139
Period size: 27 Copynumber: 6.0 Consensus size: 26
25661004 AGGGGCAAAA
* *
25661014 TGGTAATTTTACCCCACAAGGGTCTCT
1 TGGTAATTTTACCCTACAAGGGTAT-T
*
25661041 TGGTAATTTTACCCTACAGGGGTATT
1 TGGTAATTTTACCCTACAAGGGTATT
25661067 TCGGT-ATTTCTACCCTACAAGGGTATT
1 T-GGTAATTT-TACCCTACAAGGGTATT
* * *
25661094 TTG-ATATTTCTACCCTATAGGGGTATT
1 TGGTA-ATTT-TACCCTACAAGGGTATT
* * *
25661121 TCAGTAATTCTACCCTACAGGGGTATT
1 T-GGTAATTTTACCCTACAAGGGTATT
* * *
25661148 TCGATAATTCTACCCTACAGGGGTATT
1 T-GGTAATTTTACCCTACAAGGGTATT
25661175 T
1 T
25661176 CAATAATTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.06
27 105 0.90
28 4 0.03
29 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (26 bp):
TGGTAATTTTACCCTACAAGGGTATT
Found at i:25661176 original size:27 final size:27
Alignment explanation
Indices: 25661044--25661183 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
25661034 GGTCTCTTGG
* *
25661044 TAATTTTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
25661071 TATTTCTACCCTACAAGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
25661098 TATTTCTACCCTATAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
25661124 GTAATTCTACCCTACAGGGGTATTTCGA
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
25661152 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
25661179 TAATT
1 TAATT
25661184 TTGTAAATCA
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:25661183 original size:54 final size:54
Alignment explanation
Indices: 25661016--25661183 Score: 212
Period size: 54 Copynumber: 3.1 Consensus size: 54
25661006 GGGCAAAATG
* * * * * *
25661016 GTAATTTTACCCCACAAGGGTCTCTT-GGTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTAT-TTCGATAATTCTACCCTACAGGGGTATTTCA
* * * *
25661070 GTATTTCTACCCTACAAGGGTATTTTGATATTTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
*
25661124 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
*
25661178 ATAATT
1 GTAATT
25661184 TTGTAAATCA
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 96 0.98
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:25661267 original size:82 final size:80
Alignment explanation
Indices: 25661165--25661363 Score: 188
Period size: 82 Copynumber: 2.4 Consensus size: 80
25661155 TTCTACCCTA
* * ** *
25661165 CAGGGGTATTTCAATAATTTTGTAAATCAAGGGTA-AAACGGTAA-TTCTGTAAATC-TGGGATA
1 CAGGGGTATTTTAGTAATTTTGTAAA-CAAGGGTATAAA-GGTAATTTC-ACAAATCAAGGG-TA
25661227 CTTTGGTAATTTTTACAAAT
62 CTTTGGTAA-TTTTACAAAT
** * ** *
25661247 CAGGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTAGGTAATTTCACAAATCAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTGTAAAC-AAGGGTATAAAGGTAATTTCACAAATCAAGGGTACTT
25661312 TGGTAATTTTACAAAT
65 TGGTAATTTTACAAAT
* * *
25661328 TAGGGGTATTTTGGTAATTTTGTAAACCAATGGTAT
1 CAGGGGTATTTTAGTAATTTTGTAAA-CAAGGGTAT
25661364 TTTTTTAATT
Statistics
Matches: 95, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
81 39 0.41
82 49 0.52
83 7 0.07
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (80 bp):
CAGGGGTATTTTAGTAATTTTGTAAACAAGGGTATAAAGGTAATTTCACAAATCAAGGGTACTTT
GGTAATTTTACAAAT
Found at i:25661280 original size:27 final size:27
Alignment explanation
Indices: 25661232--25661486 Score: 180
Period size: 27 Copynumber: 9.4 Consensus size: 27
25661222 GGATACTTTG
*
25661232 GTAATTTTTACAAATCAGGGGTATTTTA
1 GTAA-TTTTACAAATGAGGGGTATTTTA
25661260 GTAATTTTACAAACTGA-GGGTA-TTTA
1 GTAATTTTACAAA-TGAGGGGTATTTTA
* * * *
25661286 GGTAATTTCACAAATCAAGGGTATTTTG
1 -GTAATTTTACAAATGAGGGGTATTTTA
* *
25661314 GTAATTTTACAAATTAGGGGTATTTTG
1 GTAATTTTACAAATGAGGGGTATTTTA
** ** ** *
25661341 GTAATTTTGTAAACCAATGGTATTTTT
1 GTAATTTTACAAATGAGGGGTATTTTA
* *
25661368 TTAATTTTACAAGTCGA-GGGT-TTTTCA
1 GTAATTTTACAAAT-GAGGGGTATTTT-A
* * *
25661395 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTTACAAATGAGGGGTATTTTA
* * *
25661422 GTAA-TTTAAAAATCAGGGGTATTTTG
1 GTAATTTTACAAATGAGGGGTATTTTA
* * *
25661448 GTAATTCTACCATAT-AGGGGTATTTCA
1 GTAATTTTA-CAAATGAGGGGTATTTTA
*
25661475 GTAATTTCACAA
1 GTAATTTTACAA
25661487 TCGAGGGTAA
Statistics
Matches: 179, Mismatches: 38, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
26 36 0.20
27 126 0.70
28 17 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATGAGGGGTATTTTA
Found at i:25661363 original size:81 final size:80
Alignment explanation
Indices: 25661228--25661453 Score: 247
Period size: 81 Copynumber: 2.8 Consensus size: 80
25661218 TCTGGGATAC
* * **
25661228 TTTGGTAATTTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTAGGTAATT
1 TTTGGTAA-TTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTAGGTAATT
25661293 TCACAAATCAAGGGTAT
65 TCACAAATCAAGGGT-T
** * ***
25661310 TTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTTTTAATTT
1 TTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTAGGTAATTT
* * *
25661375 TACAAGTCGAGGGTT
66 CACAAATCAAGGGTT
* * * * * *
25661390 TTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAA-TTTAAAAATCAGGGGTATTTTGGTAATT
1 TTT-GGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTAGGTAATT
25661454 CTACCATATA
Statistics
Matches: 121, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 25 0.21
81 88 0.73
82 8 0.07
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (80 bp):
TTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTAGGTAATTT
CACAAATCAAGGGTT
Found at i:25661504 original size:26 final size:26
Alignment explanation
Indices: 25661474--25661552 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
25661464 GGGGTATTTC
25661474 AGTAATTT-CACAATCGAGGGTAAAAT
1 AGTAATTTGCA-AATCGAGGGTAAAAT
* *
25661500 GGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAA-TTTGCAAATCGAGGGTAAAAT
** *
25661527 AGTAATTCTATAAATCAAGGGTAAAA
1 AGTAATT-TGCAAATCGAGGGTAAAA
25661553 CAGTGATTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.13
27 38 0.84
28 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (26 bp):
AGTAATTTGCAAATCGAGGGTAAAAT
Found at i:25661515 original size:27 final size:27
Alignment explanation
Indices: 25661485--25661573 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
25661475 GTAATTTCAC
* * *
25661485 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
25661512 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
25661539 AATCAAGGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
*
25661566 AATTGAGG
1 AATCGAGG
25661574 ATACTTTGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:25663824 original size:81 final size:81
Alignment explanation
Indices: 25663639--25663827 Score: 279
Period size: 81 Copynumber: 2.3 Consensus size: 81
25663629 AGGGGAAAAA
* * * * *
25663639 TGGTAATTTTACCCTACAACGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
25663704 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* * *
25663720 CGGTAATTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
**
25663785 CCCTTTAGGGGTATTT
66 CCCTACAGGGGTATTT
*
25663801 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
25663828 TAATAATTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
CCCTACAGGGGTATTT
Found at i:25663828 original size:27 final size:27
Alignment explanation
Indices: 25663640--25663827 Score: 250
Period size: 27 Copynumber: 7.0 Consensus size: 27
25663630 GGGGAAAAAT
* ** *
25663640 GGTAATTTTACCCTACAACGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
25663667 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
25663694 AGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
25663721 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
25663748 GGCAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
25663775 AGTAATTCTACCCTTTAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
25663802 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
25663828 TAATAATTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:25664089 original size:27 final size:27
Alignment explanation
Indices: 25663880--25664097 Score: 237
Period size: 27 Copynumber: 8.0 Consensus size: 27
25663870 TCCAGGATAC
25663880 TTTGGTAATTTTTACAAATC-GAGGGTAT
1 TTTGGTAA-TTTTACAAATCAG-GGGTAT
* *
25663908 TTTAGTAATTTTACAAA-CTGAGGGTAT
1 TTTGGTAATTTTACAAATCAG-GGGTAT
*
25663935 TTTGGTAATTTCACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
25663962 TTTGGTAATTTTACAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATC-AGGGGTAT
** * *
25663989 TTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
*
25664016 TTTGGTAATTTTACAAGTC-GAGGGTAT
1 TTTGGTAATTTTACAAATCAG-GGGTAT
** * *
25664043 TTCAGTAATTTCACAGATCAGGGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
* *
25664070 TTTGGTGATTTCACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAATCAGGGGTAT
25664097 T
1 T
25664098 CTTTTAATTC
Statistics
Matches: 162, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.01
27 149 0.92
28 11 0.07
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
TTTGGTAATTTTACAAATCAGGGGTAT
Found at i:25664106 original size:81 final size:80
Alignment explanation
Indices: 25663896--25664146 Score: 215
Period size: 81 Copynumber: 3.1 Consensus size: 80
25663886 AATTTTTACA
* * ** * *
25663896 AATCGA-GGGTATTTTAGTAATTTTACAAACTGAGGGTATTTTGGTAATT-TCACAAATCAGGGG
1 AATCGAGGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTGGTAATTCT-ACCAAT-AGAGG
** *
25663959 TATTTTGGTAATTTTAC
64 TATTTCAGTAATTTCAC
* * *** * *
25663976 AAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTA-CAAGTCGAGGG
1 AATCGAGGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTGGTAATTCTACCAA-TAGA-GG
25664040 TATTTCAGTAATTTCAC
64 TATTTCAGTAATTTCAC
* * * * *
25664057 AGATC-AGGGGTATTTTGGTGATTTCACAAATCAGGGGTATTCTT-TTAATTCTACCCTATAGAG
1 A-ATCGAGGGGTATTTTGGTAATTTCACAAACCAAGGGTATT-TTGGTAATTCTA-CCAATAGAG
25664120 GTATTTCAGTAATTTCAC
63 GTATTTCAGTAATTTCAC
25664138 AATCGAGGG
1 AATCGAGGG
25664147 TAAAACGGTA
Statistics
Matches: 138, Mismatches: 24, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
80 10 0.07
81 118 0.86
82 8 0.06
83 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (80 bp):
AATCGAGGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTGGTAATTCTACCAATAGAGGTA
TTTCAGTAATTTCAC
Found at i:25664174 original size:27 final size:27
Alignment explanation
Indices: 25664138--25664221 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
25664128 GTAATTTCAC
** * *
25664138 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAATAATTCTATA
25664165 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACAATAATTCTATA
* * * *
25664192 AATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAACAATAATTCTATA
25664219 AAT
1 AAT
25664222 TGAAGGTACT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAATAATTCTATA
Found at i:25665717 original size:11 final size:10
Alignment explanation
Indices: 25665698--25665732 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
25665688 CCCAATTTAG
25665698 AAAAAAGAAA
1 AAAAAAGAAA
25665708 AAAAAGAGAAA
1 AAAAA-AGAAA
*
25665719 AAAAAATAAA
1 AAAAAAGAAA
25665729 AAAA
1 AAAA
25665733 TAACAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:25665719 original size:18 final size:18
Alignment explanation
Indices: 25665696--25665730 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25665686 ACCCCAATTT
25665696 AGAAAAAAGAAA-AAAAAG
1 AGAAAAAA-AAATAAAAAG
25665714 AGAAAAAAAAATAAAAA
1 AGAAAAAAAAATAAAAA
25665731 AATAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (18 bp):
AGAAAAAAAAATAAAAAG
Found at i:25666936 original size:27 final size:27
Alignment explanation
Indices: 25666906--25667066 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
25666896 GGGGCAAAAT
* * *
25666906 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
25666933 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
25666960 GGTATTTCTACCCTACAAGGCTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
25666987 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
25667014 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
25667041 GGTAATTATATCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
25667067 TAATAATTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:25667169 original size:27 final size:28
Alignment explanation
Indices: 25667119--25667343 Score: 213
Period size: 27 Copynumber: 8.4 Consensus size: 28
25667109 TCTAGGATAC
25667119 TTTGGTAATTTTTACAAA-TCGAGGGTAT
1 TTTGGTAA-TTTTACAAACTCGAGGGTAT
** * *
25667147 TTCAGTAATTGTACAAACT-GAGGTTAT
1 TTTGGTAATTTTACAAACTCGAGGGTAT
* *
25667174 TTTGGTAATTTCACAAA-TCAAGGGTAT
1 TTTGGTAATTTTACAAACTCGAGGGTAT
25667201 TTTGGTAATTTTACAAACT--AGGGTAT
1 TTTGGTAATTTTACAAACTCGAGGGTAT
** *
25667227 TTTGGTAATTTTGTAAAC-C-AAGGTAT
1 TTTGGTAATTTTACAAACTCGAGGGTAT
*
25667253 TTTGGTAATTTTAC-AAGTCGAGGGTAT
1 TTTGGTAATTTTACAAACTCGAGGGTAT
** *
25667280 TTCAGTAATTTCACAAA-TC-AGGGGTAT
1 TTTGGTAATTTTACAAACTCGA-GGGTAT
*
25667307 TTTGGTAATTTCACAAA-TC-AGGGGTAT
1 TTTGGTAATTTTACAAACTCGA-GGGTAT
25667334 TTTGGTAATT
1 TTTGGTAATT
25667344 CTACCCTATA
Statistics
Matches: 166, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.01
26 44 0.27
27 110 0.66
28 10 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (28 bp):
TTTGGTAATTTTACAAACTCGAGGGTAT
Found at i:25667209 original size:54 final size:54
Alignment explanation
Indices: 25667119--25667343 Score: 251
Period size: 54 Copynumber: 4.2 Consensus size: 54
25667109 TCTAGGATAC
* * ** * *
25667119 TTTGGTAATTTTTACAAATCGAGGGTATTTCAGTAATTGTACAAACTGAGGTTAT
1 TTTGGTAA-TTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTGAGGGTAT
25667174 TTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACT-AGGGTAT
1 TTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTGAGGGTAT
*** * *
25667227 TTTGGTAATTTTGTAAACCAA-GGTATTTTGGTAATTTTAC-AAGTCGAGGGTAT
1 TTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACT-GAGGGTAT
** * * *
25667280 TTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAA-TCAGGGGTAT
1 TTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTGA-GGGTAT
25667334 TTTGGTAATT
1 TTTGGTAATT
25667344 CTACCCTATA
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
51 3 0.02
52 19 0.13
53 45 0.31
54 66 0.46
55 10 0.07
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTGAGGGTAT
Found at i:25667383 original size:27 final size:27
Alignment explanation
Indices: 25667123--25667373 Score: 133
Period size: 27 Copynumber: 9.3 Consensus size: 27
25667113 GGATACTTTG
*
25667123 GTAATTTTTACAAATC-GAGGGTATTTCA
1 GTAA-TTTCACAAATCAG-GGGTATTTCA
* * **
25667151 GTAATTGT-ACAAA-CTGAGGTTATTTTG
1 GTAATT-TCACAAATCAG-GGGTATTTCA
* **
25667178 GTAATTTCACAAATCAAGGGTATTTTG
1 GTAATTTCACAAATCAGGGGTATTTCA
* **
25667205 GTAATTTTACAAA-CTA-GGGTATTTTG
1 GTAATTTCACAAATC-AGGGGTATTTCA
*** * * **
25667231 GTAATTTTGTAAACCA-AGGTATTTTG
1 GTAATTTCACAAATCAGGGGTATTTCA
* *
25667257 GTAATTTTACAAGTC-GAGGGTATTTCA
1 GTAATTTCACAAATCAG-GGGTATTTCA
**
25667284 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTCACAAATCAGGGGTATTTCA
**
25667311 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTCACAAATCAGGGGTATTTCA
**
25667338 GTAA-TTCTACCCTAT-AGGGGTATTTCA
1 GTAATTTC-A-CAAATCAGGGGTATTTCA
25667365 GTAATTTCA
1 GTAATTTCA
25667374 TAATCGAGGG
Statistics
Matches: 186, Mismatches: 25, Indels: 25
0.79 0.11 0.11
Matches are distributed among these distances:
26 48 0.26
27 125 0.67
28 13 0.07
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTCACAAATCAGGGGTATTTCA
Found at i:25667405 original size:27 final size:27
Alignment explanation
Indices: 25667363--25667458 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
25667353 AGGGGTATTT
25667363 CAGTAATT-TCAT-AATCGAGGGTAAAA
1 CAGTAATTCT-ATAAATCGAGGGTAAAA
** * *
25667389 TGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
*
25667416 CAGTAATTCTATAAATCAAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
*
25667443 CAGTGATTCTATAAAT
1 CAGTAATTCTATAAAT
25667459 TGAGCGTACT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 7 0.12
27 52 0.88
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (27 bp):
CAGTAATTCTATAAATCGAGGGTAAAA
Found at i:25670069 original size:29 final size:29
Alignment explanation
Indices: 25670034--25670107 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
25670024 GTTGTGAGAT
* *
25670034 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
25670063 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
25670092 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25670108 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:25673092 original size:46 final size:46
Alignment explanation
Indices: 25673042--25673217 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
25673032 TGGTTGAGCA
*
25673042 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25673088 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25673133 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25673181 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25673218 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25673198 original size:93 final size:93
Alignment explanation
Indices: 25673039--25673210 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
25673029 GGATGGTTGA
* * *
25673039 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25673104 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
25673132 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25673197 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25673211 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25680185 original size:45 final size:45
Alignment explanation
Indices: 25680127--25680293 Score: 170
Period size: 45 Copynumber: 3.8 Consensus size: 45
25680117 TGGTTGAGCA
25680127 TCCGAACTC-TTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
* * *
25680171 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
*
25680216 CATCCGAACTCGTTGAG--GAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* *
25680261 TCCGAGCTCGTTGAGTTGAGTCCGA-TTCGCTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25680294 GGCGGGTACA
Statistics
Matches: 101, Mismatches: 9, Indels: 25
0.75 0.07 0.19
Matches are distributed among these distances:
42 2 0.02
43 19 0.19
44 18 0.18
45 38 0.38
46 3 0.03
47 19 0.19
48 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:25680278 original size:90 final size:89
Alignment explanation
Indices: 25680124--25680289 Score: 264
Period size: 90 Copynumber: 1.8 Consensus size: 89
25680114 GGATGGTTGA
*
25680124 GCATCCGAACTCTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATGTCCGAACTCGTTGAGTTG
1 GCATCCGAACTCTTGAG-TGAGTCCGAGTTCACTTATGATGCGAACGTCCGAACTCGTTGAGTTG
25680189 AGTCCGAGTTCGTGAGATGTAACTAG
65 AGTCCGA-TTCGTGAGATGTAACTAG
*
25680215 GCATCCGAACTCGTTGAG-GAGT-CGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGTT
1 GCATCCGAACTC-TTGAGTGAGTCCGAGTTCACTTAT-GATGCGAACGTCCGAACTCGTTGAGTT
25680278 GAGTCCGATTCG
64 GAGTCCGATTCG
25680290 CTTAGGCGGG
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
89 17 0.24
90 37 0.52
91 12 0.17
92 5 0.07
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (89 bp):
GCATCCGAACTCTTGAGTGAGTCCGAGTTCACTTATGATGCGAACGTCCGAACTCGTTGAGTTGA
GTCCGATTCGTGAGATGTAACTAG
Found at i:25734790 original size:18 final size:18
Alignment explanation
Indices: 25734763--25734826 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
25734753 TACTTAGTTA
*
25734763 AAAATCTTTTTCTTCACC
1 AAAATATTTTTCTTCACC
** *
25734781 AAAATA-TTTT-TAAATC
1 AAAATATTTTTCTTCACC
25734797 AAAATATTTTTCTTCACC
1 AAAATATTTTTCTTCACC
*
25734815 AAAGTATTTTTC
1 AAAATATTTTTC
25734827 ATTACATTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 9 0.25
17 8 0.22
18 19 0.53
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAATATTTTTCTTCACC
Found at i:25736655 original size:19 final size:19
Alignment explanation
Indices: 25736619--25736658 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25736609 TGAAAATGTG
**
25736619 TAAGTTATGTCTACAAATT
1 TAAGTTATACCTACAAATT
*
25736638 TAAGTTATACCTATAAATT
1 TAAGTTATACCTACAAATT
25736657 TA
1 TA
25736659 TGATGACACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.42
Consensus pattern (19 bp):
