Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 25 of 193
Found at i:8192265 original size:38 final size:37
Alignment explanation
Indices: 8192002--8192653 Score: 154
Period size: 38 Copynumber: 17.2 Consensus size: 37
8191992 CTCTTATTTT
8192002 AATTTCAGAGATAAAGACT-TGTTATCCAACTCTACTTC
1 AATTTCAGAGATAAAGA-TGTG-TATCCAACTCTACTTC
* *
8192040 AATTTCAAGAGGATAGGAA-ATGATGT-TGC-TCT-TACTTC
1 AATTTC-AGA-GATA--AAGATG-TGTATCCAACTCTACTTC
* * * *
8192078 AATTTCAGAGATAAAGACGCGTTATCC-ACTTTATTTC
1 AATTTCAGAGATAAAGATGTG-TATCCAACTCTACTTC
* *** ***
8192115 AATTTCAAGAGGAT-AGGAAAAG-ATCTTGCTCTTACTTC
1 AATTTC-AGA-GATAAAGATGTGTATCCAACTC-TACTTC
*
8192153 AATTTCAGAGATAAAGACT-TGATATTCAACTCTACTTC
1 AATTTCAGAGATAAAGA-TGTG-TATCCAACTCTACTTC
* * ** ***
8192191 AATTTCAAGAGGA-CAGGAAATG-ATCTTGCTCTTACTTC
1 AATTTC-AGA-GATAAAGATGTGTATCCAACTC-TACTTC
8192229 AATTTCAGAGATAAAGATGTGTTATCCAACTCTACTTC
1 AATTTCAGAGATAAAGATGTG-TATCCAACTCTACTTC
* * * *
8192267 AATTTCAAGCGA-ATAGGAAGTG-ATGTC-ACTCTTACTTC
1 AATTTC-AGAGATA-AAGATGTGTAT-CCAACTC-TACTTC
* * * *
8192305 AATTTCAGAGATCAAGGCT-TGATATCCAGCTTTACTTC
1 AATTTCAGAGAT-AAAGATGTG-TATCCAACTCTACTTC
* ** ***
8192343 AATTTCAAGAGGAT-AGGAAATG-ATCTTGCTCTTACTTC
1 AATTTC-AGA-GATAAAGATGTGTATCCAACTC-TACTTC
**
8192381 AATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTC
1 AATTTCAGAGATAAAGATGTG-TATCCAACTCTACTTC
* * * *
8192419 AATTTCAAGCGGATAGGAA-ATGACGT-TGC-TCT-TACTTC
1 AATTTC-AG-AGATA--AAGATG-TGTATCCAACTCTACTTC
* * * *
8192457 AATTTCAGAGATCAAGGCT-TGATATCCAGCTTTACTTC
1 AATTTCAGAGAT-AAAGATGTG-TATCCAACTCTACTTC
* *** ***
8192495 AATTTCAAGAGGAT-AGGAAAAG-ATCTTGCTCTTACTTC
1 AATTTC-AGA-GATAAAGATGTGTATCCAACTC-TACTTC
* * *
8192533 AATTTCAGAGATAAGGACTTTTTATCCAACTCTACTTC
1 AATTTCAGAGATAAAGA-TGTGTATCCAACTCTACTTC
* * * *
8192571 AATTTCAAGCGGATAGGAA-ATGACGT-TGC-TCT-TACTTC
1 AATTTC-AG-AGATA--AAGATG-TGTATCCAACTCTACTTC
* * *
8192609 AATTTCAGAGATAAAGACGTGTTATCCGACTCTACCTC
1 AATTTCAGAGATAAAGATGTG-TATCCAACTCTACTTC
8192647 AATTTCA
1 AATTTCA
8192654 AGAGGATAGG
Statistics
Matches: 449, Mismatches: 96, Indels: 138
0.66 0.14 0.20
Matches are distributed among these distances:
34 7 0.02
35 8 0.02
36 34 0.08
37 83 0.18
38 204 0.45
39 71 0.16
40 28 0.06
41 6 0.01
42 8 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (37 bp):
AATTTCAGAGATAAAGATGTGTATCCAACTCTACTTC
Found at i:8192354 original size:152 final size:152
Alignment explanation
Indices: 8191788--8192676 Score: 1221
Period size: 152 Copynumber: 5.9 Consensus size: 152
8191778 TGCTTTTCAG
* * * * *
8191788 AGAGATAAAGACTTGCTATCCAATTTTACTTCAATTTCAAGAGGATGGGAAACT-ATCTTACTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA-TGATCTTGCTCT
* *
8191852 TACTTCAATTTCAGAGATAAAGACTTGATATCCAG-----CTT---TTTCAAGAGGATGGGAAAC
65 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAT
8191909 GATCTTGCTCTTACTTCAATTTC
130 GATCTTGCTCTTACTTCAATTTC
* * * *
8191932 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
* * * *
8191997 ATTTTAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
66 ACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAATG
*
8192062 ATGTTGCTCTTACTTCAATTTC
131 ATCTTGCTCTTACTTCAATTTC
** * * *
8192084 AGAGATAAAGACGCGTTATCC-ACTTTATTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
* * *
8192148 ACTTCAATTTCAGAGATAAAGACTTGATATTCAACTCTACTTCAATTTCAAGAGGACAGGAAATG
66 ACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAATG
8192213 ATCTTGCTCTTACTTCAATTTC
131 ATCTTGCTCTTACTTCAATTTC
* * * * **
8192235 AGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGCGAATAGGAAGTGATGTCACTCT
1 AGAGATAAAGACT-TGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCT
* * *
8192299 TACTTCAATTTCAGAGATCAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
65 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAT
8192364 GATCTTGCTCTTACTTCAATTTC
130 GATCTTGCTCTTACTTCAATTTC
* * *
8192387 AGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAATGA-CGTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
* * * *
8192451 TACTTCAATTTCAGAGATCAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAA
65 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAT
8192516 GATCTTGCTCTTACTTCAATTTC
130 GATCTTGCTCTTACTTCAATTTC
* * *
8192539 AGAGATAAGGACTTTTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAATGA-CGTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
* * *
8192603 TACTTCAATTTCAGAGATAAAGACGTGTTATCC-GACTCTACCTCAATTTCAAGAGGATAGGAAA
65 TACTTCAATTTCAGAGATAAAGACTTGATATCCAG-CTCTACTTCAATTTCAAGAGGATAGGAAA
8192667 TGATCTTGCT
129 TGATCTTGCT
8192677 GCGGTATGAT
Statistics
Matches: 671, Mismatches: 60, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
143 1 0.00
144 89 0.13
149 3 0.00
151 139 0.21
152 439 0.65
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (152 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
ACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAATG
ATCTTGCTCTTACTTCAATTTC
Found at i:8192450 original size:228 final size:228
Alignment explanation
Indices: 8191788--8192676 Score: 1219
Period size: 228 Copynumber: 3.9 Consensus size: 228
8191778 TGCTTTTCAG
* * * *
8191788 AGAGATAAAGACTTGCTATCCAATTTTACTTCAATTTCAAGAGGATGGGAAACT-ATCTTACTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA-TGATCTTACTCT
* *
8191852 TACTTCAATTTCAGAGATAAAGACTTGATATCCAG-----CTT---TTTCAAGAGGATGGGAAAC
65 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
* * *
8191909 GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
130 GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGA
* * *
8191974 GGATGGGAAATGATCTTGCTCTTATTTTAATTTC
195 GGATAGGAAATGATCTTGCTCTTACTTCAATTTC
* *
8192008 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTT
** * * *
8192073 ACTTCAATTTCAGAGATAAAGACGCGTTATCCA-CTTTATTTCAATTTCAAGAGGATAGGAAAAG
66 ACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
* *
8192137 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATTCAACTCTACTTCAATTTCAAGAG
131 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAG
*
8192202 GACAGGAAATGATCTTGCTCTTACTTCAATTTC
196 GATAGGAAATGATCTTGCTCTTACTTCAATTTC
* * * * *
8192235 AGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGCGAATAGGAAGTGATGTCACTCT
1 AGAGATAAAGACT-TGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCT
* *
8192299 TACTTCAATTTCAGAGATCAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
65 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
* * *
8192364 GATCTTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTACTTCAATTTCAAGC
130 GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGA
8192429 GGATAGGAAATGA-CGTTGCTCTTACTTCAATTTC
195 GGATAGGAAATGATC-TTGCTCTTACTTCAATTTC
* * * * * * *
8192463 AGAGATCAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTT
* ** * * *
8192528 ACTTCAATTTCAGAGATAAGGACTTTTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAATG
66 ACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
* * *
8192593 A-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCGACTCTACCTCAATTTCAAGA
131 ATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGA
8192657 GGATAGGAAATGATCTTGCT
195 GGATAGGAAATGATCTTGCT
8192677 GCGGTATGAT
Statistics
Matches: 593, Mismatches: 61, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
219 1 0.00
220 87 0.15
224 2 0.00
226 1 0.00
227 197 0.33
228 303 0.51
229 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (228 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTT
ACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATGATCTTGCTCTTACTTCAATTTC
Found at i:8194486 original size:11 final size:11
Alignment explanation
Indices: 8194470--8194500 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
8194460 GATCTGGCAT
8194470 TTGTTAGATAC
1 TTGTTAGATAC
8194481 TTGTTAGATAC
1 TTGTTAGATAC
8194492 TTGTTAGAT
1 TTGTTAGAT
8194501 GGGGATGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (11 bp):
TTGTTAGATAC
Found at i:8199385 original size:34 final size:34
Alignment explanation
Indices: 8199342--8199409 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8199332 AATGTCATTA
8199342 TAATCTTAAAAATATAAATTCCAAAGTCTACACT
1 TAATCTTAAAAATATAAATTCCAAAGTCTACACT
8199376 TAATCTTAAAAATATAAATTCCAAAGTCTACACT
1 TAATCTTAAAAATATAAATTCCAAAGTCTACACT
8199410 ACAGCAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (34 bp):
TAATCTTAAAAATATAAATTCCAAAGTCTACACT
Found at i:8199522 original size:41 final size:40
Alignment explanation
Indices: 8199477--8199759 Score: 298
Period size: 41 Copynumber: 6.9 Consensus size: 40
8199467 AAAGGTAAAG
* *
8199477 CATTAGCGGCGCTTTTCTTAATGCGCCGCTAAAGGTCGGGT
1 CATTAGCGGCGCTTTTCTCAA-GCGCCGCTAAAGGTCTGGT
* **
8199518 CATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGTTCAAGT
1 CATTAGCGGCGCTTT-TCTCAAGCGCCGCTAAAGGTCTGGT
* * *
8199559 CATTAGCGGCGC-TTTCTCTAATTCGCCGCTAAAGGTATTGT
1 CATTAGCGGCGCTTTTCTC-AA-GCGCCGCTAAAGGTCTGGT
* * *
8199600 AATTAGCGGTGCTTTTCCTCAAGCGCCGCTAAAGGTCAGGT
1 CATTAGCGGCGCTTTT-CTCAAGCGCCGCTAAAGGTCTGGT
* * * * *
8199641 AATTAGCGGCGCTTTAACTCAAGTGCCGCTAAAGGTATGAT
1 CATTAGCGGCGCTTT-TCTCAAGCGCCGCTAAAGGTCTGGT
* * *
8199682 CATTAGCGGCGCTTTCCCTAAAGCGCCACTAAAAGGTCTGGT
1 CATTAGCGGCGCTTT-TCTCAAGCGCCGCT-AAAGGTCTGGT
*
8199724 CATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGT
1 CATTAGCGGCGCTTT-TCTCAAGCGCCGCTAAAGGT
8199760 AGGATCATTT
Statistics
Matches: 204, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.02
40 4 0.02
41 146 0.72
42 47 0.23
43 3 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTCTCAAGCGCCGCTAAAGGTCTGGT
Found at i:8199586 original size:82 final size:81
