Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 70 of 91
Found at i:25256518 original size:346 final size:345
Alignment explanation
Indices: 25255886--25256579 Score: 1156
Period size: 346 Copynumber: 2.0 Consensus size: 345
25255876 AATAAAAATA
* *
25255886 AATAAAAAATAAGTATTTACAACAAACACAACTATTGAAAGTTGTAGATACGTCTGTTAAAATAC
1 AATAAAAAATAAGTATTTACAACAAACACAAATATTAAAAGTTGTAGATACGTCTGTTAAAATAC
* * * *
25255951 AACAGACACATCTGTAAAAAAAAACAGTACCGACACATCTGTTTAAAATAAAAAGGACGTATCTG
66 AACAGACACATCTGTAAAAAAAAACAGTACAGACACATCTGTTGAAAATAAAAAAGACGCATCTG
* * *
25256016 TTGAAAGACAACAAACACAACCTTTCACTGTCTATAAAAGAATGTACTTCCAAGCCAAAATTCAT
131 TTGAAAGACAACAAACACAACCTCTCACTGTCTATAAAAAAACGTACTTCCAAGCCAAAATTCAT
* * *
25256081 TCAAAGCATTTTGCAAAAAAGGCTTGTTGTATCCTTGAGAGACATTGTCTGTGAATCCCCAAAGT
196 TCAAAGCATTCTGCAAAAAAGGCTTGTTGTATCCTGGAGAGACATTGTCTGCGAATCCCCAAAGT
*
25256146 AGGCAACAACTCTTTAAAGAAAGTGTGTTACAGCACGCCTCAAGCCTTA-TTTTCTTCTCTTTTC
261 AGGCAACAACTCTTTAAAGAAAGTGTGTTACAGCACGCCTCAAGCCTTACTTTT-GTCTCTTTTC
25256210 TTCTTCTACTAATTTTCTAAC
325 TTCTTCTACTAATTTTCTAAC
*
25256231 AATAAAAAATAAGTATTTACAACAAACACAAATATTAAAAGTTGTAGATACGTCTGTTGAAATAC
1 AATAAAAAATAAGTATTTACAACAAACACAAATATTAAAAGTTGTAGATACGTCTGTTAAAATAC
* *
25256296 AACAGATACATCTGTAAAAAAAAATTAGTACAGACACATCTGTTGAAAATAAAAAAGACGCATCT
66 AACAGACACATCTGTAAAAAAAAA-CAGTACAGACACATCTGTTGAAAATAAAAAAGACGCATCT
* *
25256361 GTTGAAAGACAACAAACACAATCTCTCACTGTCTATAAAAAAACGTACTTCCAAGCCAGAATTCA
130 GTTGAAAGACAACAAACACAACCTCTCACTGTCTATAAAAAAACGTACTTCCAAGCCAAAATTCA
* * * *
25256426 TTCAAAGCATTCTGCAAAAAAGGCTTGTTGTATCCTGGAGAGTCCTTGTCTGCGAATGCCCATAG
195 TTCAAAGCATTCTGCAAAAAAGGCTTGTTGTATCCTGGAGAGACATTGTCTGCGAATCCCCAAAG
*
25256491 TAGGCAATAACTCTTTAAAGAAAGTGTGTTACAGCACGCCTCAAGCCTTACTTTTGTCTCTTTTC
260 TAGGCAACAACTCTTTAAAGAAAGTGTGTTACAGCACGCCTCAAGCCTTACTTTTGTCTCTTTTC
25256556 TTCTTCTACTAATTTTCTAAC
325 TTCTTCTACTAATTTTCTAAC
25256577 AAT
1 AAT
25256580 TTTAAAGAGT
Statistics
Matches: 324, Mismatches: 23, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
345 85 0.26
346 235 0.73
347 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (345 bp):
AATAAAAAATAAGTATTTACAACAAACACAAATATTAAAAGTTGTAGATACGTCTGTTAAAATAC
AACAGACACATCTGTAAAAAAAAACAGTACAGACACATCTGTTGAAAATAAAAAAGACGCATCTG
TTGAAAGACAACAAACACAACCTCTCACTGTCTATAAAAAAACGTACTTCCAAGCCAAAATTCAT
TCAAAGCATTCTGCAAAAAAGGCTTGTTGTATCCTGGAGAGACATTGTCTGCGAATCCCCAAAGT
AGGCAACAACTCTTTAAAGAAAGTGTGTTACAGCACGCCTCAAGCCTTACTTTTGTCTCTTTTCT
TCTTCTACTAATTTTCTAAC
Found at i:25277498 original size:37 final size:37
Alignment explanation
Indices: 25277448--25277522 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
25277438 ATGTTGTTAT
25277448 TAACTAGTCAAAGTAAGAAAAGTATGATAATAAAAGG
1 TAACTAGTCAAAGTAAGAAAAGTATGATAATAAAAGG
25277485 TAACTAGTCAAAGTAAGAAAAGTATGATAATAAAAGG
1 TAACTAGTCAAAGTAAGAAAAGTATGATAATAAAAGG
25277522 T
1 T
25277523 GTTAAACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (37 bp):
TAACTAGTCAAAGTAAGAAAAGTATGATAATAAAAGG
Found at i:25279633 original size:19 final size:19
Alignment explanation
Indices: 25279597--25279633 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25279587 CTAAATAGTG
25279597 TTTTCTTTTTTTCTTTTTC
1 TTTTCTTTTTTTCTTTTTC
25279616 TTTTCCTTTTTTT-TTTTT
1 TTTT-CTTTTTTTCTTTTT
25279634 GATAAATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTCTTTTTTTCTTTTTC
Found at i:25289355 original size:68 final size:68
Alignment explanation
Indices: 25289252--25289378 Score: 227
Period size: 68 Copynumber: 1.9 Consensus size: 68
25289242 ACAGGCATTT
*
25289252 GCCTAGTTTTCTCGAAAATCAGGGGAACACCACAAGATACTATAAGTACAATAGGAAAACAGCCC
1 GCCTAGTTTTCTCGAAAATCAAGGGAACACCACAAGATACTATAAGTACAATAGGAAAACAGCCC
25289317 CCA
66 CCA
* *
25289320 GCCTAGTTTTCTCGGAAATCAAGGGAACACGACAAGATACTATAAGTACAATAGGAAAA
1 GCCTAGTTTTCTCGAAAATCAAGGGAACACCACAAGATACTATAAGTACAATAGGAAAA
25289379 TATCCTTCAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (68 bp):
GCCTAGTTTTCTCGAAAATCAAGGGAACACCACAAGATACTATAAGTACAATAGGAAAACAGCCC
CCA
Found at i:25293663 original size:19 final size:19
Alignment explanation
Indices: 25293639--25293675 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25293629 CCATTTGACT
25293639 TATTGGAGAATGATTTGAG
1 TATTGGAGAATGATTTGAG
*
25293658 TATTGGAGTATGATTTGA
1 TATTGGAGAATGATTTGA
25293676 AGTTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (19 bp):
TATTGGAGAATGATTTGAG
Found at i:25296884 original size:46 final size:46
Alignment explanation
Indices: 25296785--25296885 Score: 145
Period size: 43 Copynumber: 2.3 Consensus size: 46
25296775 CGTCATAACT
* *
25296785 GGGTCATCATCATCAGCTTATGCGCACTCCCTACTCACACATAGTT
1 GGGTCATCATCATCAGCTTATACGCACTCCCTACTCACACATAGTC
* *
25296831 GGGTCATCAT--T-GGCTTATACGCACTCCCTACTCGCACATAGTC
1 GGGTCATCATCATCAGCTTATACGCACTCCCTACTCACACATAGTC
25296874 GGGTCATCATCA
1 GGGTCATCATCA
25296886 GCTCATGTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 38 0.78
44 1 0.02
46 10 0.20
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.28
Consensus pattern (46 bp):
GGGTCATCATCATCAGCTTATACGCACTCCCTACTCACACATAGTC
Found at i:25296923 original size:42 final size:43
Alignment explanation
Indices: 25296791--25296967 Score: 218
Period size: 42 Copynumber: 4.2 Consensus size: 43
25296781 AACTGGGTCA
* * *
25296791 TCATCATCAGCTTATGCGCACTCCCTACTCACACATAGTTGGG
1 TCATCATCAGCTCATGCGCACTCCCTACTCGCACATAGCTGGG
** * *
25296834 TCATCATTGGCTTATACGCACTCCCTACTCGCACATAG-TCGGG
1 TCATCATCAGCTCATGCGCACTCCCTACTCGCACATAGCT-GGG
*
25296877 TCATCATCAGCTCATGTGCACTCCC-ACAT-GCACATAGCTGGG
1 TCATCATCAGCTCATGCGCACTCCCTAC-TCGCACATAGCTGGG
* *
25296919 TCATCATCAGCTCATGTGCACTCCC-ACACGCACATAGCTGGG
1 TCATCATCAGCTCATGCGCACTCCCTACTCGCACATAGCTGGG
25296961 TCATCAT
1 TCATCAT
25296968 TATCACATAA
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
42 61 0.51
43 59 0.49
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (43 bp):
TCATCATCAGCTCATGCGCACTCCCTACTCGCACATAGCTGGG
Found at i:25296940 original size:85 final size:85
Alignment explanation
Indices: 25296791--25296967 Score: 216
Period size: 85 Copynumber: 2.1 Consensus size: 85
25296781 AACTGGGTCA
* * ** *
25296791 TCATCATCAGCTTATGCGCACTCCCTACTCACACATAGTTGGGTCATCATTGGCTTATACGCACT
1 TCATCATCAGCTCATGCGCACTCCCTACTCACACATAGCTGGGTCATCATCAGCTCATACGCACT
*
25296856 CCCTACTCGCACATAG-TCGGG
66 CCC-ACACGCACATAGCT-GGG
* * **
25296877 TCATCATCAGCTCATGTGCACTCCC-ACAT-GCACATAGCTGGGTCATCATCAGCTCATGTGCAC
1 TCATCATCAGCTCATGCGCACTCCCTAC-TCACACATAGCTGGGTCATCATCAGCTCATACGCAC
25296940 TCCCACACGCACATAGCTGGG
65 TCCCACACGCACATAGCTGGG
25296961 TCATCAT
1 TCATCAT
25296968 TATCACATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 21 0.27
85 34 0.43
86 24 0.30
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (85 bp):
TCATCATCAGCTCATGCGCACTCCCTACTCACACATAGCTGGGTCATCATCAGCTCATACGCACT
CCCACACGCACATAGCTGGG
Found at i:25304321 original size:19 final size:19
Alignment explanation
Indices: 25304277--25304314 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
25304267 TTAATATTTT
25304277 AATATT-TTTTATTCATAA
1 AATATTATTTTATTCATAA
25304295 AATATTATTTTATTC-TAA
1 AATATTATTTTATTCATAA
25304313 AA
1 AA
25304315 ATCTTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATTTTATTCATAA
Found at i:25304718 original size:96 final size:96
Alignment explanation
Indices: 25304549--25304845 Score: 397
Period size: 96 Copynumber: 3.1 Consensus size: 96
25304539 GGGTATTTCA
* * * *
25304549 ATGAGAGTTCGAAGTGTGAAATTGAAAAGTTGAAGAGATTATTAGAGTATGATAAAAATAGTCAA
1 ATGAGAGTTTGAAGTGTGAAATTGAAAAGTTGAAGGGATTATTGGAGTATGATAAAAATAATCAA
*
25304614 AA-CTTGAAAGAAAAAGAGAAACAACGGGAGT
66 AAGC-TGAAAGAAAAAGAGAAGCAACGGGAGT
* *
25304645 ATGAGCA-TTTGAAGTGTGAAATTGAAAAGTTGGAGGGATTGA-TGGAGTACGATAAAAATAATC
1 ATGAG-AGTTTGAAGTGTGAAATTGAAAAGTTGAAGGGATT-ATTGGAGTATGATAAAAATAATC
**
25304708 AAAAGCTGAAAGAAAAAGAGAAGCAACAAGAGT
64 AAAAGCTGAAAGAAAAAGAGAAGCAACGGGAGT
* * * * *
25304741 ATGAGAGTTTAAAGTGTGAAATTAAAAAAG-TGAAAGAATTATTGGAGTATGATAAAAATAATTA
1 ATGAGAGTTTGAAGTGTGAAATT-GAAAAGTTGAAGGGATTATTGGAGTATGATAAAAATAATCA
25304805 AAAGCTGAAAGAAAAAGAGAAGCAACGGGAGT
65 AAAGCTGAAAGAAAAAGAGAAGCAACGGGAGT
25304837 ATGAG-GTTT
1 ATGAGAGTTT
25304846 TCGTTAGCTT
Statistics
Matches: 177, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
95 6 0.03
96 163 0.92
97 8 0.05
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.22
Consensus pattern (96 bp):
ATGAGAGTTTGAAGTGTGAAATTGAAAAGTTGAAGGGATTATTGGAGTATGATAAAAATAATCAA
AAGCTGAAAGAAAAAGAGAAGCAACGGGAGT
Found at i:25307130 original size:13 final size:13
Alignment explanation
Indices: 25307112--25307136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25307102 TTCCAGAAAA
25307112 TTTATAAAATCAT
1 TTTATAAAATCAT
25307125 TTTATAAAATCA
1 TTTATAAAATCA
25307137 CAATTTCCCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:25308399 original size:20 final size:20
Alignment explanation
Indices: 25308382--25308419 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25308372 CCTCAAATCT
25308382 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
25308402 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
25308420 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:25313264 original size:20 final size:21
Alignment explanation
Indices: 25313228--25313266 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
25313218 TTCCTGTAAC
25313228 AAAACAGAATAGATAATAAAT
1 AAAACAGAATAGATAATAAAT
25313249 AAAACA-AATATG-TAATAA
1 AAAACAGAATA-GATAATAA
25313267 TTATCATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (21 bp):
AAAACAGAATAGATAATAAAT
Found at i:25315623 original size:36 final size:36
Alignment explanation
Indices: 25315582--25315653 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
25315572 ATGAAATATT
*
25315582 AAATAAAAAACTTACTACATTATAATAATATTGGAG
1 AAATAAAAAACTTACTACACTATAATAATATTGGAG
25315618 AAATAAAAAACTTACTACACTATAATAATATTGGAG
1 AAATAAAAAACTTACTACACTATAATAATATTGGAG
25315654 GCTAAGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (36 bp):
AAATAAAAAACTTACTACACTATAATAATATTGGAG
Found at i:25317125 original size:251 final size:252
Alignment explanation
Indices: 25316423--25319953 Score: 4291
Period size: 252 Copynumber: 14.2 Consensus size: 252
25316413 CATAAAGAAA
* * * * * * *
25316423 AAATAATTAAATTTTAAATCTTAATGTAAATATGTGAGAGTTAACATAACAAGTGAATTAAGTTT
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAG--T
* * ** *
25316488 AAAAAT--TTTAAATTTAATGAAAACATAAATATTTAAATATATATTCTCGGGTTGAAAGTGTTT
64 AAAAATAATTTAAATTTAAT-AAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTT
* * * * *
25316551 AACGATATA-AAACTTTTAACTTTTAAATTAAGAATAAGAAGGATACAAATAATTATAGTTCAAA