TAAGTTATACCTACAAATT
Found at i:25745592 original size:27 final size:26
Alignment explanation
Indices: 25745554--25745639 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
25745544 GGAGGAAGTA
25745554 TTCTGGTGGCTCTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
25745581 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * * *
25745607 TATCTGGTGACGCTGTCACAATATCTA
1 T-TCTGGTGGCTCTGCCACAATATCTG
25745634 TTCTGG
1 TTCTGG
25745640 CAGCCATGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:25763387 original size:23 final size:22
Alignment explanation
Indices: 25763335--25763387 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
25763325 TCCACGTCTT
*
25763335 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
25763357 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
25763380 TTTCTTTT
1 TTTCTTTT
25763388 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:25772946 original size:60 final size:60
Alignment explanation
Indices: 25772877--25772997 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
25772867 CATACAAAGT
25772877 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
* *
25772937 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTTTCATTTTAAGCATATAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
25772997 A
1 A
25772998 TCATAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (60 bp):
AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
Found at i:25775291 original size:39 final size:39
Alignment explanation
Indices: 25775087--25775309 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
25775077 TTGAATGCTG
* * * * * *
25775087 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
25775127 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
25775167 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
25775207 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
25775247 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
25775286 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25775310 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:25775329 original size:79 final size:80
Alignment explanation
Indices: 25775167--25775344 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
25775157 AGATACAAGT
* * * *
25775167 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
25775232 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
25775247 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
25775311 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
25775326 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25775345 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:25785008 original size:28 final size:28
Alignment explanation
Indices: 25784976--25785103 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
25784966 ATAGTAAGTC
*
25784976 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25785004 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
25785033 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
25785061 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25785090 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25785104 CGAAATCAAC
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25785066 original size:57 final size:57
Alignment explanation
Indices: 25784975--25785103 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
25784965 TATAGTAAGT
*
25784975 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
25785032 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
25785089 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25785104 CGAAATCAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:25790227 original size:28 final size:28
Alignment explanation
Indices: 25790195--25790322 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
25790185 ATAGTAAGTC
*
25790195 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25790223 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
25790252 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * ** * *
25790280 TGGACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25790309 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25790323 CGAAATCAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25790287 original size:57 final size:57
Alignment explanation
Indices: 25790194--25790322 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
25790184 TATAGTAAGT
*
25790194 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * * *
25790251 TCGCACACTTAGTGCTATATAATCAAACTTGGACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
25790308 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25790323 CGAAATCAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:25792283 original size:17 final size:17
Alignment explanation
Indices: 25792261--25792300 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
25792251 GCTAAAATCT
25792261 GGCCCAATAGGCTTACG
1 GGCCCAATAGGCTTACG
25792278 GGCCCAATAGGCTTACG
1 GGCCCAATAGGCTTACG
25792295 GGCCCA
1 GGCCCA
25792301 TTTGGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.15
Consensus pattern (17 bp):
GGCCCAATAGGCTTACG
Found at i:25792666 original size:20 final size:20
Alignment explanation
Indices: 25792633--25792727 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
25792623 ATACATGGGA
25792633 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
25792651 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* * *
25792671 TATAAAATGCACATGATATA
1 TATGATATGCACATGATATG
25792691 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
25792711 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
25792728 GTATTCATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.12
20 57 0.86
21 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:25792668 original size:11 final size:11
Alignment explanation
Indices: 25792652--25792710 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
25792642 CATGATTGGT
25792652 ATGATATGCAC
1 ATGATATGCAC
*
25792663 ATGATATG--T
1 ATGATATGCAC
* *
25792672 ATAAAATGCAC
1 ATGATATGCAC
*
25792683 ATGATAT--AT
1 ATGATATGCAC
25792692 ATGATATGCAC
1 ATGATATGCAC
25792703 ATGATATG
1 ATGATATG
25792711 TATGAAATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
9 14 0.39
11 22 0.61
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:25792685 original size:40 final size:40
Alignment explanation
Indices: 25792651--25792727 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
25792641 ACATGATTGG
25792651 TATGATATGCACATGATATGTATAAAATGCACATGATATA
1 TATGATATGCACATGATATGTATAAAATGCACATGATATA
* *
25792691 TATGATATGCACATGATATGTATGAAATGCACGTGAT
1 TATGATATGCACATGATATGTATAAAATGCACATGAT
25792728 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (40 bp):
TATGATATGCACATGATATGTATAAAATGCACATGATATA
Found at i:25792871 original size:25 final size:26
Alignment explanation
Indices: 25792777--25792863 Score: 140
Period size: 26 Copynumber: 3.4 Consensus size: 26
25792767 GAGGAAGTAC
*
25792777 AAAAGGGCTTATGCCCTAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
25792803 AAAAGGGCTCATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
25792829 AAAAGGGCTTATGCCCCAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
25792854 GAAAGGGCTT
1 AAAAGGGCTT
25792864 TTACCCCAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 9 0.16
26 48 0.84
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:25793131 original size:31 final size:31
Alignment explanation
Indices: 25793096--25793181 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
25793086 CATTTACAAT
*
25793096 AAAGGCTTCAGCCCAGTGATATGAAATATGA
1 AAAGGCTTCGGCCCAGTGATATGAAATATGA
*
25793127 AAAGGCTTCGGCGCAGTGATATGAAATATGA
1 AAAGGCTTCGGCCCAGTGATATGAAATATGA
*
25793158 AAAGGCTTCGGCCCAGTGTTATGA
1 AAAGGCTTCGGCCCAGTGATATGA
25793182 GAAAAAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAAATATGA
Found at i:25796689 original size:22 final size:23
Alignment explanation
Indices: 25796664--25796707 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
25796654 TAACATGTTG
25796664 AATTATAATTAATTTT-ATAATA
1 AATTATAATTAATTTTGATAATA
* *
25796686 AATTTTGATTAATTTTGATAAT
1 AATTATAATTAATTTTGATAAT
25796708 TTTTGATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (23 bp):
AATTATAATTAATTTTGATAATA
Found at i:25801160 original size:48 final size:46
Alignment explanation
Indices: 25801105--25801270 Score: 208
Period size: 48 Copynumber: 3.5 Consensus size: 46
25801095 TGATATGTGT
25801105 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGATATA-AA
* * * * ** *
25801153 GCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGA-CGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-CCTCGAGATATAAA
25801199 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGATATA-AA
*
25801247 GCTAGTGTAAGACCTGTCTGGGAC
1 GCTAGTGTAAGACATGTCTGGGAC
25801271 GTGGTGTAGC
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
46 36 0.36
47 4 0.04
48 59 0.60
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGATATAAA
Found at i:25801365 original size:140 final size:137
Alignment explanation
Indices: 25801155--25801410 Score: 356
Period size: 140 Copynumber: 1.8 Consensus size: 137
25801145 ATATACAAGC
**
25801155 CAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTAGGACATGCATCGACACCGAGACGAGAGCTAGTGTAAGACATGTCTGG
25801220 GACAT-GCATCGGCCTCGAGATAT-ATAAGCTAGTGTAAGACCTGTCTGGGACGTGGTGTAGCTT
66 GACATGGCATCGGCCTCGAGATATGA-AAG-TAGTGTAAGACCTGTCTGGGACGTGGTGTAGCTT
25801283 GTTGTCTGT
129 GTTGTCTGT
* * * *
25801292 CAGTGTAAGACCTGTCTAGGACATGGCATCGGCACCGATAGATGAGAGCCT-GTGTAAGACCTGT
1 CAGTGTAAGACATGTCTAGGACAT-GCATCGACACCG--AGACGAGAG-CTAGTGTAAGACATGT
* * *
25801356 CTGGGACATGGCATCGGCCTTGATATATGAAAGTAGTGTAAGACTTGTCTGGGAC
62 CTGGGACATGGCATCGGCCTCGAGATATGAAAGTAGTGTAAGACCTGTCTGGGAC
25801411 ATGGCATCGA
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
137 23 0.22
138 9 0.09
140 50 0.48
141 21 0.20
142 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (137 bp):