Alignment explanation
Indices: 8199457--8199768 Score: 330
Period size: 82 Copynumber: 3.8 Consensus size: 81
8199447 TTTGGAAACA
* * * *
8199457 AAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTT-TCTTAATGCGCCGCTAAAGGTCGGGTCA
1 AAGCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTTCTC-TAATGCGCCGCTAAAGGTAGGATCA
8199520 TTAGCGGCGCTTTATCTC
65 TTAGCGGCGCTTT-TCTC
* * * *
8199538 AAGCGCCGCTAAAGTTCAAGTCATTAGCGGCGCTTTCTCTAATTCGCCGCTAAAGGTATTG-TAA
1 AAGCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTTCTCTAATGCGCCGCTAAAGGTA-GGATCA
*
8199602 TTAGCGGTGCTTTTCCTC
65 TTAGCGGCGCTTTT-CTC
* * * *
8199620 AAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTAACTC-AA-GTGCCGCTAAAGGTATGATC
1 AAGCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTT--CTCTAATGCGCCGCTAAAGGTAGGATC
* *
8199683 ATTAGCGGCGCTTTCCCTA
64 ATTAGCGGCGCTTT-TCTC
* ** *
8199702 AAGCGCCACTAAAAGGTCTGGTCATTAGCGGCGCTTTCCCTCAA-GCGCCGCTAAAGGTAGGATC
1 AAGCGCCGCT-AAAGGTCAAGTCATTAGCGGCGCTTTCTCT-AATGCGCCGCTAAAGGTAGGATC
8199766 ATT
64 ATT
8199769 TAATTCTTTC
Statistics
Matches: 197, Mismatches: 23, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
81 22 0.11
82 120 0.61
83 52 0.26
84 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (81 bp):
AAGCGCCGCTAAAGGTCAAGTCATTAGCGGCGCTTTCTCTAATGCGCCGCTAAAGGTAGGATCAT
TAGCGGCGCTTTTCTC
Found at i:8199662 original size:123 final size:124
Alignment explanation
Indices: 8199478--8199759 Score: 381
Period size: 123 Copynumber: 2.3 Consensus size: 124
8199468 AAGGTAAAGC
* * * *
8199478 ATTAGCGGCGCTTTT-CTTAATGCGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTTATCTCAAGC
1 ATTAGCGGCGCTTTTCCTCAA-GCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTAACTCAAGC
* * ** * *
8199542 GCCGCTAAAGTTCAAG-TCATTAGCGGCGCTTTCTCTAATTCGCCGCT-AAAGGTATTGTA
65 GCCGCTAAAGGT-AAGATCATTAGCGGCGCTTTCCCTAAAGCGCCACTAAAAGGTATGGTA
* *
8199601 ATTAGCGGTGCTTTTCCTCAAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTAACTCAAGTG
1 ATTAGCGGCGCTTTTCCTCAAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTAACTCAAGCG
* * *
8199666 CCGCTAAAGGTATGATCATTAGCGGCGCTTTCCCTAAAGCGCCACTAAAAGGTCTGGTC
66 CCGCTAAAGGTAAGATCATTAGCGGCGCTTTCCCTAAAGCGCCACTAAAAGGTATGGTA
*
8199725 ATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGT
1 ATTAGCGGCGCTTTTCCTCAAGCGCCGCTAAAGGT
8199760 AGGATCATTT
Statistics
Matches: 139, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
122 2 0.01
123 91 0.65
124 46 0.33
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (124 bp):
ATTAGCGGCGCTTTTCCTCAAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTAACTCAAGCG
CCGCTAAAGGTAAGATCATTAGCGGCGCTTTCCCTAAAGCGCCACTAAAAGGTATGGTA
Found at i:8200845 original size:12 final size:12
Alignment explanation
Indices: 8200828--8200865 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
8200818 GTTGAATCTG
8200828 TTACTTCTTTCA
1 TTACTTCTTTCA
8200840 TTACTTCTTTCA
1 TTACTTCTTTCA
8200852 TTACTTCTTTCA
1 TTACTTCTTTCA
8200864 TT
1 TT
8200866 GGTAGTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (12 bp):
TTACTTCTTTCA
Found at i:8201646 original size:14 final size:14
Alignment explanation
Indices: 8201627--8201656 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8201617 TCCTGTTGAA
8201627 TGGGAATATATAAT
1 TGGGAATATATAAT
8201641 TGGGAATATATAAT
1 TGGGAATATATAAT
8201655 TG
1 TG
8201657 AACCTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (14 bp):
TGGGAATATATAAT
Found at i:8201952 original size:18 final size:18
Alignment explanation
Indices: 8201906--8202172 Score: 100
Period size: 18 Copynumber: 15.3 Consensus size: 18
8201896 TAAAAGATAT
8201906 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
8201924 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
8201942 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
8201961 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
8201980 ACACTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
8201997 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
8202018 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
8202036 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * *
8202054 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
*
8202067 AATTATTTAATTATATTT
1 AATTATTTAATTATATTA
* **
8202085 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
8202103 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
8202115 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
** **
8202133 AGGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
8202151 AAAT-TTTAATTATATTT
1 AATTATTTAATTATATTA
8202168 AATTA
1 AATTA
8202173 ACTATTTAAC
Statistics
Matches: 181, Mismatches: 43, Indels: 50
0.66 0.16 0.18
Matches are distributed among these distances:
12 5 0.03
13 10 0.06
14 3 0.02
15 9 0.05
16 13 0.07
17 21 0.12
18 87 0.48
19 6 0.03
20 1 0.01
21 9 0.05
22 17 0.09
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:8202019 original size:26 final size:26
Alignment explanation
Indices: 8201990--8202071 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
8201980 ACACTATCGA
*
8201990 TTAATTAAATATTTAAGTTAAAAGAT
1 TTAATTAATTATTTAAGTTAAAAGAT
* *
8202016 TTAATTATTTAATTATA-TT-AAAG--
1 TTAATTAATTATTTA-AGTTAAAAGAT
*
8202039 -TAAATAATTATATTAAGTTAAAAGAT
1 TTAATTAATTAT-TTAAGTTAAAAGAT
8202065 TTAATTA
1 TTAATTA
8202072 TTTAATTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
22 9 0.21
23 5 0.12
24 4 0.10
25 4 0.10
26 14 0.33
27 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
TTAATTAATTATTTAAGTTAAAAGAT
Found at i:8202062 original size:49 final size:49
Alignment explanation
Indices: 8202002--8202151 Score: 257
Period size: 49 Copynumber: 3.1 Consensus size: 49
8201992 AATTAAATAT
8202002 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
*
8202051 TTAAGTTAAAAGATTTAATTATTTAATTATATTTAAGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
* * *
8202100 TTAAATT-AAATATTTAATTATTTAATTATATTAAGGTAAATAATTATA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
8202148 TTAA
1 TTAA
8202152 AATTTTAATT
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
48 42 0.44
49 54 0.56
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (49 bp):
TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
Found at i:8202140 original size:30 final size:31
Alignment explanation
Indices: 8202019--8202150 Score: 97
Period size: 31 Copynumber: 4.1 Consensus size: 31
8202009 AAAAGATTTA
8202019 ATTATTTAATTATATTAAAGTAAATAATTAT
1 ATTATTTAATTATATTAAAGTAAATAATTAT
* * * * * **
8202050 ATTAAGTTAA-AAGATTTAATTATTTAATTAT
1 ATT-ATTTAATTATATTAAAGTAAATAATTAT
* * *
8202081 ATTTAAGTAAATAATTATATTAAATTAAATATTTA-
1 A-TT-A-T--TTAATTATATTAAAGTAAATAATTAT
*
8202116 ATTATTTAATTATATTAAGGTAAATAATTAT
1 ATTATTTAATTATATTAAAGTAAATAATTAT
8202147 ATTA
1 ATTA
8202151 AAATTTTAAT
Statistics
Matches: 75, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
30 21 0.28
31 23 0.31
32 10 0.13
33 1 0.01
34 2 0.03
35 4 0.05
36 14 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (31 bp):
ATTATTTAATTATATTAAAGTAAATAATTAT
Found at i:8202187 original size:35 final size:34
Alignment explanation
Indices: 8202092--8202189 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 34
8202082 TTTAAGTAAA
*
8202092 TAATTATATTAAATTAAATATTTAATT---A-TT
1 TAATTATATTTAATTAAATATTTAATTAAAATTT
* *
8202122 TAATTATA-TTAAGGTAAATAATTATATTAAAATTT
1 TAATTATATTTAA-TTAAATATTTA-ATTAAAATTT
*
8202157 TAATTATATTTAATTAACTATTTAACTTAAAAT
1 TAATTATATTTAATTAAATATTTAA-TTAAAAT
8202190 GTGGTCGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
29 3 0.06
30 17 0.31
31 3 0.06
34 2 0.04
35 25 0.46
36 4 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (34 bp):
TAATTATATTTAATTAAATATTTAATTAAAATTT
Found at i:8202237 original size:8 final size:8
Alignment explanation
Indices: 8202201--8202294 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
8202191 TGGTCGTAAA
8202201 TAATTATAT
1 TAATTAT-T
8202210 ATAATTATT
1 -TAATTATT
8202219 TAAGCTTATT
1 TAA--TTATT
8202229 TAATTATT
1 TAATTATT
8202237 TAATTGA--
1 TAATT-ATT
**
8202244 -AAAGATT
1 TAATTATT
8202251 TAATTATT
1 TAATTATT
8202259 TAATTATAT
1 TAATTAT-T
8202268 TAA--A-T
1 TAATTATT
*
8202273 TAAATATT
1 TAATTATT
8202281 TAATTATT
1 TAATTATT
8202289 TAATTA
1 TAATTA
8202295 ATAAAAACAG
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.07
6 2 0.03
7 2 0.03
8 39 0.57
9 6 0.09
10 15 0.22
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (8 bp):
TAATTATT
Found at i:8202260 original size:30 final size:30
Alignment explanation
Indices: 8202224--8202294 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
8202214 TTATTTAAGC
8202224 TTATTTAATTAT-TT-AATTGAAAAGATTTAA
1 TTATTTAATTATATTAAATT--AAAGATTTAA
*
8202254 TTATTTAATTATATTAAATTAAATATTTAA
1 TTATTTAATTATATTAAATTAAAGATTTAA
8202284 TTATTTAATTA
1 TTATTTAATTA
8202295 ATAAAAACAG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
30 32 0.84
31 2 0.05
32 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATTTAATTATATTAAATTAAAGATTTAA
Found at i:8207640 original size:66 final size:66
Alignment explanation
Indices: 8207534--8207690 Score: 251
Period size: 66 Copynumber: 2.4 Consensus size: 66
8207524 CAAATTGCTC
*
8207534 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCATCTA
8207599 A
66 A
* *
8207600 AACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCATCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCATCTA
*
8207665 C
66 A
* * *
8207666 AACTTAAAGTGGAGGCAGCAACGAG
1 AACTTAAAGAGGAGGCTGCAGCGAG
8207691 GCAAGCGGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCATCTA
A
Found at i:8207700 original size:21 final size:21
Alignment explanation
Indices: 8207676--8207717 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8207666 AACTTAAAGT
8207676 GGAGGCAGCAACGAGGCAAGC
1 GGAGGCAGCAACGAGGCAAGC
*
8207697 GGAGGCAGCAGCGAGGCAAGC
1 GGAGGCAGCAACGAGGCAAGC
8207718 AAAGGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.45, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAACGAGGCAAGC
Found at i:8207727 original size:21 final size:21
Alignment explanation
Indices: 8207682--8207728 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8207672 AAGTGGAGGC
* ** *
8207682 AGCAACGAGGCAAGCGGAGGC
1 AGCAGCGAGGCAAGCAAAGGA
8207703 AGCAGCGAGGCAAGCAAAGGA
1 AGCAGCGAGGCAAGCAAAGGA
8207724 AGCAG
1 AGCAG
8207729 AGGCTACAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.40, T:0.00
Consensus pattern (21 bp):
AGCAGCGAGGCAAGCAAAGGA
Found at i:8208072 original size:43 final size:44
Alignment explanation
Indices: 8208011--8208344 Score: 504
Period size: 43 Copynumber: 7.8 Consensus size: 44
8208001 ATCTGTTATA
* * *
8208011 TTAGCGGCGCTTTTGGAG-AAAGCGCCGCTAAAGAACAAGGGCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
*
8208054 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGGCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
* * *
8208098 TTAGCGGCACTGGTGGAG-AAAGCGCCGCTAAAAAACAT-GCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
*
8208140 TTAGCGGCGCTTGTGGA-TAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
8208183 TTAGCGGCGCTTGTGG-GAAAAGCGCCGCTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
*
8208226 TTAGCGGCGCTTGTGGAG-AAAGCGCCGCTAAAGAACATGGCAT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
* * *
8208269 TTAGCGGCGTTTGTGG-GAAAAGCGTCGTTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
8208312 TTAGCGGCGCTTGTGG-GAAAAGCGCCGCTAAAG
1 TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAG
8208345 GCCATGTTCT
Statistics
Matches: 267, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
42 38 0.14
43 188 0.70
44 41 0.15
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.19
Consensus pattern (44 bp):
TTAGCGGCGCTTGTGGAGAAAAGCGCCGCTAAAGAACATGGCCT
Found at i:8237687 original size:32 final size:32
Alignment explanation
Indices: 8237646--8237707 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
8237636 CATCTATTTT
8237646 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
8237678 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
8237708 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:8242337 original size:27 final size:26
Alignment explanation
Indices: 8242272--8242326 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
8242262 CGTAGTACTA
*
8242272 GTGCAACAATTGCCTCTCCCAAAAAT
1 GTGCAATAATTGCCTCTCCCAAAAAT
8242298 GTGCAATAATTGCCTCTCCCAAAAAT
1 GTGCAATAATTGCCTCTCCCAAAAAT
8242324 GTG
1 GTG
8242327 TACTTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (26 bp):
GTGCAATAATTGCCTCTCCCAAAAAT
Found at i:8245721 original size:22 final size:23
Alignment explanation
Indices: 8245693--8245736 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
8245683 AGAACAAAAT
8245693 AAAATAACT-AAACCTAAGAAAG
1 AAAATAACTAAAACCTAAGAAAG
8245715 AAAATAACTAAAACCTAAGAAA
1 AAAATAACTAAAACCTAAGAAA
8245737 AAGAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.66, C:0.14, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAATAACTAAAACCTAAGAAAG
Found at i:8247142 original size:24 final size:24
Alignment explanation
Indices: 8247115--8247163 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
8247105 ACAAGAGAAC
*
8247115 AAAATAGAAATAAACT-AAACCTA
1 AAAAAAGAAATAAACTAAAACCTA
8247138 AAAAAAGAAATAAACTAAAACCTA
1 AAAAAAGAAATAAACTAAAACCTA
8247162 AA
1 AA
8247164 TCTAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAAAAGAAATAAACTAAAACCTA
Found at i:8248901 original size:53 final size:53
Alignment explanation
Indices: 8248821--8248922 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
8248811 CTGTCTGTTT
*
8248821 CATGTATGTTTATATGCTTCTTTCTTCTATGTTAAATGGTCCTTTGTGCGTTA
1 CATGTATGTTTATATGCTTCTTTCTTCTACGTTAAATGGTCCTTTGTGCGTTA
* * *
8248874 CATGTATGTTTATATGTTTGTTTCTTCTACGTTAAATGGTCTTTTGTGC
1 CATGTATGTTTATATGCTTCTTTCTTCTACGTTAAATGGTCCTTTGTGC
8248923 TATGTAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.17, C:0.14, G:0.18, T:0.52
Consensus pattern (53 bp):
CATGTATGTTTATATGCTTCTTTCTTCTACGTTAAATGGTCCTTTGTGCGTTA
Found at i:8249242 original size:20 final size:20
Alignment explanation
Indices: 8249217--8249257 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
8249207 CCTACAATCA
8249217 TTAAGGGCCAAATTTATAAT
1 TTAAGGGCCAAATTTATAAT
*
8249237 TTAAGGGTCAAATTTATAAT
1 TTAAGGGCCAAATTTATAAT
8249257 T
1 T
8249258 AGGCCTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
TTAAGGGCCAAATTTATAAT
Found at i:8264957 original size:52 final size:52
Alignment explanation
Indices: 8264869--8265054 Score: 282
Period size: 52 Copynumber: 3.6 Consensus size: 52
8264859 ATTTTATTTC
* * ** * *
8264869 ATTCATATACTTACGATGATACATAACCACCAGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* *
8264921 ATTCATATACTCACGATGACATATAGTCATCGGACCTCATAATCCGTAAAGA
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* *
8264973 ATTCATATACTCACGATGATACATAGTCATCGGGCCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
8265025 ATTCATATACTCACGATGACACATAGTCAT
1 ATTCATATACTCACGATGACACATAGTCAT
8265055 GATGACACGT
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
Found at i:8265060 original size:16 final size:16
Alignment explanation
Indices: 8265039--8265070 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8265029 ATATACTCAC
8265039 GATGACACATAGTCAT
1 GATGACACATAGTCAT
*
8265055 GATGACACGTAGTCAT
1 GATGACACATAGTCAT
8265071 CGGACCTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (16 bp):
GATGACACATAGTCAT
Found at i:8265071 original size:68 final size:68
Alignment explanation
Indices: 8264987--8265122 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
8264977 ATATACTCAC
* * * *
8264987 GATGATACATAGTCATCGGGCCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGT
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGT
8265052 CAT
66 CAT
* * *
8265055 GATGACACGTAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACAATGACACGTAGT
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGT
8265120 CAT
66 CAT
8265123 CGGACCTCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (68 bp):
GATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGT
CAT
Found at i:8265095 original size:172 final size:172
Alignment explanation
Indices: 8264901--8265226 Score: 535
Period size: 172 Copynumber: 1.9 Consensus size: 172
8264891 ATAACCACCA
* * *
8264901 GACCTCATAATCCGTAAAGGATTCATATACTCACGATGACATATAGTCATCGGACCTCATAATCC
1 GACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGTCATCGGACCTCATAATCC
* * * * *
8264966 GTAAAGAATTCATATACTCACGATGATACATAGTCATCGGGCCTCATAATCCGTAAAGGATTCAT
66 ATAAAGAATTCATATACTCACAATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
8265031 ATACTCACGATGACACATAGTCATGATGACACGTAGTCATCG
131 ATACTCACGATGACACAAAGTCATGATGACACGTAGTCATCG
* *
8265073 GACCTCATAATCCATAAAGGATTCATATGCTCACAATGACACGTAGTCATCGGACCTCATAATCC
1 GACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGTCATCGGACCTCATAATCC
* *
8265138 ATAAAGGATTCATATGCTCACAATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
66 ATAAAGAATTCATATACTCACAATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
8265203 ATACTCACGATGACACAAAGTCAT
131 ATACTCACGATGACACAAAGTCAT
8265227 CGGACCTTTT
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
172 141 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (172 bp):
GACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGTCATCGGACCTCATAATCC
ATAAAGAATTCATATACTCACAATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
ATACTCACGATGACACAAAGTCATGATGACACGTAGTCATCG
Found at i:8265105 original size:26 final size:26
Alignment explanation
Indices: 8265076--8265157 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
8265066 GTCATCGGAC
8265076 CTCATAATCCATAAAGGATTCATATG
1 CTCATAATCCATAAAGGATTCATATG
* * * * * * **
8265102 CTCACAAT-GA-CACGTAGTCATCGG
1 CTCATAATCCATAAAGGATTCATATG
8265126 ACCTCATAATCCATAAAGGATTCATATG
1 -C-TCATAATCCATAAAGGATTCATATG
8265154 CTCA
1 CTCA
8265158 CAATGACACA
Statistics
Matches: 36, Mismatches: 16, Indels: 8
0.60 0.27 0.13
Matches are distributed among these distances:
24 8 0.22
25 2 0.06
26 16 0.44
27 2 0.06
28 8 0.22
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (26 bp):
CTCATAATCCATAAAGGATTCATATG
Found at i:8265106 original size:120 final size:120
Alignment explanation
Indices: 8264935--8265174 Score: 372
Period size: 120 Copynumber: 2.0 Consensus size: 120
8264925 ATATACTCAC
* * * *
8264935 GATGACATATAGTCATCGGACCTCATAATCCGTAAAGAATTCATATACTCACGATGATACATAGT
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGAATTCATATACTCACAATGACACATAGT
* * *
8265000 CATCGGGCCTCATAATCCGTAAAGGATTCATATACTCACGATGACACATAGTCAT
66 CATCGGACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGTCAT
* * * *
8265055 GATGACACGTAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACAATGACACGTAGT
1 GATGACACATAGTCATCGGACCTCATAATCCATAAAGAATTCATATACTCACAATGACACATAGT
*
8265120 CATCGGACCTCATAATCCATAAAGGATTCATATGCTCACAATGACACATAGTCAT
66 CATCGGACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGTCAT
8265175 CAGACCTCAT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 108 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (120 bp):