128 AACGATATACAAA-TTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAA
* * * *
25316615 GTTGACATGAAAAAGCTTTGATGTAAAACTGTAAGAATTGATGTAAAAACTTGTAAAAGT-
192 GTTGACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * *
25316675 AGAATAACTAAATTTTAAATCTTAACATAAGTGTGTAAAAGTTAATGTAACAAGTCAATTAAGTA
1 A-AATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTA
* * *
25316740 AAAACAATTTAAATTTAATGAAAAATAAATATTTGAATTTATATTCTC-AGATTAAAAGTGTTTA
65 AAAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGA-ATTAAAAGTGTTTA
* *
25316804 AAGATGTACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGT
129 ACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGT
* * * *
25316869 TGACATGGAAAAGCCTTCACATAAAACTGTAAGAATTGACATAAAAACTTGTAAAGGTG
194 TGACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
*
25316928 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* * * *
25316993 AAA-AATTTCAATTTAATGAAAAATAAATATTTAAATTTAAATTTTCGAATTAAAAGTGTTTAAC
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
25317057 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* *
25317122 ACATGGAAAAGTCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
196 ACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
** * * *
25317179 AAATAACTAAATTTTAAATCTTAACACAAGTGTGTAAAAGTTAACGTAATAAGTCAATTAAGTTA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
*
25317244 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGGATTAAAAGTGTTTAAC
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
*
25317309 GATGTACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAA-T-T-ATTCAAAGTTG
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* ** * *
25317371 ACATGAAAAAACCTTGACGTAAAACTGTAAGAATTGATATAAAAAACTTATAAATGTG
196 ACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGT-AAAAACTTGTAAAGGTG
* *
25317429 AGATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAAAGTTAACGTAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* * * * ** *
25317494 AAACAATTTAAATTTAATGAAAAGTAACTATTTAAATCCATATTCTCGGATTAAAAGTGTTTAAC
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
* *
25317559 GATGTACAAATTTTAATTTTTAAA-AAACAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* * * * *
25317623 ACATGAAAAAGTCTTGAAGTAAAATTGTAAGAATTGTCGTAAAAACTTGTAAAAGTG
196 ACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * *
25317680 AAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAATGTAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* * * *
25317745 AAATAATATAAATTTAATGAAAAATAAATATTTAAATTTATATTCTCAAATTAAAAATGTTTAAC
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
* * *
25317810 GATATATAAAATTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTAAAAGTTG
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* *
25317875 AAAT-AGAAAAGCCTT---G----AC---------T----TAAAAACTTGTAAAAGTG
196 ACATGA-AAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * *
25317912 GAATAACTAAATTTTAAATTTTAACGTAAGTGTGTAAGAGTTAACATAAC-AGCTCAATTAAGTA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAG-TCAATTAAGTA
* * *
25317976 AAAATAATTTAAATTTAATAAAAAATAAATAATTAAATTTAAATTCTC-AGATTAAAATTGTTTA
65 AAAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGA-ATTAAAAGTGTTTA
* * * * *
25318040 ACGATGTACAAATTTTAATTTTTAAATAAAGAATAACAAAGATGAAAATAATTATAATTTAAAGT
129 ACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGT
* * * * * *
25318105 TGATATGAAAAAGTCTTAACGTAAAATTATAAGAATTGACGTAAAAACTTATAAAGGTG
194 TGACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* *
25318164 AAATAACTAAATTTTAAATCTTAATGTAAGTGCGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* *
25318229 AAATAATTTAAATTTAATAAAAAATAAATATTTATATTTATATTCTTTG-ATTAAAAGTGTTTAA
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTC-TCGAATTAAAAGTGTTTAA
* * **
25318293 TGATGTATGAA-TTTAATTTTTAAAT-AAGCAATAATAAGGATAAAAATAATTATAATTCAAAGT
130 CGATATACAAATTTTAATTTTTAAATAAAG-AATAATAAGGATAAAAATAATTATAATTCAAAGT
* * * * * * *
25318356 TGACATGGAAAAGCGTTTGATGTAAAATTTTAAGAATTGACGTAAAAACTTATAAAAGTG
194 TGACATGAAAAAGC-CTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * * *
25318416 AAATAACTAAATTTTAAATTTTAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* * * * ** *
25318481 AAACAATTTAAATATAATGAAAAGTAAATATTTAAATTTATATTCTCGGGTTAAAAGTGTTTAGC
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
* *
25318546 GATATACAAATTTTAATTTTTAAATAACA-AATAATAAGGATAAAAATAATGATAGTTCAAAGTT
131 GATATACAAATTTTAATTTTTAAATAA-AGAATAATAAGGATAAAAATAATTATAATTCAAAGTT
* * * ** * * *
25318610 AACATAAAAAAGTCTTGATATAAAATTATAAGAATTGACTTAAAAACTTGTAAAGGTG
195 GACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
*
25318668 GAATAACTAAATTTTAAA---T--C---------------TTAACGTAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* *
25318713 AAAAAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTATTTAAC
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
* * * *
25318778 AATGTACAAATTTTAATTTTTAAATAAAGAATAATAAGGATACAAATAATTATATTTCAAAGTTG
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* * * *
25318843 ACATGGAAAAGCCTTGATGTAAAACCGTAAGAATTAACGTAAAAACTTGTAAAGGTG
196 ACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * *
25318900 GAATAACTAAATTTGAAATCTTAACGTAAGTGTGTAAAAGTTAACGTAACAAGTCAATTAAGTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* *
25318965 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCG-GTTAAAAGTGTTTAAT
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
** * ** * *
25319029 GATATACAAATTTTAATTTTTAAATAACTAACAATAAAAATAAAAATAATTATAGTTCAAAGTTA
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* * * *
25319094 ACATGAAAAAGTCTTAACATAAAACTATAAGAATTGACGTAAAAACTTGTAAAGGTG
196 ACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* *
25319151 AAATAATTAAATTTTAAATCTTAA-GATAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGCA
1 AAATAACTAAATTTTAAATCTTAACG-TAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTA
* * *
25319215 AAAATATTTTAAATTTAATGAGAAATAAATATTTAAATTTATATTCTC-ATACTT-AAAGTG-TT
65 AAAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGA-A-TTAAAAGTGTTT
* * * *
25319277 AACCATATACAAATTTTAATTTTTAAATAAAGAATAATATGGATAAAAATAATTATAGTTCAAAA
128 AACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAG
* * * * * * * *
25319342 TTGGCATAAAAAAGCATTGA-GTAAAATTGCAAGAATTGATGTAAAAACTTATAAAGATG
193 TTGACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * * ** * *
25319401 AAACAACTAAATTTTAAATCGTAACGTAAATGTGTGGGAGTTAACATAACAAGTCAATTAACTAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* * * * ***
25319466 AAA-AATCTAAATTTAATAAAAAATAAATATTTAAATTTCTATTTTTTAGGGCTAAAAGTGTTTA
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAA-TT-TATATTCTCGAATTAAAAGTGTTTA
* * * * * *
25319530 ACGATATACAAATTTTAATTTTTAAATAAATAATAAAAAGGATAAAAATAGTTATAGTTAAAAAT
129 ACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGT
* * * *
25319595 TAACATGAAAAAGTCTTGACGTAAAACTGTAAGAATTGACAT-AAAACTTGTAAATGTG
194 TGACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * * * *
25319653 GAATAATTAAATTTTAAATCTTAATGTAAGTGTGTGAGAGTTAACGTAACAAGTCAATTAAATAA
1 AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
* * * * *
25319718 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATTTTTTCGGATTAAAGGTGTTTAAT
66 AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
* * * *
25319783 AATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAGTT-
131 GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
* * * ** ** * * * ** * *
25319847 ACTATTAGAAGGGTTTGTTGTAAAATTGTAAGAATTGACATAAAATCTAATGAAGATG
196 AC-ATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
* * * *
25319905 TAAGA-AAC-AGATTTAAAATCTTAATGTAAATGTGTAAGAGTTAACGTAA
1 -AA-ATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAA
25319954 ATAAATTTTA
Statistics
Matches: 2851, Mismatches: 345, Indels: 166
0.85 0.10 0.05
Matches are distributed among these distances:
231 4 0.00
232 404 0.14
233 1 0.00
235 2 0.00
236 1 0.00
237 1 0.00
239 1 0.00
245 1 0.00
247 1 0.00
248 1 0.00
249 99 0.03
250 258 0.09
251 864 0.30
252 1030 0.36
253 180 0.06
254 2 0.00
255 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (252 bp):
AAATAACTAAATTTTAAATCTTAACGTAAGTGTGTAAGAGTTAACGTAACAAGTCAATTAAGTAA
AAATAATTTAAATTTAATAAAAAATAAATATTTAAATTTATATTCTCGAATTAAAAGTGTTTAAC
GATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAATTCAAAGTTG
ACATGAAAAAGCCTTGACGTAAAACTGTAAGAATTGACGTAAAAACTTGTAAAGGTG
Found at i:25317993 original size:21 final size:23
Alignment explanation
Indices: 25317975--25318017 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
25317965 TCAATTAAGT
25317975 AAAAAT-AAT-TTAAATTTAATA
1 AAAAATAAATATTAAATTTAATA
25317996 AAAAATAAATAATTAAATTTAA
1 AAAAATAAAT-ATTAAATTTAA
25318018 ATTCTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
24 10 0.53
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATAAATATTAAATTTAATA
Found at i:25360235 original size:2 final size:2
Alignment explanation
Indices: 25360228--25360257 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25360218 CACTAGATAA
25360228 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
25360258 TAATTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25369735 original size:21 final size:21
Alignment explanation
Indices: 25369706--25369751 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25369696 TCTTTATACT
*
25369706 TTTTTTTCCCTATTTTTCTC-C
1 TTTTCTTCCCT-TTTTTCTCTC
25369727 TTTTCTTCCCTTTTTTCTCTC
1 TTTTCTTCCCTTTTTTCTCTC
25369748 TTTT
1 TTTT
25369752 TTTTTCCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTTCCCTTTTTTCTCTC
Found at i:25369741 original size:11 final size:10
Alignment explanation
Indices: 25369706--25369754 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
25369696 TCTTTATACT
25369706 TTTTTTTCCC
1 TTTTTTTCCC
*
25369716 TATTTTTCTCC
1 TTTTTTTC-CC
*
25369727 TTTTCTTCCC
1 TTTTTTTCCC
*
25369737 TTTTTTCTCTC
1 TTTTTT-TCCC
25369748 TTTTTTT
1 TTTTTTT
25369755 TTCCCTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTTTCCC
Found at i:25371845 original size:93 final size:93
Alignment explanation
Indices: 25371722--25371938 Score: 220
Period size: 93 Copynumber: 2.3 Consensus size: 93
25371712 AGCAAAGTGG
* * * * * ** *
25371722 CCAAGTTTACTGATAGAGAAGATGTAGTTTCCTTTGATTCATTGA-AGGGTAGTTCTCATCAACA
1 CCAAGTTTATTGAGAGGGAAGATGCAGTTTCCTCTGATTC-TCCAGAGGATAGTTCTCATCAACA
* * * * *
25371786 GCGTAGGAGGGTTTCTAGAAGCCAGCTAA
65 GCGTAGGAGGATTCCGAGAAGCAAGCAAA
* * * * *
25371815 CCAAGTTTATTGAGAGGGAAGATGCGGTTTCGTCTGATTCTCCAGATGATAGTTCTCTTCAGCAG
1 CCAAGTTTATTGAGAGGGAAGATGCAGTTTCCTCTGATTCTCCAGAGGATAGTTCTCATCAACAG
* *
25371880 CTTAGGAGGATTCCGAGAAGTAAGCAAA
66 CGTAGGAGGATTCCGAGAAGCAAGCAAA