CAGTGTAAGACATGTCTAGGACATGCATCGACACCGAGACGAGAGCTAGTGTAAGACATGTCTGG
GACATGGCATCGGCCTCGAGATATGAAAGTAGTGTAAGACCTGTCTGGGACGTGGTGTAGCTTGT
TGTCTGT
Found at i:25801427 original size:48 final size:49
Alignment explanation
Indices: 25801105--25801471 Score: 203
Period size: 48 Copynumber: 7.8 Consensus size: 49
25801095 TGATATGTGT
* * * * * *
25801105 GCTAGTGTAAGACATGTCTGGGACAT-GCATCTGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGA-AA
* * * * * *
25801153 GCCAGTGTAAGACATGTCTAGGACAT-GCATCGACATTG--AGACGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGAAA
* * * * *
25801199 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ATAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGA-AA
* ** * ***
25801247 GCTAGTGTAAGACCTGTCTGGGACGTGGTGT-AGC-TTG-T---TGTCT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGAAA
* ** *
25801290 G-TCAGTGTAAGACCTGTCTAGGACATGGCATCGGCACCGATAGATGAGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGAAA
* *
25801339 GCCT-GTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGATATATGAAA
1 G-CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGAAA
* * * **
25801388 G-TAGTGTAAGACTTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGAAA
* * * * *
25801434 GCCAGTGTAAGACCATGTTTAGCACATGGCTTCGGCAT
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGCAT
25801472 CTTATCCCAT
Statistics
Matches: 244, Mismatches: 57, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.00
43 26 0.11
44 2 0.01
45 1 0.00
46 41 0.17
47 15 0.06
48 112 0.46
49 45 0.18
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCATTGATAGATGAAA
Found at i:25820799 original size:24 final size:24
Alignment explanation
Indices: 25820778--25820828 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
25820768 AATTGTCTTT
25820778 ATGA-AATTGATCCATGAAGTCTCA
1 ATGACAATTGATCCATG-AGTCTCA
*
25820802 ATGACGATTGATCCATGAGTCTCA
1 ATGACAATTGATCCATGAGTCTCA
25820826 ATG
1 ATG
25820829 TCGACTCGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (24 bp):
ATGACAATTGATCCATGAGTCTCA
Found at i:25821122 original size:42 final size:42
Alignment explanation
Indices: 25821055--25821301 Score: 215
Period size: 42 Copynumber: 5.9 Consensus size: 42
25821045 TCGGCACTAT
* * * *
25821055 TATGAGACTTCATGTCAGACCATGTCTGGGACATGGCTTTGA
1 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCATCGA
* * *
25821097 TATAATATTTCATGTAAGACCATGTCTAGGACATGGCATCGA
1 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCATCGA
* *
25821139 TACGAGATTTCATGTAAGACCATAGT-TGGG-CTATTGGCATCGG
1 TATGAGATTTCATGTAAGACCAT-GTCTGGGAC-A-TGGCATCGA
* * *
25821182 TATGATATTAT-GTGTAAGACCATGTCTGGGACATGGCATCGT
1 TATGAGATT-TCATGTAAGACCATGTCTGGGACATGGCATCGA
*
25821224 TATGAGATTTCGTGTAAGACCATAG-CTGGG-CTATTGG---C-A
1 TATGAGATTTCATGTAAGACCAT-GTCTGGGAC-A-TGGCATCGA
* * * *
25821263 TATGAGATTACATGTAAGACCATATCTGAGATATGGCAT
1 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCAT
25821302 TGTACAACAT
Statistics
Matches: 167, Mismatches: 23, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
38 3 0.02
39 26 0.16
40 1 0.01
41 3 0.02
42 95 0.57
43 37 0.22
44 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCATCGA
Found at i:25821198 original size:43 final size:43
Alignment explanation
Indices: 25821130--25821286 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
25821120 GTCTAGGACA
* * *
25821130 TGGCATCGATACGAGATTTCATGTAAGACCATAGTTGGGCTAT
1 TGGCATCGGTATGAGATTTCGTGTAAGACCATAGTTGGGCTAT
*
25821173 TGGCATCGGTATGATATTAT-GTGTAAGACCAT-GTCTGGGAC-A-
1 TGGCATCGGTATGAGATT-TCGTGTAAGACCATAGT-TGGG-CTAT
* *
25821215 TGGCATCGTTATGAGATTTCGTGTAAGACCATAGCTGGGCTAT
1 TGGCATCGGTATGAGATTTCGTGTAAGACCATAGTTGGGCTAT
* *
25821258 TGGCA----TATGAGATTACATGTAAGACCATA
1 TGGCATCGGTATGAGATTTCGTGTAAGACCATA
25821287 TCTGAGATAT
Statistics
Matches: 98, Mismatches: 9, Indels: 18
0.78 0.07 0.14
Matches are distributed among these distances:
39 22 0.22
41 2 0.02
42 35 0.36
43 37 0.38
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
TGGCATCGGTATGAGATTTCGTGTAAGACCATAGTTGGGCTAT
Found at i:25828709 original size:11 final size:11
Alignment explanation
Indices: 25828693--25828719 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25828683 TATAAATAAG
25828693 CTCAATTCAGT
1 CTCAATTCAGT
25828704 CTCAATTCAGT
1 CTCAATTCAGT
25828715 CTCAA
1 CTCAA
25828720 CAATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (11 bp):
CTCAATTCAGT
Found at i:25835027 original size:38 final size:38
Alignment explanation
Indices: 25834941--25835090 Score: 142
Period size: 38 Copynumber: 3.9 Consensus size: 38
25834931 CGAGGTATAA
* * * * * *
25834941 AACCCAAACATAACACCATCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACTAAGCCTGCGGGA-TTT
* *
25834980 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAGCACTAAGCCTGCGGGATTT
* * *
25835019 AACCCAGATATATTACCAACACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACTAAGCCTGCGGGATTT
*
25835057 AACCC-GAATATAATTCCAGCA-TATAGCCTGCGGG
1 AACCCAG-ATATAATACCAGCACTA-AGCCTGCGGG
25835091 TCTTTAAGCC
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 2 0.02
38 59 0.65
39 3 0.03
40 27 0.30
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACTAAGCCTGCGGGATTT
Found at i:25848746 original size:46 final size:46
Alignment explanation
Indices: 25848696--25848871 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
25848686 TGGTTGAGCA
25848696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
25848742 TCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25848787 CCTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
25848835 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25848872 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25852517 original size:29 final size:27
Alignment explanation
Indices: 25852499--25852568 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25852489 ATATTAAGTC
25852499 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
25852526 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
25852554 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25852569 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:25852562 original size:28 final size:28
Alignment explanation
Indices: 25852499--25852596 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25852489 ATATTAAGTC
*
25852499 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25852526 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25852554 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25852583 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25852597 CAATCTCAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25858871 original size:27 final size:26
Alignment explanation
Indices: 25858816--25858924 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
25858806 AGCGTCCTGC
* *
25858816 TGGCTATGCCACAAATTATCTGATCTGG
1 TGGCTCTGCCAC--ATTATCTGTTCTGG
*
25858844 TGGCTCTGCCACATATATCTGTTTTGG
1 TGGCTCTGCCACAT-TATCTGTTCTGG
* *
25858871 TGGCTTTGCCACGGTTATCTGTATCTGG
1 TGGCTCTGCCAC-ATTATCTGT-TCTGG
* *
25858899 TGACTCTGTCACATTATCTGTTCTGG
1 TGGCTCTGCCACATTATCTGTTCTGG
25858925 CAGCCATGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.53
28 25 0.37
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGTTCTGG
Found at i:25867970 original size:28 final size:28
Alignment explanation
Indices: 25867924--25867986 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
25867914 GAGGAAAGGT
*
25867924 TCTGGTGGCTCTGCTACAAATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
25867952 TCTGGTGGC-CTTGCCACAATTATCTGTA
1 TCTGGTGGCTC-TGCCACAAATATCTGTA
25867980 TCTGGTG
1 TCTGGTG
25867987 ACTGTCACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:25869245 original size:26 final size:26
Alignment explanation
Indices: 25869209--25869260 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25869199 CCTATGATAC
25869209 TTTAGTTAGGATGATATTGGAACGGT
1 TTTAGTTAGGATGATATTGGAACGGT
25869235 TTTAGTTAGGATGATATTGGAACGGT
1 TTTAGTTAGGATGATATTGGAACGGT
25869261 AGAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (26 bp):
TTTAGTTAGGATGATATTGGAACGGT
Found at i:25872146 original size:26 final size:25
Alignment explanation
Indices: 25872117--25872174 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
25872107 TTTACTGAGG
*
25872117 TACCCTAAGTATG-AAAATTACCATTA
1 TACCCT-AG-ATGCAAAATGACCATTA
*
25872143 TACCCCTAGGTGCAAAATGACCATTA
1 TA-CCCTAGATGCAAAATGACCATTA
25872169 TACCCT
1 TACCCT
25872175 TAGGGTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 18 0.64
27 4 0.14
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (25 bp):
TACCCTAGATGCAAAATGACCATTA
Found at i:25872324 original size:28 final size:28
Alignment explanation
Indices: 25872284--25872396 Score: 131
Period size: 28 Copynumber: 4.1 Consensus size: 28
25872274 GGAAACGTTT
*
25872284 TGGTGGCTCTGCCACAAATATCTATTTC
1 TGGTGGCCCTGCCACAAATATCTATTTC
* *
25872312 TGGTGGCCCTGCCACAAATATCTGTTTT
1 TGGTGGCCCTGCCACAAATATCTATTTC
* * *
25872340 TGGTGGCCCTGCCACAATTATCTGTATC
1 TGGTGGCCCTGCCACAAATATCTATTTC
* * *
25872368 TGGTGACTCTGTCAC-AATATCTA-TTC
1 TGGTGGCCCTGCCACAAATATCTATTTC
25872394 TGG
1 TGG
25872397 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.07
27 6 0.08
28 62 0.85
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (28 bp):
TGGTGGCCCTGCCACAAATATCTATTTC
Found at i:25872370 original size:56 final size:55
Alignment explanation
Indices: 25872281--25872389 Score: 146
Period size: 56 Copynumber: 2.0 Consensus size: 55
25872271 GGAGGAAACG
* * *
25872281 TTTTGGTGGCTCTGCCACAAATATCTATTTCTGGTGGCCCTGCCACAAATATCTGT
1 TTTTGGTGGCCCTGCCACAAATATCTATATCTGGTGACCCTGCCAC-AATATCTGT
* * * *
25872337 TTTTGGTGGCCCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAATATCT
1 TTTTGGTGGCCCTGCCACAAATATCTATATCTGGTGACCCTGCCACAATATCT
25872390 ATTCTGGCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 7 0.15
56 39 0.85
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (55 bp):
TTTTGGTGGCCCTGCCACAAATATCTATATCTGGTGACCCTGCCACAATATCTGT