GATGACACATAGTCATCGGACCTCATAATCCATAAAGAATTCATATACTCACAATGACACATAGT
CATCGGACCTCATAATCCATAAAGGATTCATATACTCACAATGACACATAGTCAT
Found at i:8265118 original size:52 final size:52
Alignment explanation
Indices: 8265056--8265233 Score: 293
Period size: 52 Copynumber: 3.4 Consensus size: 52
8265046 CATAGTCATG
*
8265056 ATGACACGTAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACA
1 ATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACA
*
8265108 ATGACACGTAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACA
1 ATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACA
* * * *
8265160 ATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCATATACTCACG
1 ATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACA
*
8265212 ATGACACAAAGTCATCGGACCT
1 ATGACACATAGTCATCGGACCT
8265234 TTTTCATTTA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (52 bp):
ATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATATGCTCACA
Found at i:8269176 original size:28 final size:28
Alignment explanation
Indices: 8269145--8269199 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
8269135 TGTAGCAAAA
8269145 AAATAATAT-CAATTAAAAAACTTTTTTT
1 AAATAAT-TGCAATTAAAAAACTTTTTTT
* * *
8269173 AAATGATTGTAATTATAAAACTTTTTT
1 AAATAATTGCAATTAAAAAACTTTTTT
8269200 ACATCAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (28 bp):
AAATAATTGCAATTAAAAAACTTTTTTT
Found at i:8269306 original size:20 final size:21
Alignment explanation
Indices: 8269249--8269353 Score: 79
Period size: 20 Copynumber: 5.0 Consensus size: 21
8269239 TTTTTAAGTA
* * * *
8269249 ATAATTGTAAATTAAATTATA
1 ATAATTTTTAATTTAATTATC
* * *
8269270 ATTATTTTTAATGTAATTACC
1 ATAATTTTTAATTTAATTATC
*
8269291 ATAATTTTT-ATTTAATTATA
1 ATAATTTTTAATTTAATTATC
*
8269311 ATTATTTTTAAATATATAATTATC
1 ATAATTTTT-AAT-T-TAATTATC
*
8269335 ATAATTTCT-ATTTAATTAT
1 ATAATTTTTAATTTAATTAT
8269354 TATATAATAT
Statistics
Matches: 65, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
20 23 0.35
21 23 0.35
22 4 0.06
23 1 0.02
24 14 0.22
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATTTTTAATTTAATTATC
Found at i:8269309 original size:41 final size:43
Alignment explanation
Indices: 8269263--8269353 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 43
8269253 TTGTAAATTA
* *
8269263 AATTATAATTATTTTT-A-ATGTAATTACCATAATTTTTATTT
1 AATTATAATTATTTTTAATATATAATTACCATAATTTCTATTT
*
8269304 AATTATAATTATTTTTAAATATATAATTATCATAATTTCTATTT
1 AATTATAATTATTTTT-AATATATAATTACCATAATTTCTATTT
8269348 AATTAT
1 AATTAT
8269354 TATATAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 16 0.36
43 1 0.02
44 27 0.61
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (43 bp):
AATTATAATTATTTTTAATATATAATTACCATAATTTCTATTT
Found at i:8269652 original size:12 final size:12
Alignment explanation
Indices: 8269628--8269668 Score: 50
Period size: 10 Copynumber: 3.5 Consensus size: 12
8269618 GAGAGTTGAT
8269628 AAATATATTAAAA
1 AAATAT-TTAAAA
8269641 AAATATTT--AA
1 AAATATTTAAAA
8269651 AAATATTTAAAA
1 AAATATTTAAAA
*
8269663 ATATAT
1 AAATAT
8269669 AAAAATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 10 0.40
12 9 0.36
13 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATTTAAAA
Found at i:8269681 original size:20 final size:20
Alignment explanation
Indices: 8269639--8269690 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
8269629 AATATATTAA
*
8269639 AAAAATATTTAAAAATATTT
1 AAAAATATATAAAAATATTT
8269659 AAAAATATATAAAAAT-TTGT
1 AAAAATATATAAAAATATT-T
8269679 -AAAAT-TATAAAA
1 AAAAATATATAAAA
8269691 TAAAAAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 16 0.53
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATATATAAAAATATTT
Found at i:8269682 original size:10 final size:10
Alignment explanation
Indices: 8269639--8269674 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
8269629 AATATATTAA
8269639 AAAAATATTT
1 AAAAATATTT
8269649 AAAAATATTT
1 AAAAATATTT
*
8269659 AAAAATATAT
1 AAAAATATTT
8269669 AAAAAT
1 AAAAAT
8269675 TTGTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATTT
Found at i:8270395 original size:31 final size:31
Alignment explanation
Indices: 8270313--8270401 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 31
8270303 ATTTTATATT
* *
8270313 TTATTATATTAAATTAGTTAAATATCATTTA
1 TTATTATATTAAATTATTTAAATATTATTTA
* *
8270344 TCATTATAATAAATTATTTAAATATTATTTA
1 TTATTATATTAAATTATTTAAATATTATTTA
* *
8270375 TTATTATATTTAATTTTTTAAAATATT
1 TTATTATATTAAATTATTT-AAATATT
8270402 TTATATATCA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 42 0.86
32 7 0.14
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (31 bp):
TTATTATATTAAATTATTTAAATATTATTTA
Found at i:8274186 original size:24 final size:24
Alignment explanation
Indices: 8274124--8274186 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
8274114 TAGAGTAATA
* *
8274124 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
8274148 AGAGTTTAA-TCGAAACAAATAAAC
1 AGAGTTTAACT-GAAACAAATAAAC
8274172 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
8274187 GATTATTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 33 0.94
25 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:8277840 original size:15 final size:15
Alignment explanation
Indices: 8277820--8277865 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
8277810 AAGATTAAAG
8277820 TAAACTAATCATAAT
1 TAAACTAATCATAAT
8277835 TAAACTAAT--TAAT
1 TAAACTAATCATAAT
8277848 TAAACACTAATCA-AAT
1 T-AA-ACTAATCATAAT
8277864 TA
1 TA
8277866 TATAAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.19
14 2 0.07
15 16 0.59
16 4 0.15
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAACTAATCATAAT
Found at i:8277849 original size:13 final size:14
Alignment explanation
Indices: 8277820--8277852 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8277810 AAGATTAAAG
8277820 TAAACTAATCATAAT
1 TAAACTAAT-ATAAT
8277835 TAAACTAAT-TAAT
1 TAAACTAATATAAT
8277848 TAAAC
1 TAAAC
8277853 ACTAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACTAATATAAT
Found at i:8289730 original size:25 final size:25
Alignment explanation
Indices: 8289665--8289730 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
8289655 ATTTCATGTC
8289665 AAAAATTAATTAATTTTTAATATTT
1 AAAAATTAATTAATTTTTAATATTT
** * *
8289690 TTAATTTACTTGAATTTTT-ATATTT
1 AAAAATTAATT-AATTTTTAATATTT
8289715 AAAAAATTAATTAATT
1 -AAAAATTAATTAATT
8289731 GCTAACGTGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
AAAAATTAATTAATTTTTAATATTT
Found at i:8291698 original size:22 final size:20
Alignment explanation
Indices: 8291668--8291708 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
8291658 TTAAATAATT
*
8291668 TTTATTTTTAAAGTTTCTTAAA
1 TTTAATTTTAAA-TTT-TTAAA
8291690 TTTAATTTTAAATTTTTAA
1 TTTAATTTTAAATTTTTAA
8291709 GAATTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAATTTTAAATTTTTAAA
Found at i:8293720 original size:24 final size:24
Alignment explanation
Indices: 8293663--8293720 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
8293653 TAGACTAATA
*
8293663 AGAGTTTAACTAAAACAAATAAAC
1 AGAGTTTAATTAAAACAAATAAAC
*
8293687 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAATTAAAACAAATAAAC
8293711 AGAGTTTAAT
1 AGAGTTTAAT
8293721 CGGAAGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (24 bp):
AGAGTTTAATTAAAACAAATAAAC
Found at i:8300339 original size:7 final size:7
Alignment explanation
Indices: 8300327--8300362 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
8300317 TACCTAGAAA
8300327 TTTATAT
1 TTTATAT
8300334 TTTATAT
1 TTTATAT
8300341 TTTATAT
1 TTTATAT
8300348 TTTATAT
1 TTTATAT
8300355 TTTATAT
1 TTTATAT
8300362 T
1 T
8300363 GTTTTTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:8300646 original size:15 final size:16
Alignment explanation
Indices: 8300625--8300673 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 16
8300615 TATACTACAA
8300625 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
8300641 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
8300658 AAATATTTATTATTAA
1 -AATATTTATTATTAA
8300674 ATTATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 9 0.33
16 1 0.04
17 7 0.26
18 1 0.04
19 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:8300734 original size:15 final size:16
Alignment explanation
Indices: 8300709--8300744 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
8300699 AAGTGAAGAA
8300709 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
*
8300725 TATT-TTTAAATTTAT
1 TATTATTTAAAATTAT
8300740 TATTA
1 TATTA
8300745 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:8300844 original size:25 final size:26
Alignment explanation
Indices: 8300816--8300869 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 26
8300806 ATGATTAAAT
* *
8300816 ATAAATAATTAAATATGT-ATA-TTTA
1 ATAAAT-ATTAAAAATATAATATTTTA
8300841 AT-AATATTAAAAATATAATATTTTA
1 ATAAATATTAAAAATATAATATTTTA
8300866 ATAA
1 ATAA
8300870 TTTTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 9 0.38
24 6 0.25
25 8 0.33
26 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
ATAAATATTAAAAATATAATATTTTA
Found at i:8302121 original size:12 final size:12
Alignment explanation
Indices: 8302104--8302128 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8302094 CAGAAGCTAT
8302104 TAACAATATTTA
1 TAACAATATTTA
8302116 TAACAATATTTA
1 TAACAATATTTA
8302128 T
1 T
8302129 GTTATAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:8302214 original size:19 final size:20
Alignment explanation
Indices: 8302190--8302232 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8302180 GAAGAAAGAA