* *
25371908 CCAAGATTCTTGAGAGGGAAGATGCAGTTTC
1 CCAAGTTTATTGAGAGGGAAGATGCAGTTTC
25371939 AGATGATTCA
Statistics
Matches: 100, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
92 2 0.02
93 98 0.98
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (93 bp):
CCAAGTTTATTGAGAGGGAAGATGCAGTTTCCTCTGATTCTCCAGAGGATAGTTCTCATCAACAG
CGTAGGAGGATTCCGAGAAGCAAGCAAA
Found at i:25371946 original size:93 final size:92
Alignment explanation
Indices: 25371771--25372040 Score: 256
Period size: 93 Copynumber: 2.9 Consensus size: 92
25371761 CATTGAAGGG
* * * * * *
25371771 TAGTTCTCATCAACAGCGTAGGAGGGTTTCTAGAAGCCAGCTAACCAAGTTTATTGAGAGGGAAG
1 TAGTTCTCATCAGCAGCTTAGGAGGATTCCTAGAAG-CAGCAAACCAAGATTATTGAGAGGGAAG
* * *
25371836 ATGCGGTTTC-GTCTGATTCTCCAGATGA
65 ATGCAGTTTCAG-ATGATTCACCAGATGA
* * * *
25371864 TAGTTCTCTTCAGCAGCTTAGGAGGATTCCGAGAAGTAAGCAAACCAAGATTCTTGAGAGGGAAG
1 TAGTTCTCATCAGCAGCTTAGGAGGATTCCTAGAAG-CAGCAAACCAAGATTATTGAGAGGGAAG
**
25371929 ATGCAGTTTCAGATGATTCACTGGATGA
65 ATGCAGTTTCAGATGATTCACCAGATGA
* * * * * * ***
25371957 TACTTCTCAGCAGCGGCTTAGAAAGACTCCTAGAAGCAGACAAGGGAA-ATTTATTGAGAGGGAA
1 TAGTTCTCATCAGCAGCTTAGGAGGATTCCTAGAAGCAG-CAAACCAAGA-TTATTGAGAGGGAA
*
25372021 GATGCAGTTTCATATGATTC
64 GATGCAGTTTCAGATGATTC
25372041 GTTGGATGAG
Statistics
Matches: 144, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
92 3 0.02
93 140 0.97
94 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
TAGTTCTCATCAGCAGCTTAGGAGGATTCCTAGAAGCAGCAAACCAAGATTATTGAGAGGGAAGA
TGCAGTTTCAGATGATTCACCAGATGA
Found at i:25372078 original size:93 final size:93
Alignment explanation
Indices: 25371917--25372089 Score: 211
Period size: 93 Copynumber: 1.9 Consensus size: 93
25371907 ACCAAGATTC
* * * * * ****
25371917 TTGAGAGGGAAGATGCAGTTTCAGATGATTCACTGGATGATACTTCTCAGCAGCGGCTTAGAAAG
1 TTGAGAGGGAAGATGCAGTTTCAGATGATTCACTGGATGAGAATTATCACCAACCAAATAGAAAG
25371982 ACTCCTAGAAGCAGACAAGGGAAATTTA
66 ACTCCTAGAAGCAGACAAGGGAAATTTA
* ** * *
25372010 TTGAGAGGGAAGATGCAGTTTCATATGATTCGTTGGATGAGAATTATCACCAACCAAATAGGAGG
1 TTGAGAGGGAAGATGCAGTTTCAGATGATTCACTGGATGAGAATTATCACCAACCAAATAGAAAG
*
25372075 ACTCTTAGAAGCAGA
66 ACTCCTAGAAGCAGA
25372090 AAGAAGAAAG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
93 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (93 bp):
TTGAGAGGGAAGATGCAGTTTCAGATGATTCACTGGATGAGAATTATCACCAACCAAATAGAAAG
ACTCCTAGAAGCAGACAAGGGAAATTTA
Found at i:25373701 original size:4 final size:4
Alignment explanation
Indices: 25373692--25373723 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
25373682 AAGGGGTTAC
25373692 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AGGG
1 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AGGG
25373724 TCTAGAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.75, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:25379151 original size:26 final size:27
Alignment explanation
Indices: 25379115--25379179 Score: 96
Period size: 26 Copynumber: 2.4 Consensus size: 27
25379105 TGTCAATAAG
* **
25379115 AAAGTTGTGTCTTTAGATCCACC-TCT
1 AAAGTTGTGTCTTTACATCCACCAAAT
25379141 AAAGTTGTGTCTTTACATCCACCAAAT
1 AAAGTTGTGTCTTTACATCCACCAAAT
25379168 AAAGTTGTGTCT
1 AAAGTTGTGTCT
25379180 CTTCACTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (27 bp):
AAAGTTGTGTCTTTACATCCACCAAAT
Found at i:25379362 original size:2 final size:2
Alignment explanation
Indices: 25379355--25379485 Score: 199
Period size: 2 Copynumber: 65.5 Consensus size: 2
25379345 TACATAATAC
* *
25379355 AT AT AT AT AT AT AT GT AT AT AT AT AT AT GT 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
* * *
25379397 AT AT GT AT AT AT AT AT AT AT AT AN AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
25379439 AT AT AT AT GT AT AT AT AT AT AT AT AT GT 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
25379481 AT AT A
1 AT AT A
25379486 GGCAAACTGG
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 115 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25392673 original size:2 final size:2
Alignment explanation
Indices: 25392666--25392690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25392656 ACATCACCAA
25392666 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 A
25392691 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25397423 original size:2 final size:2
Alignment explanation
Indices: 25397416--25397442 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25397406 TTAAGGGGAA
25397416 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
25397443 ATAAATTGAG
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:25397669 original size:18 final size:18
Alignment explanation
Indices: 25397646--25397680 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25397636 GCTGAATCTT
*
25397646 ATATCCATAGTGATTCAC
1 ATATCCATAGAGATTCAC
25397664 ATATCCATAGAGATTCA
1 ATATCCATAGAGATTCA
25397681 TATCTCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
ATATCCATAGAGATTCAC
Found at i:25397684 original size:16 final size:17
Alignment explanation
Indices: 25397646--25397684 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
25397636 GCTGAATCTT
*
25397646 ATATCCATAGTGATTCAC
1 ATATCCATAGAGATT-AC
25397664 ATATCCATAGAGATT-C
1 ATATCCATAGAGATTAC
25397680 ATATC
1 ATATC
25397685 TCTAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (17 bp):
ATATCCATAGAGATTAC
Found at i:25403338 original size:47 final size:47
Alignment explanation
Indices: 25403285--25403379 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
25403275 ATGGAGGCTG
25403285 AACAAACTCACATGGTGGAATATATAGCAAATGCACTCAGGAAGAAA
1 AACAAACTCACATGGTGGAATATATAGCAAATGCACTCAGGAAGAAA
25403332 AACAAACTCACATGGTGGAATATATAGCAAATGCACTCAGGAAGAAA
1 AACAAACTCACATGGTGGAATATATAGCAAATGCACTCAGGAAGAAA
25403379 A
1 A
25403380 CGGACATTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (47 bp):
AACAAACTCACATGGTGGAATATATAGCAAATGCACTCAGGAAGAAA
Found at i:25413477 original size:20 final size:20
Alignment explanation
Indices: 25413452--25413497 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
25413442 CTTCTAAACC
*
25413452 TCAAATCATATTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
25413472 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
25413492 TCAAAT
1 TCAAAT
25413498 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:25417483 original size:18 final size:19
Alignment explanation
Indices: 25417446--25417483 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
25417436 CTTTCAATTA
* *
25417446 TTTATTTATTTTTTATATT
1 TTTATTTATGTTTAATATT
25417465 TTTATTT-TGTTTAATATT
1 TTTATTTATGTTTAATATT
25417483 T
1 T
25417484 CAAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTATTTATGTTTAATATT
Found at i:25418029 original size:22 final size:23
Alignment explanation
Indices: 25417995--25418083 Score: 73
Period size: 27 Copynumber: 3.9 Consensus size: 23
25417985 ATTTATTTTT
25417995 ATTAA-AATTTTTAAATATTAATA
1 ATTAATAA-TTTTAAATATTAATA
25418018 ATCTAA-AATTTAATTAAAATATTAATA
1 AT-TAATAA-TT--TT-AAATATTAATA
25418045 ATTAATAA-TTTAAATATTAAT-
1 ATTAATAATTTTAAATATTAATA
*
25418066 ATT--TTATTTTAAATATTA
1 ATTAATAATTTTAAATATTA
25418084 TTATGATTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 15
0.79 0.01 0.20
Matches are distributed among these distances:
19 2 0.03
20 11 0.19
21 3 0.05
22 10 0.17
23 4 0.07
24 8 0.14
25 1 0.02
26 5 0.08
27 15 0.25
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAATAATTTTAAATATTAATA
Found at i:25418128 original size:22 final size:21
Alignment explanation
Indices: 25418103--25418176 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 21
25418093 ATTTTTATTT
25418103 TATTTTATTTCTAAAATATTAA
1 TATTTTATTT-TAAAATATTAA
*
25418125 TATTTTA-TTTATAAT-TTAA
1 TATTTTATTTTAAAATATTAA
*
25418144 TTATTCATATTTTAAAATATTAA
1 -TATT-TTATTTTAAAATATTAA
25418167 TATTTTATTT
1 TATTTTATTT
25418177 AATTTAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 4 0.09
20 9 0.20
21 9 0.20
22 18 0.41
23 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTATTTTAAAATATTAA
Found at i:25418157 original size:15 final size:15
Alignment explanation
Indices: 25418039--25418173 Score: 63
Period size: 15 Copynumber: 9.2 Consensus size: 15
25418029 AATTAAAATA
* *
25418039 TTAATAATTAATAAT
1 TTAATTATTAATATT
*
25418054 TTAAATATTAATATT
1 TTAATTATTAATATT
25418069 TT-ATT-TTAAATATT
1 TTAATTATT-AATATT
*
25418083 ATT-ATGATTAAT-TT
1 -TTAATTATTAATATT
* *
25418097 TTATTTTATT-TTATT
1 TTA-ATTATTAATATT
*
25418112 TCTAAAATATTAATATT
1 T-T-AATTATTAATATT
*
25418129 TT-A-T-TT-ATAAT
1 TTAATTATTAATATT
*
25418140 TTAATTATTCATATT
1 TTAATTATTAATATT
*
25418155 TTAAAATATTAATATT
1 TT-AATTATTAATATT
25418171 TTA
1 TTA
25418174 TTTAATTTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
11 6 0.07
12 3 0.03
13 6 0.07
14 14 0.15
15 35 0.38
16 21 0.23
17 6 0.07
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TTAATTATTAATATT
Found at i:25418275 original size:27 final size:28
Alignment explanation
Indices: 25418218--25418276 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
25418208 TTTATTTTAT
* *
25418218 TTTATTTTTAAATATTAATAATTGGTAA
1 TTTATTTTAAAATATTAATAATTGATAA
*
25418246 TTTA-TTTAAAATATTAATAATTGATGA
1 TTTATTTTAAAATATTAATAATTGATAA
25418273 TTTA
1 TTTA
25418277 ATTATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (28 bp):
TTTATTTTAAAATATTAATAATTGATAA
Found at i:25418355 original size:117 final size:112
Alignment explanation
Indices: 25418140--25418416 Score: 283
Period size: 113 Copynumber: 2.4 Consensus size: 112
25418130 TATTTATAAT
* * * *
25418140 TTAATTATTCATATTTTAAAATATTAATATTTTAT-T-TAATTTAAAT-ATTATTATGATTAATT
1 TTAATAATTGATAATTT-AAATATTAATATTTTATATATAATTTAAATGA-TGTTATG--T--TT
* * ** *
25418202 TTTTATTTTATTTTATTTTATTTTTAAATATTAATAATTGGTAATTTATTTAAAATA
60 ATTTATTTTAATTTATTTTATTTTTAAATAAGAATAATTGATAATTTATTT----TA
* *
25418259 TTAATAATTGATGATTTAATTATTAATATTGTT-TATATAATTTAAATGATGTTATGTTTATTTA
1 TTAATAATTGATAATTTAAATATTAATATT-TTATATATAATTTAAATGATGTTATGTTTATTTA
* *
25418323 TTTTTAATTTATTTTGTTTTTAAATAAGAATAATTTATAATTTATTTTA
65 -TTTTAATTTATTTTATTTTTAAATAAGAATAATTGATAATTTATTTTA
* *
25418372 TTATTAATTGATAATTTAAATATTAATATTTTATTTATAATTTAA
1 TTAATAATTGATAATTTAAATATTAATATTTTATATATAATTTAA
25418417 TATTAATATT
Statistics
Matches: 135, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
112 2 0.01
113 40 0.30
116 6 0.04
117 40 0.30
118 14 0.10
119 16 0.12
120 16 0.12
121 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (112 bp):
TTAATAATTGATAATTTAAATATTAATATTTTATATATAATTTAAATGATGTTATGTTTATTTAT
TTTAATTTATTTTATTTTTAAATAAGAATAATTGATAATTTATTTTA
Found at i:25418390 original size:12 final size:12
Alignment explanation