Found at i:25884715 original size:13 final size:13
Alignment explanation
Indices: 25884697--25884733 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
25884687 CTCAGTAGGG
25884697 ACACGCCCGTGGC
1 ACACGCCCGTGGC
25884710 ACACGCCCGTGGC
1 ACACGCCCGTGGC
25884723 ACACGCCCGTG
1 ACACGCCCGTG
25884734 TTTGATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.46, G:0.30, T:0.08
Consensus pattern (13 bp):
ACACGCCCGTGGC
Found at i:25900499 original size:48 final size:48
Alignment explanation
Indices: 25900428--25901009 Score: 993
Period size: 48 Copynumber: 12.0 Consensus size: 48
25900418 AGATAAATAT
25900428 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25900476 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
25900524 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGGAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25900572 ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25900620 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
25900668 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
25900718 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25900766 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25900814 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
25900862 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
25900912 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
25900960 ATATGTACATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25901008 AT
1 AT
25901010 GTGTGTATAT
Statistics
Matches: 512, Mismatches: 18, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
48 415 0.81
49 8 0.02
50 89 0.17
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25900801 original size:194 final size:194
Alignment explanation
Indices: 25900428--25901009 Score: 1033
Period size: 194 Copynumber: 3.0 Consensus size: 194
25900418 AGATAAATAT
25900428 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
25900493 AGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGACTAAT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAAT
* *
25900556 GTGGAATATGTATGAGATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25900620 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
25900685 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAAT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAAT
*
25900750 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
25900814 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * *
25900879 AGCCGAATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAAT
* * * *
25900944 GTGAAATATGTATGAGATATGTACATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTAGGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
25901008 AT
1 AT
25901010 GTGTGTATAT
Statistics
Matches: 373, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
192 82 0.22
193 2 0.01
194 289 0.77
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (194 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGACTAAT
GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:25901200 original size:37 final size:37
Alignment explanation
Indices: 25901150--25901252 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
25901140 GGAAATATAT
25901150 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
25901187 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
25901224 CCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
25901253 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:25904044 original size:48 final size:48
Alignment explanation
Indices: 25903983--25904075 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
25903973 TCTCATATCA
25903983 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
*
25904031 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATA
25904076 TCGACGCCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
Found at i:25904097 original size:48 final size:48
Alignment explanation
Indices: 25903997--25904109 Score: 154
Period size: 48 Copynumber: 2.4 Consensus size: 48
25903987 CAATGCCATG
* * ** *
25903997 TCCCAAACATGGTCTTACATGGGATCACATAACGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCACATAACGACGCCAATAACATA
* *
25904045 TCCCAGACATGGTCTTACATGGGATCACATATCGACGCCGATAACATA
1 TCCCAGACATGGTCTTACATGGGATCACATAACGACGCCAATAACATA
*
25904093 TCCCAGATATGGTCTTA
1 TCCCAGACATGGTCTTA
25904110 TACAGGATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACATGGGATCACATAACGACGCCAATAACATA
Found at i:25921312 original size:40 final size:40
Alignment explanation
Indices: 25921268--25921362 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
25921258 ACTATGTTCG
* **
25921268 GCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCAAACTGAAATAGCTTCGGCTATAAATA
* * ** *
25921308 GCACTAAGTGTTCAAACTGGAATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGCAAACTGAAATAGCTTCGGCTATAAATA
25921348 GCACTAAGTGTGCAA
1 GCACTAAGTGTGCAA
25921363 TATTGAGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACTAAGTGTGCAAACTGAAATAGCTTCGGCTATAAATA
Found at i:25924122 original size:27 final size:27
Alignment explanation
Indices: 25924091--25924268 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25924081 TAAATTGTAC
25924091 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25924118 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25924144 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25924172 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25924200 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25924227 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25924254 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25924269 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25924205 original size:82 final size:81
Alignment explanation
Indices: 25924092--25924247 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25924082 AAATTGTACA
* *
25924092 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25924156 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25924173 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25924238 TGCGAGTTGA
65 TGCGAATTGA
25924248 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25924259 original size:82 final size:81
Alignment explanation
Indices: 25924088--25924268 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25924078 GATTAAATTG
* *
25924088 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25924153 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25924169 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25924233 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25924251 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25924269 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25935862 original size:40 final size:40
Alignment explanation
Indices: 25935817--25935898 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
25935807 TAAAATGCCC
* *
25935817 TAAATATATGTATATGGATCAAATTGAATGACTTGTTGAA
1 TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
25935857 TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
1 TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
25935897 TA
1 TA
25935899 CAAGGGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.38
Consensus pattern (40 bp):
TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
Found at i:25936212 original size:40 final size:40
Alignment explanation
Indices: 25936123--25936215 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
25936113 GACTATGTTC
* **
25936123 GGCACTAAGTGTGCAATTTGAAATAGCTTCGTTTATAAAT
1 GGCACTAAGTGTGCAATTAGAAATAGCTTCGGCTATAAAT
* * * **
25936163 AGCAGTAAGTGTGTGAATTAG-AATAGCTTCGGCTATATGT
1 GGCACTAAGTGTG-CAATTAGAAATAGCTTCGGCTATAAAT
25936203 GGCACTAAGTGTG
1 GGCACTAAGTGTG
25936216 AAATATTGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (40 bp):
GGCACTAAGTGTGCAATTAGAAATAGCTTCGGCTATAAAT
Found at i:25939575 original size:5 final size:5
Alignment explanation
Indices: 25939565--25939695 Score: 128
Period size: 5 Copynumber: 26.4 Consensus size: 5
25939555 GGTTGTTACT
* * *
25939565 ATATG ATATG ATATG ATATG ATATG ATATG ATATG TTAGG ATATG ATATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
* * **
25939615 ATATG ATATG AT-TCA ATATG ATATG ATAT- AGTGTG ATATG -TCCG ATATG
1 ATATG ATATG ATAT-G ATATG ATATG ATATG A-TATG ATATG ATATG ATATG
25939664 AT-TCG ATATG ATATG ATAT- AGTATG ATATG AT
1 ATAT-G ATATG ATATG ATATG A-TATG ATATG AT
25939696 CCGATACGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
4 6 0.06
5 93 0.90
6 4 0.04
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:25939673 original size:39 final size:40
Alignment explanation
Indices: 25939566--25939701 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 40
25939556 GTTGTTACTA
** *
25939566 TATGATATGATATGATATGATAT-GATATGATATG-T-TAGG
1 TATGATATGATCCGATATGAT-TCAATATGATATGATATA-G
* **
25939605 ATATGATATAATATGATATGATTCAATATGATATGATATAG
1 -TATGATATGATCCGATATGATTCAATATGATATGATATAG
* *
25939646 TGTGATATG-TCCGATATGATTCGATATGATATGATATAG
1 TATGATATGATCCGATATGATTCAATATGATATGATATAG
25939685 TATGATATGATCCGATA
1 TATGATATGATCCGATA
25939702 CGTTATGAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.43
40 44 0.52
41 2 0.02
42 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (40 bp):
TATGATATGATCCGATATGATTCAATATGATATGATATAG
Found at i:25941555 original size:20 final size:20
Alignment explanation
Indices: 25941526--25941615 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
25941516 AGCTGTGCCC
*
25941526 CTATTCGCACTTCGGTGTCT
1 CTATTTGCACTTCGGTGTCT
* *
25941546 CTATTTGCACGTCTGTG-CT
1 CTATTTGCACTTCGGTGTCT
* * *
25941565 CCTGTTCGCACTTTGGTGTC-
1 -CTATTTGCACTTCGGTGTCT
*
25941585 CT-TGTATACACTTCGGTGTCT
1 CTAT-T-TGCACTTCGGTGTCT
25941606 CTATTTGCAC
1 CTATTTGCAC
25941616 ATTTATGCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
18 1 0.02
19 5 0.10
20 41 0.79
21 4 0.08
22 1 0.02
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (20 bp):
CTATTTGCACTTCGGTGTCT
Found at i:25941605 original size:60 final size:60