*
8302190 AAAATGAGAAA-AAATAATG
1 AAAATGAAAAACAAATAATG
*
8302209 AAAATGAAAAACAAATAATT
1 AAAATGAAAAACAAATAATG
8302229 AAAA
1 AAAA
8302233 AACTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (20 bp):
AAAATGAAAAACAAATAATG
Found at i:8305558 original size:21 final size:22
Alignment explanation
Indices: 8305534--8305574 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8305524 TAATATTAAC
*
8305534 TAATTATTTT-TTAAGAAATAT
1 TAATTATTTTATTAAAAAATAT
8305555 TAATTATTTTATTAAAAAAT
1 TAATTATTTTATTAAAAAAT
8305575 GTTTTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTATTTTATTAAAAAATAT
Found at i:8311162 original size:30 final size:31
Alignment explanation
Indices: 8311092--8311164 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
8311082 AATGATAATT
*
8311092 AATTATATAAAAAAATTTGTGTAAATTATTA
1 AATTATTTAAAAAAATTTGTGTAAATTATTA
* * * *
8311123 AACTGTTTAAAAAAATTAT-T-TAAGTTATTG
1 AATTATTTAAAAAAATT-TGTGTAAATTATTA
8311153 AATTATTTAAAA
1 AATTATTTAAAA
8311165 TTTGGTTTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 18 0.53
31 15 0.44
32 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAAAAAATTTGTGTAAATTATTA
Found at i:8313087 original size:14 final size:14
Alignment explanation
Indices: 8313047--8313093 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
8313037 AATAATTTGA
* *
8313047 TAAAAGTACAAATT
1 TAAAAATACAAAAT
8313061 TAAAAATTA-AAAAT
1 TAAAAA-TACAAAAT
8313075 TAAAAATACAAAAGT
1 TAAAAATACAAAA-T
8313090 TAAA
1 TAAA
8313094 TGAAAAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 19 0.68
15 7 0.25
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (14 bp):
TAAAAATACAAAAT
Found at i:8320923 original size:344 final size:346
Alignment explanation
Indices: 8320293--8320971 Score: 1290
Period size: 344 Copynumber: 2.0 Consensus size: 346
8320283 AAATAAAACA
* * * *
8320293 TAAATATATACACCTTTTGTAATGAGATAAGAGGGAATTGGAACTTGGCCTGGGACAGTGATCTC
1 TAAATATATAAACCTTTTGTAACGACATAAGAGGGAATTGGAACTTGACCTGGGACA-TGATCTC
8320358 TAATGCGCTTAAAGACGAAAACTCTAACTGGGTTTGAAGGCAAATGGTGGCCACCGGCGAGGGCA
65 TAATGCGCTTAAAGACGAAAACTCTAACTGGGTTTGAAGGCAAATGGTGGCCACCGGCGAGGGCA
8320423 GTTTATTCAAAAAATCCAAAAAAAATATATATATATGCGTCGTAGAGACTAACGGGGAGAAGAAG
130 GTTTATTCAAAAAATCCAAAAAAAATATATATATATGCGTCGTAGAGACTAACGGGGAGAAGAAG
8320488 AGAGAGGGAACGACGCCGTTTAAAGGAACTTTGCCACTAAAAAGGAAAATTAAATATAATTGCAG
195 AGAGAGGGAACGACGCCGTTTAAAGGAACTTTGCCACTAAAAAGGAAAATTAAATATAATTGCAG
8320553 TGGAGATGCGGGGGATCGAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCT
260 TGGAGATGCGGGGGATCGAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCT
8320618 ACATCCCCTTATACTCCTTTAG
325 ACATCCCCTTATACTCCTTTAG
8320640 TAAATATATAAACCTTTTGTAACGACATAAGAGGGAATTGGAACTTGACCTGGGAC-TGATCTCT
1 TAAATATATAAACCTTTTGTAACGACATAAGAGGGAATTGGAACTTGACCTGGGACATGATCTCT
*
8320704 AATGCGCTTAAAGACGAAAACTCTGACTGGGTTTGAAGGCAAATGGTGGCCACCGGCGAGGGCAG
66 AATGCGCTTAAAGACGAAAACTCTAACTGGGTTTGAAGGCAAATGGTGGCCACCGGCGAGGGCAG
8320769 TTTATTCAAAAAATCCAAAAAAAA-ATATATATATGCGTCGTAGAGACTAACGGGGAGAAGAAGA
131 TTTATTCAAAAAATCCAAAAAAAATATATATATATGCGTCGTAGAGACTAACGGGGAGAAGAAGA
8320833 GAGAGGGAACGACGCCGTTTAAAGGAACTTTGCCACTAAAAAGGAAAATTAAATATAATTGCAGT
196 GAGAGGGAACGACGCCGTTTAAAGGAACTTTGCCACTAAAAAGGAAAATTAAATATAATTGCAGT
8320898 GGAGATGCGGGGGATCGAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTA
261 GGAGATGCGGGGGATCGAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTA
8320963 CATCCCCTT
326 CATCCCCTT
8320972 GCTTAATTTT
Statistics
Matches: 327, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
344 179 0.55
345 96 0.29
347 52 0.16
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (346 bp):
TAAATATATAAACCTTTTGTAACGACATAAGAGGGAATTGGAACTTGACCTGGGACATGATCTCT
AATGCGCTTAAAGACGAAAACTCTAACTGGGTTTGAAGGCAAATGGTGGCCACCGGCGAGGGCAG
TTTATTCAAAAAATCCAAAAAAAATATATATATATGCGTCGTAGAGACTAACGGGGAGAAGAAGA
GAGAGGGAACGACGCCGTTTAAAGGAACTTTGCCACTAAAAAGGAAAATTAAATATAATTGCAGT
GGAGATGCGGGGGATCGAACCCCGTGCCTCTCGCATGCAAAGCGAGCGCTCTACCATTTGAGCTA
CATCCCCTTATACTCCTTTAG
Found at i:8321537 original size:23 final size:23
Alignment explanation
Indices: 8321525--8321613 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 23
8321515 ATAAGCATAT
8321525 TATA-GTTTATAAATATAAAATA
1 TATATGTTTATAAATATAAAATA
* *
8321547 TATATGTTTATATATAT-ATATA
1 TATATGTTTATAAATATAAAATA
* * * *
8321569 TATATATATATATATATATATATA
1 TATATGTTTATAAATATA-AAATA
* *
8321593 TATATATATATATAATATAAA
1 TATATGTTTATA-AATATAAA
8321614 CTTGGACGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
22 23 0.40
23 11 0.19
24 18 0.32
25 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATATGTTTATAAATATAAAATA
Found at i:8321551 original size:2 final size:2
Alignment explanation
Indices: 8321544--8321611 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
8321534 TAAATATAAA
* *
8321544 AT AT AT AT GT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8321586 AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8321612 AACTTGGACG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8321938 original size:20 final size:21
Alignment explanation
Indices: 8321891--8321938 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
8321881 TATAAAATTC
*
8321891 AAAAAATATATAAAAATTATT
1 AAAAAAAATATAAAAATTATT
***
8321912 TTTAAAAAT-TAAAAATTATT
1 AAAAAAAATATAAAAATTATT
8321932 AAAAAAA
1 AAAAAAA
8321939 TAATATATAT
Statistics
Matches: 20, Mismatches: 7, Indels: 1
0.71 0.25 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAAAATATAAAAATTATT
Found at i:8328796 original size:8 final size:8
Alignment explanation
Indices: 8328785--8328813 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8328775 ATGTTAGAGA
8328785 TAATTTTG
1 TAATTTTG
8328793 TAATTTTG
1 TAATTTTG
8328801 TAATTTTG
1 TAATTTTG
8328809 TAATT
1 TAATT
8328814 GATCGTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (8 bp):
TAATTTTG
Found at i:8329061 original size:24 final size:24
Alignment explanation
Indices: 8329025--8329079 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
8329015 ATGTTTGTTA
*
8329025 TATTCATGTTGGCGAGCGTAAACG
1 TATTCATGCTGGCGAGCGTAAACG
8329049 TATTCATGCTGGCGAGCGTAAACG
1 TATTCATGCTGGCGAGCGTAAACG
8329073 TATTCAT
1 TATTCAT
8329080 ACTAAAGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (24 bp):
TATTCATGCTGGCGAGCGTAAACG
Found at i:8329093 original size:24 final size:24
Alignment explanation
Indices: 8329038--8329098 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
8329028 TCATGTTGGC
* ***
8329038 GAGCGTAAACGTATTCATGCTGGC
1 GAGCGTAAACGTATTCATACTAAA
8329062 GAGCGTAAACGTATTCATACTAAA
1 GAGCGTAAACGTATTCATACTAAA
*
8329086 GAGTGTAAACGTA
1 GAGCGTAAACGTA
8329099 ACGAGAGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (24 bp):
GAGCGTAAACGTATTCATACTAAA
Found at i:8332167 original size:24 final size:24
Alignment explanation
Indices: 8332139--8332197 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
8332129 TAGAGTAATA
*
8332139 AGAGTTTGATTCAAACAAATAAAC
1 AGAGTTTAATTCAAACAAATAAAC
*
8332163 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAATTCAAACAAATAAAC
*
8332187 AGAGCTTAATT
1 AGAGTTTAATT
8332198 GAAAGACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAATTCAAACAAATAAAC
Found at i:8332198 original size:24 final size:24
Alignment explanation
Indices: 8332151--8332201 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
8332141 AGTTTGATTC
*
8332151 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGCTTAATTG
8332175 AAACAAATAAACAGAGCTTAATTG
1 AAACAAATAAACAGAGCTTAATTG
8332199 AAA
1 AAA
8332202 GACTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAGAGCTTAATTG
Found at i:8335629 original size:31 final size:31
Alignment explanation
Indices: 8335524--8335629 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
8335514 GAAAGAGCTT
*
8335524 AATAATTCAGTGACTTAAATAAAAACTTTTG
1 AATAATTCAATGACTTAAATAAAAACTTTTG
* * * * *
8335555 AATAGTTTAGTAAATTAAATAAAAACTTTTG
1 AATAATTCAATGACTTAAATAAAAACTTTTG
**
8335586 AATGGTTCAATGACTTAAATGAAAAA-TTTTG
1 AATAATTCAATGACTTAAAT-AAAAACTTTTG
*
8335617 AATAATTTAATGA
1 AATAATTCAATGA
8335630 TGAAATTGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
31 57 0.92
32 5 0.08
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (31 bp):
AATAATTCAATGACTTAAATAAAAACTTTTG
Found at i:8336459 original size:15 final size:15
Alignment explanation
Indices: 8336431--8336471 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8336421 AAAGGGTGAT
8336431 ATAATTTTTCTTAAAA
1 ATAATTTTT-TTAAAA
8336447 A-AGATTTTTTTAAAA
1 ATA-ATTTTTTTAAAA
8336462 ATAATTTTTT
1 ATAATTTTTT
8336472 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
ATAATTTTTTTAAAA
Found at i:8340762 original size:3 final size:3
Alignment explanation
Indices: 8340754--8340782 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8340744 CACTCATGTC
8340754 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8340783 CATCAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8342877 original size:22 final size:22
Alignment explanation
Indices: 8342851--8342895 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
8342841 ACTTGTATTT
8342851 TTAAATCTG-AAAAATAAAAATA
1 TTAAAT-TGTAAAAATAAAAATA
8342873 TTAAATTGTTAAAAATAAAAATA
1 TTAAATTG-TAAAAATAAAAATA
8342896 AAAATCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.10
22 6 0.29
23 13 0.62
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
TTAAATTGTAAAAATAAAAATA
Found at i:8346406 original size:62 final size:61
Alignment explanation
Indices: 8346279--8346406 Score: 134