Indices: 25418353--25418417 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
25418343 TAAATAAGAA
25418353 TAATTTATAATT
1 TAATTTATAATT
* *
25418365 TATTTTATTA-T
1 TAATTTATAATT
*
25418376 TAATTGATAATT
1 TAATTTATAATT
25418388 TAAATATTA-ATATT
1 T-AAT-TTATA-ATT
*
25418402 TTATTTATAATT
1 TAATTTATAATT
25418414 TAAT
1 TAAT
25418418 ATTAATATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
11 8 0.20
12 19 0.47
13 7 0.17
14 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
TAATTTATAATT
Found at i:25418407 original size:19 final size:19
Alignment explanation
Indices: 25418385--25418447 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
25418375 TTAATTGATA
25418385 ATTTAAATATTAATATTTT
1 ATTTAAATATTAATATTTT
*
25418404 ATTTATAAT-TTAATATTAAT
1 ATTTA-AATATTAATATT-TT
25418424 ATTGTAAAATATTAATATTTT
1 ATT-T-AAATATTAATATTTT
25418445 ATT
1 ATT
25418448 AAAAGTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 13 0.35
20 7 0.19
21 8 0.22
22 9 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTAAATATTAATATTTT
Found at i:25418412 original size:113 final size:117
Alignment explanation
Indices: 25418176--25418421 Score: 281
Period size: 117 Copynumber: 2.1 Consensus size: 117
25418166 ATATTTTATT
* * **
25418176 TAATTTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTATTTTTAAATATTAATAATT
1 TAATTTAAATATTATTATGATTAATTTTATATTTTAATTTATTTTATTTTTAAATAAGAATAATT
* * * *
25418241 GGTAATTTATTTAAAATATTAATAATTGATGATTTAATTATTAATATTGTT-TATA
66 GATAATTTATTT---ATATTAATAATTGATAATTTAAATATTAATATT-TTATTTA
* * *
25418296 TAATTTAAATGA-TGTTATG-TTTA-TTTAT-TTTTAATTTATTTTGTTTTTAAATAAGAATAAT
1 TAATTTAAAT-ATTATTATGATTAATTTTATATTTTAATTTATTTTATTTTTAAATAAGAATAAT
* *
25418357 TTATAATTTATTT-TATTATTAATTGATAATTTAAATATTAATATTTTATTTA
65 TGATAATTTATTTATATTAATAATTGATAATTTAAATATTAATATTTTATTTA
25418409 TAATTT-AATATTA
1 TAATTTAAATATTA
25418422 ATATTGTAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
111 1 0.01
112 6 0.06
113 38 0.35
117 40 0.37
118 4 0.04
119 3 0.03
120 16 0.15
121 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (117 bp):
TAATTTAAATATTATTATGATTAATTTTATATTTTAATTTATTTTATTTTTAAATAAGAATAATT
GATAATTTATTTATATTAATAATTGATAATTTAAATATTAATATTTTATTTA
Found at i:25418418 original size:25 final size:25
Alignment explanation
Indices: 25418353--25418426 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
25418343 TAAATAAGAA
* *
25418353 TAATTTATAATTT-ATTTTATTA-T
1 TAATTTATAATTTAATATTAATATT
*
25418376 TAATTGATAATTTAAATATTAATATT
1 TAATTTATAATTT-AATATTAATATT
*
25418402 TTATTTATAATTTAATATTAATATT
1 TAATTTATAATTTAATATTAATATT
25418427 GTAAAATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 12 0.28
25 19 0.44
26 12 0.28
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TAATTTATAATTTAATATTAATATT
Found at i:25422854 original size:39 final size:39
Alignment explanation
Indices: 25422811--25422898 Score: 167
Period size: 39 Copynumber: 2.3 Consensus size: 39
25422801 CATCTAGAAA
25422811 TGATATTCAAACATAAATACTCTCAAAGTCCCAACAAAT
1 TGATATTCAAACATAAATACTCTCAAAGTCCCAACAAAT
*
25422850 TGATATTCAAGCATAAATACTCTCAAAGTCCCAACAAAT
1 TGATATTCAAACATAAATACTCTCAAAGTCCCAACAAAT
25422889 TGATATTCAA
1 TGATATTCAA
25422899 CCATCAGTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (39 bp):
TGATATTCAAACATAAATACTCTCAAAGTCCCAACAAAT
Found at i:25422922 original size:39 final size:39
Alignment explanation
Indices: 25422811--25422927 Score: 139
Period size: 39 Copynumber: 3.0 Consensus size: 39
25422801 CATCTAGAAA
* **
25422811 TGATATTCAAACATAAATACTCTCAAAGTCCCAACAAAT
1 TGATATTCAACCATAAATACTCTCAAAAACCCAACAAAT
* **
25422850 TGATATTCAAGCATAAATACTCTCAAAGTCCCAACAAAT
1 TGATATTCAACCATAAATACTCTCAAAAACCCAACAAAT
* *
25422889 TGATATTCAACCATCAGTA-TCCTCAAAAACCCAA-AAAT
1 TGATATTCAACCATAAATACT-CTCAAAAACCCAACAAAT
25422927 T
1 T
25422928 TCGGAAGACT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
38 6 0.08
39 65 0.92
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (39 bp):
TGATATTCAACCATAAATACTCTCAAAAACCCAACAAAT
Found at i:25423653 original size:21 final size:19
Alignment explanation
Indices: 25423605--25423653 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
25423595 AAAAAAACAG
25423605 GTAGAGAAG-AAAGCCAAA
1 GTAGAGAAGAAAAGCCAAA
*
25423623 G-A-AAAAGAAAAGTACCAAA
1 GTAGAGAAGAAAAG--CCAAA
25423642 GTAGAGAAGAAA
1 GTAGAGAAGAAA
25423654 TTTCTAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 1 0.04
19 6 0.25
20 1 0.04
21 7 0.29
ACGTcount: A:0.61, C:0.08, G:0.24, T:0.06
Consensus pattern (19 bp):
GTAGAGAAGAAAAGCCAAA
Found at i:25425576 original size:2 final size:2
Alignment explanation
Indices: 25425565--25425608 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
25425555 TAAATCTTGA
25425565 AT AT -T AT AT AT 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
25425606 AT A
1 AT A
25425609 AAATAATGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25426435 original size:121 final size:120
Alignment explanation
Indices: 25426221--25426585 Score: 500
Period size: 121 Copynumber: 3.0 Consensus size: 120
25426211 CAACCAAGCG
* * * * * *
25426221 AGGTAAATCGAATA-ACATAATGTCCATTCTCGAAGGCCAAATAACTAGAATGGAGGTGGCTGTG
1 AGGTAAATCGAA-AGACATGATGTCCACTCTCGAAGGCCGAGTAACCAGAATGGAGGTGGCCGTG
* *
25426285 GGAGAGATGAGGGACAGACTTAAAGAGTTCGAGGCTAACATGGATGAGTTGGGGTCT
65 GGAGAGATGAGGGACAGACTTGAGGAGTTCGAGG-TAACATGGATGAGTTGGGGTCT
* *
25426342 AGGTAAATCGAAAGACATGATGTCCACTCTCGAAGGTCGAGTAACCAGAATGGAGGTGGCCATGG
1 AGGTAAATCGAAAGACATGATGTCCACTCTCGAAGGCCGAGTAACCAGAATGGAGGTGGCCGTGG
* * * *
25426407 GAGATATGAGGGACAAACTTGAGGAGTTCAAGGTCAACATGGATGAGTTGGGGTTT
66 GAGAGATGAGGGACAGACTTGAGGAGTTCGAGGT-AACATGGATGAGTTGGGGTCT
* *
25426463 AGGTAAATC-AAAGGACATGATGCCCACTCTTGAAGGCCGAGTAACCAGAATGGAGGTGGCCGTG
1 AGGTAAATCGAAA-GACATGATGTCCACTCTCGAAGGCCGAGTAACCAGAATGGAGGTGGCCGTG
* * *
25426527 GGAGAGATGGGGGGCAGACTTGAGGAGTTCGAGGTTAACATGGATGAGTTGAGGTCT
65 GGAGAGATGAGGGACAGACTTGAGGAGTTCGAGG-TAACATGGATGAGTTGGGGTCT
25426584 AG
1 AG
25426586 ATATGACGAG
Statistics
Matches: 215, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
120 5 0.02
121 209 0.97
122 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (120 bp):
AGGTAAATCGAAAGACATGATGTCCACTCTCGAAGGCCGAGTAACCAGAATGGAGGTGGCCGTGG
GAGAGATGAGGGACAGACTTGAGGAGTTCGAGGTAACATGGATGAGTTGGGGTCT
Found at i:25428697 original size:21 final size:24
Alignment explanation
Indices: 25428673--25428718 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
25428663 ACTTATCAAA
25428673 TAAACAATT-AATTAA-TTT-TTT
1 TAAACAATTAAATTAACTTTATTT
*
25428694 TAAACGATTAAATTAACTTTATTT
1 TAAACAATTAAATTAACTTTATTT
25428718 T
1 T
25428719 GTAATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 6 0.29
23 3 0.14
24 4 0.19
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
TAAACAATTAAATTAACTTTATTT
Found at i:25429407 original size:16 final size:16
Alignment explanation
Indices: 25429388--25429422 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
25429378 TTTTTCCTTT
25429388 TTTTTTTCTTTCTCGC
1 TTTTTTTCTTTCTCGC
*
25429404 TTTTTTTCTTTCTCTC
1 TTTTTTTCTTTCTCGC
25429420 TTT
1 TTT
25429423 CCTTCTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTTCTTTCTCGC
Found at i:25429474 original size:16 final size:16
Alignment explanation
Indices: 25429453--25429506 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
25429443 GGCCCGCAGC
25429453 TCTCTTTTTTCTTTCT
1 TCTCTTTTTTCTTTCT
25429469 TCTCTTTTTT-TCTTCT
1 TCTCTTTTTTCT-TTCT
*
25429485 TCTTCTTTCTCTCTTTCT
1 TC-TCTTT-TTTCTTTCT
25429503 TCTC
1 TCTC
25429507 CTTTCGTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 1 0.03
16 16 0.48
17 7 0.21
18 8 0.24
19 1 0.03
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTCTTTTTTCTTTCT
Found at i:25429482 original size:13 final size:14
Alignment explanation
Indices: 25429459--25429500 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
25429449 CAGCTCTCTT
25429459 TTTTCTTTCTTCTC
1 TTTTCTTTCTTCTC
25429473 TTTT-TTTCTTCT-
1 TTTTCTTTCTTCTC
*
25429485 TCTTCTTTC-TCTC
1 TTTTCTTTCTTCTC
25429498 TTT
1 TTT
25429501 CTTCTCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 6 0.25
13 14 0.58
14 4 0.17
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCTTTCTTCTC
Found at i:25429957 original size:11 final size:11
Alignment explanation
Indices: 25429941--25429978 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
25429931 TCCTCTATTC
25429941 TTTTTTTATAA
1 TTTTTTTATAA
25429952 TTTTTTTATAA
1 TTTTTTTATAA
25429963 TTTTATTTTATAA
1 -TTT-TTTTATAA
25429976 TTT
1 TTT
25429979 ATATTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 6 0.24
13 8 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:25429958 original size:12 final size:12
Alignment explanation
Indices: 25429941--25430005 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
25429931 TCCTCTATTC
25429941 TTTTTTTATAA-
1 TTTTTTTATAAT
25429952 TTTTTTTATAAT
1 TTTTTTTATAAT
25429964 TTTATTTTATAAT
1 TTT-TTTTATAAT
*
25429977 TTATATTTTATTAT
1 TT-T-TTTTATAAT
* *
25429991 TATTTTTATTAT
1 TTTTTTTATAAT
25430003 TTT
1 TTT
25430006 AGAAGTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
11 11 0.23
12 14 0.29
13 12 0.25
14 11 0.23
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTTATAAT
Found at i:25429979 original size:20 final size:19
Alignment explanation
Indices: 25429956--25430006 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
25429946 TTATAATTTT
25429956 TTTATAATTTTATT-TTATAA
1 TTTAT-ATTTTATTATTAT-A
*
25429976 TTTATATTTTATTATTATT
1 TTTATATTTTATTATTATA
25429995 TTTATTATTTTA
1 TTTA-TATTTTA
25430007 GAAGTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATATTTTATTATTATA
Found at i:25433009 original size:12 final size:11
Alignment explanation
Indices: 25432978--25433010 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
25432968 ATATAATAAA
25432978 AAATTTA-TTT
1 AAATTTATTTT
25432988 AAATTTATTTT
1 AAATTTATTTT
25432999 AAATATTATTTT
1 AAAT-TTATTTT
25433011 TATTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 7 0.33
12 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
AAATTTATTTT
Found at i:25436595 original size:24 final size:24
Alignment explanation
Indices: 25436563--25436614 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
25436553 TTAGATTGTT
*
25436563 ACACATCATGTACAGAAATATGTG
1 ACACATCATGTACAAAAATATGTG
25436587 ACACATCATGTACAAAAATATGTG
1 ACACATCATGTACAAAAATATGTG
25436611 ACAC
1 ACAC
25436615 GTTATACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.23
Consensus pattern (24 bp):
ACACATCATGTACAAAAATATGTG
Found at i:25436737 original size:24 final size:24
Alignment explanation