Alignment explanation
Indices: 25941533--25941708 Score: 217
Period size: 60 Copynumber: 2.9 Consensus size: 60
25941523 CCCCTATTCG
* * * *
25941533 CACTTCGGTGTCTCTATTTGCACGTCTGTGCTCCTGTTCGCACTTTGGTGTCCTTGTATA
1 CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTGTATA
* * * * *
25941593 CACTTCGGTGTCTCTATTTGCACATTTATGCTCCTATTCACACTCTAGTGCCCCTGTATA
1 CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTGTATA
* * * * * *
25941653 CACTTTGGTGTCCCTGTTTGCACATTTGTTCCCCTGTTGGCACTTTGGTGCCCCTG
1 CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTG
25941709 ACTGTATGTA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 96 1.00
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (60 bp):
CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTGTATA
Found at i:25941706 original size:20 final size:19
Alignment explanation
Indices: 25941640--25941708 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
25941630 TCACACTCTA
*
25941640 GTGCCCCTGTATACACTTTG
1 GTGCCCCTGT-TGCACTTTG
*
25941660 GTGTCCCTGTTTGCACATTT-
1 GTGCCCCTG-TTGCAC-TTTG
*
25941680 GTTCCCCTGTTGGCACTTTG
1 GTGCCCCTGTT-GCACTTTG
25941700 GTGCCCCTG
1 GTGCCCCTG
25941709 ACTGTATGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 5 0.12
20 31 0.77
21 4 0.10
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (19 bp):
GTGCCCCTGTTGCACTTTG
Found at i:25945889 original size:22 final size:21
Alignment explanation
Indices: 25945850--25945890 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25945840 TAGAATAATT
*
25945850 ACTAAACACATTATTTTGTAA
1 ACTAAACACATTAGTTTGTAA
*
25945871 ACTAAAGCACATTCGTTTGT
1 ACTAAA-CACATTAGTTTGT
25945891 TAATCCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (21 bp):
ACTAAACACATTAGTTTGTAA
Found at i:25954614 original size:19 final size:17
Alignment explanation
Indices: 25954586--25954631 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
25954576 CCTATACGCT
25954586 CAAT-AATCTCATGCGACC
1 CAATAAATCTCA-G-GACC
*
25954604 CAATAAATCTC-GGACT
1 CAATAAATCTCAGGACC
25954620 CAATAAATCTCA
1 CAATAAATCTCA
25954632 ATTAGAGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 14 0.56
17 1 0.04
18 4 0.16
19 6 0.24
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (17 bp):
CAATAAATCTCAGGACC
Found at i:25968183 original size:13 final size:13
Alignment explanation
Indices: 25968165--25968189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25968155 TGGTACTCCT
25968165 TTCCTTATGAGTG
1 TTCCTTATGAGTG
25968178 TTCCTTATGAGT
1 TTCCTTATGAGT
25968190 TTTGTCAAGG
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:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (13 bp):
TTCCTTATGAGTG
Found at i:25977447 original size:24 final size:25
Alignment explanation
Indices: 25977420--25977514 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
25977410 GAGGAAGTGA
*
25977420 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
25977444 AAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
25977469 AAAAGGGATTTTGCCCCAGTTTATC-
1 AAAAGGG-CTTTGCCCCAGTTTACCG
*
25977494 AAAAGGGCTTTTTCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
25977515 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
24 16 0.26
25 31 0.51
26 14 0.23
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:25977527 original size:25 final size:25
Alignment explanation
Indices: 25977420--25977527 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
25977410 GAGGAAGTGA
* *
25977420 AAAAGGGC-TATGCCCCAG-TTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
* *
25977443 GAAAAGGGC-TTTGCCTCAGTTTACC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
25977468 GAAAAGGGATTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
* *
25977494 AAAAGGGCTTTTTCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
25977518 AAAAGAGGCT
1 AAAAG-GGCT
25977528 AGGGCTCCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
24 25 0.34
25 34 0.47
26 14 0.19
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:25977772 original size:31 final size:31
Alignment explanation
Indices: 25977734--25977817 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
25977724 TTGTTACAGT
25977734 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
25977765 AAAGGCTTCAGCCCAGTGATATGCATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
25977796 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
25977818 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:25982107 original size:53 final size:53
Alignment explanation
Indices: 25982025--25982131 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
25982015 TTTTCCTTTT
* * * * * *
25982025 TGAACTTACCATTGCTATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTA
*
25982078 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTA
25982131 T
1 T
25982132 AGTCTTACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
52 2 0.04
53 44 0.96
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTA
Found at i:25982138 original size:26 final size:26
Alignment explanation
Indices: 25982107--25982157 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25982097 CCTTGGCATG
*
25982107 GTCTTACATGGGACCTTTGCCTTATA
1 GTCTTACATGGGACCTTCGCCTTATA
25982133 GTCTTACATGGGACCTTCGCCTTAT
1 GTCTTACATGGGACCTTCGCCTTAT
25982158 GGTAACTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCTTACATGGGACCTTCGCCTTATA
Found at i:25982297 original size:47 final size:47
Alignment explanation
Indices: 25982238--25982532 Score: 192
Period size: 47 Copynumber: 6.3 Consensus size: 47
25982228 CATGCCTTGG
* * *
25982238 CATGGTTTTACATGATATCCTTATCTTACCAAATGTCATGCTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
** *
25982285 TGTGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
* * ***
25982332 CATGGTCTTACATGGTATCCTTGTCTTAGTGCC-AACGCCA--CATCTTGA
1 CATGGTCTTACATGATATCCTTGTCTTA---CCAAATGCCATGC-TCCAAA
** * * * * * * ***
25982380 TGTAGTCCTACATGA-AGTCCTTAATCAATGCC-GATGCCATG-TCTTGA
1 CATGGTCTTACATGATA-TCCTT-GTC-TTACCAAATGCCATGCTCCAAA
* ** * ***
25982427 CATGGTCTTACACGGGATCCTTGCCTTACC-AATGCCATG-TCTTGA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
* *
25982472 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
25982519 CATGGTCTTACATG
1 CATGGTCTTACATG
25982533 GTCTTACATA
Statistics
Matches: 193, Mismatches: 43, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
45 42 0.22
46 10 0.05
47 111 0.58
48 19 0.10
49 8 0.04
50 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
Found at i:25982468 original size:45 final size:46
Alignment explanation
Indices: 25982413--25982530 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 46
25982403 ATCAATGCCG
* *
25982413 ATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTACC-A
1 ATGCCATGTCTTGACATGGTCTTACACGAGATCCTTACCTTACCAA
* * *
25982458 ATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAA
1 ATGCCATGTCTTGACATGGTCTTACACGAGATCCTTACCTTACCAA
***
25982504 ATGCCATGTTCCAAACATGGTCTTACA
1 ATGCCATG-TCTTGACATGGTCTTACA
25982531 TGGTCTTACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 39 0.62
46 9 0.14
47 15 0.24
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (46 bp):
ATGCCATGTCTTGACATGGTCTTACACGAGATCCTTACCTTACCAA
Found at i:25982522 original size:92 final size:93
Alignment explanation
Indices: 25982287--25982530 Score: 262
Period size: 92 Copynumber: 2.6 Consensus size: 93
25982277 GCTCCAAATG
* * *
25982287 TGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCC
1 TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACACGGGATCC
* **
25982352 TTGTCTTAGTGCCAACGCCACATCTTGATG
66 TTGCCTTA--GCCAACGCCACATCTTGACA
* * * * * ***
25982382 TAGTCCTACATGA-AGTCCTTAATCAATGCC-GATGCCATG-TCTTGACATGGTCTTACACGGGA
1 TGGTCTTACATGATA-TCCTT-ATC-TTACCAAATGCCATGTTCCAAACATGGTCTTACACGGGA
* **
25982444 TCCTTGCCTTA-CCAATGCCATGTCTTGACA
63 TCCTTGCCTTAGCCAACGCCACATCTTGACA
25982474 TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACA
1 TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACA
25982531 TGGTCTTACA
Statistics
Matches: 118, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
90 3 0.03
91 11 0.09
92 45 0.38
93 1 0.01
94 1 0.01
95 44 0.37
96 10 0.08
97 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (93 bp):
TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACACGGGATCC
TTGCCTTAGCCAACGCCACATCTTGACA
Found at i:25988654 original size:54 final size:54
Alignment explanation
Indices: 25988469--25988665 Score: 254
Period size: 55 Copynumber: 3.6 Consensus size: 54
25988459 AACTTACCAT
* * * *
25988469 TGCCATGCCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* **
25988522 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * *
25988577 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* *
25988631 TACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
25988666 ATCTTACCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.28
54 41 0.33
55 45 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:25988696 original size:47 final size:47
Alignment explanation
Indices: 25988644--25988999 Score: 305
Period size: 47 Copynumber: 7.6 Consensus size: 47
25988634 CATGCCTTGG
25988644 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
*
25988691 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * ** **
25988738 CATGGTCTTACATGGTATCCTTGTCTTAATGCC-AATGCCACATT-TTAA
1 CATGGTCTTACATGATATCCTTATCTT-A--CCAAATGCCATGTTCCAAA
** * * * * * ***
25988786 TGTGGTCTTACATGGA-GTCCTTAATCAATGCC-GATTCCATG-TCTTGA
1 CATGGTCTTACAT-GATATCCTT-ATC-TTACCAAATGCCATGTTCCAAA
* *** * ***
25988833 CATGGTCTTACACGGGGTCCTT-GCTTTACC-AATGCCATG-TCTTGA
1 CATGGTCTTACATGATATCCTTATC-TTACCAAATGCCATGTTCCAAA
* * *
25988878 CACGGGCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
25988925 CATGGTCTTACATGGTATGCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
*
25988972 CATGGTCTTACATGATATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTATCTTA
25989000 GTGCGAGTGC
Statistics
Matches: 251, Mismatches: 47, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
