Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 154 of 322
Found at i:50505548 original size:300 final size:291
Alignment explanation
Indices: 50505003--50505673 Score: 776
Period size: 300 Copynumber: 2.3 Consensus size: 291
50504993 TAACACAATA
* * * * * *
50505003 AATAAAGTGTACATAGTAAAATTAAGATGTATAAAAATCAAAATAAAGTTTTAGTTGAGTGGTAA
1 AATAAAGTGTGCATAATAAAATTAAAATGTTTAAAAATTAAAATAAA-CTTTAGTTGAGTGGTAA
** * ** * *
50505068 ATTAAAAATTTTATTAATGTAAATAGTTTGGGTTCAAATCTCACAATATGCATTTTTTATTGGTT
65 ATTAAAGGTTTTACTAATACAAATAGTTTGGGTCCAAATCCCACAATATGCATTTTTTATTGGTT
* * * * * *
50505133 TTTTAAAATAAAAAGACTAAAATAGCCTTGAATAATATAACTTATTTTAATTACGGAATGGTATG
130 TTTTAAAAAAAAAAAACTAAAATACCCTCGAATAATATAACTTATTTTAATTACAGAAGGGTATG
* * * *
50505198 TCCTTAATTTTCCTAACCGAGTTGGTAACTCGATTGAGGGTGACATCAACTCAGTAAGGAGCTTA
195 TCCTTAATTTTCCTAACCAAGTTGGTAACTCGATTGAGAGTAACATCAACTCAATAAGGAGCTTA
*
50505263 AATAATACTATAGATAGATATACAAATGATGAAAGT
260 AATAATA--AT--ATAGATATACAAATCATGAAAGT
50505299 AATAAAGTGTGCATAATAAAATTAAAATGTTTAAATATATTAAAAT-AACATGTTAGTTGAGTGG
1 AATAAAGTGTGCATAATAAAATTAAAATGTTTAAA-A-ATTAAAATAAAC-T-TTAGTTGAGTGG
* *
50505363 TAAATTAAAGGTTTTACTAATACAATTAGTTTGGGTCCAAATCCCACCATATGC-TTATTTGTAT
62 TAAATTAAAGGTTTTACTAATACAAATAGTTTGGGTCCAAATCCCACAATATGCATT-TTT-TAT
* *
50505427 TGGTTTTTTAAATAAAAAAAAACTAAAGTACCCTCGAATAATATAATTTATTTTAATTACAGAAG
125 TGGTTTTTTAAA-AAAAAAAAACTAAAATACCCTCGAATAATATAACTTATTTTAATTACAGAAG
** * * * * *
50505492 GGTATG-CCTATAATTTTCCTAACCAAGTTGGTGGCTTGGTTGTGAGTAATATCAACTCAATCAG
189 GGTATGTCCT-TAATTTTCCTAACCAAGTTGGTAACTCGATTGAGAGTAACATCAACTCAATAAG
* * *
50505556 GAGCTTAAATAATAATATAGATATACAATTCATGGAGGT
253 GAGCTTAAATAATAATATAGATATACAAATCATGAAAGT
* * *
50505595 AA-AAAGTGTGCATAATAAAACTAAAATGTATTGAAAAAGTAAAATAAAACTTT-GATTGAGTAG
1 AATAAAGTGTGCATAATAAAATTAAAATGT-TT-AAAAATTAAAAT-AAACTTTAG-TTGAGTGG
*
50505658 TAAATTTAAGGTTTTA
62 TAAATTAAAGGTTTTA
50505674 TGCAAAATGT
Statistics
Matches: 320, Mismatches: 42, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
294 1 0.00
295 57 0.18
296 56 0.17
297 12 0.04
298 69 0.22
299 18 0.06
300 107 0.33
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (291 bp):
AATAAAGTGTGCATAATAAAATTAAAATGTTTAAAAATTAAAATAAACTTTAGTTGAGTGGTAAA
TTAAAGGTTTTACTAATACAAATAGTTTGGGTCCAAATCCCACAATATGCATTTTTTATTGGTTT
TTTAAAAAAAAAAAACTAAAATACCCTCGAATAATATAACTTATTTTAATTACAGAAGGGTATGT
CCTTAATTTTCCTAACCAAGTTGGTAACTCGATTGAGAGTAACATCAACTCAATAAGGAGCTTAA
ATAATAATATAGATATACAAATCATGAAAGT
Found at i:50510739 original size:10 final size:10
Alignment explanation
Indices: 50510724--50510750 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
50510714 GAATTGTAAT
50510724 TGTAATTATA
1 TGTAATTATA
50510734 TGTAATTATA
1 TGTAATTATA
50510744 TGTAATT
1 TGTAATT
50510751 GTAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (10 bp):
TGTAATTATA
Found at i:50522756 original size:588 final size:584
Alignment explanation
Indices: 50521482--50522656 Score: 1963
Period size: 588 Copynumber: 2.0 Consensus size: 584
50521472 AATAAAATAG
* * * ** * * *
50521482 GACAGTCAAGCACGTTTCGATCTAAGTGTTTTACAAAAATTAAATCATCAACACGATCTTTGTCA
1 GACAGTCAAGCACGTTTCGA--TAAGTGCTTTATAAAAATCAAAGAATCAACACAATATTGGTCA
** * * **
50521547 CTATCCGAGGAGTACAAAAGTGTTTCAAAAGTTTCAAGCATCTTACCTTTATAAGCAGAAGAATA
64 AAATCAGAGGAGTACAAAACTGTACCAAAAGTTTCAAGCATCTTACCTTTATAAGCAGAAGAATA
*
50521612 AGGGTCAATTTTACCTTTTCCATTTAATACAAACCTTCGCTCATCGGGGGCATAGTGTAGTCGAA
129 AGGGTCAATCTTACCTTTTCCATTTAATACAAACCTTCGCTCATCGGGGGCATAGTGTAGTCGAA
50521677 GCTCCGTTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACTGT
194 GCTCCGTTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACTGT
50521742 TTAAGGCACGAATATAAATTGAAAACAAATTTGGAAAATTTCGTTACCTTATTCAAAAACCAAGT
259 TTAAGGCACGAATATAAATTGAAAACAAATTTGGAAAATTTCGTTACCTTATTCAAAAACCAAGT
50521807 ATCAAAACAATAGAAAGTATTTGCACACAATAGATGATGCTTGATTTTCCAACAAAATATACCAA
324 ATCAAAACAATAGAAAGTATTTGCACACAATAGATGATGCTTGATTTTCCAACAAAATATACCAA
50521872 AACAGATTCCGGGTTTAAAAACTTGATTTTGATTAGTCATGCCGAAGTGTAACAAAGATTTCATT
389 AACAGATTCCGGGTTTAAAAACTTGATTTTGATTAGTCATGCCGAAGTGTAACAAAGATTTCATT
*
50521937 AAACCAATCAAGTTAAACCATGAGGATTTTCGCATACATACCAACATATATTCAAAACTTTTTTA
454 AAACCAATCAAGTTAAACCATGAGGATTTTCGCATACATACCAACATACATTCAAAACTTTTTTA
**
50522002 TTCACCAAAACAGATTTGCACAAATTCACGAATTTTACACTTGGCAAATCAAGAGAATAACAACT
519 TTCACCAAAACAGATTTGCACAAATTCACGAATTTTACACAAGGCAAATCAAGAGAATAACAACT
50522067 C
584 C
* * ** * *
50522068 AGGACAGTCAAGCACGTTTCGATCTAAGTGTTTTATAAAAATTAAATCATCAACACAATCTTTGT
1 --GACAGTCAAGCACGTTTCGA--TAAGTGCTTTATAAAAATCAAAGAATCAACACAATATTGGT
** * * **
50522133 CACTATCTGAGGAGTACAAAAGTGTTTCAAAAGTTTCAAGCATCTTACCTTTATAAGCAGAAGAA
62 CAAAATCAGAGGAGTACAAAACTGTACCAAAAGTTTCAAGCATCTTACCTTTATAAGCAGAAGAA
50522198 TAAGGGTCAATCTTACCTTTTCCATTTAATACAAACCTTCGCTCATCGGGGGCATAGTGTAGTCG
127 TAAGGGTCAATCTTACCTTTTCCATTTAATACAAACCTTCGCTCATCGGGGGCATAGTGTAGTCG
*
50522263 AAGCTCCGTTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAATT
192 AAGCTCCGTTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACT
* *
50522328 GTTTAAGGCACGAATATAAATTGAAAACAAATTTGGCAAATTTCGTTACCTTTTTCAAAAACCAA
257 GTTTAAGGCACGAATATAAATTGAAAACAAATTTGGAAAATTTCGTTACCTTATTCAAAAACCAA
50522393 GTATCAAAACAATAGAAAGTATTTGCACACAATAGATGATGCTTGATTTTCCAACAAAATATACC
322 GTATCAAAACAATAGAAAGTATTTGCACACAATAGATGATGCTTGATTTTCCAACAAAATATACC
*
50522458 AAAATAGATTCCGGGTTTAAAAACTTGATTTTGATTAGTCATGCCGAAGTGTAACAAAGATTTCA
387 AAAACAGATTCCGGGTTTAAAAACTTGATTTTGATTAGTCATGCCGAAGTGTAACAAAGATTTCA
50522523 TTAAACCAATCAAGTTAAACCATGAGGATTTTCGCATACATACCAACATACATTCAAAACTTTTT
452 TTAAACCAATCAAGTTAAACCATGAGGATTTTCGCATACATACCAACATACATTCAAAAC-TTTT
* *
50522588 TTATTCACCAAAACAGATTTGCACAAATTCGCGGATTTTACACAAGGCAAATCAAGAGAATAACA
516 TTATTCACCAAAACAGATTTGCACAAATTCACGAATTTTACACAAGGCAAATCAAGAGAATAACA
50522653 ACTC
581 ACTC
50522657 ACGCTTCCTT
Statistics
Matches: 573, Mismatches: 13, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
588 504 0.88
589 69 0.12
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (584 bp):
GACAGTCAAGCACGTTTCGATAAGTGCTTTATAAAAATCAAAGAATCAACACAATATTGGTCAAA
ATCAGAGGAGTACAAAACTGTACCAAAAGTTTCAAGCATCTTACCTTTATAAGCAGAAGAATAAG
GGTCAATCTTACCTTTTCCATTTAATACAAACCTTCGCTCATCGGGGGCATAGTGTAGTCGAAGC
TCCGTTGTTGAGTTAACCTTTGTCAAATGGAACTCAAACTTCATGTACAACCACAGAAACTGTTT
AAGGCACGAATATAAATTGAAAACAAATTTGGAAAATTTCGTTACCTTATTCAAAAACCAAGTAT
CAAAACAATAGAAAGTATTTGCACACAATAGATGATGCTTGATTTTCCAACAAAATATACCAAAA
CAGATTCCGGGTTTAAAAACTTGATTTTGATTAGTCATGCCGAAGTGTAACAAAGATTTCATTAA
ACCAATCAAGTTAAACCATGAGGATTTTCGCATACATACCAACATACATTCAAAACTTTTTTATT
CACCAAAACAGATTTGCACAAATTCACGAATTTTACACAAGGCAAATCAAGAGAATAACAACTC
Found at i:50523133 original size:18 final size:18
Alignment explanation
Indices: 50523110--50523148 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50523100 CTCTTTTTGC
50523110 TCTTTTAC-ATTCTCTTTT
1 TCTTTTACGATT-TCTTTT
*
50523128 TCTTTTTCGATTTCTTTT
1 TCTTTTACGATTTCTTTT
50523146 TCT
1 TCT
50523149 GTCTTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.69
Consensus pattern (18 bp):
TCTTTTACGATTTCTTTT
Found at i:50525790 original size:28 final size:28
Alignment explanation
Indices: 50525733--50525941 Score: 359
Period size: 28 Copynumber: 7.5 Consensus size: 28
50525723 TAAATTGTGC
* *
50525733 AGCACTAAGTGTGCGA-ATTGAATATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50525760 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50525788 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50525816 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50525844 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
50525872 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
50525900 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
50525927 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50525942 GACTTAATAT
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 38 0.22
28 138 0.78
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:50533667 original size:28 final size:27
Alignment explanation
Indices: 50533610--50533761 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
50533600 TAAATTGTGC
* *
50533610 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
50533637 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
50533665 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
50533692 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
50533720 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
50533747 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50533762 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:50533675 original size:55 final size:55
Alignment explanation
Indices: 50533610--50533761 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
50533600 TAAATTGTGC
* *
50533610 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
50533665 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
50533720 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
50533762 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:50535607 original size:4 final size:4
Alignment explanation
Indices: 50535598--50535662 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
50535588 AGTACCTTGT
50535598 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
50535646 CATA CATA CATA CATA C
1 CATA CATA CATA CATA C
50535663 CTTTTAAAAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:50551271 original size:30 final size:30
Alignment explanation
Indices: 50551237--50551298 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
50551227 CCTAAGAAAG
* *
50551237 AGGAGACGATAATTTTGGGTTGTTGAAAAA
1 AGGAGAAGATAATCTTGGGTTGTTGAAAAA
50551267 AGGAGAAGATAATCTTGGGTTGTTGAAAAA
1 AGGAGAAGATAATCTTGGGTTGTTGAAAAA
50551297 AG
1 AG