Indices: 25436705--25436778 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
25436695 ATAATACTGT
*
25436705 TATTGCACACCATGTACAAAAATA
1 TATTACACACCATGTACAAAAATA
*
25436729 TATTACACACCATGATTAAAAAAAGT-
1 TATTACACACCATG--TACAAAAA-TA
** *
25436755 TATTACACGTCATGTTCAAAAATA
1 TATTACACACCATGTACAAAAATA
25436779 AATATTATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 1 0.03
24 19 0.47
26 19 0.47
27 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (24 bp):
TATTACACACCATGTACAAAAATA
Found at i:25436758 original size:26 final size:24
Alignment explanation
Indices: 25436703--25436762 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
25436693 AAATAATACT
* *
25436703 GTTATTGCACACCATGTACAAAAA
1 GTTATTACACACCATGTAAAAAAA
25436727 -TATATTACACACCATGATTAAAAAAA
1 GT-TATTACACACCATG--TAAAAAAA
25436753 GTTATTACAC
1 GTTATTACAC
25436763 GTCATGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 13 0.43
26 15 0.50
27 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (24 bp):
GTTATTACACACCATGTAAAAAAA
Found at i:25436793 original size:32 final size:31
Alignment explanation
Indices: 25436754--25436837 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 31
25436744 TTAAAAAAAG
25436754 TTATTACACGTCATGTTCAAAAATAAATATTA
1 TTATTACACGTCATGTTCAAAAA-AAATATTA
* * *
25436786 TTGTTACACGACATGTT--GAAAAAATATTA
1 TTATTACACGTCATGTTCAAAAAAAATATTA
*
25436815 TTATTACACGTCATATTCAAAAA
1 TTATTACACGTCATGTTCAAAAA
25436838 CATTTTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 22 0.51
30 3 0.07
31 3 0.07
32 15 0.35
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (31 bp):
TTATTACACGTCATGTTCAAAAAAAATATTA
Found at i:25436810 original size:29 final size:28
Alignment explanation
Indices: 25436778--25436850 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
25436768 GTTCAAAAAT
*
25436778 AAATATTATTGTTACACGACATGTTGAAA
1 AAATATTATTGTTACACGACATATT-AAA
* * *
25436807 AAATATTATTATTACACGTCATATTCAA
1 AAATATTATTGTTACACGACATATTAAA
*
25436835 AAACATT-TTGTTACAC
1 AAATATTATTGTTACAC
25436851 TTTAATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 8 0.21
28 8 0.21
29 22 0.58
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (28 bp):
AAATATTATTGTTACACGACATATTAAA
Found at i:25437836 original size:2 final size:2
Alignment explanation
Indices: 25437829--25437942 Score: 131
Period size: 2 Copynumber: 56.5 Consensus size: 2
25437819 TTTTGCTACA
25437829 AT AT AT AT AT AT 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
* * * * * * *
25437871 AT AT AGT AT GT GT GT GT GT GT GT NA- AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
*
25437914 AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25437943 GATGTGTGTG
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
1 1 0.01
2 102 0.97
3 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25442612 original size:20 final size:19
Alignment explanation
Indices: 25442575--25442633 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 19
25442565 CGTTAATAAT
*
25442575 AAAAATATAT-TTAATTTA
1 AAAAATATATATAAATTTA
25442593 AAAAATATATATAAATTTTA
1 AAAAATATATATAAA-TTTA
* *
25442613 ATTAAATATAATAAAAATTTA
1 A-AAAATAT-ATATAAATTTA
25442634 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 10 0.29
19 3 0.09
20 5 0.15
21 10 0.29
22 6 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATATATATAAATTTA
Found at i:25442633 original size:21 final size:21
Alignment explanation
Indices: 25442587--25442639 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
25442577 AAATATATTT
*
25442587 AATTTAA-AAAATATATATAA
1 AATTTAATTAAATATATATAA
*
25442607 ATTTTAATTAAATATA-ATAAA
1 AATTTAATTAAATATATAT-AA
*
25442628 AATTTATTTAAA
1 AATTTAATTAAA
25442640 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTAATTAAATATATATAA
Found at i:25442659 original size:30 final size:31
Alignment explanation
Indices: 25442588--25442659 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
25442578 AATATATTTA
*
25442588 ATTTAAAAAATATATATAAATTTTAATTAAAT
1 ATTTAAAAAATATATATAAAATTT-ATTAAAT
* * *
25442620 A-TAATAAAAATTTATTTAAAATTT-TTAAAT
1 ATTTA-AAAAATATATATAAAATTTATTAAAT
25442650 ATTTAAAAAA
1 ATTTAAAAAA
25442660 AAAATTTAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
30 12 0.36
31 4 0.12
32 17 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATTTAAAAAATATATATAAAATTTATTAAAT
Found at i:25447114 original size:2 final size:2
Alignment explanation
Indices: 25447098--25447176 Score: 130
Period size: 2 Copynumber: 41.5 Consensus size: 2
25447088 ATCTTTCTTA
25447098 AT AT AT A- AT AT -T 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
25447138 AT AT AT AT AT AT AT A- 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 AT AT AT AT AT AT AT A
25447177 AATAAAGAAC
Statistics
Matches: 73, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
1 4 0.05
2 69 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25447525 original size:28 final size:28
Alignment explanation
Indices: 25447483--25447540 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
25447473 AAAAAGTTTC
25447483 TTATATTTAAAAAATTAA-ATAATTTTTA
1 TTATATTTAAAAAATTAATAT-ATTTTTA
** *
25447511 TTATATTTATTAAATTTATATATTTTTA
1 TTATATTTAAAAAATTAATATATTTTTA
25447539 TT
1 TT
25447541 TTACGTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATATTTAAAAAATTAATATATTTTTA
Found at i:25447861 original size:26 final size:26
Alignment explanation
Indices: 25447804--25447863 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
25447794 ATTAAATAAT
* *
25447804 TTTTTATTATTTTAATTAAATTTATA
1 TTTTTATTATTTTAATCAAATTGATA
*
25447830 TATTTT-TTATTTTACGTCAAATTGATA
1 T-TTTTATTATTTTA-ATCAAATTGATA
25447857 TTTTTAT
1 TTTTTAT
25447864 AATTAATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTTATTATTTTAATCAAATTGATA
Found at i:25448030 original size:300 final size:296
Alignment explanation
Indices: 25447462--25448058 Score: 1117
Period size: 300 Copynumber: 2.0 Consensus size: 296
25447452 CAAAGTTAAG
25447462 ATATAATATTTAAAAAGTTTCTTATATTTAAAAAATTAAATAATTTTTATTATATTTATTAAATT
1 ATATAATATTTAAAAAGTTTCTTATATTTAAAAAATTAAATAATTTTTATTATATTTATTAAATT
25447527 TATATATTTTTATTTTACGTCAAATTGATATTTTTATAATTAATAGTTACAAAACGTCAGAAGTC
66 TATATATTTTTATTTTACGTCAAATTGATATTTTTATAATTAATAGTTACAAAACGTCAGAAGTC
25447592 ATTTTATATTCAATTTCTATTAATATGACATTTACGTGAAAAGTGACAAATTTAATGTGATTATA
131 ATTTTATATTCAATTTCTATTAATATGACATTTACGTGAAAAGTGACAAATTTAATGTGATTATA
25447657 TTATCATATTATATCAATTTTAAAAAAATATTACTTAATTATATGTAATAGTGCTGTTAGAATTT
196 TTATCATATTATATCAATTTTAAAAAAATATTACTTAATTATATGTAATAGTGCTGTTAGAATTT
25447722 TTTTGATTAATATGAAAATATATTTGAATCTCAGTT
261 TTTTGATTAATATGAAAATATATTTGAATCTCAGTT
*
25447758 NATATAATATTTAAAAAAGTTTCTTAT-TTATTAAAAATTAAATAATTTTTTATTAT-TTTAATT
1 -ATATAATATTT-AAAAAGTTTCTTATATT-TAAAAAATTAAATAA-TTTTTATTATATTT-ATT
25447821 AAATTTATATATTTTTTATTTTACGTCAAATTGATATTTTTATAATTAATAGTTACAAAACGTCA
61 AAATTTATATA-TTTTTATTTTACGTCAAATTGATATTTTTATAATTAATAGTTACAAAACGTCA
25447886 GAAGTCATTTTATATTCAATTTCTATTAATATGACATTTACGTGAAAAGTGACAAATTTAATGTG
125 GAAGTCATTTTATATTCAATTTCTATTAATATGACATTTACGTGAAAAGTGACAAATTTAATGTG
25447951 ATTATATTATCATATTATATCAATTTTAAAAAAATATTACTTAATTATATGTAATAGTGCTGTTA
190 ATTATATTATCATATTATATCAATTTTAAAAAAATATTACTTAATTATATGTAATAGTGCTGTTA
25448016 GAATTTTTTTGATTAATATGAAAATATATTTGAATCTCAGTT
255 GAATTTTTTTGATTAATATGAAAATATATTTGAATCTCAGTT
25448058 A
1 A
25448059 CATGTAACGG
Statistics
Matches: 294, Mismatches: 1, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
297 13 0.04
298 31 0.11
299 25 0.09
300 225 0.77
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (296 bp):
ATATAATATTTAAAAAGTTTCTTATATTTAAAAAATTAAATAATTTTTATTATATTTATTAAATT
TATATATTTTTATTTTACGTCAAATTGATATTTTTATAATTAATAGTTACAAAACGTCAGAAGTC
ATTTTATATTCAATTTCTATTAATATGACATTTACGTGAAAAGTGACAAATTTAATGTGATTATA
TTATCATATTATATCAATTTTAAAAAAATATTACTTAATTATATGTAATAGTGCTGTTAGAATTT
TTTTGATTAATATGAAAATATATTTGAATCTCAGTT
Found at i:25448776 original size:22 final size:22
Alignment explanation
Indices: 25448726--25448819 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 22
25448716 TCAGTTTTGG
*
25448726 TGATTTTTGAGA-ATTATGTGA-
1 TGATTTTT-AGACATTACGTGAC
*
25448747 TTAGTTTTTAGACATTACGTGAC
1 TGA-TTTTTAGACATTACGTGAC
* * *
25448770 TGA-TTTTGGATATTGCGTGAC
1 TGATTTTTAGACATTACGTGAC
* * *
25448791 TGAATTTGAG-CATTACATGAC
1 TGATTTTTAGACATTACGTGAC
25448812 TGATTTTT
1 TGATTTTT
25448820 GATAAGGCAT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
21 37 0.66
22 17 0.30
23 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (22 bp):
TGATTTTTAGACATTACGTGAC
Found at i:25448837 original size:26 final size:25
Alignment explanation
Indices: 25448808--25449095 Score: 207
Period size: 26 Copynumber: 12.0 Consensus size: 25
25448798 GAGCATTACA
25448808 TGACTGATTTTTGATAAGGCATTGCG
1 TGACT-ATTTTTGATAAGGCATTGCG
* *
25448834 TGACTAGTTTCTAATAAGGCATTGCG
1 TGACTA-TTTTTGATAAGGCATTGCG
* * *
25448860 TGACTA--GTTAAT-AGGCATTGTG
1 TGACTATTTTTGATAAGGCATTGCG
* *
25448882 TGACTGAATTTAGAT-----ATTGCG
1 TGACT-ATTTTTGATAAGGCATTGCG
* * *
25448903 TGACTAGTTTTTGATAAGACATTACA
1 TGACTA-TTTTTGATAAGGCATTGCG
*
25448929 TGACTAGTTTCTGATAAGGCATTGCG
1 TGACTA-TTTTTGATAAGGCATTGCG
*
25448955 TGACTAGTTTTTGATAAGGCATTGCA
1 TGACTA-TTTTTGATAAGGCATTGCG
*
25448981 TGACTAGTTTTTGATAAGGCATTGCA
1 TGACTA-TTTTTGATAAGGCATTGCG
* *
25449007 TGACTA--ATTGAT-AGGCATTGCA
1 TGACTATTTTTGATAAGGCATTGCG
*
25449029 TGACTA--GTTGAT-AGGCATTGCG
1 TGACTATTTTTGATAAGGCATTGCG
* *
25449051 TGACT-TGTTAG-TAAGGCATTGCG
1 TGACTATTTTTGATAAGGCATTGCG
* *
25449074 TGACTA-GTTAG-TAAGGCATTGC
1 TGACTATTTTTGATAAGGCATTGC
25449096 TTAAAAATCA
Statistics
Matches: 224, Mismatches: 24, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.00
21 16 0.07
22 50 0.22
23 43 0.19
25 4 0.02
26 110 0.49
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (25 bp):
TGACTATTTTTGATAAGGCATTGCG
Found at i:25448949 original size:95 final size:95
Alignment explanation
Indices: 25448781--25448963 Score: 262
Period size: 95 Copynumber: 1.9 Consensus size: 95
25448771 GATTTTGGAT
* * *
25448781 ATTGCGTGACTGAATTTGAGCATTACATGACTGATTTTTGATAAGGCATTGCGTGACTAGTTTCT
1 ATTGCGTGACTGAATTTGAGCATTACATGACTGATTTTTGATAAGACATTACATGACTAGTTTCT
25448846 AATAAGGCATTGCGTGACTAGTTAATAGGC
66 AATAAGGCATTGCGTGACTAGTTAATAGGC
* * * *
25448876 ATTGTGTGACTGAATTT-AGATATTGCGTGACT-AGTTTTTGATAAGACATTACATGACTAGTTT
1 ATTGCGTGACTGAATTTGAG-CATTACATGACTGA-TTTTTGATAAGACATTACATGACTAGTTT
*
25448939 CTGATAAGGCATTGCGTGACTAGTT
64 CTAATAAGGCATTGCGTGACTAGTT
25448964 TTTGATAAGG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 3 0.04
95 75 0.96
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (95 bp):