45 38 0.15
46 11 0.04
47 168 0.67
48 19 0.08
49 12 0.05
50 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:25988997 original size:234 final size:234
Alignment explanation
Indices: 25988650--25989078 Score: 768
Period size: 234 Copynumber: 1.8 Consensus size: 234
25988640 TTGGCATGGT
25988650 CTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTAT
1 CTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTAT
*
25988715 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAATGCCAATGCCACA
66 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGATATCCTTGTCTTAATGCCAATGCCACA
* *
25988780 TTTTAATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATTCCATGTCTTGACATGGTCTTACA
131 TCTTAATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACA
25988845 CGGGGTCCTTGCTTTACCAATGCCATGTCTTGACACGGG
196 CGGGGTCCTTGCTTTACCAATGCCATGTCTTGACACGGG
* * *
25988884 CTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAACATGGTCTTACATGGTATGCTTGT
1 CTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTAT
* * *
25988949 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGATATCCTTGTCTTAGTGCGAGTGCCACA
66 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGATATCCTTGTCTTAATGCCAATGCCACA
*
25989014 TCTTGATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACA
131 TCTTAATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACA
25989079 TGGTATCCTT
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
234 185 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (234 bp):
CTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTAT
CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGATATCCTTGTCTTAATGCCAATGCCACA
TCTTAATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACA
CGGGGTCCTTGCTTTACCAATGCCATGTCTTGACACGGG
Found at i:25989028 original size:187 final size:187
Alignment explanation
Indices: 25988697--25989089 Score: 438
Period size: 187 Copynumber: 2.1 Consensus size: 187
25988687 CAAACATGGT
25988697 CTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGT
1 CTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGT
** ** * * **
25988762 CTTAATGCCAATGCCACATTTTAATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATTCCATG
66 CTTAA-GCCAATGCCACATTCAAACATGGTCTTACATGGAATCCTTAATCAATGCCGATGCCACA
* **
25988827 TCTTGACATGGTCTTACACGGGGTCCTT-GCTTTACCAATGCCATGTCTTGACACGGG
130 TCTTGACATGGTCTTACACGGAGTCCTTAGCAATACCAATGCCATGTCTTGACACGGG
* * *
25988884 CTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAACATGGTCTTACATGGTATGCTTGT
1 CTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGT
** * *
25988949 CTT-A-CCAAATGCCATGTTCCAAACATGGTCTTACAT-GATATCCTT-GTCTTAGTG-CGAGTG
66 CTTAAGCC-AATGCCACATT-CAAACATGGTCTTACATGGA-ATCCTTAATC--AATGCCGA-TG
** * * * * * *
25989009 CCACATCTTGATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGT
125 CCACATCTTGACATGGTCTTACACGGAGTCCTT-AGCAATACCAATGCCATGTCTTGACACGGG
25989073 CTTACATGGTATCCTTA
1 CTTACATGGTATCCTTA
25989090 ACTGTCAATT
Statistics
Matches: 171, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
184 2 0.01
185 13 0.08
186 22 0.13
187 96 0.56
189 38 0.22
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (187 bp):
CTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGT
CTTAAGCCAATGCCACATTCAAACATGGTCTTACATGGAATCCTTAATCAATGCCGATGCCACAT
CTTGACATGGTCTTACACGGAGTCCTTAGCAATACCAATGCCATGTCTTGACACGGG
Found at i:25989090 original size:47 final size:45
Alignment explanation
Indices: 25988644--25989089 Score: 286
Period size: 47 Copynumber: 9.5 Consensus size: 45
25988634 CATGCCTTGG
* **
25988644 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACC-AATGCCATG-TCTTAA
**
25988691 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACC-AATGCCATG-TCTTAA
* ** *
25988738 CATGGTCTTACATGGTATCCTTGTCTTAATGCCAATGCCACATTTTAA
1 CATGGTCTTACATGGTATCCTTATCTT-A--CCAATGCCATGTCTTAA
** * * * * *
25988786 TGTGGTCTTACATGG-AGTCCTTAATCAATGCCGATTCCATGTCTTGA
1 CATGGTCTTACATGGTA-TCCTT-ATC-TTACCAATGCCATGTCTTAA
* ** * *
25988833 CATGGTCTTACACGGGGTCCTT-GCTTTACCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTATC-TTACCAATGCCATGTCTTAA
* * * * **
25988878 CACGGGCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACC-AATGCCATG-TCTTAA
* * **
25988925 CATGGTCTTACATGGTATGCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACC-AATGCCATG-TCTTAA
* * * * ** *
25988972 CATGGTCTTACATGATATCCTTGTCTTAGTGCGAGTGCCACATCTTGA
1 CATGGTCTTACATGGTATCCTTATCTTA---CCAATGCCATGTCTTAA
** * * * *
25989020 TGTGGTCTTACATGG-AGTCCTTAATCAATGCCGATGCCATGTCTTGA
1 CATGGTCTTACATGGTA-TCCTT-ATC-TTACCAATGCCATGTCTTAA
25989067 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGGTATCCTTA
25989090 ACTGTCAATT
Statistics
Matches: 315, Mismatches: 67, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
45 38 0.12
46 10 0.03
47 202 0.64
48 43 0.14
49 17 0.05
50 5 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (45 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAATGCCATGTCTTAA
Found at i:25991326 original size:48 final size:48
Alignment explanation
Indices: 25991244--25991530 Score: 326
Period size: 48 Copynumber: 5.9 Consensus size: 48
25991234 ATACTAGGGT
* * * *
25991244 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGGATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * ** * **
25991292 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* *
25991340 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
*
25991388 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-G-ATCTAGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT-T-GA
* * * * *
25991436 CATGTGAGCTAGTGTAAGACGATGTTTGGAACATGGCATCGACACTGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG--A
* * *
25991486 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
25991531 CTTACCATTT
Statistics
Matches: 197, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 153 0.78
49 1 0.01
50 39 0.20
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
Found at i:25991408 original size:96 final size:96
Alignment explanation
Indices: 25991244--25991525 Score: 422
Period size: 96 Copynumber: 2.9 Consensus size: 96
25991234 ATACTAGGGT
* * * *
25991244 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGGATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
25991309 GACCATGTCTGGGACATGGCATCAACCTCA-A
66 GACCATGTCTGGGACATGGCATCAACCT-AGA
25991340 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * *
25991405 GACCATGTTTGGGACATGGCATCGATCTAGA
66 GACCATGTCTGGGACATGGCATCAACCTAGA
* * * * *
25991436 CATGTGAGCTAGTGTAAGACGATGTTTGGAACATGGCATCGACACTGATATATGAGAGCCAGTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-T-TTATATGAGAGCTAGTGT
25991501 AAGACCATGTCTGGGACATGGCATC
64 AAGACCATGTCTGGGACATGGCATC
25991526 GGCATCTTAC
Statistics
Matches: 170, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 128 0.75
97 1 0.01
98 40 0.24
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (96 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCAACCTAGA
Found at i:25996276 original size:32 final size:32
Alignment explanation
Indices: 25996223--25996316 Score: 115
Period size: 28 Copynumber: 3.0 Consensus size: 32
25996213 TAAGTGACCA
25996223 TATCCGGACTAAGATCCGAAGGCATTTGTGCGAGC
1 TATCCGG-CTAAG--CCGAAGGCATTTGTGCGAGC
* *
25996258 TATCCGGGTAAGCCGAAGGCA-TTGTGC---T
1 TATCCGGCTAAGCCGAAGGCATTTGTGCGAGC
25996286 TATCCGGCTAAGCCGAAGGCATTTGTGCGAG
1 TATCCGGCTAAGCCGAAGGCATTTGTGCGAG
25996317 TTACTAAATC
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
28 20 0.38
29 6 0.12
31 6 0.12
32 9 0.17
34 4 0.08
35 7 0.13
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (32 bp):
TATCCGGCTAAGCCGAAGGCATTTGTGCGAGC
Found at i:25996397 original size:40 final size:40
Alignment explanation
Indices: 25996287--25996390 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
25996277 CATTGTGCTT
25996287 ATCC-GGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
25996324 ATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
25996365 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
25996391 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
37 4 0.07
38 6 0.10
40 46 0.79
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:26004369 original size:40 final size:40
Alignment explanation
Indices: 26004266--26004355 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
26004256 ATGCCGCTGC
*
26004266 AAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCG
* *
26004306 AAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCG
26004346 AAGGCATTTG
1 AAGGCATTTG
26004356 AACGAGTAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCG
Found at i:26007250 original size:15 final size:15
Alignment explanation
Indices: 26007230--26007261 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
26007220 ATGTGTAATA
26007230 AAATATTACCTTAGT
1 AAATATTACCTTAGT
26007245 AAATATTACCTTAGT
1 AAATATTACCTTAGT
26007260 AA
1 AA
26007262 CTATCCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (15 bp):
AAATATTACCTTAGT
Found at i:26008968 original size:15 final size:15
Alignment explanation
Indices: 26008936--26008964 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26008926 ATTTTCTATG
26008936 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
26008951 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
26008965 ATTTTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:26010167 original size:87 final size:89
Alignment explanation
Indices: 26010063--26010241 Score: 245
Period size: 87 Copynumber: 2.0 Consensus size: 89
26010053 TAGGATTCTG
* * * * *
26010063 ATATGTGTTTTTGTGTAACACCACTTCTGGGACGTTGGCATCGATATA-TGTTTTCTTGTACGA-
1 ATATGTGTTTTCGTGTAACACCACGTCTAGGACGTTGGCATCGATATAGTGTTTTCATGTAAGAC
* *
26010126 CACGTCTGGGACATTGGCATCGAT
66 CACATCTAGGACATTGGCATCGAT
*
26010150 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATATGTGTTTTCATGTAAGA
1 ATATGTGTTTTCGTGTAACACCACGTCTAGGACGTTGGCATCGATATA-GTGTTTTCATGTAAGA
**
26010215 CCACATCTAGGATGTTGGCATCGAT
65 CCACATCTAGGACATTGGCATCGAT