50551299 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (30 bp):
AGGAGAAGATAATCTTGGGTTGTTGAAAAA
Found at i:50558844 original size:291 final size:289
Alignment explanation
Indices: 50558376--50558908 Score: 744
Period size: 291 Copynumber: 1.8 Consensus size: 289
50558366 TGAATGACCA
* * * ** * * *
50558376 CTTTTTGTGCTTTGTGAGCGTAGGCATCTTGGAGAGTTTTGTAAGTTGATAGGTGGTTGTTTTAA
1 CTTTGTGTGCATTATGAGCGTAGGCATCTTGGAGAGTTCCGTAAGTTAACAGGTGGTTGGTTTAA
** * * * *
50558441 GTGTGATAAGGAACATTTTCTTAGGGATTTTGCAAATAGGGTTGAGGTTTCGGAGACTTAGAGTT
66 GTGTGATAAGGAACATTTTCTTAGGGATTTCCCAAATAGAGTTAAGGTTTCGCAGACTTAAAGTT
* ** * *
50558506 CGACACCTGCTTCTAGCCTACTAGAGGTCGTGGTTGTGGTAGAGGTAATGGGAGATCTGTTGGGA
131 CGACACCTGCTTCTAGCCTACTAGAGGCCGTGGCCGAGGTAGAGGTAATGGGAGATCAGTTGGGA
* * * *
50558571 AGTGAA-GATTGCTGATACTATTGCTACATAGGTTGAGGCTAGAGGCCCATTGTGGTTAGTGTTG
196 AGAGAACGATTACTCATACTATTGCTACATAGGTTGAGGCTACAGGCCCATTGTGGTTAGTGTTG
50558635 GAGGTTTGACGGGTTGGTCTTGATGGCCG
261 GAGGTTTGACGGGTTGGTCTTGATGGCCG
50558664 CTTTGTGTGCATTATGAGCGTAGGCATCTTGGAGAGTTCCGTAAGTTAACAGGTGGTTGGTTTAA
1 CTTTGTGTGCATTATGAGCGTAGGCATCTTGGAGAGTTCCGTAAGTTAACAGGTGGTTGGTTTAA
* * *
50558729 GTGTGATTCAAAGGAACATTTTCTTAGGGATTTCCCAAGTAGAGTTAATGTTTTGCAGACTTAAA
66 GTGTGA-T--AAGGAACATTTTCTTAGGGATTTCCCAAATAGAGTTAAGGTTTCGCAGACTTAAA
* * *
50558794 GTTCGGCACCTGCTTCTGGCCTGCTAGAGGCCGTGGCCGAGGTAGAGGTAATGGGAGATCAGTTG
128 GTTCGACACCTGCTTCTAGCCTACTAGAGGCCGTGGCCGAGGTAGAGGTAATGGGAGATCAGTTG
* * *
50558859 GGAAGAGAACTATTACTCATACTGTTGCTACATAGGTTGAGTCTACAGGC
193 GGAAGAGAACGATTACTCATACTATTGCTACATAGGTTGAGGCTACAGGC
50558909 GCAGCTCAGG
Statistics
Matches: 209, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
288 63 0.30
289 1 0.00
291 111 0.53
292 34 0.16
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (289 bp):
CTTTGTGTGCATTATGAGCGTAGGCATCTTGGAGAGTTCCGTAAGTTAACAGGTGGTTGGTTTAA
GTGTGATAAGGAACATTTTCTTAGGGATTTCCCAAATAGAGTTAAGGTTTCGCAGACTTAAAGTT
CGACACCTGCTTCTAGCCTACTAGAGGCCGTGGCCGAGGTAGAGGTAATGGGAGATCAGTTGGGA
AGAGAACGATTACTCATACTATTGCTACATAGGTTGAGGCTACAGGCCCATTGTGGTTAGTGTTG
GAGGTTTGACGGGTTGGTCTTGATGGCCG
Found at i:50569940 original size:11 final size:11
Alignment explanation
Indices: 50569924--50569948 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50569914 AGAGCTAAGG
50569924 GGAATTTGAAT
1 GGAATTTGAAT
50569935 GGAATTTGAAT
1 GGAATTTGAAT
50569946 GGA
1 GGA
50569949 GTTGTTGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (11 bp):
GGAATTTGAAT
Found at i:50571222 original size:54 final size:54
Alignment explanation
Indices: 50571158--50571279 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 54
50571148 ACTTGCACCT
* * *
50571158 GAAGGGTAAAATGACCGAAATACCCTCGAAAAG-TAAGATGACCGAAATACCCCC
1 GAAGGGTAAAATGACCGAAATACCC-CCAAAAGATAAAATGACCAAAATACCCCC
* ** * * * *
50571212 GAAGGGTAAAATAATTGAAATACCCCCAAAGGATAAAATGGCTAAAATACTCCC
1 GAAGGGTAAAATGACCGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCC
50571266 GAAGGGTAAAATGA
1 GAAGGGTAAAATGA
50571280 TTGTTATACC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 5 0.09
54 51 0.91
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (54 bp):
GAAGGGTAAAATGACCGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCC
Found at i:50571288 original size:27 final size:27
Alignment explanation
Indices: 50571158--50571291 Score: 115
Period size: 27 Copynumber: 5.0 Consensus size: 27
50571148 ACTTGCACCT
** *
50571158 GAAGGGTAAAATGACCGAAATACCCTC
1 GAAGGGTAAAATGATTGAAATACCCCC
** * **
50571185 GAAAAGTAAGATGACCGAAATACCCCC
1 GAAGGGTAAAATGATTGAAATACCCCC
*
50571212 GAAGGGTAAAATAATTGAAATACCCCC
1 GAAGGGTAAAATGATTGAAATACCCCC
* * ** * *
50571239 AAAGGATAAAATGGCTAAAATACTCCC
1 GAAGGGTAAAATGATTGAAATACCCCC
**
50571266 GAAGGGTAAAATGATTGTTATACCCC
1 GAAGGGTAAAATGATTGAAATACCCC
50571292 TAGGAGTCAA
Statistics
Matches: 82, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
GAAGGGTAAAATGATTGAAATACCCCC
Found at i:50571496 original size:26 final size:26
Alignment explanation
Indices: 50571467--50571521 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
50571457 TTTGCTACAT
50571467 ATACTGTTACTGGCAGCTTCGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
* * *
50571493 ATACTTTTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
50571519 ATA
1 ATA
50571522 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTCGCTGCG
Found at i:50571647 original size:28 final size:28
Alignment explanation
Indices: 50571615--50571795 Score: 256
Period size: 28 Copynumber: 6.5 Consensus size: 28
50571605 GTTGCATTAT
*
50571615 CACACTGTTACTGTATTAGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
*
50571643 CACACTGTTTCTGTATTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
*
50571671 CACACTGTTACTGTATTGGACTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
* *
50571699 CACACTTTTACTATATTGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
* * *
50571727 CACACTATTACTGTATCGGGCTAAGGCT
1 CACACTGTTACTGTATTGGGCTAAGGCC
* * *
50571755 CGCATTGTTACTGTATCGGGCTAAGGCC
1 CACACTGTTACTGTATTGGGCTAAGGCC
50571783 CACACTG-TACTGT
1 CACACTGTTACTGT
50571796 TACTGCATAG
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 6 0.04
28 130 0.96
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (28 bp):
CACACTGTTACTGTATTGGGCTAAGGCC
Found at i:50573521 original size:21 final size:21
Alignment explanation
Indices: 50573479--50573518 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50573469 AAACTTGGAT
**
50573479 CAAAATTGACCATTTGATTTG
1 CAAAATTGAAAATTTGATTTG
50573500 CAAAATTGAAAATTT-ATTT
1 CAAAATTGAAAATTTGATTT
50573519 TGCCATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (21 bp):
CAAAATTGAAAATTTGATTTG
Found at i:50581503 original size:25 final size:24
Alignment explanation
Indices: 50581466--50581517 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
50581456 TCCTATACAC
50581466 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTCTAAA-CG
* *
50581491 GTATGCTCTTACGAGCTGTAAACG
1 GTATGCTCATACGAGCTCTAAACG
50581515 GTA
1 GTA
50581518 AGCTACTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAAACG
Found at i:50581572 original size:25 final size:25
Alignment explanation
Indices: 50581511--50581572 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
50581501 ACGAGCTGTA
*
50581511 AACGGTAAGCTACTCTAAGCTGAAT
1 AACGGTAAGCTTCTCTAAGCTGAAT
* * *
50581536 AACGGTAAGCTTCTCTGATCTGGAT
1 AACGGTAAGCTTCTCTAAGCTGAAT
*
50581561 AATGGTAAGCTT
1 AACGGTAAGCTT
50581573 ATACAGGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
AACGGTAAGCTTCTCTAAGCTGAAT
Found at i:50589385 original size:14 final size:15
Alignment explanation
Indices: 50589361--50589389 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50589351 AAAGAGGTAA
50589361 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
50589376 GAAG-AGGAAAAGAG
1 GAAGAAGGAAAAGAG
50589390 AACGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:50599931 original size:40 final size:39
Alignment explanation
Indices: 50599900--50600109 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
50599890 GGACTAAGAT
* *
50599900 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
50599940 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
50599980 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
50600020 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
50600060 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
50600099 CCGAAGGCATT
1 CCGAAGGCATT
50600110 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:50600063 original size:120 final size:120
Alignment explanation
Indices: 50599847--50600109 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
50599837 TTGAATGCTG
* *
50599847 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
50599911 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
50599967 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
50600030 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
50600086 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
50600110 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:50600129 original size:79 final size:80
Alignment explanation
Indices: 50599900--50600144 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
50599890 GGACTAAGAT
* * * * * * * ** *
50599900 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
50599963 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
50599980 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
50600045 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
50600060 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
50600124 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
50600138 CCGAAGG
1 CCGAAGG
50600145 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:50602385 original size:16 final size:16
Alignment explanation
Indices: 50602364--50602394 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50602354 AGTTTATGCT
50602364 AAGTAAATGCAATGGA
1 AAGTAAATGCAATGGA
*
50602380 AAGTAAATGGAATGG
1 AAGTAAATGCAATGG
50602395 TAAGAAAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (16 bp):
AAGTAAATGCAATGGA
Found at i:50602403 original size:20 final size:20
Alignment explanation
Indices: 50602378--50602415 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50602368 AAATGCAATG
50602378 GAAAGTAAATGGAATGGTAA
1 GAAAGTAAATGGAATGGTAA
*
50602398 GAAAGTAAATGGAGTGGT
1 GAAAGTAAATGGAATGGT
50602416 TCATAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (20 bp):
GAAAGTAAATGGAATGGTAA
Found at i:50609570 original size:55 final size:55
Alignment explanation
Indices: 50609476--50609604 Score: 177
Period size: 55 Copynumber: 2.3 Consensus size: 55
50609466 TAATGAAAGA
* *
50609476 AAGTCAATGAGTTACACGGGCTAGTCACATGGGCATGTGGTTGGCCGTGTGACCC