ATTGCGTGACTGAATTTGAGCATTACATGACTGATTTTTGATAAGACATTACATGACTAGTTTCT
AATAAGGCATTGCGTGACTAGTTAATAGGC
Found at i:25448949 original size:121 final size:116
Alignment explanation
Indices: 25448765--25448989 Score: 317
Period size: 121 Copynumber: 1.9 Consensus size: 116
25448755 TAGACATTAC
* * *
25448765 GTGACTGATTTTGGATATTGCGTGACTGAATTTGAGCATTACATGACTGATTTTTGATAAGGCAT
1 GTGACTGAATTTAGATATTGCGTGACTGAATTTGAGCATTACATGACTGATTTCTGATAAGGCAT
*
25448830 TGCGTGACTAGTTTCTAATAAGGCATTGCGTGACTAGTTAATAGGCATTGT
66 TGCGTGACTAGTTTCTAATAAGGCATTGCATGACTAGTTAATAGGCATTGT
**
25448881 GTGACTGAATTTAGATATTGCGTGACTAGTTTTTGATAAGACATTACATGACT-AGTTTCTGATA
1 GTGACTGAATTTAGATATTGCGTGACT-GAATTTG---AG-CATTACATGACTGA-TTTCTGATA
* *
25448945 AGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAGTT
60 AGGCATTGCGTGACTAGTTTCTAATAAGGCATTGCATGACTAGTT
25448990 TTTGATAAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
116 25 0.26
117 5 0.05
120 3 0.03
121 62 0.65
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (116 bp):
GTGACTGAATTTAGATATTGCGTGACTGAATTTGAGCATTACATGACTGATTTCTGATAAGGCAT
TGCGTGACTAGTTTCTAATAAGGCATTGCATGACTAGTTAATAGGCATTGT
Found at i:25448959 original size:52 final size:51
Alignment explanation
Indices: 25448815--25449095 Score: 244
Period size: 52 Copynumber: 5.8 Consensus size: 51
25448805 ACATGACTGA
* *
25448815 TTTTTGATAAGGCATTGCGTGACTAGTTTCTAATAAGGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCATGACTAGTTT-TGATAAGGCATTGCGTGACTAG
* ** * *
25448867 ---TTAAT-AGGCATTGTGTGACTGAATTTAGAT-----ATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCATGACT-AGTTTTGATAAGGCATTGCGTGACTAG
* *
25448910 TTTTTGATAAGACATTACATGACTAGTTTCTGATAAGGCATTGCGTGACTAG
1 TTTTTGATAAGGCATTGCATGACTAGTTT-TGATAAGGCATTGCGTGACTAG
*
25448962 TTTTTGATAAGGCATTGCATGACTAGTTTTTGATAAGGCATTGCATGACTA-
1 TTTTTGATAAGGCATTGCATGACTAG-TTTTGATAAGGCATTGCGTGACTAG
*
25449013 --ATTGAT-AGGCATTGCATGACTAG--TTGAT-AGGCATTGCGTGACT--
1 TTTTTGATAAGGCATTGCATGACTAGTTTTGATAAGGCATTGCGTGACTAG
* * * *
25449056 TGTTAG-TAAGGCATTGCGTGACTAG-TTAG-TAAGGCATTGC
1 TTTTTGATAAGGCATTGCATGACTAGTTTTGATAAGGCATTGC
25449096 TTAAAAATCA
Statistics
Matches: 191, Mismatches: 21, Indels: 40
0.76 0.08 0.16
Matches are distributed among these distances:
43 13 0.07
44 15 0.08
45 24 0.13
46 19 0.10
47 14 0.07
48 33 0.17
49 13 0.07
52 57 0.30
53 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (51 bp):
TTTTTGATAAGGCATTGCATGACTAGTTTTGATAAGGCATTGCGTGACTAG
Found at i:25448996 original size:78 final size:74
Alignment explanation
Indices: 25448800--25449037 Score: 211
Period size: 74 Copynumber: 3.2 Consensus size: 74
25448790 CTGAATTTGA
* * * * * * *
25448800 GCATTACATGACT-GATTTTTGATAAGGCATTGCGTGACTAGTTTCTAATAAGGCATTGCGTGAC
1 GCATTGCATGACTAG-TTTTTGATAAGGCATTGCATGACTAGTTTTTGATAAGACATTACATGAC
* *
25448864 TAGTTAATAG
65 TAATTGATAG
** * * *
25448874 GCATTGTGTGACT-GAATTTAGAT-----ATTGCGTGACTAGTTTTTGATAAGACATTACATGAC
1 GCATTGCATGACTAG-TTTTTGATAAGGCATTGCATGACTAGTTTTTGATAAGACATTACATGAC
*
25448933 TAGTTTCTGATAAG
65 TA--AT-TGAT-AG
* * *
25448947 GCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAGTTTTTGATAAGGCATTGCATGACT
1 GCATTGCATGACTAGTTTTTGATAAGGCATTGCATGACTAGTTTTTGATAAGACATTACATGACT
25449012 AATTGATAG
66 AATTGATAG
25449021 GCATTGCATGACTAGTT
1 GCATTGCATGACTAGTT
25449038 GATAGGCATT
Statistics
Matches: 134, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
69 33 0.25
71 1 0.01
72 3 0.02
73 20 0.15
74 37 0.28
75 4 0.03
76 1 0.01
78 35 0.26
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (74 bp):
GCATTGCATGACTAGTTTTTGATAAGGCATTGCATGACTAGTTTTTGATAAGACATTACATGACT
AATTGATAG
Found at i:25449129 original size:21 final size:21
Alignment explanation
Indices: 25449105--25449158 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
25449095 CTTAAAAATC
* *
25449105 AATCACGCAATGTATAAAACT
1 AATCACGTAATGCATAAAACT
*
25449126 AATCACGTAATGCCTAAAACT
1 AATCACGTAATGCATAAAACT
25449147 AATCACGTAATG
1 AATCACGTAATG
25449159 ATTAAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (21 bp):
AATCACGTAATGCATAAAACT
Found at i:25449164 original size:21 final size:20
Alignment explanation
Indices: 25449105--25449165 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
25449095 CTTAAAAATC
*
25449105 AATCACGCAATGTATAAAACT
1 AATCACGTAATGT-TAAAACT
*
25449126 AATCACGTAATGCCTAAAACT
1 AATCACGTAATG-TTAAAACT
25449147 AATCACGTAATGATTAAAA
1 AATCACGTAATG-TTAAAA
25449166 ACTAGTCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.10, T:0.25
Consensus pattern (20 bp):
AATCACGTAATGTTAAAACT
Found at i:25449574 original size:22 final size:22
Alignment explanation
Indices: 25449546--25449603 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
25449536 CTTTCTTCCT
25449546 GAGCAAAATCGCTGCCTGCAAA
1 GAGCAAAATCGCTGCCTGCAAA
25449568 GAGCAAAATCGCTGCCTGCAAA
1 GAGCAAAATCGCTGCCTGCAAA
25449590 GAGCAAAATCGCTG
1 GAGCAAAATCGCTG
25449604 TTCATCGCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (22 bp):
GAGCAAAATCGCTGCCTGCAAA
Found at i:25452141 original size:33 final size:35
Alignment explanation
Indices: 25452099--25452181 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 35
25452089 AAACAAGCAT
25452099 CCGTAAATTTTC-TTTTAC-TTATTTAC-ACAAAA
1 CCGTAAATTTTCTTTTTACTTTATTTACAACAAAA
25452131 NCCGTAAATTTTCTTTTTACTTTATTTACAACAAAA
1 -CCGTAAATTTTCTTTTTACTTTATTTACAACAAAA
*
25452167 -AGT-AATTTTCTTTTT
1 CCGTAAATTTTCTTTTT
25452182 TTTTTTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
33 24 0.52
34 8 0.17
35 8 0.17
36 6 0.13
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.48
Consensus pattern (35 bp):
CCGTAAATTTTCTTTTTACTTTATTTACAACAAAA
Found at i:25452455 original size:7 final size:7
Alignment explanation
Indices: 25452443--25452478 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
25452433 GAACTTTGGA
25452443 GTAGCAG
1 GTAGCAG
25452450 GTAGCAG
1 GTAGCAG
25452457 GTAGCAG
1 GTAGCAG
*
25452464 GCAGCAG
1 GTAGCAG
*
25452471 GCAGCAG
1 GTAGCAG
25452478 G
1 G
25452479 CTTTCGGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.44, T:0.08
Consensus pattern (7 bp):
GTAGCAG
Found at i:25460025 original size:6 final size:6
Alignment explanation
Indices: 25459993--25460036 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
25459983 AGCCTCAGAG
* *
25459993 GATGAA GATGAG GATGAA GACGAA GATGAA GATGATA G-TGAA GA
1 GATGAA GATGAA GATGAA GATGAA GATGAA GATGA-A GATGAA GA
25460037 AATGGGTGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 2 0.06
6 28 0.88
7 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.36, T:0.16
Consensus pattern (6 bp):
GATGAA
Found at i:25472512 original size:14 final size:15
Alignment explanation
Indices: 25472485--25472517 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25472475 GTGCTCCAAT
*
25472485 AAAAAGCAAGAAAGA
1 AAAAAGCAAAAAAGA
25472500 AAAAAG-AAAAAAGA
1 AAAAAGCAAAAAAGA
25472514 AAAA
1 AAAA
25472518 GCTTACCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGCAAAAAAGA
Found at i:25486975 original size:39 final size:37
Alignment explanation
Indices: 25486898--25486980 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 37
25486888 ATTTAAATTA
*
25486898 TATTTATTATTAAATATAAAATATTATATTAATATATT
1 TATTT-TTATTAAATATAAAATATAATATTAATATATT
* * *
25486936 TATTTTTTTTAAATATAATAATTATAATATTTATGTATT
1 TATTTTTATTAAATATAA-AA-TATAATATTAATATATT
25486975 TATTTT
1 TATTTT
25486981 AATACGTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 12 0.31
38 7 0.18
39 20 0.51
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
TATTTTTATTAAATATAAAATATAATATTAATATATT
Found at i:25486982 original size:35 final size:37
Alignment explanation
Indices: 25486898--25486982 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 37
25486888 ATTTAAATTA
* *
25486898 TATTTATTATTAAATATAAAATATTATATTAATATATT
1 TATTTATT-TTAAATATAAAATATTATAATAATATATG
* * *
25486936 TATTTTTTTTAAATATAATA-ATTATAAT-ATTTATG
1 TATTTATTTTAAATATAAAATATTATAATAATATATG
25486971 TATTTATTTTAA
1 TATTTATTTTAA
25486983 TACGTATGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 16 0.39
36 7 0.17
37 11 0.27
38 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (37 bp):
TATTTATTTTAAATATAAAATATTATAATAATATATG
Found at i:25487492 original size:17 final size:17
Alignment explanation
Indices: 25487472--25487506 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25487462 AAAAAGGAAC
*
25487472 AAAAAGAAAAGAAAAGA
1 AAAAAGAAAACAAAAGA
25487489 AAAAAGAAAACAAAAGA
1 AAAAAGAAAACAAAAGA
25487506 A
1 A
25487507 GCGCGTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAACAAAAGA
Found at i:25490864 original size:41 final size:41
Alignment explanation
Indices: 25490807--25490884 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
25490797 GTGGATCTGG
25490807 GTGCTTCAGAGCCACTGGTTCTATAAGGAGAAAAACAGTAA
1 GTGCTTCAGAGCCACTGGTTCTATAAGGAGAAAAACAGTAA
* *
25490848 GTGCTTCAGAGCCACTGGTTCTTTAATGAGAAAAACA
1 GTGCTTCAGAGCCACTGGTTCTATAAGGAGAAAAACA
25490885 CTAATCTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (41 bp):
GTGCTTCAGAGCCACTGGTTCTATAAGGAGAAAAACAGTAA
Found at i:25490989 original size:81 final size:81
Alignment explanation
Indices: 25490848--25491033 Score: 291
Period size: 81 Copynumber: 2.3 Consensus size: 81
25490838 AAAACAGTAA
* * *
25490848 GTGCTTCAGAGCCACTGGTTCTTTAATGAGAAAAACACTAATCTCGTTGTGTATGCGTCTGCGAT
1 GTGCTTCAGAGCCACTGCTTCTTTAATGAGAAAAACACTAATCTCATTGTGTACGCGTCTGCGAT
25490913 GATTGGAGGGATCTGG
66 GATTGGAGGGATCTGG
* *
25490929 GTGCTTCAGAGCCACTGCTTCTTTAATGAGAAAAACAGTAATCTCATTGTGTACGTGTCTGCGAT
1 GTGCTTCAGAGCCACTGCTTCTTTAATGAGAAAAACACTAATCTCATTGTGTACGCGTCTGCGAT
*
25490994 GATTTGAGGGATCTGG
66 GATTGGAGGGATCTGG
* * *
25491010 GTACGTCAGAGTCACTGCTTCTTT
1 GTGCTTCAGAGCCACTGCTTCTTT
25491034 CTTCTATAAG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (81 bp):
GTGCTTCAGAGCCACTGCTTCTTTAATGAGAAAAACACTAATCTCATTGTGTACGCGTCTGCGAT
GATTGGAGGGATCTGG
Found at i:25491584 original size:16 final size:15
Alignment explanation
Indices: 25491562--25491606 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
25491552 AGTTCTTCTG
25491562 TTTTTTTTTTTAAAT
1 TTTTTTTTTTTAAAT
* *
25491577 TCTTTTTTTTAAAAT
1 TTTTTTTTTTTAAAT
25491592 TTTATTTTTTTTAAA
1 TTT-TTTTTTTTAAA
25491607 AAAATTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTTTTTTAAAT
Found at i:25491600 original size:18 final size:18
Alignment explanation
Indices: 25491579--25491623 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
25491569 TTTTAAATTC
**
25491579 TTTTTTTTAAAATTTTAT
1 TTTTTTTTAAAAAATTAT
*
25491597 TTTTTTTAAAAAAATTAT
1 TTTTTTTTAAAAAATTAT
25491615 TTATTTTTT
1 TT-TTTTTT
25491624 TGAAAGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTTAAAAAATTAT
Found at i:25500457 original size:7 final size:7
Alignment explanation
Indices: 25500445--25500469 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25500435 TGGCGCCAAA
25500445 CAAAAAC
1 CAAAAAC
25500452 CAAAAAC
1 CAAAAAC
25500459 CAAAAAC
1 CAAAAAC
25500466 CAAA
1 CAAA
25500470 TCCCAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:25503715 original size:15 final size:17
Alignment explanation
Indices: 25503695--25503733 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
25503685 TTCTTAATGC
25503695 ACAACAATA-CAG-CAA
1 ACAACAATATCAGCCAA
*
25503710 ACAACAATATCAGCCCA
1 ACAACAATATCAGCCAA
25503727 ACAACAA
1 ACAACAA
25503734 ACTTACAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.56, C:0.31, G:0.05, T:0.08
Consensus pattern (17 bp):
ACAACAATATCAGCCAA
Found at i:25504795 original size:27 final size:25
Alignment explanation
Indices: 25504765--25504815 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
25504755 TCATGTCTCC
25504765 ATTTGAGAT-TAACATTAATAAAAAAAA
1 ATTT-AGATATAACATT--TAAAAAAAA
*
25504792 ATTTAGATATAATATTTAAAAAAA
1 ATTTAGATATAACATTTAAAAAAA
25504816 CTTTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.36
26 4 0.18
27 10 0.45
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (25 bp):
ATTTAGATATAACATTTAAAAAAAA
Found at i:25504842 original size:19 final size:20
Alignment explanation
Indices: 25504804--25504842 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25504794 TTAGATATAA
*
25504804 TATTTAAAAAAACTTTAAAT
1 TATTTAAAAAAACTTCAAAT
*
25504824 TATTTATAAAAA-TTCAAAT
1 TATTTAAAAAAACTTCAAAT
25504843 AAACTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTTAAAAAAACTTCAAAT
Found at i:25517593 original size:34 final size:34
Alignment explanation
Indices: 25517551--25517706 Score: 186
Period size: 34 Copynumber: 4.6 Consensus size: 34
25517541 GAAGCTTTAG
*
25517551 CATATGGTGCTGAAGCTTTGACCTTGGCATGTAG
1 CATATGGTGCTGAAGCTTTGACCTTGGCATGTAA
* * * * *
25517585 CATTTGGTGCTGAAGCTTTGGCTTTGACGTGTAA
1 CATATGGTGCTGAAGCTTTGACCTTGGCATGTAA
* * * *
25517619 CATCTAGTACTGAAGCTTTGAGCTTGGCATGTAA
1 CATATGGTGCTGAAGCTTTGACCTTGGCATGTAA
* *
25517653 CATCTGGTGGTGAAGCTTTGACCTTGGCATGTAA
1 CATATGGTGCTGAAGCTTTGACCTTGGCATGTAA
* *
25517687 CATATGGTGTTGAAGTTTTG
1 CATATGGTGCTGAAGCTTTG
25517707 GCTTTAACGT
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 101 1.00
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.35
Consensus pattern (34 bp):
CATATGGTGCTGAAGCTTTGACCTTGGCATGTAA
Found at i:25517701 original size:68 final size:68
Alignment explanation
Indices: 25517551--25517740 Score: 202
Period size: 68 Copynumber: 2.8 Consensus size: 68
25517541 GAAGCTTTAG
* * * * * *
25517551 CATATGGTGCTGAAGCTTTGACCTTGGCATGTAGCATTTGGTGCTGAAGCTTTGGCTTTGACGTG
1 CATATGGTGCTGAAGCTTTGAGCTTGGCATGTAACATCTGGTGCTGAAGCTTTGACCTTGACATG
25517616 TAA
66 TAA
* * * * *
25517619 CATCTAGTACTGAAGCTTTGAGCTTGGCATGTAACATCTGGTGGTGAAGCTTTGACCTTGGCATG
1 CATATGGTGCTGAAGCTTTGAGCTTGGCATGTAACATCTGGTGCTGAAGCTTTGACCTTGACATG
25517684 TAA
66 TAA
* * ** * * *
25517687 CATATGGTGTTGAAGTTTTG-GCTTTAACGTGTAATATCTGGTGCTGAAGTTTTG
1 CATATGGTGCTGAAGCTTTGAGC-TTGGCATGTAACATCTGGTGCTGAAGCTTTG
25517741 GTGTTGTTTA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
67 2 0.02
68 97 0.98
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (68 bp):
CATATGGTGCTGAAGCTTTGAGCTTGGCATGTAACATCTGGTGCTGAAGCTTTGACCTTGACATG
TAA
Found at i:25517734 original size:102 final size:102
Alignment explanation
Indices: 25517555--25517740 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 102
25517545 CTTTAGCATA
* * *
25517555 TGGTGCTGAAGCTTTGACCTTGGCATGTAGCATTTGGTGCTGAAGCTTTGGCTTTGACGTGTAAC
1 TGGTGCTGAAGCTTTGACCTTGGCATGTAACATATGGTGCTGAAGCTTTGGCTTTAACGTGTAAC
25517620 ATCTAGTACTGAAGCTTTGAGCTTGGCATGTAACATC
66 ATCTAGTACTGAAGCTTTGAGCTTGGCATGTAACATC
* * * *
25517657 TGGTGGTGAAGCTTTGACCTTGGCATGTAACATATGGTGTTGAAGTTTTGGCTTTAACGTGTAAT
1 TGGTGCTGAAGCTTTGACCTTGGCATGTAACATATGGTGCTGAAGCTTTGGCTTTAACGTGTAAC
* * *
25517722 ATCTGGTGCTGAAGTTTTG
66 ATCTAGTACTGAAGCTTTG
25517741 GTGTTGTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (102 bp):
TGGTGCTGAAGCTTTGACCTTGGCATGTAACATATGGTGCTGAAGCTTTGGCTTTAACGTGTAAC
ATCTAGTACTGAAGCTTTGAGCTTGGCATGTAACATC
Found at i:25525522 original size:34 final size:34
Alignment explanation
Indices: 25525453--25525523 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
25525443 GAAGGAAGCT
* *
25525453 TTGGCACGTAATATCTAGTGCTAAAGTTTTGGCC
1 TTGGCACGTAATATCTAGTGCTAAAGCTTTAGCC
* * *
25525487 TTGGCATGTAATATCTGGTGTTGAAA-CTTTAGCC
1 TTGGCACGTAATATCTAGTGCT-AAAGCTTTAGCC
25525521 TTG
1 TTG
25525524 ATGTGTAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 28 0.90
35 3 0.10
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (34 bp):
TTGGCACGTAATATCTAGTGCTAAAGCTTTAGCC
Found at i:25525670 original size:34 final size:34
Alignment explanation
Indices: 25525603--25525676 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
25525593 ACTTTTTCTA
* * *
25525603 CTTTAGCCTTGGCGTGTAACATTTAATGTTGAAG
1 CTTTGGCCTTGGCGTGTAACATCTAATGCTGAAG
**
25525637 CTTTGGCCTTGGCGTGTAACATCTGTTGCTGAAG
1 CTTTGGCCTTGGCGTGTAACATCTAATGCTGAAG
*
25525671 TTTTGG
1 CTTTGG
25525677 TGTGCATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (34 bp):
CTTTGGCCTTGGCGTGTAACATCTAATGCTGAAG
Found at i:25528612 original size:2 final size:2
Alignment explanation
Indices: 25528605--25528645 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
25528595 ATCCCAATTA
25528605 AT AT 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 AT AT A
25528646 AACACATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25537390 original size:35 final size:35
Alignment explanation
Indices: 25537351--25537424 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
25537341 AACGTTTTCT
* * *
25537351 TTGTTTTAGTTGTTCTATGTTAAATAGTGCTTCAC
1 TTGTTTTAGTTGCTCTACGTGAAATAGTGCTTCAC
* *
25537386 TTGTTTTATTTGCTCTACGTGAAATAGTGTTTCAC
1 TTGTTTTAGTTGCTCTACGTGAAATAGTGCTTCAC
25537421 TTGT
1 TTGT
25537425 AATGGTTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (35 bp):
TTGTTTTAGTTGCTCTACGTGAAATAGTGCTTCAC
Found at i:25541593 original size:21 final size:22
Alignment explanation
Indices: 25541551--25541594 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
25541541 TTATTTAAAA
*
25541551 TATTAATAATTGATGATTTAAT
1 TATTAATAATTGATGATCTAAT
* *
25541573 TATTAAT-ATTGTTTATCTAAT
1 TATTAATAATTGATGATCTAAT
25541594 T
1 T
25541595 TAAATGATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (22 bp):
TATTAATAATTGATGATCTAAT
Found at i:25541717 original size:25 final size:26
Alignment explanation
Indices: 25541676--25541725 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
25541666 TTAATAATTG
25541676 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
25541702 ATAATTT-AATATTAATATTTTATT
1 ATAATTTAAATATTAATATTTTATT
25541726 AAAAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATTT
Found at i:25543628 original size:22 final size:23
Alignment explanation
Indices: 25543595--25543645 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
25543585 TTTCAATTTA
* *
25543595 TATTTATATTTTTATTTTTATT-
1 TATTTATATTTTCATTTCTATTC
25543617 TATTTAGT-TTTTCATTTCTATTC
1 TATTTA-TATTTTCATTTCTATTC
25543640 TATTTA
1 TATTTA
25543646 CTTATATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTTATATTTTCATTTCTATTC
Found at i:25545313 original size:2 final size:2
Alignment explanation
Indices: 25545306--25545343 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25545296 CCTAATAACA
25545306 AT AT AT AT 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
25545344 GATTAATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25546915 original size:17 final size:18
Alignment explanation
Indices: 25546890--25546924 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25546880 AAAATTTCTA
25546890 TAAATTAATAATTTTGAT
1 TAAATTAATAATTTTGAT
*
25546908 TAAA-TAATATTTTTGAT
1 TAAATTAATAATTTTGAT
25546925 CCGTCCAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TAAATTAATAATTTTGAT
Found at i:25548275 original size:39 final size:39
Alignment explanation
Indices: 25548230--25548307 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
25548220 GACATCCATT
*
25548230 TCAATCCAAATTTTGGAGAAATTGTACTCTTGACATAAA
1 TCAATCCAAATTTTGGAGAAATCGTACTCTTGACATAAA
25548269 TCAATCCAAATTTTGGAGAAATCGTACTCTTGACATAAA
1 TCAATCCAAATTTTGGAGAAATCGTACTCTTGACATAAA
25548308 GATAATCTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (39 bp):
TCAATCCAAATTTTGGAGAAATCGTACTCTTGACATAAA
Found at i:25549783 original size:16 final size:17
Alignment explanation
Indices: 25549762--25549794 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25549752 TTATACAATG
25549762 GTTAAAT-ATATAAATA
1 GTTAAATAATATAAATA
25549778 GTTAAATAATATAAATA
1 GTTAAATAATATAAATA
25549795 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
GTTAAATAATATAAATA
Found at i:25555219 original size:27 final size:27
Alignment explanation
Indices: 25555189--25555420 Score: 117
Period size: 27 Copynumber: 8.4 Consensus size: 27
25555179 ACATTATTCG
25555189 ACATGGTATGTAACAACTAAATTTTTA
1 ACATGGTATGTAACAACTAAATTTTTA
** * *
25555216 ACATGGCGTGTAATAATTACATAAATTTTCA
1 ACATGGTATGTAA-CA--AC-TAAATTTTTA
* * *
25555247 ACATGGTATATAATAACTAAATTTTCA
1 ACATGGTATGTAACAACTAAATTTTTA
** * *
25555274 ACATGGCGTGTAAAAACTACATTTTTTA
1 ACATGGTATGTAACAACTA-AATTTTTA
** * * * *
25555302 ACATGACATGTAATAATTAAATTCTCA
1 ACATGGTATGTAACAACTAAATTTTTA
* ** * * *
25555329 ATATAATGTATAACAACTACATTTTTAA
1 ACATGGTATGTAACAACTAAATTTTT-A
* *
25555357 ATATGGTGTGTAACAACTAAA-TTTTA
1 ACATGGTATGTAACAACTAAATTTTTA
* * * *
25555383 ATATGGCT-TATAACAATTATATTTTTA
1 ACATGG-TATGTAACAACTAAATTTTTA
*
25555410 ACATGGCATGT
1 ACATGGTATGT
25555421 CTTAATTATT
Statistics
Matches: 155, Mismatches: 41, Indels: 18
0.72 0.19 0.08
Matches are distributed among these distances:
26 17 0.11
27 74 0.48
28 42 0.27
30 3 0.02
31 19 0.12
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.38
Consensus pattern (27 bp):
ACATGGTATGTAACAACTAAATTTTTA
Found at i:25555244 original size:31 final size:31
Alignment explanation
Indices: 25555206--25555320 Score: 109
Period size: 28 Copynumber: 3.9 Consensus size: 31
25555196 ATGTAACAAC
*
25555206 TAAATTTTTAACATGGCGTGTAATAATTACA
1 TAAATTTTCAACATGGCGTGTAATAATTACA
* *
25555237 TAAATTTTCAACAT-G-GTAT-ATAATAAC-
1 TAAATTTTCAACATGGCGTGTAATAATTACA
* *
25555264 TAAATTTTCAACATGGCGTGTAAAAACTACA
1 TAAATTTTCAACATGGCGTGTAATAATTACA
* * *
25555295 T---TTTTTAACATGACATGTAATAATTA
1 TAAATTTTCAACATGGCGTGTAATAATTA
25555321 AATTCTCAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
27 14 0.21
28 28 0.41