Period size: 62 Copynumber: 2.1 Consensus size: 61
8346269 AGCCTAGTAG
* * * * * *
8346279 AAATGGTAAAATATTAATTTAACTTTTTTTATAATTTATAAAATTTATAATGATAAATTCAA
1 AAATGATAAAATATTAATTTAAC-TTTTTTAAAAATTATAAAATTTAGAATGATAAAATAAA
* *
8346341 AAATGATAAAATTTTAATTTAA-TTTTTTAAAAATTATAAAGATTTAGACT-ATTAAAATAATA
1 AAATGATAAAATATTAATTTAACTTTTTTAAAAATTATAAA-ATTTAGAATGA-TAAAATAA-A
8346403 AAAT
1 AAAT
8346407 TATATTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
60 17 0.31
61 13 0.24
62 25 0.45
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (61 bp):
AAATGATAAAATATTAATTTAACTTTTTTAAAAATTATAAAATTTAGAATGATAAAATAAA
Found at i:8350845 original size:30 final size:29
Alignment explanation
Indices: 8350780--8350845 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
8350770 TATTAATTAG
*
8350780 TGATTGTTTTGTCACTTTTGATAACGTTAA
1 TGATTGTTTTGTCACTTTT-ATAAAGTTAA
*
8350810 GGATTGTTTTGTCACATTTT-TAAAGTTGAA
1 TGATTGTTTTGTCAC-TTTTATAAAGTT-AA
8350840 TGATTG
1 TGATTG
8350846 AAATGTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 6 0.19
30 21 0.68
31 4 0.13
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (29 bp):
TGATTGTTTTGTCACTTTTATAAAGTTAA
Found at i:8351246 original size:22 final size:23
Alignment explanation
Indices: 8351219--8351287 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 23
8351209 ATACATTTAA
8351219 AAATTTATTATTTTTTATTGTTT
1 AAATTTATTATTTTTTATTGTTT
* *
8351242 -AATTTAGTT-TATTTTATGTCTATT
1 AAATTTA-TTATTTTTTAT-TGT-TT
*
8351266 AAATTTA-TATTTTATATTGTTT
1 AAATTTATTATTTTTTATTGTTT
8351288 TTACACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
22 15 0.42
23 7 0.19
24 8 0.22
25 6 0.17
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (23 bp):
AAATTTATTATTTTTTATTGTTT
Found at i:8362888 original size:5 final size:5
Alignment explanation
Indices: 8362878--8362908 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
8362868 TTTTATATAT
8362878 TCATG TCATG TCATG TCATG TCATG TCATG T
1 TCATG TCATG TCATG TCATG TCATG TCATG T
8362909 GCAGCTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TCATG
Found at i:8364705 original size:17 final size:18
Alignment explanation
Indices: 8364668--8364706 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8364658 ATTGTTTTTC
*
8364668 AAAAGCACTTTTGAGTCA
1 AAAAGCACTTTTGAATCA
*
8364686 AAAAGGACTTTTGAAT-A
1 AAAAGCACTTTTGAATCA
8364703 AAAA
1 AAAA
8364707 TTAAAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAAGCACTTTTGAATCA
Found at i:8390807 original size:22 final size:23
Alignment explanation
Indices: 8390782--8390834 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
8390772 TTGAGATTGA
8390782 TTAAATTAATTA-ATTTAATA-TT
1 TTAAATT-ATTATATTTAATATTT
*
8390804 TTAAATT-TTATATTTTATATTT
1 TTAAATTATTATATTTAATATTT
8390826 TTAAATTAT
1 TTAAATTAT
8390835 CTTTAACGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 7 0.26
22 16 0.59
23 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAAATTATTATATTTAATATTT
Found at i:8390826 original size:14 final size:14
Alignment explanation
Indices: 8390793--8390826 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8390783 TAAATTAATT
*
8390793 AATTTAATATTTTA
1 AATTTTATATTTTA
8390807 AATTTTATATTTTA
1 AATTTTATATTTTA
*
8390821 TATTTT
1 AATTTT
8390827 TAAATTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
AATTTTATATTTTA
Found at i:8394329 original size:16 final size:16
Alignment explanation
Indices: 8394310--8394341 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8394300 TATTTACCGT
8394310 TCTAAATATGATGTGA
1 TCTAAATATGATGTGA
8394326 TCTAAATATGATGTGA
1 TCTAAATATGATGTGA
8394342 GTTTGAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
TCTAAATATGATGTGA
Found at i:8395655 original size:103 final size:103
Alignment explanation
Indices: 8395470--8395700 Score: 392
Period size: 103 Copynumber: 2.2 Consensus size: 103
8395460 AAAAATATTA
* * *
8395470 AAATTAATGTATTTAATTTTGTACATTTGTCTTACATGCATGCAACTGTATATTTATTGGTCAAA
1 AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATGCAACTGTATATTTATTAGTCAAA
*
8395535 CCAAATCAATGGACATTAATTTTAATTAAAGAGATTTT
66 CCAAATCAATGGACATTAATTTTAATTAAAAAGATTTT
*
8395573 AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATGCAGCTGTATATTTATTAGTCAAA
1 AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATGCAACTGTATATTTATTAGTCAAA
8395638 CCAAATCAAT-GAGCATTAATTTTAATTAAAAAGATTTT
66 CCAAATCAATGGA-CATTAATTTTAATTAAAAAGATTTT
*
8395676 CAATTAATGTACTCAATTTTGTACA
1 AAATTAATGTACTCAATTTTGTACA
8395701 GTGATATAGG
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
102 2 0.02
103 119 0.98
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (103 bp):
AAATTAATGTACTCAATTTTGTACATTTGTCTTACATGCATGCAACTGTATATTTATTAGTCAAA
CCAAATCAATGGACATTAATTTTAATTAAAAAGATTTT
Found at i:8410515 original size:6 final size:6
Alignment explanation
Indices: 8410493--8410527 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
8410483 TTCCAAATGA
8410493 TTTCAT TTCTCCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTT
8410528 AGAGAAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:8410554 original size:63 final size:63
Alignment explanation
Indices: 8410454--8410576 Score: 153
Period size: 63 Copynumber: 1.9 Consensus size: 63
8410444 TTTCAAGGTT
*
8410454 ATTTTCATTTTGGAGAAAACTGCATTCTTTTCCAAATGATT-TCATTTCTCCATTTTCATTTTC
1 ATTTTCATTTTAGAGAAAAC-GCATTCTTTTCCAAATGATTCTCATTTCTCCATTTTCATTTTC
* * *
8410517 ATTTTCATTTTAGAGAAAAC-CATAGTCATTTT-TAAATGTTTCTCATTTCTTCATTTTCAT
1 ATTTTCATTTTAGAGAAAACGCAT--TC-TTTTCCAAATGATTCTCATTTCTCCATTTTCAT
8410577 CATTTATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
61 3 0.06
63 28 0.54
64 21 0.40
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (63 bp):
ATTTTCATTTTAGAGAAAACGCATTCTTTTCCAAATGATTCTCATTTCTCCATTTTCATTTTC
Found at i:8412307 original size:19 final size:19
Alignment explanation
Indices: 8412283--8412319 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8412273 GTAGAAAATT
8412283 ATATATGAATTTTGATTTA
1 ATATATGAATTTTGATTTA
8412302 ATATATGAATTTTGATTT
1 ATATATGAATTTTGATTT
8412320 TGTGTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
ATATATGAATTTTGATTTA
Found at i:8416736 original size:21 final size:21
Alignment explanation
Indices: 8416711--8416760 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
8416701 GAATTTCAGC
*
8416711 AGCAATCTATAGATTTCCAAA
1 AGCAAACTATAGATTTCCAAA
* * *
8416732 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTCCAAA
*
8416753 AGAAAACT
1 AGCAAACT
8416761 GAGGCATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (21 bp):
AGCAAACTATAGATTTCCAAA
Found at i:8416761 original size:21 final size:21
Alignment explanation
Indices: 8416722--8416761 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8416712 GCAATCTATA
*
8416722 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
8416743 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
8416762 AGGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:8420844 original size:26 final size:25
Alignment explanation
Indices: 8420805--8420866 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
8420795 CCCAATTATT
*
8420805 TTTATTT-TTTTATTTTTTTATTT-
1 TTTATTTATTTTATTTATTTATTTA
8420828 TTCTATCTTATTTTATTTATTTATTTA
1 TT-TAT-TTATTTTATTTATTTATTTA
8420855 TTTATTTATTTT
1 TTTATTTATTTT
8420867 TGTCCAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 2 0.06
24 3 0.09
25 9 0.26
26 18 0.53
27 2 0.06
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTATTTATTTTATTTATTTATTTA
Found at i:8420848 original size:4 final size:4
Alignment explanation
Indices: 8420805--8420865 Score: 70
Period size: 4 Copynumber: 14.8 Consensus size: 4
8420795 CCCAATTATT
* *
8420805 TTTA TTTT TTTA TTTT TTTA TTT- TTCTA TCTTA TTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA -TTTA TTTA TTTA TTTA
8420855 TTTA TTTA TTT
1 TTTA TTTA TTT
8420866 TTGTCCAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 2 0.04
4 39 0.80
5 6 0.12
6 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:8421666 original size:102 final size:103
Alignment explanation
Indices: 8421554--8421744 Score: 296
Period size: 102 Copynumber: 1.9 Consensus size: 103
8421544 ATATTTTAGA
* * *
8421554 CTGAGTAACCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAATGCATTC-
1 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAATGCATTCT
*
8421618 TAAAAA-AAAGAGAAGAAAAAAATTGAGAGCATGTTGGG
66 TAAAAAGAAA-AAAAGAAAAAAATTGAGAGCATGTTGGG
* * *
8421656 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCATTTCGCGTCAAAAGGTCCAATGTATTCT
1 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAATGCATTCT
8421721 TAAAAAGAAAAAAAGAAAAAAATT
66 TAAAAAGAAAAAAAGAAAAAAATT
8421745 CACAAAATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 58 0.73
103 19 0.24
104 3 0.04
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (103 bp):
CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGTCAAAAGGGCCAATGCATTCT
TAAAAAGAAAAAAAGAAAAAAATTGAGAGCATGTTGGG
Found at i:8422324 original size:19 final size:19
Alignment explanation
Indices: 8422302--8422346 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8422292 TTATATTAGG
8422302 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
8422321 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
8422340 ATTTAAT
1 ATTTAAT
8422347 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:8430680 original size:5 final size:5
Alignment explanation
Indices: 8430670--8430700 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
8430660 CTAGAAAATT
*
8430670 TTCGA TTCGA TTCGA TTCGA TTTGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