1 AAGTCAATGAGTTACACGGGCTAGTCACACGGACATGTGGTTGGCCGTGTGACCC
* * * * * *
50609531 AAGTCAGTGAGTTACACGGGCTAGTTATACGGACGTGTGGTTGGCTGTGTGGCCC
1 AAGTCAATGAGTTACACGGGCTAGTCACACGGACATGTGGTTGGCCGTGTGACCC
*
50609586 AAGTTAATGAGTTACACGG
1 AAGTCAATGAGTTACACGG
50609605 CGTCGACCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (55 bp):
AAGTCAATGAGTTACACGGGCTAGTCACACGGACATGTGGTTGGCCGTGTGACCC
Found at i:50612879 original size:26 final size:27
Alignment explanation
Indices: 50612824--50612895 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
50612814 AATATCGTAG
* * * *
50612824 CAAAGCTGTCAGTAACA-AAGACGCAG
1 CAAAGCTGCCAGTAACAGTAGACACAA
50612850 CAAAGCTGCCAGTAACAGTA-ACACAA
1 CAAAGCTGCCAGTAACAGTAGACACAA
*
50612876 CAAAGCTTCCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
50612896 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 39 0.98
27 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.18, T:0.14
Consensus pattern (27 bp):
CAAAGCTGCCAGTAACAGTAGACACAA
Found at i:50613105 original size:27 final size:27
Alignment explanation
Indices: 50613073--50613345 Score: 329
Period size: 27 Copynumber: 10.1 Consensus size: 27
50613063 TATAATAGTA
* *
50613073 ATTTTACCCTATT-AGGGTATTTCGGTT
1 ATTTTACCC-ATTGAGGGTATTTCGATC
*
50613100 ATTTTACCC-TTCAGGAGTATTTCGATC
1 ATTTTACCCATTGAGG-GTATTTCGATC
* *
50613127 ATTTTACCCTTTGAGGGTATTTCGGTC
1 ATTTTACCCATTGAGGGTATTTCGATC
*
50613154 A-TTTACCCATTGAGGGTAATTCGATC
1 ATTTTACCCATTGAGGGTATTTCGATC
* * *
50613180 ATTTTACCCATTGACGGTATTTTGATT
1 ATTTTACCCATTGAGGGTATTTCGATC
*
50613207 ATTTTACCCTTTGAGGGTATTTCGATC
1 ATTTTACCCATTGAGGGTATTTCGATC
** *
50613234 ATTTTACCCATAAACGGTATTTCGATC
1 ATTTTACCCATTGAGGGTATTTCGATC
* *
50613261 ATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCCATTGAGGGTATTTCGATC
* *
50613288 ATTTTACCC-TTCGAGGGTATTTTGGTC
1 ATTTTACCCATT-GAGGGTATTTCGATC
*
50613315 ATTTTACCCATTGAGGGTATTTCGGTC
1 ATTTTACCCATTGAGGGTATTTCGATC
50613342 ATTT
1 ATTT
50613346 GCCCATGAAT
Statistics
Matches: 214, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.01
26 27 0.13
27 178 0.83
28 7 0.03
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCATTGAGGGTATTTCGATC
Found at i:50613281 original size:81 final size:81
Alignment explanation
Indices: 50613073--50613345 Score: 363
Period size: 81 Copynumber: 3.4 Consensus size: 81
50613063 TATAATAGTA
* * *
50613073 ATTTTACCCTATT-AGGGTATTTCGGTTATTTTACCCTTC-AGGAGTATTTCGATCATTTTACCC
1 ATTTTACCC-ATTGAGGGTATTTCGATCATTTTACCCATCGAGG-GTATTTCGATCATTTTACCC
50613136 TTTGAGGGTATTTCGGTC
64 TTTGAGGGTATTTCGGTC
* * * * *
50613154 A-TTTACCCATTGAGGGTAATTCGATCATTTTACCCATTGACGGTATTTTGATTATTTTACCCTT
1 ATTTTACCCATTGAGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTT
*
50613218 TGAGGGTATTTCGATC
66 TGAGGGTATTTCGGTC
** * *
50613234 ATTTTACCCATAAACGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTT
1 ATTTTACCCATTGAGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTT
* *
50613299 CGAGGGTATTTTGGTC
66 TGAGGGTATTTCGGTC
*
50613315 ATTTTACCCATTGAGGGTATTTCGGTCATTT
1 ATTTTACCCATTGAGGGTATTTCGATCATTT
50613346 GCCCATGAAT
Statistics
Matches: 164, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
79 3 0.02
80 64 0.39
81 97 0.59
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (81 bp):
ATTTTACCCATTGAGGGTATTTCGATCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTT
TGAGGGTATTTCGGTC
Found at i:50617397 original size:22 final size:23
Alignment explanation
Indices: 50617356--50617398 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50617346 GCAGATACCA
**
50617356 CGCAACCCAGAAATGTCACTTCG
1 CGCAACCCAGAAATCACACTTCG
50617379 CGCAA-CCAGAAATCACACTT
1 CGCAACCCAGAAATCACACTT
50617399 GCTGACTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.35, C:0.35, G:0.14, T:0.16
Consensus pattern (23 bp):
CGCAACCCAGAAATCACACTTCG
Found at i:50620683 original size:28 final size:28
Alignment explanation
Indices: 50620612--50620696 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
50620602 GTAGCAGTAT
*
50620612 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
50620640 AGTGTGTGGGCCTTAGCCCAATACAGTAAC
1 A--GTGTGGGCCTTAGCCCAATACAGTAAC
50620670 AGTGTGGGCCTTAGCCCAATACAGTAA
1 AGTGTGGGCCTTAGCCCAATACAGTAA
50620697 TCGGTACAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
28 27 0.50
30 27 0.50
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:50621106 original size:27 final size:27
Alignment explanation
Indices: 50621056--50621225 Score: 177
Period size: 27 Copynumber: 6.3 Consensus size: 27
50621046 AGGAGTATAA
*
50621056 CAGTCA-TTTACCCTAT-GGGGGTATTT
1 CAGTCATTTTACCCT-TCGAGGGTATTT
*
50621082 CGGTCATTTTACCCTTC-AGGAGTATTT
1 CAGTCATTTTACCCTTCGAGG-GTATTT
50621109 C-GATCATTTTACCCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTT
* * *
50621136 CAATCATTTTACCCATCGAGGGTAGTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
50621163 CAGTCATTTTACCCATCAAGGGTAGTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
50621190 CAGTCATTTTACCTTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
**
50621217 TGGTCATTT
1 CAGTCATTT
50621226 CCCCATGAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
26 9 0.07
27 112 0.90
28 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:50621224 original size:81 final size:81
Alignment explanation
Indices: 50621056--50621225 Score: 195
Period size: 81 Copynumber: 2.1 Consensus size: 81
50621046 AGGAGTATAA
* * * * *
50621056 CAGTCA-TTTACCCTATGGGGGTATTTCGGTCATTTTACCCTTCAGGAGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGAGGGTAGTTCAGTCATTTTACCCATCAGGAGTAGTTCGATCATTTTA
50621120 CCCTTCGAGGGTATTT
66 CCCTTCGAGGGTATTT
*
50621136 CAATCATTTTACCC-ATCGAGGGTAGTTCAGTCATTTTACCCATCAAGG-GTAGTTC-AGTCATT
1 CAGTCATTTTACCCTAT-GAGGGTAGTTCAGTCATTTTACCCATC-AGGAGTAGTTCGA-TCATT
* *
50621198 TTACCTTTTGAGGGTATTT
63 TTACCCTTCGAGGGTATTT
**
50621217 TGGTCATTT
1 CAGTCATTT
50621226 CCCCATGAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
80 8 0.11
81 64 0.85
82 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGAGGGTAGTTCAGTCATTTTACCCATCAGGAGTAGTTCGATCATTTTA
CCCTTCGAGGGTATTT
Found at i:50631789 original size:52 final size:51
Alignment explanation
Indices: 50631658--50631789 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 51
50631648 ATGTGTTTTG
** * *
50631658 CATTAAAGAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTAAGTAACTCTCATGTTAGTTAAATTTGCAT
* * * * *
50631709 -AATAAATTATGGCATGCTTTATA-TAACTCTCATGTTAGTTAAAATTTTCAT
1 CATTAAATTAAGTCATGCATTA-AGTAACTCTCATGTTAGTT-AAATTTGCAT
50631760 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTAAGTAACTC
50631790 ATTTGTTTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
50 32 0.50
51 9 0.14
52 23 0.36
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTAAGTAACTCTCATGTTAGTTAAATTTGCAT
Found at i:50631791 original size:50 final size:50
Alignment explanation
Indices: 50631658--50631829 Score: 131
Period size: 50 Copynumber: 3.4 Consensus size: 50
50631648 ATGTGTTTTG
** * *
50631658 CATTAAAGAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTAAGTAAC-CTCATGTTAGTTAAATTTGCAT
* * * * *
50631709 -AATAAATTATGGCATGCTTTATA-TAACTCTCATGTTAGTTAAAATTTTCAT
1 CATTAAATTAAGTCATGCATTA-AGTAAC-CTCATGTTAGTT-AAATTTGCAT
* *
50631760 CATTAAATTAAGTCATGCATTAAGTAA-CTCATTTGTTTA-TTTAATTTACAT
1 CATTAAATTAAGTCATGCATTAAGTAACCTCA--TG-TTAGTTAAATTTGCAT
*
50631811 C-TT-AATTAAGTCTTGCATT
1 CATTAAATTAAGTCATGCATT
50631830 TAAGCATCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
49 15 0.15
50 38 0.39
51 18 0.18
52 24 0.24
53 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (50 bp):
CATTAAATTAAGTCATGCATTAAGTAACCTCATGTTAGTTAAATTTGCAT
Found at i:50631852 original size:50 final size:51
Alignment explanation
Indices: 50631751--50631857 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 51
50631741 TGTTAGTTAA
* * * *
50631751 AATTTTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTGTTTATTT
1 AATTTACATCATTAAATTAAGTCATGCATTAAGCAACTCATTTGATCATTT
* * *
50631802 AATTTACATC-TT-AATTAAGTCTTGCATTTAAGCATCTTATTTGATCATTT
1 AATTTACATCATTAAATTAAGTCATGCA-TTAAGCAACTCATTTGATCATTT
*
50631852 AGTTTA
1 AATTTA
50631858 AAGCATGACT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 13 0.28
50 25 0.53
51 9 0.19
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (51 bp):
AATTTACATCATTAAATTAAGTCATGCATTAAGCAACTCATTTGATCATTT
Found at i:50635846 original size:47 final size:45
Alignment explanation
Indices: 50635785--50635877 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 45
50635775 TTGTTTTGAT
50635785 ACTTGGTTTTTGAATAAGGTAACGAAATTTTCCCCAAATTTGTTTTC
1 ACTTGGTTTTTGAATAAGGTAACGAAATTTT--CCAAATTTGTTTTC
50635832 ACTTGGTTTTTGAATAAGGTAACGAAATTTTCCAAATTTGTTTTC
1 ACTTGGTTTTTGAATAAGGTAACGAAATTTTCCAAATTTGTTTTC
50635877 A
1 A
50635878 ATTTATATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 15 0.33
47 31 0.67
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (45 bp):
ACTTGGTTTTTGAATAAGGTAACGAAATTTTCCAAATTTGTTTTC
Found at i:50637628 original size:20 final size:19
Alignment explanation
Indices: 50637589--50637646 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
50637579 TGATCCTCTT
*
50637589 ATTAAACATAAAAA-ATAAA
1 ATTAAA-ATAAAAATAAAAA
*
50637608 ATTAATATTAAAAATAAAAA
1 ATTAA-AATAAAAATAAAAA
*
50637628 ATTAAAATGAAAATAAAAA
1 ATTAAAATAAAAATAAAAA
50637647 TTTTGAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
ATTAAAATAAAAATAAAAA
Found at i:50637644 original size:25 final size:25
Alignment explanation
Indices: 50637591--50637647 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
50637581 ATCCTCTTAT
* * *
50637591 TAAACATAAAAAATAAAATTAATAT
1 TAAAAATAAAAAATAAAATGAATAA
50637616 TAAAAATAAAAAATTAAAATGAA-AA
1 TAAAAATAAAAAA-TAAAATGAATAA
50637641 TAAAAAT