26010240 AT
1 AT
26010242 GTGGTTATGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
87 44 0.56
89 13 0.16
90 22 0.28
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (89 bp):
ATATGTGTTTTCGTGTAACACCACGTCTAGGACGTTGGCATCGATATAGTGTTTTCATGTAAGAC
CACATCTAGGACATTGGCATCGAT
Found at i:26010190 original size:45 final size:45
Alignment explanation
Indices: 26010063--26010241 Score: 238
Period size: 45 Copynumber: 4.0 Consensus size: 45
26010053 TAGGATTCTG
* * * *
26010063 ATATGTGTTTTTGTGTAACACCACTTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* * * *
26010108 ATA--TGTTTTCTTGTACGA-CACGTCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
26010150 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* * *
26010195 ATATGTGTTTTCATGTAAGACCACATCTAGGATGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
26010240 AT
1 AT
26010242 GTGGTTATGA
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
42 25 0.21
43 11 0.09
44 13 0.11
45 69 0.58
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
Found at i:26010280 original size:88 final size:87
Alignment explanation
Indices: 26010100--26010325 Score: 201
Period size: 84 Copynumber: 2.6 Consensus size: 87
26010090 TGGGACGTTG
* * * * * *
26010100 GCATCGATATATGTTTTCTTGTACGACACGTCTGGGACATTGGCATCGATATATGTGTTTTCGTG
1 GCATCGATATATGTTTTCATGTAAGACACATCTAGGACATTGGCATCGATATATGTGTTATCGAG
* **
26010165 TAAGACCACGTCTAGGACGTTG
66 TAAGACCACGTCTAGGACATCA
** *
26010187 GCATCGATATATGTGTTTTCATGTAAGACCACATCTAGGATGTTGGCATCGATATGTG-GTTAT-
1 GCATCGATATA--TGTTTTCATGTAAGA-CACATCTAGGACATTGGCATCGATATATGTGTTATC
*
26010250 GAGTAAGACCATGTCT-GAGACATCA
63 GAGTAAGACCACGTCTAG-GACATCA
* * * * * *
26010275 GCATCG-TATTTG-ATTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATAT
1 GCATCGATATATGTTTTCATGTAAGACAC-ATCTAGGACATTGGCATCGATAT
26010326 GAGATAGCAT
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
83 2 0.02
84 29 0.26
85 2 0.02
87 15 0.13
88 24 0.21
89 17 0.15
90 24 0.21
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (87 bp):
GCATCGATATATGTTTTCATGTAAGACACATCTAGGACATTGGCATCGATATATGTGTTATCGAG
TAAGACCACGTCTAGGACATCA
Found at i:26010744 original size:13 final size:13
Alignment explanation
Indices: 26010710--26010760 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
26010700 TTTGGCAATG
26010710 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* * *
26010723 CTGTGGAAAAATA
1 CTTTTGAAAAGTA
*
26010736 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
26010749 CTTTTGAAAAGT
1 CTTTTGAAAAGT
26010761 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:26011314 original size:18 final size:19
Alignment explanation
Indices: 26011293--26011330 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
26011283 AACTTTTCTT
26011293 CCAAAAGT-TCTTTTTAAG
1 CCAAAAGTGTCTTTTTAAG
*
26011311 CCAAAAGTGTTTTTTTAAG
1 CCAAAAGTGTCTTTTTAAG
26011330 C
1 C
26011331 ACAGAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (19 bp):
CCAAAAGTGTCTTTTTAAG
Found at i:26017944 original size:32 final size:32
Alignment explanation
Indices: 26017907--26017991 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
26017897 ATAAGTGTGA
*
26017907 ATATATGTGTAGTTGGATA-AAGTTGAATGTCT
1 ATATATGTGTAGTTGGATATAA-TCGAATGTCT
*
26017939 ATATATGTGT-GATTGGATATAATCGAATGTGT
1 ATATATGTGTAG-TTGGATATAATCGAATGTCT
* * *
26017971 ATCTAGGTGTAGTTTGATATA
1 ATATATGTGTAGTTGGATATA
26017992 GCCGATTGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 1 0.02
32 41 0.91
33 3 0.07
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.41
Consensus pattern (32 bp):
ATATATGTGTAGTTGGATATAATCGAATGTCT
Found at i:26021608 original size:21 final size:22
Alignment explanation
Indices: 26021569--26021609 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26021559 GTTGAAATGT
26021569 CAAACGGGCGTGTTGCCCCTCC
1 CAAACGGGCGTGTTGCCCCTCC
26021591 CAAACGGGCGTG-TGCCCCT
1 CAAACGGGCGTGTTGCCCCT
26021610 GTGTTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.15, C:0.39, G:0.29, T:0.17
Consensus pattern (22 bp):
CAAACGGGCGTGTTGCCCCTCC
Found at i:26023336 original size:40 final size:40
Alignment explanation
Indices: 26023292--26023443 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
26023282 ATAACCACAA
*
26023292 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
26023332 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
26023372 GCACAAATGCCTTCAGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
26023412 GCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
26023444 CATTCAAATG
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:26030352 original size:33 final size:33
Alignment explanation
Indices: 26030310--26030399 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
26030300 GAATTCGATC
26030310 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
1 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
26030343 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
1 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
* * *
26030376 CATATGGCCGTGTGTTCGGACACA
1 CACACGGCCGTGTGTTCAGACACA
26030400 TAGGCGTGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (33 bp):
CACACGGCCGTGTGTTCAGACACACGGGCAAGG
Found at i:26031147 original size:17 final size:17
Alignment explanation
Indices: 26031113--26031197 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 17
26031103 GGATTTTATT
26031113 TCTTTATCTTTA-TCTTTG
1 TCTTTAT-TTTAGT-TTTG
26031131 TCTTTATTTTAGTTTTG
1 TCTTTATTTTAGTTTTG
* **
26031148 T-TTTATTAT-GCATT-
1 TCTTTATTTTAGTTTTG
*
26031162 TCAGTTATTTTAGTTTTG
1 TC-TTTATTTTAGTTTTG
*
26031180 TCTTAATTTTAGTTTTG
1 TCTTTATTTTAGTTTTG
26031197 T
1 T
26031198 TTGTTACAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.02
15 3 0.06
16 13 0.25
17 26 0.49
18 10 0.19
ACGTcount: A:0.15, C:0.08, G:0.11, T:0.66
Consensus pattern (17 bp):
TCTTTATTTTAGTTTTG
Found at i:26032705 original size:6 final size:6
Alignment explanation
Indices: 26032694--26032718 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26032684 GTCCCTTTTA
26032694 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
26032719 CCTTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:26037336 original size:20 final size:20
Alignment explanation
Indices: 26037313--26037359 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
26037303 GGGTTAAGAT
*
26037313 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
26037333 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
26037353 TGAGCTG
1 TGAGCTG
26037360 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:26039083 original size:48 final size:48
Alignment explanation
Indices: 26039028--26039133 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
26039018 TTGTCTTTTC
*
26039028 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
26039076 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
26039124 TTTCTTTTTC
1 TTTCTTTTTC
26039134 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:26040181 original size:22 final size:21
Alignment explanation
Indices: 26040151--26040218 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
26040141 CTCGCAAGAC
*
26040151 TTTTCACTTTTTTTTTGTTCTT
1 TTTTCACTTTTTTTTTCTT-TT
*
26040173 TTTTTACTTTTTTTTTCTTTT
1 TTTTCACTTTTTTTTTCTTTT
* *
26040194 TTTGCTCACTTCTTTATT-TTTT
1 TTT--TCACTTTTTTTTTCTTTT
26040216 TTT
1 TTT
26040219 GAATTTCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 5 0.13
22 24 0.62
23 10 0.26
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTCACTTTTTTTTTCTTTT
Found at i:26041757 original size:20 final size:20
Alignment explanation
Indices: 26041734--26041780 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26041724 GGGTTAAGAT
* *
26041734 TGAGCTGAATTGATCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
26041754 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
26041774 TGAGCTG
1 TGAGCTG
26041781 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:26042049 original size:27 final size:28
Alignment explanation
Indices: 26041990--26042049 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
26041980 CATAGGCTGA
*
26041990 GACACGGGCGTGTCATGGCCGTGTGAGG
1 GACACAGGCGTGTCATGGCCGTGTGAGG
26042018 GACACAGGCGTGTCATGGCC-TGTGAGG
1 GACACAGGCGTGTCATGGCCGTGTGAGG
26042045 GACAC
1 GACAC
26042050 GGGCCATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.18, C:0.23, G:0.42, T:0.17
Consensus pattern (28 bp):
GACACAGGCGTGTCATGGCCGTGTGAGG
Found at i:26052698 original size:21 final size:22
Alignment explanation
Indices: 26052668--26052709 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
26052658 GGGACTAAAT
26052668 CAAAAATTCAAAATT-TTTTTG
1 CAAAAATTCAAAATTATTTTTG
*
26052689 CAAAATTTCAAAATTATTTTT
1 CAAAAATTCAAAATTATTTTT
26052710 AGATGCAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
CAAAAATTCAAAATTATTTTTG
Found at i:26055282 original size:37 final size:37
Alignment explanation
Indices: 26055232--26055310 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
26055222 TTATTACGAA
* * *
26055232 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
26055269 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
26055306 GTCTT
1 GTCTT
26055311 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:26055507 original size:47 final size:47
Alignment explanation
Indices: 26055429--26055702 Score: 370
Period size: 47 Copynumber: 5.7 Consensus size: 47
26055419 CCCTTCGGGA
* * * * * *
26055429 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
26055476 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26055523 CTTATCACATATATATACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26055570 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26055619 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
26055668 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
26055703 AGAATCCTAA
Statistics
Matches: 205, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 111 0.54
49 93 0.45
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.