8430701 CGAATTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:8436746 original size:8 final size:8
Alignment explanation
Indices: 8436735--8436768 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
8436725 TATTTTTAAT
8436735 TTTTTTTA
1 TTTTTTTA
8436743 TTTTTTTA
1 TTTTTTTA
*
8436751 TTTTTTAA
1 TTTTTTTA
*
8436759 TTTATTTA
1 TTTTTTTA
8436767 TT
1 TT
8436769 GAAATGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8437067 original size:21 final size:22
Alignment explanation
Indices: 8437056--8437099 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8437046 ATACATTCAA
8437056 TCAAT-TAAAATAAAAATTAAC
1 TCAATATAAAATAAAAATTAAC
* *
8437077 TCAATATAAAATACAACTTAAC
1 TCAATATAAAATAAAAATTAAC
8437099 T
1 T
8437100 TATAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (22 bp):
TCAATATAAAATAAAAATTAAC
Found at i:8446948 original size:23 final size:23
Alignment explanation
Indices: 8446911--8446970 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 23
8446901 AAATAATAGG
8446911 TTATATATTAT--TTTTCTA-TAA
1 TTATATATTATAATTTT-TACTAA
8446932 TTATATATTATAATTTTTACTAA
1 TTATATATTATAATTTTTACTAA
*
8446955 TTCATATTTTAATAAT
1 TT-ATATATT-ATAAT
8446971 AATTATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.33
22 2 0.06
23 9 0.27
24 6 0.18
25 5 0.15
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATATTATAATTTTTACTAA
Found at i:8447034 original size:58 final size:58
Alignment explanation
Indices: 8446944--8447089 Score: 192
Period size: 58 Copynumber: 2.5 Consensus size: 58
8446934 ATATATTATA
* *
8446944 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
*
8447001 ATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
8447061 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
8447090 CATTAAAATT
Statistics
Matches: 80, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
57 1 0.01
58 49 0.61
59 12 0.15
60 10 0.12
61 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:8447040 original size:26 final size:26
Alignment explanation
Indices: 8447008--8447089 Score: 74
Period size: 32 Copynumber: 2.9 Consensus size: 26
8446998 CATATTATTT
8447008 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
* * * *
8447034 TGTTAAAATATAATTAAATAAATTAATATTTT
1 TATTAAATTAT-ATT---T-AA-TAATAATTA
8447066 TATTAAATTATATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
8447090 CATTAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
26 15 0.35
27 5 0.12
28 1 0.02
30 1 0.02
31 5 0.12
32 16 0.37
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
TATTAAATTATATTTAATAATAATTA
Found at i:8447279 original size:16 final size:16
Alignment explanation
Indices: 8447259--8447330 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
8447249 TGAATTACTG
*
8447259 ATTACAGCTCTATTCG
1 ATTACAGCTCTATTCC
*
8447275 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
8447291 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
8447307 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
8447323 ATTACAGC
1 ATTACAGC
8447331 GAACAAAACG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:8467058 original size:6 final size:6
Alignment explanation
Indices: 8467047--8467094 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
8467037 TCAATCTGTA
8467047 TATATG TATATG TATATG TATATG TATA-- TATATG TATA-- TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
8467091 TATA
1 TATA
8467095 ACAAACATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.21
6 30 0.79
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:8467080 original size:10 final size:10
Alignment explanation
Indices: 8467045--8467094 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
8467035 CCTCAATCTG
8467045 TATATATGTA
1 TATATATGTA
*
8467055 TATGTA--TA
1 TATATATGTA
*
8467063 TGTATATGTA
1 TATATATGTA
8467073 TATATATGTA
1 TATATATGTA
8467083 TATATATGTA
1 TATATATGTA
8467093 TA
1 TA
8467095 ACAAACATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 6 0.18
10 28 0.82
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (10 bp):
TATATATGTA
Found at i:8472211 original size:20 final size:20
Alignment explanation
Indices: 8472186--8472228 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8472176 ATTTATAATT
*
8472186 ATACTTGTAAACTCCTAAAA
1 ATACTTATAAACTCCTAAAA
*
8472206 ATACTTATAAACTCTTAAAA
1 ATACTTATAAACTCCTAAAA
8472226 ATA
1 ATA
8472229 ACTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (20 bp):
ATACTTATAAACTCCTAAAA
Found at i:8480584 original size:22 final size:23
Alignment explanation
Indices: 8480550--8480597 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8480540 TCAAATTAAA
*
8480550 CATCGTATCTAAA-AAAACCATC
1 CATCATATCTAAATAAAACCATC
* *
8480572 CATCATATTTAAATAAAATCATC
1 CATCATATCTAAATAAAACCATC
8480595 CAT
1 CAT
8480598 TGTATGTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (23 bp):
CATCATATCTAAATAAAACCATC
Found at i:8489246 original size:16 final size:16
Alignment explanation
Indices: 8489223--8489294 Score: 126
Period size: 16 Copynumber: 4.5 Consensus size: 16
8489213 CGTTTGGTTC
8489223 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
8489239 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
8489255 ACTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
8489271 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
8489287 GCTGTAAT
1 GCTGTAAT
8489295 CAGTAATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:8489335 original size:46 final size:44
Alignment explanation
Indices: 8489276--8489369 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
8489266 ATAGAGCTGT
* *
8489276 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGATTGG
1 AATGGAATAGAGCTGTAAT-AAT-ATTC-ATGTGTTTGGTTGAATGG
*
8489322 AATGGAATAGAGCTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
8489366 AATG
1 AATG
8489370 ATGCTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:8489530 original size:58 final size:55
Alignment explanation
Indices: 8489463--8489608 Score: 159
Period size: 58 Copynumber: 2.5 Consensus size: 55
8489453 AATTTTAATG
* *
8489463 ATTATTATTAAATATAATTGAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATT-AATAAAAATATGTAATTTA-ATAA-AAT-TTTTAACATA
* *
8489521 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAAAATTTTTAATATA
1 ATTATTATTAAATATAA-TTAAT-AAA-AATATGTAATTTAATAAAATTTTTAACATA
*
8489579 ATTATTATTAAAATATGAATTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTAATAAAAAT
8489609 TATAATATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
57 3 0.04
58 40 0.53
59 16 0.21
60 10 0.13
61 7 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (55 bp):
ATTATTATTAAATATAATTAATAAAAATATGTAATTTAATAAAATTTTTAACATA
Found at i:8489593 original size:29 final size:28
Alignment explanation
Indices: 8489511--8489590 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
8489501 TTTAATTATA
* *
8489511 TTTTAACATAATTATTATTAAATACAAT
1 TTTTAAAATAATTATTATTAAATAAAAT
* *
8489539 TTAATAAAATAA-TATGTAATTTAATAAAAT
1 TT-TTAAAATAATTAT-T-ATTAAATAAAAT
*
8489569 TTTTAATATAATTATTATTAAA
1 TTTTAAAATAATTATTATTAAA
8489591 ATATGAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
28 10 0.24
29 16 0.39
30 15 0.37
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTTAAAATAATTATTATTAAATAAAAT
Found at i:8491773 original size:31 final size:31
Alignment explanation
Indices: 8491714--8491792 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
8491704 TAACATAGGT
* *
8491714 ACTTATTTAACTACAA-A-AATAATTTAAGA
1 ACTTATTTAAATAAAATATAATAATTTAAGA
*
8491743 ACTTATTTAAATAAAATATAATCATTTAAGA
1 ACTTATTTAAATAAAATATAATAATTTAAGA
8491774 ACTTATTTAAA-AAATATAT
1 ACTTATTTAAATAAA-ATAT
8491793 TAGCCATTGG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 14 0.32
30 4 0.09
31 26 0.59
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.38
Consensus pattern (31 bp):
ACTTATTTAAATAAAATATAATAATTTAAGA
Found at i:8492421 original size:2 final size:2
Alignment explanation
Indices: 8492414--8492450 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8492404 ATGGATATGG
8492414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8492451 GCTAATATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8494579 original size:360 final size:360
Alignment explanation
Indices: 8493918--8494637 Score: 1431
Period size: 360 Copynumber: 2.0 Consensus size: 360
8493908 AAAAGAAAAG
8493918 CATGACAGCAAAATCAGTAGATGTTATGTTATCCTAACTTTTCATTTTTTATAAAAGTATACGTG
1 CATGACAGCAAAATCAGTAGATGTTATGTTATCCTAACTTTTCATTTTTTATAAAAGTATACGTG
*
8493983 TTCGACATTTGAACCAACACATTTCGGACATGAAGATGTGGTATGATACTCTAAATATAAGAAAC
66 TTCAACATTTGAACCAACACATTTCGGACATGAAGATGTGGTATGATACTCTAAATATAAGAAAC
8494048 TATTAAAGCATATATTTATTTAGAACAAAGGTATGCAATTTTAAAAGAACAAAACTTAGAATTAC
131 TATTAAAGCATATATTTATTTAGAACAAAGGTATGCAATTTTAAAAGAACAAAACTTAGAATTAC
8494113 AAAGCAAAAGTTAGTAATTAAGATTCACAACACAAAGAAAAAGATGGTTAAAAAAGAAAAGGAGA
196 AAAGCAAAAGTTAGTAATTAAGATTCACAACACAAAGAAAAAGATGGTTAAAAAAGAAAAGGAGA
8494178 ACCTGCAAACAGTTACAATAACTATAACAAAAGAGCTAGAGTTCTACAAGAATCAGGTTTACCTA
261 ACCTGCAAACAGTTACAATAACTATAACAAAAGAGCTAGAGTTCTACAAGAATCAGGTTTACCTA
8494243 AAAATGAATAAAACTAGAAAATGCATATATATATA
326 AAAATGAATAAAACTAGAAAATGCATATATATATA
8494278 CATGACAGCAAAATCAGTAGATGTTATGTTATCCTAACTTTTCATTTTTTATAAAAGTATACGTG
1 CATGACAGCAAAATCAGTAGATGTTATGTTATCCTAACTTTTCATTTTTTATAAAAGTATACGTG
8494343 TTCAACATTTGAACCAACACATTTCGGACATGAAGATGTGGTATGATACTCTAAATATAAGAAAC
66 TTCAACATTTGAACCAACACATTTCGGACATGAAGATGTGGTATGATACTCTAAATATAAGAAAC
8494408 TATTAAAGCATATATTTATTTAGAACAAAGGTATGCAATTTTAAAAGAACAAAACTTAGAATTAC