1 TAAAAAT
50637648 TTTGAGGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (25 bp):
TAAAAATAAAAAATAAAATGAATAA
Found at i:50637645 original size:18 final size:19
Alignment explanation
Indices: 50637599--50637648 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
50637589 ATTAAACATA
*
50637599 AAAAAT-AAAATTAATATT
1 AAAAATAAAAATTAATAAT
50637617 AAAAATAAAAAATTAA-AAT
1 AAAAAT-AAAAATTAATAAT
*
50637636 GAAAATAAAAATT
1 AAAAATAAAAATT
50637649 TTGAGGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.46
19 7 0.25
20 8 0.29
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATAAAAATTAATAAT
Found at i:50650165 original size:11 final size:11
Alignment explanation
Indices: 50650149--50650173 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50650139 CTCCTATTCT
50650149 AGGAAGCTTCA
1 AGGAAGCTTCA
50650160 AGGAAGCTTCA
1 AGGAAGCTTCA
50650171 AGG
1 AGG
50650174 GACATTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (11 bp):
AGGAAGCTTCA
Found at i:50658173 original size:52 final size:52
Alignment explanation
Indices: 50658090--50658193 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
50658080 AGGAGTCAAG
*
50658090 CCATTTATGTATAGATTCCTCTCTGAGTCTAGTTTCTATATAAACAAACGGC
1 CCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATATAAACAAACGGC
50658142 CCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATATAAACAAACGGC
1 CCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATATAAACAAACGGC
50658194 ATCAGTATTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (52 bp):
CCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATATAAACAAACGGC
Found at i:50664067 original size:40 final size:40
Alignment explanation
Indices: 50663983--50664167 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
50663973 TTGAATGATG
* * *
50663983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
50664022 ATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
50664063 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
50664102 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
50664141 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50664168 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 37 0.29
40 81 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:50664118 original size:79 final size:81
Alignment explanation
Indices: 50663983--50664167 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 81
50663973 TTGAATGATG
*
50663983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGACCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATT
50664047 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ** *
50664062 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCAT
*
50664125 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
50664142 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50664168 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 59 0.64
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:50664189 original size:79 final size:78
Alignment explanation
Indices: 50663984--50664200 Score: 215
Period size: 79 Copynumber: 2.7 Consensus size: 78
50663974 TGAATGATGT
** * * * *
50663984 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGACCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATATCCGG-TTAAGTCCCGAAGGCATTT
*
50664048 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
** * *
50664064 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATATCC-GGTTAAGTCCCGAAGGCATTTGT
*
50664129 GCGAGTTACT-ATAA
65 GCGAGATACTAAT-A
* * *
50664143 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATATCCGGTTAAGTCCCGAAGG
50664201 TACGTGATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.02
79 71 0.61
80 44 0.38
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATATCCGGTTAAGTCCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:50676130 original size:35 final size:36
Alignment explanation
Indices: 50676090--50676172 Score: 107
Period size: 35 Copynumber: 2.3 Consensus size: 36
50676080 CTTCTTGATA
* * *
50676090 TTAATTGGAAGAAGTATTGATGTTCT-T-GTAGGATG
1 TTAATTGAAAGAAGTATCGATGTT-TGTGGCAGGATG
*
50676125 TTAATTGAAAGAAGTATCGGTGTTTGTGGCAGGATG
1 TTAATTGAAAGAAGTATCGATGTTTGTGGCAGGATG
50676161 TTAATTGAAAGA
1 TTAATTGAAAGA
50676173 GGACTGGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 1 0.02
35 22 0.52
36 19 0.45
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (36 bp):
TTAATTGAAAGAAGTATCGATGTTTGTGGCAGGATG
Found at i:50681226 original size:6 final size:6
Alignment explanation
Indices: 50681215--50681322 Score: 64
Period size: 6 Copynumber: 18.0 Consensus size: 6
50681205 AGATCAATTG
* * *
50681215 AAAGAA AAAG-A AAA-AA AATGAA AATGAGGA AAAG-A AAAG-A AAATAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA--AGAA AAAGAA AAAGAA AAAGAA
* * * *
50681261 CAAGAG AAAGATA AAAGAA AATGAGA AAAGAA AAAGAA AAA-AA GGAAGAA
1 AAAGAA AAAGA-A AAAGAA AAAGA-A AAAGAA AAAGAA AAAGAA -AAAGAA
*
50681311 AAGGAA AAAGAA
1 AAAGAA AAAGAA
50681323 TATGAGAAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 18 0.23
6 44 0.56
7 12 0.15
8 4 0.05
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:50681247 original size:24 final size:24
Alignment explanation
Indices: 50681220--50681300 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
50681210 AATTGAAAGA
50681220 AAAAGAAAA-AAAATGAAAATGAGG
1 AAAAGAAAAGAAAATGAAAA-GAGG
50681244 AAAAGAAAAGAAAAT-AACAAGA-G
1 AAAAGAAAAGAAAATGAA-AAGAGG
* *
50681267 AAAGATAAAAGAAAATGAGAAA-AGA
1 AAA-AGAAAAGAAAATGA-AAAGAGG
50681292 AAAAGAAAA
1 AAAAGAAAA
50681301 AAAGGAAGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
23 4 0.08
24 30 0.62
25 13 0.27
26 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.06
Consensus pattern (24 bp):
AAAAGAAAAGAAAATGAAAAGAGG
Found at i:50681256 original size:19 final size:19
Alignment explanation
Indices: 50681224--50681300 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 19
50681214 GAAAGAAAAA
50681224 GAAAA-AAAATGAAAATGAG
1 GAAAAGAAAA-GAAAATGAG
*
50681243 GAAAAGAAAAGAAAATAACAAG
1 GAAAAGAAAAGAAAAT---GAG
*
50681265 AGAAAGATAAAAGAAAATGA-
1 -GAAA-AGAAAAGAAAATGAG
50681285 GAAAAGAAAAAGAAAA
1 GAAAAG-AAAAGAAAA
50681301 AAAGGAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
18 1 0.02
19 24 0.51
20 4 0.09
21 1 0.02
22 2 0.04
23 4 0.09
24 11 0.23
ACGTcount: A:0.73, C:0.01, G:0.19, T:0.06
Consensus pattern (19 bp):
GAAAAGAAAAGAAAATGAG
Found at i:50681320 original size:43 final size:41
Alignment explanation
Indices: 50681223--50681332 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 41
50681213 TGAAAGAAAA
*
50681223 AGAAA-AAAAATGAAAATGAGGAAAAGAAAAGAAAATAACAAG
1 AGAAAGAAAAA-GAAAATGA-GAAAAGAAAAGAAAAAAACAAG
*
50681265 AGAAAGATAAAAGAAAATGAGAAAAGAAAAAGAAAAAAAGGAAG
1 AGAAAGA-AAAAGAAAATGAGAAAAG-AAAAGAAAAAAA-CAAG
*
50681309 A-AAAGGAAAAAGAATATGAGAAAA
1 AGAAA-GAAAAAGAAAATGAGAAAA
50681333 AATGTTTGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
42 11 0.18
43 39 0.65
44 10 0.17
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.06
Consensus pattern (41 bp):
AGAAAGAAAAAGAAAATGAGAAAAGAAAAGAAAAAAACAAG
Found at i:50682845 original size:12 final size:12
Alignment explanation
Indices: 50682828--50682852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50682818 TAAATTGCTA
50682828 GGTGAGATATTT
1 GGTGAGATATTT
50682840 GGTGAGATATTT
1 GGTGAGATATTT
50682852 G
1 G
50682853 CTGCTTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (12 bp):
GGTGAGATATTT
Found at i:50689022 original size:24 final size:25
Alignment explanation
Indices: 50688976--50689049 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
50688966 GTATGCTGAC
* * * *
50688976 ACGAGCTTTGAATCGGTATGCTCTT
1 ACGAGCTGTAAATCGGTAAGCTCAT
50689001 ACGAGCTGTAAAT-GGTAAGCTCAT
1 ACGAGCTGTAAATCGGTAAGCTCAT
*
50689025 CCGAGC--TAAATAACGGTAAGCTCAT
1 ACGAGCTGTAAAT--CGGTAAGCTCAT
50689050 GCAAGCTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 5 0.12
24 14 0.34
25 22 0.54
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGTAAGCTCAT
Found at i:50690323 original size:11 final size:11
Alignment explanation
Indices: 50690307--50690331 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50690297 GGGTCCCTTT
50690307 ATATACAATAA
1 ATATACAATAA
50690318 ATATACAATAA
1 ATATACAATAA
50690329 ATA
1 ATA
50690332 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:50696082 original size:16 final size:15
Alignment explanation
Indices: 50696060--50696104 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
50696050 TTAAGTCTAT
50696060 ATTAATTATGTCTTA
1 ATTAATTATGTCTTA
*
50696075 ATTTAATTAGTGTATTA
1 A-TTAATTA-TGTCTTA
50696092 ATTAA-TATGTCTT
1 ATTAATTATGTCTT
50696105 GATGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 11 0.42
17 7 0.27
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (15 bp):
ATTAATTATGTCTTA
Found at i:50696094 original size:17 final size:16
Alignment explanation
Indices: 50696061--50696094 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
50696051 TAAGTCTATA
*
50696061 TTAATTATGTCTTAAT
1 TTAATTATGTATTAAT
50696077 TTAATTAGTGTATTAAT
1 TTAATTA-TGTATTAAT
50696094 T
1 T
50696095 AATATGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (16 bp):
TTAATTATGTATTAAT
Found at i:50697395 original size:15 final size:16
Alignment explanation
Indices: 50697375--50697408 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50697365 AAAAAAATAT
50697375 AATTGAA-GTAAAAAA
1 AATTGAATGTAAAAAA
*
50697390 AATTGAATTTAAAAAA
1 AATTGAATGTAAAAAA
50697406 AAT
1 AAT
50697409 AGGAGAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTGAATGTAAAAAA
Found at i:50699328 original size:50 final size:53
Alignment explanation
Indices: 50699237--50699359 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 53