29 6 0.09
30 6 0.09
31 14 0.21
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (31 bp):
TAAATTTTCAACATGGCGTGTAATAATTACA
Found at i:25555318 original size:58 final size:57
Alignment explanation
Indices: 25555189--25555329 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 57
25555179 ACATTATTCG
* * * * *
25555189 ACATGGTATGTAACAACTAAATTTTTAACATGGCGTGTAATAATTACATAAATTTTCA
1 ACATGGTATATAATAACTAAATTTTCAACATGGCGTGTAAAAACTACAT-AATTTTCA
*
25555247 ACATGGTATATAATAACTAAATTTTCAACATGGCGTGTAAAAACTACAT--TTTTTA
1 ACATGGTATATAATAACTAAATTTTCAACATGGCGTGTAAAAACTACATAATTTTCA
** * * *
25555302 ACATGACATGTAATAATTAAATTCTCAA
1 ACATGGTATATAATAACTAAATTTTCAA
25555330 TATAATGTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
55 28 0.39
58 44 0.61
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (57 bp):
ACATGGTATATAATAACTAAATTTTCAACATGGCGTGTAAAAACTACATAATTTTCA
Found at i:25555360 original size:28 final size:28
Alignment explanation
Indices: 25555328--25555381 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
25555318 TTAAATTCTC
*
25555328 AATATAATGTATAACAACTACATTTTTA
1 AATATAATGTATAACAACTAAATTTTTA
** *
25555356 AATATGGTGTGTAACAACTAAATTTT
1 AATATAATGTATAACAACTAAATTTT
25555382 AATATGGCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (28 bp):
AATATAATGTATAACAACTAAATTTTTA
Found at i:25566406 original size:181 final size:183
Alignment explanation
Indices: 25565770--25566502 Score: 1067
Period size: 181 Copynumber: 4.0 Consensus size: 183
25565760 TATATATCTT
* * * * *
25565770 TAAGCTCATTATCTCGATTAAACACAATCTCCTTTTTTTTCTCTATTGCTAGATCATTAATTCCA
1 TAAGCTCATTATCTCGTTTAAACACAAGCTCC-TTTTTTTATCTATTCCTAGATCATTAATTGCA
* * * *
25565835 TCAAACACACTTAAAATCTTTAGCCATTGTTTATCTCTTTAGGTGGAGCAACTATGAGTCTCAAG
65 TCAAACACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACGAGTCTCAAG
* * * *
25565900 GTGTATTTCCACTCTCCCGCCAAGAGTGATATTGGTGTATTTCCACTCCCCCAC
130 GTGTATTTCCACTCCCCCACCAAGGGTGATATTGATGTATTTCCACTCCCCCAC
* * * **
25565954 TAAGCTCATTATCTTGTTTGAACACAAACTTTTTTTTTTTTTATCTATTCCTAGATCATTAATTG
1 TAAGCTCATTATCTCGTTTAAACACAAGC---TCCTTTTTTTATCTATTCCTAGATCATTAATTG
* *
25566019 CATCAAACACACTCAAAATCTTTAACCATTGTCTATCTCTCTAGGTGTAGCAACTACGAGTCTCA
63 CATCAAACACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACGAGTCTCA
* * * *
25566084 AGGTGTATTTCCACTCCCCCACCAAGGGTTATATTGATCTTTTTCGACTCCCCCAC
128 AGGTGTATTTCCACTCCCCCACCAAGGGTGATATTGATGTATTTCCACTCCCCCAC
* * * *
25566140 TAAGCTTATTATCTCGTTTGAGCACAAGC-CCTTTTTTTATCTATTCTTAGATCATTAATTGCAT
1 TAAGCTCATTATCTCGTTTAAACACAAGCTCCTTTTTTTATCTATTCCTAGATCATTAATTGCAT
* * *
25566204 CAAAGACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACAAGTCTCAAAG
66 CAAACACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACGAGTCTCAAGG
* * *
25566269 TGTATTTCCACTCCCCCATCAAGGGTGATGTTGGTGTATTTCCAC-CCCCCAC
131 TGTATTTCCACTCCCCCACCAAGGGTGATATTGATGTATTTCCACTCCCCCAC
* *
25566321 AAAGCTCATTATCTCGTTTAAACACAAGC-CCTTTTTTTATTTATTCCTAGATCATTAATTGCAT
1 TAAGCTCATTATCTCGTTTAAACACAAGCTCCTTTTTTTATCTATTCCTAGATCATTAATTGCAT
*
25566385 CAAAGACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACGAGTCTCAAGG
66 CAAACACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACGAGTCTCAAGG
*
25566450 TGTATTTTCACTCCCCCACCAAGGGTGATATTGATGTATTTCCACTCCCCCAC
131 TGTATTTCCACTCCCCCACCAAGGGTGATATTGATGTATTTCCACTCCCCCAC
25566503 CAAAAATGAT
Statistics
Matches: 491, Mismatches: 54, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
181 169 0.34
182 137 0.28
184 25 0.05
186 159 0.32
187 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (183 bp):
TAAGCTCATTATCTCGTTTAAACACAAGCTCCTTTTTTTATCTATTCCTAGATCATTAATTGCAT
CAAACACACTCAAAATCTTTAGCCATTGTCTATCTCTCTAGGTGGAGCAACTACGAGTCTCAAGG
TGTATTTCCACTCCCCCACCAAGGGTGATATTGATGTATTTCCACTCCCCCAC
Found at i:25566513 original size:34 final size:34
Alignment explanation
Indices: 25566450--25566514 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
25566440 AGTCTCAAGG
* ***
25566450 TGTATTTTCACTCCCCCACCAAGGGTGATATTGA
1 TGTATTTCCACTCCCCCACCAAAAATGATATTGA
25566484 TGTATTTCCACTCCCCCACCAAAAATGATAT
1 TGTATTTCCACTCCCCCACCAAAAATGATAT
25566515 AAAAAGGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (34 bp):
TGTATTTCCACTCCCCCACCAAAAATGATATTGA
Found at i:25567007 original size:117 final size:118
Alignment explanation
Indices: 25566784--25566996 Score: 322
Period size: 117 Copynumber: 1.8 Consensus size: 118
25566774 CATATATATA
* *
25566784 CATCGATCATTTGTATCATAACTACCAATACAATCCACCATACGCCATTATCTCTACACAACTCA
1 CATCGATCATTTGTATCATAACAACCAACACAATCCACCATACGCCATTATCTCTACACAACTCA
**
25566849 TGTGGTCTCACAATAAGCACAACAGAGCATGACTATATATATTAAATCTGCCT
66 TGTCATCTCACAATAAGCACAACAGAGCATGACTATATATATTAAATCTGCCT
* *
25566902 CATCG-TCATTTGTATCATAA-AAGCCAACACAATCCATCATATGCCATTATCTCTACACAACTC
1 CATCGATCATTTGTATCATAACAA-CCAACACAATCCACCATACGCCATTATCTCTACACAACTC
* * *
25566965 ATGTCATCTCACAATATGCGCAACATAGCATG
65 ATGTCATCTCACAATAAGCACAACAGAGCATG
25566997 TATTTATATA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
116 1 0.01
117 79 0.93
118 5 0.06
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (118 bp):
CATCGATCATTTGTATCATAACAACCAACACAATCCACCATACGCCATTATCTCTACACAACTCA
TGTCATCTCACAATAAGCACAACAGAGCATGACTATATATATTAAATCTGCCT
Found at i:25567008 original size:2 final size:2
Alignment explanation
Indices: 25567001--25567037 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25566991 AGCATGTATT
25567001 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25567038 GTATGTATGT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25567081 original size:21 final size:21
Alignment explanation
Indices: 25567055--25567098 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
25567045 TGTATGTATA
*
25567055 ATTTAAGCTTGTTGTTATTCT
1 ATTTAAGCTTGTTCTTATTCT
25567076 ATTTAAGCTTGTTCTTATTCT
1 ATTTAAGCTTGTTCTTATTCT
25567097 AT
1 AT
25567099 ATGATACGTA
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:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTTAAGCTTGTTCTTATTCT
Found at i:25569406 original size:11 final size:11
Alignment explanation
Indices: 25569390--25569421 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
25569380 TCATTAATTG
25569390 CATACTTTATA
1 CATACTTTATA
25569401 CATACTTTATA
1 CATACTTTATA
25569412 CATACATTTA
1 CATAC-TTTA
25569422 AATAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (11 bp):
CATACTTTATA
Found at i:25577526 original size:29 final size:30
Alignment explanation
Indices: 25577493--25577556 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
25577483 AAATGTAATA
* * *
25577493 ATTTATGTAT-GTTT-TATTAGTTTTTTTTT
1 ATTTATGT-TGGTTTGTATTAATTTATTTAT
25577522 ATTTATGTTGGTTTGTATTAATTTATTTAT
1 ATTTATGTTGGTTTGTATTAATTTATTTAT
25577552 ATTTA
1 ATTTA
25577557 GATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 12 0.40
30 17 0.57
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (30 bp):
ATTTATGTTGGTTTGTATTAATTTATTTAT
Found at i:25577592 original size:26 final size:24
Alignment explanation
Indices: 25577547--25577595 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
25577537 TATTAATTTA
* *
25577547 TTTATATTTAGATTATTTTTATAT
1 TTTATATTTAGATAAATTTTATAT
25577571 TTTATAATTATAGATAAATTTTATA
1 TTTAT-ATT-TAGATAAATTTTATA
25577596 AATTTCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTATATTTAGATAAATTTTATAT
Found at i:25578675 original size:14 final size:15
Alignment explanation
Indices: 25578656--25578685 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25578646 NATTAACTAT
25578656 ATATATAC-ATATAA
1 ATATATACTATATAA
25578670 ATATATACTATATAA
1 ATATATACTATATAA
25578685 A
1 A
25578686 ATTAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATATACTATATAA
Found at i:25583466 original size:27 final size:28
Alignment explanation
Indices: 25583415--25583485 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
25583405 TATTATATAT
* *
25583415 ATAATTTATATTTTATTTTTTAAATATCA
1 ATAATTTATAATTTA-TTTTAAAATATCA
*
25583444 ATAATTTATAATTTA-TTTAAAATATGA
1 ATAATTTATAATTTATTTTAAAATATCA
* *
25583471 ATAATTAAAAATTTA
1 ATAATTTATAATTTA
25583486 AATGTTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 23 0.62
29 14 0.38
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATAATTTATAATTTATTTTAAAATATCA
Found at i:25583607 original size:150 final size:147
Alignment explanation
Indices: 25583429--25584103 Score: 766
Period size: 143 Copynumber: 4.6 Consensus size: 147
25583419 TTTATATTTT
* * * * *
25583429 ATTTTTTAAATATCAATAATTTATAATTTATTTAAAATATGAATAATTAAAAATTTAAATGTTAA
1 ATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAA
* * * * *
25583494 TATTTTATTTATAATTTAATCCTTAGCATTATATAATATCAATATTTTA-TTATAATTTAAATGT
66 TATTTTATTTATAATTTAATCATTAACATTATAAAATATTAATATTTTATTTATAATTTAAATAT
25583558 TATTATGATTATTTTTATATA
131 TATTATGATTA---TTAT-TA
* *
25583579 ATTTTTTAAATATTAATAATTTATAATTTATTTCAAATATTAATAATTGATAA-TTGAA-A-TAA
1 ATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAA
* *
25583641 TA---T-TTTATAATTTAATAATTAACATTATAAAATATTAATATTTTA-TTATAATTTAAATGT
66 TATTTTATTTATAATTTAATCATTAACATTATAAAATATTAATATTTTATTTATAATTTAAATAT
25583701 TATTATGATTATTTTTTATTTTTA
131 TATTATGATTA----TTA---TTA
* *
25583725 TTTTATTTTTTAAATATTTATAATTTATAATTTATTTAAAATATTAATAATTGATCATTTAAATA
1 ----ATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAATA
*
25583790 TTAATATTTTATTTATAATTTGATCATTAACATTATAAAATATTAATATTTTATTTATAATTTAA
62 TTAATATTTTATTTATAATTTAATCATTAACATTATAAAATATTAATATTTTATTTATAATTTAA
25583855 ATATTATTATGATTA-T-TT-
127 ATATTATTATGATTATTATTA
* ** *
25583873 A-TTTTTAAATA-TAAGTAATTTATAATTTGA-TCATTATATTAATAATTGATAATTAAAATATT
1 ATTTTTTAAATATTAA-TAATTTATAATTT-ATTTAAAATATTAATAATTGATAATTTAAATATT
* * *
25583935 AATATTTTA-TTATATTTTAATCATTAATATT-TAAAAAAATTAATATTTTATTTATACA-TTAA
64 AATATTTTATTTATAATTTAATCATTAACATTAT-AAAATATTAATATTTTATTTATA-ATTTAA
25583997 ATATTATTATG---ATTATTA
127 ATATTATTATGATTATTATTA
* * *
25584015 A-TTTTTAAATATTAATAATTTATAATTTATTT-AAATATCAATAATTGATTATTTACATATTAA
1 ATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAA
*
25584078 TATTTTATTTATAATTTAATTATTAA
66 TATTTTATTTATAATTTAATCATTAA
25584104 TATTTGAGGG
Statistics
Matches: 461, Mismatches: 38, Indels: 60
0.82 0.07 0.11
Matches are distributed among these distances:
139 1 0.00
140 1 0.00
141 36 0.08
142 99 0.21
143 126 0.27
144 9 0.02
146 2 0.00
147 6 0.01
149 6 0.01
150 98 0.21
151 4 0.01
152 1 0.00
153 6 0.01
156 1 0.00
157 40 0.09
158 25 0.05
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (147 bp):
ATTTTTTAAATATTAATAATTTATAATTTATTTAAAATATTAATAATTGATAATTTAAATATTAA
TATTTTATTTATAATTTAATCATTAACATTATAAAATATTAATATTTTATTTATAATTTAAATAT
TATTATGATTATTATTA
Done.