131 TATTAAAGCATATATTTATTTAGAACAAAGGTATGCAATTTTAAAAGAACAAAACTTAGAATTAC
8494473 AAAGCAAAAGTTAGTAATTAAGATTCACAACACAAAGAAAAAGATGGTTAAAAAAGAAAAGGAGA
196 AAAGCAAAAGTTAGTAATTAAGATTCACAACACAAAGAAAAAGATGGTTAAAAAAGAAAAGGAGA
8494538 ACCTGCAAACAGTTACAATAACTATAACAAAAGAGCTAGAGTTCTACAAGAATCAGGTTTACCTA
261 ACCTGCAAACAGTTACAATAACTATAACAAAAGAGCTAGAGTTCTACAAGAATCAGGTTTACCTA
8494603 AAAATGAATAAAACTAGAAAATGCATATATATATA
326 AAAATGAATAAAACTAGAAAATGCATATATATATA
8494638 TACCTACATA
Statistics
Matches: 359, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
360 359 1.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (360 bp):
CATGACAGCAAAATCAGTAGATGTTATGTTATCCTAACTTTTCATTTTTTATAAAAGTATACGTG
TTCAACATTTGAACCAACACATTTCGGACATGAAGATGTGGTATGATACTCTAAATATAAGAAAC
TATTAAAGCATATATTTATTTAGAACAAAGGTATGCAATTTTAAAAGAACAAAACTTAGAATTAC
AAAGCAAAAGTTAGTAATTAAGATTCACAACACAAAGAAAAAGATGGTTAAAAAAGAAAAGGAGA
ACCTGCAAACAGTTACAATAACTATAACAAAAGAGCTAGAGTTCTACAAGAATCAGGTTTACCTA
AAAATGAATAAAACTAGAAAATGCATATATATATA
Found at i:8497594 original size:20 final size:20
Alignment explanation
Indices: 8497569--8497781 Score: 156
Period size: 20 Copynumber: 9.7 Consensus size: 20
8497559 TTTTTTATGT
*
8497569 TAACGGAACGAAAAGGCGAG
1 TAACGGAACGGAAAGGCGAG
8497589 TAACGGAACGGAAAGGCGAG
1 TAACGGAACGGAAAGGCGAG
8497609 TAACGGAACGGAAAGGCGAGTAACG
1 TAACGGAACGGAAAGGC--G--A-G
8497634 TAACGGAACGGAAAGGCGAG
1 TAACGGAACGGAAAGGCGAG
* *
8497654 TAACGTAATGGAATGGAACGGCGAG
1 TAAC-----GGAACGGAAAGGCGAG
*
8497679 TAACGGAATGGAATGGAACGGCGAG
1 TAACGGAACGG-A---AA-GGCGAG
* * * *
8497704 TAACGGAACGGAACGACAAT
1 TAACGGAACGGAAAGGCGAG
*
8497724 TAACGGAACGGAACGGCGAG
1 TAACGGAACGGAAAGGCGAG
*
8497744 TAAAGGAACGGAATGGAACGGCGAG
1 TAACGGAACGG-A---AA-GGCGAG
8497769 TAACGGAACGGAA
1 TAACGGAACGGAA
8497782 TGGAACGGCG
Statistics
Matches: 158, Mismatches: 15, Indels: 39
0.75 0.07 0.18
Matches are distributed among these distances:
20 78 0.49
21 5 0.03
22 1 0.01
23 1 0.01
24 5 0.03
25 68 0.43
ACGTcount: A:0.40, C:0.15, G:0.37, T:0.08
Consensus pattern (20 bp):
TAACGGAACGGAAAGGCGAG
Found at i:8497618 original size:25 final size:25
Alignment explanation
Indices: 8497608--8498037 Score: 475
Period size: 25 Copynumber: 17.6 Consensus size: 25
8497598 GGAAAGGCGA
* **
8497608 GTAACGGAACGGAAAGGCGAGTAAC
1 GTAACGGAACGGAACGGCGAGTCTC
* **
8497633 GTAACGGAACGGAAAGGCGAGTAAC
1 GTAACGGAACGGAACGGCGAGTCTC
* * **
8497658 GTAATGGAATGGAACGGCGAGTAAC
1 GTAACGGAACGGAACGGCGAGTCTC
* * *
8497683 GGAATGGAATGGAACGGCGA-----
1 GTAACGGAACGGAACGGCGAGTCTC
* * * **
8497703 GTAACGGAACGGAACGACAATTAAC
1 GTAACGGAACGGAACGGCGAGTCTC
* ***
8497728 GGAACGG-----AACGGCGAGTAAA
1 GTAACGGAACGGAACGGCGAGTCTC
* * **
8497748 GGAACGGAATGGAACGGCGAGTAAC
1 GTAACGGAACGGAACGGCGAGTCTC
* *
8497773 GGAACGGAATGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
8497798 GTAACGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
8497823 GTAACGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
8497848 GTAACGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
8497873 GTAACGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
*
8497898 GTAATGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
*
8497923 GTAACGAAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
*
8497948 CTAACGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
*
8497973 CTAACGGAACGGAACGGCGAGTCTC
1 GTAACGGAACGGAACGGCGAGTCTC
**
8497998 GTAACGGAACGGAACGGCGAGTAAC
1 GTAACGGAACGGAACGGCGAGTCTC
*
8498023 GGAACGGAACGGAAC
1 GTAACGGAACGGAAC
8498038 AGAACGGCGA
Statistics
Matches: 367, Mismatches: 28, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
20 31 0.08
25 336 0.92
ACGTcount: A:0.33, C:0.20, G:0.36, T:0.11
Consensus pattern (25 bp):
GTAACGGAACGGAACGGCGAGTCTC
Found at i:8497709 original size:65 final size:64
Alignment explanation
Indices: 8497640--8497776 Score: 177
Period size: 65 Copynumber: 2.1 Consensus size: 64
8497630 AACGTAACGG
* * * * *
8497640 AACGGAAAGG-CGAGTAACGTAATGGAATGGAACGGCGAGTAACGGAATGGAATGGAACGGCGAG
1 AACGGAAAGGACGA-CAA-GTAACGGAACGGAACGGCGAGTAAAGGAACGGAATGGAACGGCGAG
8497704 T
64 T
* *
8497705 AACGGAACGGAACGACAATTAACGGAACGGAACGGCGAGTAAAGGAACGGAATGGAACGGCGAGT
1 AACGGAAAGG-ACGACAAGTAACGGAACGGAACGGCGAGTAAAGGAACGGAATGGAACGGCGAGT
8497770 AACGGAA
1 AACGGAA
8497777 CGGAATGGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
65 58 0.92
66 2 0.03
67 3 0.05
ACGTcount: A:0.39, C:0.15, G:0.36, T:0.09
Consensus pattern (64 bp):
AACGGAAAGGACGACAAGTAACGGAACGGAACGGCGAGTAAAGGAACGGAATGGAACGGCGAGT
Found at i:8499314 original size:34 final size:33
Alignment explanation
Indices: 8499243--8499306 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
8499233 GTGTCATTTT
*
8499243 TACATACTAATTCTTCAGTTTGAAAACTTAAAA
1 TACATACTAATTCTTCAGTTTGAAAACTGAAAA
* *
8499276 TACATACTAATTTCTTGAGTTTGAAAGCTGA
1 TACATACTAA-TTCTTCAGTTTGAAAACTGA
8499307 CAGTACATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (33 bp):
TACATACTAATTCTTCAGTTTGAAAACTGAAAA
Found at i:8500605 original size:25 final size:25
Alignment explanation
Indices: 8500571--8500619 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
8500561 TTTTACATGT
8500571 ATGTTAAAATAGGCAATAATTGTTA
1 ATGTTAAAATAGGCAATAATTGTTA
8500596 ATGTTAAAATAGGCAATAATTGTT
1 ATGTTAAAATAGGCAATAATTGTT
8500620 GTAATTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (25 bp):
ATGTTAAAATAGGCAATAATTGTTA
Found at i:8511677 original size:24 final size:23
Alignment explanation
Indices: 8511650--8511695 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
8511640 TGTTTATGAA
8511650 CATGTTTAATTATATGTTCGTGAG
1 CATGTTTAATTA-ATGTTCGTGAG
**
8511674 CATGTTTGTTTAATGTTCGTGA
1 CATGTTTAATTAATGTTCGTGA
8511696 ATATTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.48
Consensus pattern (23 bp):
CATGTTTAATTAATGTTCGTGAG
Found at i:8513092 original size:23 final size:24
Alignment explanation
Indices: 8513059--8513107 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
8513049 ATATTTCATA
8513059 TATTTTATAAATTTTA-ATATTTT
1 TATTTTATAAATTTTATATATTTT
* *
8513082 TATTTTTTAAATTTTATTTATTTT
1 TATTTTATAAATTTTATATATTTT
8513106 TA
1 TA
8513108 AATTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TATTTTATAAATTTTATATATTTT
Found at i:8523504 original size:31 final size:33
Alignment explanation
Indices: 8523446--8523520 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 33
8523436 ATTTTAAATT
*
8523446 AATAATAATAAAATTACACTTTGATCATCTCAAA
1 AATAATAATAAAATTACACTTTAATCAT-TCAAA
* *
8523480 AATAATAA-AAATTTA-A-TTTAATCATTTAAA
1 AATAATAATAAAATTACACTTTAATCATTCAAA
8523510 AATAATAATAA
1 AATAATAATAA
8523521 TATAAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 12 0.32
31 10 0.27
32 1 0.03
33 6 0.16
34 8 0.22
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (33 bp):
AATAATAATAAAATTACACTTTAATCATTCAAA
Found at i:8523582 original size:24 final size:23
Alignment explanation
Indices: 8523565--8523613 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 23
8523555 GATTCCGTCA
8523565 TTGTTCAAATTGTAGATTTAAGTC
1 TTGTTCAAATTGTAGA-TTAAGTC
8523589 TTGTTCAAATTGTAGATTTAAGTC
1 TTGTTCAAATTGTAGA-TTAAGTC
8523613 T
1 T
8523614 ACATCTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (23 bp):
TTGTTCAAATTGTAGATTAAGTC
Found at i:8533776 original size:21 final size:21
Alignment explanation
Indices: 8533750--8533793 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8533740 TCATAAATCC
8533750 ATCACTGCGTGTTGAGAACTG
1 ATCACTGCGTGTTGAGAACTG
*
8533771 ATCACTGTGTGTTGAGAACTG
1 ATCACTGCGTGTTGAGAACTG
8533792 AT
1 AT
8533794 TGTTTGCGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (21 bp):
ATCACTGCGTGTTGAGAACTG
Found at i:8536934 original size:2 final size:2
Alignment explanation
Indices: 8536929--8536955 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8536919 TGTGTGTGCA
8536929 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
8536956 ACCTATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8541805 original size:23 final size:24
Alignment explanation
Indices: 8541779--8541828 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
8541769 TTTTGAGCAA
8541779 TTTAA-TTTT-TTTTTTTATGTTTT
1 TTTAACTTTTCTTTTTTTAT-TTTT
*
8541802 TTTAACTTTTCTTTTTTTCTTTTT
1 TTTAACTTTTCTTTTTTTATTTTT
8541826 TTT
1 TTT
8541829 CATTCTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTAACTTTTCTTTTTTTATTTTT
Found at i:8541837 original size:15 final size:15
Alignment explanation
Indices: 8541819--8541859 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
8541809 TTTCTTTTTT
8541819 TCTTTTTTTTCATTC
1 TCTTTTTTTTCATTC
*
8541834 TCTTTTTCTT--TTC
1 TCTTTTTTTTCATTC
*
8541847 TCTTTGTTTTCAT
1 TCTTTTTTTTCAT
8541860 CCCTTCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 11 0.52
15 10 0.48
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (15 bp):
TCTTTTTTTTCATTC
Found at i:8544181 original size:13 final size:14
Alignment explanation
Indices: 8544153--8544179 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8544143 GATGATTTTT
8544153 TTTAAAAAATTAAA
1 TTTAAAAAATTAAA
8544167 TTTAAAAAATTAA
1 TTTAAAAAATTAA
8544180 TTAATTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTAAAAAATTAAA
Found at i:8552044 original size:14 final size:14
Alignment explanation
Indices: 8552025--8552052 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8552015 TCTTCGTAAA
8552025 ATCAAAGAGAGTGG
1 ATCAAAGAGAGTGG
8552039 ATCAAAGAGAGTGG
1 ATCAAAGAGAGTGG
8552053 CCCCATTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.36, T:0.14
Consensus pattern (14 bp):
ATCAAAGAGAGTGG
Done.