50699227 CCCATGTAAT
* * *
50699237 ACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGT-CCCACATAAG
1 ACCATGTCTGGGACATGGCATTGG-A-GACTGAGG-TATGAGAAGTGCCC-CATAAG
*
50699293 ACCATGTCTGGGACATGGCATTGG-GACTGA-G-ATGAGAAGTGCCCCGTAAG
1 ACCATGTCTGGGACATGGCATTGGAGACTGAGGTATGAGAAGTGCCCCATAAG
*
50699343 ACCATGTCGGGGACATG
1 ACCATGTCTGGGACATG
50699360 AAATGGGCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
50 29 0.48
51 3 0.05
52 1 0.02
53 4 0.07
56 24 0.39
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (53 bp):
ACCATGTCTGGGACATGGCATTGGAGACTGAGGTATGAGAAGTGCCCCATAAG
Found at i:50699647 original size:20 final size:20
Alignment explanation
Indices: 50699622--50699660 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50699612 TGAGTTATTT
50699622 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
50699642 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
50699661 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:50702381 original size:17 final size:17
Alignment explanation
Indices: 50702358--50702398 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50702348 AGAGCAAATG
*
50702358 AGAAAAAAAAATAAAAA
1 AGAAAAAAAAAGAAAAA
* *
50702375 TGAAAAAGAAAGAAAAA
1 AGAAAAAAAAAGAAAAA
50702392 AGAAAAA
1 AGAAAAA
50702399 TAGAGAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (17 bp):
AGAAAAAAAAAGAAAAA
Found at i:50702407 original size:23 final size:23
Alignment explanation
Indices: 50702357--50702409 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50702347 TAGAGCAAAT
*
50702357 GAGAAAAAAAAATAAAAATGAAA
1 GAGAAAAAAAAAGAAAAATGAAA
* *
50702380 AAGAAAGAAAAAAGAAAAAT-AGA
1 GAGAAA-AAAAAAGAAAAATGAAA
50702403 GAGAAAA
1 GAGAAAA
50702410 TAAATTGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 12 0.48
24 12 0.48
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (23 bp):
GAGAAAAAAAAAGAAAAATGAAA
Found at i:50722402 original size:23 final size:23
Alignment explanation
Indices: 50722358--50722402 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50722348 TCCTTTGTAA
* *
50722358 TTTTAGTTTTTAGTTTTTCTTTC
1 TTTTAGTTTTTAGGTTTACTTTC
50722381 TTTTAGGTTTTT-GGTTTACTTT
1 TTTTA-GTTTTTAGGTTTACTTT
50722403 TAGTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.71
Consensus pattern (23 bp):
TTTTAGTTTTTAGGTTTACTTTC
Found at i:50725994 original size:14 final size:14
Alignment explanation
Indices: 50725977--50726008 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
50725967 TAATAAGAAT
*
50725977 GAAATTAAAGTAAA
1 GAAATTAAAGAAAA
50725991 GAAATTAAAGAAAA
1 GAAATTAAAGAAAA
50726005 GAAA
1 GAAA
50726009 GAGAGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
GAAATTAAAGAAAA
Found at i:50735609 original size:50 final size:50
Alignment explanation
Indices: 50735487--50735679 Score: 196
Period size: 50 Copynumber: 3.9 Consensus size: 50
50735477 TAATAATATT
* ** * * *
50735487 CCAATGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC--TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTG
* * **
50735536 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
50735586 CCCATGCCATGTCCCAGACATGGTC-TA-ATGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAT--GGGACCTCTCATATCGGTG
* *
50735636 CCAATGCCATGTCCCCGATATGGTCTTACATGGGACCTCTCATA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
50735680 ATCTCAATGA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.03
49 39 0.33
50 73 0.61
51 2 0.02
52 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:50736115 original size:30 final size:29
Alignment explanation
Indices: 50736068--50736127 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
50736058 GCCCTCGACT
*
50736068 CTAAATTTTGCAAAATTACGA-TTTTGCCC
1 CTAAATTTTACAAAATTAC-ACTTTTGCCC
*
50736097 CTAAACTTTTACATAATTACACTTTTGCCC
1 CTAAA-TTTTACAAAATTACACTTTTGCCC
50736127 C
1 C
50736128 AAAGCTCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (29 bp):
CTAAATTTTACAAAATTACACTTTTGCCC
Found at i:50742492 original size:41 final size:40
Alignment explanation
Indices: 50742434--50742693 Score: 213
Period size: 41 Copynumber: 6.3 Consensus size: 40
50742424 ATTACACCGA
50742434 CACAGAGCCTGATATAAATCACCGCTACTAAGCCTAG-TA-G
1 CACAGAGCCTGATATAAATCACCGC-ACTAAGCCT-GCTAGG
*
50742474 CTACAGAGCCTGATATAAATCACCGGCACCAAGCCTGCTAGG
1 C-ACAGAGCCTGATATAAATCACC-GCACTAAGCCTGCTAGG
* * * *
50742516 CACTGAACCTAATATAAATCACTGACACTAAGCCTGCTAGG
1 CACAGAGCCTGATATAAATCACCG-CACTAAGCCTGCTAGG
* * *
50742557 CATAGAGCCTGATATAAATCATCGACACGAA-CCTTGCTAGG
1 CACAGAGCCTGATATAAATCACCG-CACTAAGCC-TGCTAGG
* * * * * *
50742598 CATAGAGCCTAATATAAATCACTGGCACGAAGACTGCTAGT
1 CACAGAGCCTGATATAAATCAC-CGCACTAAGCCTGCTAGG
* ** * * * *
50742639 CACTA-AGCCAGATATAAATCATAGGCACGAAACCTGGTATG
1 CAC-AGAGCCTGATATAAATCA-CCGCACTAAGCCTGCTAGG
50742680 CACAGAGCCTGATA
1 CACAGAGCCTGATA
50742694 GAACATGCTG
Statistics
Matches: 181, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
40 6 0.03
41 168 0.93
42 7 0.04
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
CACAGAGCCTGATATAAATCACCGCACTAAGCCTGCTAGG
Found at i:50742595 original size:82 final size:81
Alignment explanation
Indices: 50742445--50742674 Score: 245
Period size: 82 Copynumber: 2.8 Consensus size: 81
50742435 ACAGAGCCTG
* * * *
50742445 ATATAAATCACCGCTACTAAGCCTAG-TA-GCTACAGAGCCTGATATAAATCACCGGCACCAAGC
1 ATATAAATCACTGC-ACTAAGCCT-GCTAGGC-ATAGAGCCTGATATAAATCATCGGCACGAAGC
50742508 CTGCTAGGCACT-GAACCTA
63 CTGCTAGGCA-TAGAACCTA
*
50742527 ATATAAATCACTGACACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGACACGAA-CCT
1 ATATAAATCACTG-CACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGGCACGAAGCC-
*
50742591 TGCTAGGCATAGAGCCTA
64 TGCTAGGCATAGAACCTA
* * * * * *
50742609 ATATAAATCACTGGCACGAAGACTGCTAGTCACTA-AGCCAGATATAAATCATAGGCACGAAACC
1 ATATAAATCACT-GCACTAAGCCTGCTAGGCA-TAGAGCCTGATATAAATCATCGGCACGAAGCC
50742673 TG
64 TG
50742675 GTATGCACAG
Statistics
Matches: 128, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
81 4 0.03
82 116 0.91
83 8 0.06
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (81 bp):
ATATAAATCACTGCACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGGCACGAAGCCTG
CTAGGCATAGAACCTA
Found at i:50742687 original size:82 final size:82
Alignment explanation
Indices: 50742478--50742689 Score: 257
Period size: 82 Copynumber: 2.6 Consensus size: 82
50742468 TAGTAGCTAC
* * * * *
50742478 AGAGCCTGATATAAATCACCGGCACCAAGCCTGCTAGGCACTGAACCTAATATAAATCACTGACA
1 AGAGCCTGATATAAATCATCGGCACGAAACCTGCTAGGCACAGAGCCTAATATAAATCACTGACA
* *
50742543 CTAAGCCTGCTAGGCAT
66 CGAAGACTGCTAGGCAT
* * *
50742560 AGAGCCTGATATAAATCATCGACACG-AACCTTGCTAGGCATAGAGCCTAATATAAATCACTGGC
1 AGAGCCTGATATAAATCATCGGCACGAAACC-TGCTAGGCACAGAGCCTAATATAAATCACTGAC
*
50742624 ACGAAGACTGCTAGTCACT
65 ACGAAGACTGCTAGGCA-T
* * * *
50742643 A-AGCCAGATATAAATCATAGGCACGAAACCTGGTATGCACAGAGCCT
1 AGAGCCTGATATAAATCATCGGCACGAAACCTGCTAGGCACAGAGCCT
50742690 GATAGAACAT
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
81 3 0.03
82 101 0.92
83 6 0.05
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (82 bp):
AGAGCCTGATATAAATCATCGGCACGAAACCTGCTAGGCACAGAGCCTAATATAAATCACTGACA
CGAAGACTGCTAGGCAT
Found at i:50742718 original size:123 final size:123
Alignment explanation
Indices: 50742434--50742758 Score: 290
Period size: 123 Copynumber: 2.6 Consensus size: 123
50742424 ATTACACCGA
* * * *
50742434 CACAGAGCCTGATATAAATCACCG-CTACTAAGCCTAG-TAG-CTACAGAGCCTGATATAAATCA
1 CACAGAGCCTGATAGAAATCATCGAC-ACGAA-CCTTGCTAGAC-ACAGAGCCTGATATAAATCA
* * * *
50742496 CCGGCACCAAGCCTGCTAGGCACTGAACCTAATATAAATCACTGACACTAAGCCTGCTAGG
63 CTGGCACGAAGCCTGCTAGGCACTGAACCTAATATAAATCACTGACACGAAACCTGCTAGG
* * * * *
50742557 CATAGAGCCTGATATAAATCATCGACACGAACCTTGCTAGGCATAGAGCCTAATATAAATCACTG
1 CACAGAGCCTGATAGAAATCATCGACACGAACCTTGCTAGACACAGAGCCTGATATAAATCACTG
* * * * *
50742622 GCACGAAGACTGCTAGTCACT-AAGCC-AGATATAAATCA-TAGGCACGAAACCTGGTATG
66 GCACGAAGCCTGCTAGGCACTGAA-CCTA-ATATAAATCACT-GACACGAAACCTGCTAGG
* * * * *
50742680 CACAGAGCCTGATAG-AA-CATGCTGACACGGA-GTCTGCTAGACACAAAACCTGATGTAAATCA
1 CACAGAGCCTGATAGAAATCAT-C-GACACGAACCT-TGCTAGACACAGAGCCTGATATAAATCA
*
50742742 CTGGCATGAAGCCTGCT
63 CTGGCACGAAGCCTGCT
50742759 GGACTCAAAG
Statistics
Matches: 166, Mismatches: 27, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
121 3 0.02
122 12 0.07
123 149 0.90
124 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (123 bp):
CACAGAGCCTGATAGAAATCATCGACACGAACCTTGCTAGACACAGAGCCTGATATAAATCACTG
GCACGAAGCCTGCTAGGCACTGAACCTAATATAAATCACTGACACGAAACCTGCTAGG
Found at i:50746982 original size:14 final size:14
Alignment explanation
Indices: 50746949--50746985 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
50746939 TCCAAGTCAG
*
50746949 ATAAAACAATTCAA
1 ATAAAATAATTCAA
50746963 AT-AAATAATTCAA
1 ATAAAATAATTCAA
50746976 ATAAAATAAT
1 ATAAAATAAT
50746986 AAATCAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTCAA
Found at i:50748922 original size:45 final size:44
Alignment explanation
Indices: 50748827--50748923 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
50748817 TTTTCATTTT
* * *
50748827 CATTTTCTTTTTCCACTTGAGAACTCTCTAATTTTTCTAGCTTTT
1 CATTTTCTTTTTCCACTTGAGAACTCTCTAATTTTCCTA-CTATG
50748872 CATTTTCTTTTTCCACTTGAGAACTCTCTAATTTTACCT-CATATG
1 CATTTTCTTTTTCCACTTGAGAACTCTCTAATTTT-CCTAC-TATG
*
50748917 GATTTTC
1 CATTTTC
50748924 ACTCACCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 1 0.02
45 43 0.93
46 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.51
Consensus pattern (44 bp):
CATTTTCTTTTTCCACTTGAGAACTCTCTAATTTTCCTACTATG
Found at i:50752165 original size:16 final size:17
Alignment explanation
Indices: 50752136--50752168 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50752126 TTAACTGTCA
50752136 AATTAAATTAAATTAAT
1 AATTAAATTAAATTAAT
*
50752153 AATT-AATTTAATTAAT
1 AATTAAATTAAATTAAT
50752169 CTTACGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAATTAAATTAAT
Found at i:50763921 original size:20 final size:20
Alignment explanation
Indices: 50763898--50763936 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50763888 ACTTTATTTT
50763898 TAAAGTTAAAATA-ATATTAA
1 TAAAG-TAAAATATATATTAA
50763918 TAAAGTAAAATATATATTA
1 TAAAGTAAAATATATATTA
50763937 TCATCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAGTAAAATATATATTAA
Found at i:50767972 original size:40 final size:40
Alignment explanation
Indices: 50767928--50768016 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
50767918 TCGGTGTCTT
**
50767928 TATTTGCACTTCACTACCTTTGATTGCACATTTGTGCCTC
1 TATTTGCACTTCACTACCTCCGATTGCACATTTGTGCCTC
*** * *
50767968 TATTTGCACTTTGGTGCCTCCGATTGTACATTTGTGCCTC
1 TATTTGCACTTCACTACCTCCGATTGCACATTTGTGCCTC
50768008 TA-TTGCACT
1 TATTTGCACT
50768017 ATGGTGCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 7 0.17
40 35 0.83
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.43
Consensus pattern (40 bp):
TATTTGCACTTCACTACCTCCGATTGCACATTTGTGCCTC
Found at i:50767974 original size:20 final size:19
Alignment explanation
Indices: 50767950--50768015 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
50767940 ACTACCTTTG
50767950 ATTGCACATTTGTGCCTCT
1 ATTGCACATTTGTGCCTCT
*
50767969 ATTTGCAC-TTTGGTGCCTCCG
1 A-TTGCACATTT-GTGCCT-CT
*
50767990 ATTGTACATTTGTGCCTCT
1 ATTGCACATTTGTGCCTCT
50768009 ATTGCAC
1 ATTGCAC
50768016 TATGGTGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 11 0.28
20 23 0.59
21 5 0.13
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (19 bp):
ATTGCACATTTGTGCCTCT
Found at i:50768315 original size:4 final size:4
Alignment explanation
Indices: 50768306--50768339 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
50768296 AAGTTTTATT
50768306 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
50768340 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:50768347 original size:22 final size:22
Alignment explanation
Indices: 50768289--50768348 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
50768279 AAGTGGCCCA
*
50768289 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
50768313 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
50768334 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
50768349 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:50772077 original size:22 final size:23
Alignment explanation
Indices: 50772052--50772111 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
50772042 TGGACTGAAT
50772052 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
50772074 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
50772096 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
50772112 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:50772079 original size:4 final size:4
Alignment explanation
Indices: 50772061--50772094 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
50772051 TATAAAAATT
50772061 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
50772095 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:50775803 original size:39 final size:39
Alignment explanation
Indices: 50775749--50776008 Score: 421
Period size: 39 Copynumber: 6.6 Consensus size: 39
50775739 AACATGTTTT
* * *
50775749 TGAGTATTATGATATATGCTTAAATGTTATATGATGATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
50775788 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
50775827 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
50775866 TGAGTATTGTGATATATGCTTAAATGTTATCTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
50775905 TGAGAATTGTGATATATGTTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
50775944 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
50775983 TGTGTAATATATGATATATGCTTAAA
1 TGAGT-AT-TGTGATATATGCTTAAA
50776009 AGTAAATATA
Statistics
Matches: 206, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 188 0.91
40 2 0.01
41 16 0.08
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:50776905 original size:32 final size:33
Alignment explanation
Indices: 50776813--50776905 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 33
50776803 CATATATGCT
* * *
50776813 TAACAAATATTATCATCGAATGCATATACACTT
1 TAACAAATATTATCACCGAATGTATATACACTA
* * *
50776846 TAA-ACATA-AAT-AGCCAAATGCT-TATACAC-A
1 TAACAAATATTATCA-CCGAATG-TATATACACTA
50776876 TAACAAATATTATCACCGAATGTATATACA
1 TAACAAATATTATCACCGAATGTATATACA
50776906 TGTTCTTCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 13
0.67 0.13 0.19
Matches are distributed among these distances:
30 4 0.09
31 19 0.42
32 18 0.40
33 4 0.09
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (33 bp):
TAACAAATATTATCACCGAATGTATATACACTA
Found at i:50777075 original size:41 final size:41
Alignment explanation
Indices: 50777019--50777132 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 41
50777009 TGATTTAGTA
* * * * *
50777019 CACCGGCTTTTAGCCTGCTAGACTTATAGTC-CAAATTGTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTCAAA-TATTT
*
50777060 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTCAAATATTT
* * **
50777101 CACCGGCATCAAACCTGCTAGAGGTAAAGTCT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCT
50777133 GAAACATTCG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 59 0.95
42 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTCAAATATTT
Found at i:50777133 original size:41 final size:41
Alignment explanation
Indices: 50777057--50777136 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
50777047 GTCCAAATTG
* *
50777057 TTTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATA
1 TTTCACCGGCATCAAACCTGCTAGACATAAAGTCTGAAATA
**
50777098 TTTCACCGGCATCAAACCTGCTAGAGGTAAAGTCTGAAA
1 TTTCACCGGCATCAAACCTGCTAGACATAAAGTCTGAAA
50777137 CATTCGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
TTTCACCGGCATCAAACCTGCTAGACATAAAGTCTGAAATA
Found at i:50784708 original size:41 final size:41
Alignment explanation
Indices: 50784636--50784713 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
50784626 ATCAGCTTTT
* * * * * *
50784636 AGCCTGCTAGACTTATAGTTCGAATTGTTTCACCGGCATTA
1 AGCCTGCCAGACATAAAGTCCGAAATATTTCACCGGCATTA
50784677 AGCCTGCCAGACATAAAGTCCGAAATATTTCACCGGC
1 AGCCTGCCAGACATAAAGTCCGAAATATTTCACCGGC
50784714 GTCAAACCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCCAGACATAAAGTCCGAAATATTTCACCGGCATTA
Found at i:50785412 original size:10 final size:10
Alignment explanation
Indices: 50785399--50785484 Score: 81
Period size: 10 Copynumber: 8.6 Consensus size: 10
50785389 AACTCACTTG
*
50785399 AGCTCAAGTC
1 AGCTCAATTC
50785409 AGCTC-ATTC
1 AGCTCAATTC
*
50785418 GAGCTCAAGTC
1 -AGCTCAATTC
50785429 AGCTC-ATTC
1 AGCTCAATTC
50785438 GAGCTCAATTC
1 -AGCTCAATTC
50785449 AGCTC-ATTC
1 AGCTCAATTC
50785458 AAGCTC-ATTC
1 -AGCTCAATTC
*
50785468 GAGCTCAATTT
1 -AGCTCAATTC
50785479 AGCTCA
1 AGCTCA
50785485 TTGAGCTTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
9 10 0.15
10 45 0.69
11 10 0.15
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:50785443 original size:30 final size:29
Alignment explanation
Indices: 50785409--50785484 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 29
50785399 AGCTCAAGTC
50785409 AGCTCATTCGAGCTCAAGTC-AGCTCATTCG
1 AGCTCATTC-AGCTC-AGTCAAGCTCATTCG
*
50785439 AGCTCAATTCAGCTCATTCAAGCTCATTCG
1 AGCTC-ATTCAGCTCAGTCAAGCTCATTCG
*
50785469 AGCTCAATTTAGCTCA
1 AGCTC-ATTCAGCTCA
50785485 TTGAGCTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 3 0.07
30 35 0.83
31 4 0.10
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGCTCATTCAGCTCAGTCAAGCTCATTCG
Found at i:50785472 original size:20 final size:20
Alignment explanation
Indices: 50785398--50785474 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
50785388 CAACTCACTT
*
50785398 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAATTCAGCTCATTC
*
50785418 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAATTCAGCTCATTC
50785438 GAGCTCAATTCAGCTCATTC
1 GAGCTCAATTCAGCTCATTC
*
50785458 AAGCTC-ATTCGAGCTCA
1 GAGCTCAATTC-AGCTCA
50785475 ATTTAGCTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
19 4 0.07
20 50 0.93
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (20 bp):
GAGCTCAATTCAGCTCATTC
Found at i:50785484 original size:20 final size:20
Alignment explanation
Indices: 50785398--50785464 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
50785388 CAACTCACTT
50785398 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAGCTCATTC
50785418 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAGCTCATTC
*
50785438 GAGCTCAATTCAGCTCATTC
1 GAGCTCAAGTCAGCTCATTC
*
50785458 AAGCTCA
1 GAGCTCA
50785465 TTCGAGCTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (20 bp):
GAGCTCAAGTCAGCTCATTC
Found at i:50785485 original size:30 final size:30
Alignment explanation
Indices: 50785429--50785486 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
50785419 AGCTCAAGTC
50785429 AGCTCATTCGAGCTCAATTCAGCTCATTCA
1 AGCTCATTCGAGCTCAATTCAGCTCATTCA
*
50785459 AGCTCATTCGAGCTCAATTTAGCTCATT
1 AGCTCATTCGAGCTCAATTCAGCTCATT
50785487 GAGCTTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (30 bp):
AGCTCATTCGAGCTCAATTCAGCTCATTCA
Found at i:50790790 original size:35 final size:35
Alignment explanation
Indices: 50790739--50790823 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
50790729 AATGGCATGT
* *
50790739 TTAACATGC-AAGTCATAATCAAAATAATAGAATGC
1 TTAACATGCGAA-TCATAACCAAAATAATAGAACGC
* *
50790774 TTAACATGCGAATCATAACCAGAATAATAGCACGC
1 TTAACATGCGAATCATAACCAAAATAATAGAACGC
*
50790809 TTAACATACGAATCA
1 TTAACATGCGAATCA
50790824 AAATATCAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 42 0.95
36 2 0.05
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.24
Consensus pattern (35 bp):
TTAACATGCGAATCATAACCAAAATAATAGAACGC
Found at i:50792663 original size:235 final size:233
Alignment explanation
Indices: 50792190--50792664 Score: 661
Period size: 235 Copynumber: 2.0 Consensus size: 233
50792180 TGTAGAAAAA
* *
50792190 GGGGTGGTGGTAGGAGGATAAAAGAGAAAAAAGATAAGATAAAGAGAATAAAAATAAAAATGAAG
1 GGGGTGGTGGTAGGAGGATAAAAAAGAAAAAAAATAAGATAAAGAGAATAAAAATAAAAATGAAG
*
50792255 ATTTGGGGGTATCAAGGTGCATGGTACAACCAAGGTACGATAAGGGGAGAGAATTTGGCAATAGG
66 ATTTGGGGGTATCAAGGTGCATGGTACAACCAAGGTACGATAAGGGGAGAGAATTTGGAAATAGG
**
50792320 GGAAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGGGAGGTATTGGGGGAAAATTGACTC
131 GGAAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGGGAGGTATTGGGGGAAAATCAACTC
* * *
50792385 CTCAATAGAGGAAATAATCTTCCCCACAAGGAAACAAT
196 ATCAAAAGAGGAAAGAATCTTCCCCACAAGGAAACAAT
* *
50792423 GGGGTGGTGGTAGGAGGA-AGAGAAAAGATAAAAAAATATGAGATGAGGAGAATAAAAATAAAAA
1 GGGGTGGTGGTAGGAGGATA-A-AAAAGA-AAAAAAATA--AGATAAAGAGAATAAAAATAAAAA
** *** * *
50792487 TGAAGATTTGGGGGTATGTAGGTGCATGGT-TGGCCAAGGTATGGTAAGTGGG-GAGAATTTGGA
61 TGAAGATTTGGGGGTATCAAGGTGCATGGTACAACCAAGGTACGATAAG-GGGAGAGAATTTGGA
* * * *
50792550 AATAGGGGGAACATAGGCACCAAAAGTGGATCATTGAGTGGAACGGGG-GGTATTGGGGGAAAAT
125 AATAGGGGAAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGGGAGGTATTGGGGGAAAAT
* *
50792614 CAACTCATCAAAAGAGGAAAGGATCTTCCCCACAAGGCAACAAT
190 CAACTCATCAAAAGAGGAAAGAATCTTCCCCACAAGGAAACAAT
50792658 GGGGTGG
1 GGGGTGG
50792665 ACGGCAAGGG
Statistics
Matches: 213, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
232 1 0.00
233 19 0.09
234 5 0.02
235 68 0.32
236 67 0.31
237 53 0.25
ACGTcount: A:0.40, C:0.09, G:0.33, T:0.18
Consensus pattern (233 bp):
GGGGTGGTGGTAGGAGGATAAAAAAGAAAAAAAATAAGATAAAGAGAATAAAAATAAAAATGAAG
ATTTGGGGGTATCAAGGTGCATGGTACAACCAAGGTACGATAAGGGGAGAGAATTTGGAAATAGG
GGAAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGGGAGGTATTGGGGGAAAATCAACTC
ATCAAAAGAGGAAAGAATCTTCCCCACAAGGAAACAAT
Found at i:50794487 original size:23 final size:23
Alignment explanation
Indices: 50794461--50794526 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
50794451 CTAGATCTCA
*
50794461 CCACAAAGGCTTCACAGAATATG
1 CCACAAAGGCTTCACAAAATATG
* *
50794484 CCACAACGACTTCACAAAATATG
1 CCACAAAGGCTTCACAAAATATG
*
50794507 CCACAAAGGCTTTACAAAAT
1 CCACAAAGGCTTCACAAAAT
50794527 TTCGTGTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.18
Consensus pattern (23 bp):
CCACAAAGGCTTCACAAAATATG
Found at i:50802079 original size:452 final size:451
Alignment explanation
Indices: 50801236--50802138 Score: 1752
Period size: 452 Copynumber: 2.0 Consensus size: 451
50801226 GAATCGTTTC
50801236 ACAAGGTTTGCCTGATCGTCAATGAGGAGAAGTTCTAGTAGTCAAAAAGGTGTAAATTTGTTTAA
1 ACAAGGTTTGCCTGATCGTCAATGAGGAGAAGTTCTAGTAGTCAAAAAGGTGTAAATTTGTTTAA
50801301 GGTTTGTAGAAGCTTACGAAGTGATTTTTGAAATGGATGGAAAGTTAAGAAAGATGTAGGTTCAG
66 GGTTTGTAGAAGCTTACGAAGTGATTTTTGAAATGGATGGAAAGTTAAGAAAGATGTAGGTTCAG
50801366 TTTAATAAAAGAAAAAAGGATAGATAATTTGGCACAATTGGTGGGGATGGAAAACAAACTTAATG
131 TTTAATAAAAGAAAAAAGGATAGATAATTTGGCACAATTGGTGGGGATGGAAAACAAACTTAATG
50801431 GAAGAAATATTCCACACTATATCGTAGTGTCACCCCGCTTCTTATGTCGTTAAGATGGATTTGTG
196 GAAGAAATATTCCACACTATATCGTAGTGTCACCCCGCTTCTTATGTCGTTAAGATGGATTTGTG
*
50801496 GAATGGTGGATTGGTGACTGCCATACCGATTTACGGTGATAAGTTCAAAGACAAGTAAGAAGACG
261 GAATGGTGGATTGGTGACTGCCATACCGATTTACGGTGATAAGTTCAAAAACAAGTAAGAAGACG
*
50801561 CCATTAGCACGCTAGATAAGTCAACGAGACTTGTATGAAATTTGAGAAGAGACAAACTCACTCAA
326 CCATTAGCACGCTAGATAAGTCAACGAGACTTGTACGAAATTTGAGAAGAGACAAACTCACTCAA
50801626 GAACACAATGTTCATAAATCAAATTGGCAAAAGTTATCTAACCTAAAACAATGTCTTCGTA
391 GAACACAATGTTCATAAATCAAATTGGCAAAAGTTATCTAACCTAAAACAATGTCTTCGTA
50801687 ACAAGGTTTGCCTGATCGTCAATGAGGAGAAGTTCTAGTAGTCAAAAAGGTGTAAATTTGTTTAA
1 ACAAGGTTTGCCTGATCGTCAATGAGGAGAAGTTCTAGTAGTCAAAAAGGTGTAAATTTGTTTAA
*
50801752 GGTTTGTAGAAGCTTATGAAGTGATTTTTGAAATGGATGGAAAGTTAAGAAAGATGTAGGTTCAG
66 GGTTTGTAGAAGCTTACGAAGTGATTTTTGAAATGGATGGAAAGTTAAGAAAGATGTAGGTTCAG
50801817 TTTAATAAAAGAAAAAAAGGATAGATAATTTGGCACAATTGGTGGGGATGGAAAACAAACTTAAT
131 TTTAATAAAAG-AAAAAAGGATAGATAATTTGGCACAATTGGTGGGGATGGAAAACAAACTTAAT
* *
50801882 GGAAGAAATATTCCACATTATATCGTAGTGTCACCCCGCTTCTTTTGTCGTTAAGATGGATTTGT
195 GGAAGAAATATTCCACACTATATCGTAGTGTCACCCCGCTTCTTATGTCGTTAAGATGGATTTGT
50801947 GGAATGGTGGATTGGTGACTGCCATACCGATTTACGGTGATAAGTTCAAAAACAAGTAAGAAGAC
260 GGAATGGTGGATTGGTGACTGCCATACCGATTTACGGTGATAAGTTCAAAAACAAGTAAGAAGAC
50802012 GCCATTAGCACGCTAGATAAGTCAACGAGACTTGTACGAAATTTGAGAAGAGACAAACTCACTCA
325 GCCATTAGCACGCTAGATAAGTCAACGAGACTTGTACGAAATTTGAGAAGAGACAAACTCACTCA
50802077 AGAACACAATGTTCATAAATCAAATTGGCAAAAGTTATCTAACCTAAAACAATGTCTTCGTA
390 AGAACACAATGTTCATAAATCAAATTGGCAAAAGTTATCTAACCTAAAACAATGTCTTCGTA
50802139 CAAACTATTT
Statistics
Matches: 446, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
451 140 0.31
452 306 0.69
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (451 bp):
ACAAGGTTTGCCTGATCGTCAATGAGGAGAAGTTCTAGTAGTCAAAAAGGTGTAAATTTGTTTAA
GGTTTGTAGAAGCTTACGAAGTGATTTTTGAAATGGATGGAAAGTTAAGAAAGATGTAGGTTCAG
TTTAATAAAAGAAAAAAGGATAGATAATTTGGCACAATTGGTGGGGATGGAAAACAAACTTAATG
GAAGAAATATTCCACACTATATCGTAGTGTCACCCCGCTTCTTATGTCGTTAAGATGGATTTGTG
GAATGGTGGATTGGTGACTGCCATACCGATTTACGGTGATAAGTTCAAAAACAAGTAAGAAGACG
CCATTAGCACGCTAGATAAGTCAACGAGACTTGTACGAAATTTGAGAAGAGACAAACTCACTCAA
GAACACAATGTTCATAAATCAAATTGGCAAAAGTTATCTAACCTAAAACAATGTCTTCGTA
Found at i:50804799 original size:18 final size:17
Alignment explanation
Indices: 50804767--50804822 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
50804757 CGCTTGCCTC
*
50804767 TTTTTCTCTCG-TTTCT
1 TTTTTTTCTCGATTTCT
50804783 TTTTTTTACTCGATTTCT
1 TTTTTTT-CTCGATTTCT
* * *
50804801 CTTCTTTCTTCAATTTCT
1 TTTTTTTC-TCGATTTCT
50804819 TTTT
1 TTTT
50804823 CAATTTTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 6 0.19
17 5 0.16
18 20 0.65
ACGTcount: A:0.07, C:0.21, G:0.04, T:0.68
Consensus pattern (17 bp):
TTTTTTTCTCGATTTCT
Found at i:50804873 original size:12 final size:13
Alignment explanation
Indices: 50804802--50804835 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
50804792 TCGATTTCTC
50804802 TTCTTTCTTCAA-T
1 TTCTTT-TTCAATT
50804815 TTCTTTTTCAATT
1 TTCTTTTTCAATT
50804828 TTCTTTTT
1 TTCTTTTT
50804836 TTCACTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTTTTCAATT
Found at i:50804898 original size:20 final size:20
Alignment explanation
Indices: 50804873--50804911 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50804863 TTTTTCAATT
50804873 TTCTCTTTTT-TTTCTCTCAC
1 TTCTCTTTTTCTTT-TCTCAC
50804893 TTCTCTTTTTCTTTTCTCA
1 TTCTCTTTTTCTTTTCTCA
50804912 TTTCCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCTCTTTTTCTTTTCTCAC
Found at i:50804963 original size:33 final size:34
Alignment explanation
Indices: 50804896--50804970 Score: 109
Period size: 33 Copynumber: 2.2 Consensus size: 34
50804886 CTCTCACTTC
*
50804896 TCTTTTTCTTTTCTCATTTCCATTCTCTTTTTCT
1 TCTTTTTCTTTTCTCATTGCCATTCTCTTTTTCT
*
50804930 TCTTTTTCTTTT-TCACTTGCC-TTTTCTTTTTCT
1 TCTTTTTCTTTTCTCA-TTGCCATTCTCTTTTTCT
50804963 TCTTTTTC
1 TCTTTTTC
50804971 GATTTATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 22 0.58
34 16 0.42
ACGTcount: A:0.04, C:0.25, G:0.01, T:0.69
Consensus pattern (34 bp):
TCTTTTTCTTTTCTCATTGCCATTCTCTTTTTCT
Found at i:50806951 original size:20 final size:20
Alignment explanation
Indices: 50806928--50806975 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
50806918 TTAACTTAGT
*
50806928 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCAAGCTCAAG
* *
50806948 TCAGCTCATTCAAGCTCAAT
1 TCAGCTCACTCAAGCTCAAG
50806968 TCAGCTCA
1 TCAGCTCA
50806976 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (20 bp):
TCAGCTCACTCAAGCTCAAG
Found at i:50806953 original size:10 final size:10
Alignment explanation
Indices: 50806927--50806977 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
50806917 TTTAACTTAG
50806927 TTCAGCTC-A
1 TTCAGCTCAA
*
50806936 CTCGAGCTCAA
1 TTC-AGCTCAA
*
50806947 GTCAGCTC-A
1 TTCAGCTCAA
50806956 TTCAAGCTCAA
1 TTC-AGCTCAA
50806967 TTCAGCTCAA
1 TTCAGCTCAA
50806977 T
1 T
50806978 CTTAACCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 5 0.14
10 23 0.66
11 7 0.20
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:50809692 original size:14 final size:15
Alignment explanation
Indices: 50809673--50809724 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 15
50809663 AATGAAATCG
50809673 AGAAATGAAA-AAAA
1 AGAAATGAAAGAAAA
50809687 AGAAATGAAAGAAAA
1 AGAAATGAAAGAAAA
*
50809702 AGAACAAGAAATCGAAAA
1 AGAA-ATGAAA--GAAAA
50809720 AGAAA
1 AGAAA
50809725 ATGAGAGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 10 0.30
15 8 0.24
16 5 0.15
17 1 0.03
18 9 0.27
ACGTcount: A:0.73, C:0.04, G:0.17, T:0.06
Consensus pattern (15 bp):
AGAAATGAAAGAAAA
Found at i:50810670 original size:33 final size:33
Alignment explanation
Indices: 50810633--50810704 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
50810623 TGATCAAGCC
* *
50810633 AGGTAAAATCAAACTTTGTTTCCCTGCTCCAAA
1 AGGTAAAACCAAACTTTATTTCCCTGCTCCAAA
** *
50810666 AGGTAAAACCAAACTTTATTTTTCTGCTCCTAA
1 AGGTAAAACCAAACTTTATTTCCCTGCTCCAAA
50810699 AGGTAA
1 AGGTAA
50810705 GCCTCCTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (33 bp):
AGGTAAAACCAAACTTTATTTCCCTGCTCCAAA
Found at i:50813512 original size:40 final size:40
Alignment explanation
Indices: 50813453--50813800 Score: 561
Period size: 40 Copynumber: 8.7 Consensus size: 40
50813443 GAGCATTGGA
50813453 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
50813493 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
50813533 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
50813573 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
50813613 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
**
50813653 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGACG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
50813693 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
50813733 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* * *
50813773 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTATGACCCGAAGGCAA
50813801 ATGTGTTTGC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
Found at i:50821558 original size:40 final size:40
Alignment explanation
Indices: 50821514--50821737 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
50821504 AAGTGAATAT
* * * * **
50821514 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
50821554 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
50821594 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
50821634 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
50821674 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
50821713 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
50821738 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:50821612 original size:80 final size:80
Alignment explanation
Indices: 50821475--50821737 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
50821465 TTGAATGCTG
* * * * *
50821475 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
50821537 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
50821555 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
50821620 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
50821635 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
50821699 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
50821714 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
50821738 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:50821689 original size:120 final size:120
Alignment explanation
Indices: 50821475--50821737 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
50821465 TTGAATGCTG
* * *
50821475 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
50821539 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
50821595 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
50821657 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
50821714 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
50821738 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:50825204 original size:6 final size:6
Alignment explanation
Indices: 50825195--50825318 Score: 72
Period size: 6 Copynumber: 20.0 Consensus size: 6
50825185 AATGAAAAAG
* ** *
50825195 AAGAAA AAGAAA AGGAAA GTGAAA AAGAAA TAG-AA AAGAAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA
** * ** *
50825243 AAGAAA TTGTAA AAGAAAA AAGAAA TAA-AAA AAGTGA GAGAAA AAGAAA
1 AAGAAA AAGAAA AAG-AAA AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA
* *
50825292 ATGAAGA ATAGAAA ATTGAAA AAGAAA
1 AAGAA-A A-AGAAA A-AGAAA AAGAAA
50825319 TTGAGAATGA
Statistics
Matches: 88, Mismatches: 23, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
5 6 0.07
6 57 0.65
7 22 0.25
8 3 0.03
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (6 bp):
AAGAAA
Found at i:50825256 original size:25 final size:24
Alignment explanation
Indices: 50825195--50825267 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
50825185 AATGAAAAAG
* * **
50825195 AAGAAAAAGAAAAGGAAAGTGAAA
1 AAGAAATAGAAAAGAAAAAAGAAA
50825219 AAGAAATAGAAAAGAAAAAAGAAA
1 AAGAAATAGAAAAGAAAAAAGAAA
*
50825243 AAGAAATTGTAAAAGAAAAAAGAAA
1 AAGAAATAG-AAAAGAAAAAAGAAA
50825268 TAAAAAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 28 0.65
25 15 0.35
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (24 bp):
AAGAAATAGAAAAGAAAAAAGAAA
Found at i:50825273 original size:36 final size:36
Alignment explanation
Indices: 50825182--50825276 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
50825172 ACATTGTAAT
*
50825182 AAAAATGAAAAAG--AAG-AAAAAGAAAAGGAAAGTG
1 AAAAA-GAAAAAGAAAAGAAAAAAGAAAAAGAAAGTG
* *
50825216 AAAAAGAAATAGAAAAGAAAAAAGAAAAAGAAATTG
1 AAAAAGAAAAAGAAAAGAAAAAAGAAAAAGAAAGTG
*
50825252 TAAAAGAAAAAAGAAATA-AAAAAAG
1 AAAAAG-AAAAAGAAA-AGAAAAAAG
50825277 TGAGAGAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
33 6 0.12
34 5 0.10
35 3 0.06
36 21 0.41
37 15 0.29
38 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (36 bp):
AAAAAGAAAAAGAAAAGAAAAAAGAAAAAGAAAGTG
Found at i:50825315 original size:27 final size:27
Alignment explanation
Indices: 50825282--50825333 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
50825272 AAAAGTGAGA
50825282 GAAAAAGAAAATGAAGAAT-AGAAAATT
1 GAAAAAGAAAATG-AGAATGAGAAAATT
*
50825309 GAAAAAGAAATTGAGAATGAGAAAA
1 GAAAAAGAAAATGAGAATGAGAAAA
50825334 AAACTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.13
Consensus pattern (27 bp):
GAAAAAGAAAATGAGAATGAGAAAATT
Found at i:50827520 original size:27 final size:27
Alignment explanation
Indices: 50827482--50827533 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
50827472 TGTTTGTAGG
* *
50827482 TACATGCATGGACATCATTGAAGATAA
1 TACATGCATGGACAGCAATGAAGATAA
50827509 TACATGCATGGACAGCAATGAAGAT
1 TACATGCATGGACAGCAATGAAGAT
50827534 GCTTCAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (27 bp):
TACATGCATGGACAGCAATGAAGATAA
Found at i:50830874 original size:6 final size:6
Alignment explanation
Indices: 50830865--50830919 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
50830855 TATATATTTC
50830865 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
50830913 TATATG T
1 TATATG T
50830920 CTATAATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:50832689 original size:17 final size:17
Alignment explanation
Indices: 50832669--50832701 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50832659 CGTCAAGCGG
*
50832669 TACTATTTGCCAGGTGA
1 TACTATTTACCAGGTGA
50832686 TACTATTTACCAGGTG
1 TACTATTTACCAGGTG
50832702 CTATAGTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (17 bp):
TACTATTTACCAGGTGA
Found at i:50838342 original size:16 final size:16
Alignment explanation
Indices: 50838321--50838354 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
50838311 AATGAGCCAT
*
50838321 ATCCATGAATCCAGCC
1 ATCCATGAATCCAACC
50838337 ATCCATGAATCCAACC
1 ATCCATGAATCCAACC
50838353 AT
1 AT
50838355 TCATATATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.21
Consensus pattern (16 bp):
ATCCATGAATCCAACC
Found at i:50851229 original size:16 final size:17
Alignment explanation
Indices: 50851202--50851234 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
50851192 TTAAAAATGG
50851202 CTTTTAAGATTTTTTTT
1 CTTTTAAGATTTTTTTT
50851219 CTTTT-AGATTTTTTTT
1 CTTTTAAGATTTTTTTT
50851235 AGAAAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (17 bp):
CTTTTAAGATTTTTTTT
Found at i:50852298 original size:90 final size:86
Alignment explanation
Indices: 50852141--50852321 Score: 227
Period size: 90 Copynumber: 2.1 Consensus size: 86
50852131 AACAACTATG
* * *
50852141 GAATTAAACAACCACTACGGAATTTCTATTTCGATATGGGTAACATTAAGCTATACAGCAAGCAT
1 GAATTAAACAACCACTACGGAATTTCAATTTCGATACGGGTAACATTAAGCTATAAAGCAAGCAT
** *
50852206 AAGATTATTTCTATTTGGCCA
66 AAGACCATTTCTATTTGCCCA
* * * *
50852227 GAATTAAACAACCACTAGGGAATCACTTTCAATTTCGATACGTGTAATATTAAGTTATAAAGCAA
1 GAATTAAACAACCACTACGG-A--A-TTTCAATTTCGATACGGGTAACATTAAGCTATAAAGCAA
50852292 GCATAAGACCATTTCTATTTGCCCA
62 GCATAAGACCATTTCTATTTGCCCA
*
50852317 TAATT
1 GAATT
50852322 CCGTTTCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 19 0.24
87 1 0.01
89 1 0.01
90 59 0.74
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (86 bp):
GAATTAAACAACCACTACGGAATTTCAATTTCGATACGGGTAACATTAAGCTATAAAGCAAGCAT
AAGACCATTTCTATTTGCCCA
Found at i:50853245 original size:24 final size:24
Alignment explanation
Indices: 50853218--50853294 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
50853208 AGTGCAAGCC
50853218 ATATTCCATCATTATTTGCAGCTA
1 ATATTCCATCATTATTTGCAGCTA
* * *
50853242 ATA-TGCAT-ATATACTAGTGCAAGC-C
1 ATATTCCATCAT-TA-T-TTGC-AGCTA
50853267 ATATTCCATCATTATTTGCAGCTA
1 ATATTCCATCATTATTTGCAGCTA
50853291 ATAT
1 ATAT
50853295 GCATTCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 2 0.05
23 9 0.22
24 11 0.28
25 7 0.17
26 9 0.22
27 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (24 bp):
ATATTCCATCATTATTTGCAGCTA
Found at i:50853271 original size:49 final size:49
Alignment explanation
Indices: 50853199--50853298 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
50853189 AAAAAGAAAG
50853199 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
1 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
50853248 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
1 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
50853297 AT
1 AT
50853299 TCATTTGAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (49 bp):
ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
Found at i:50856714 original size:33 final size:33
Alignment explanation
Indices: 50856677--50856740 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
50856667 ACTAATTGGA
50856677 ACTATTGAAAATGCTTACCAACAATTTACTATT
1 ACTATTGAAAATGCTTACCAACAATTTACTATT
50856710 ACTATTGAAAATGCTTACCAACAATTTACTA
1 ACTATTGAAAATGCTTACCAACAATTTACTA
50856741 CAGCAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (33 bp):
ACTATTGAAAATGCTTACCAACAATTTACTATT
Found at i:50871129 original size:16 final size:17
Alignment explanation
Indices: 50871097--50871130 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50871087 GGGGATGGTG
50871097 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
50871114 TTTGTTT-ATTTTTATT
1 TTTGTTTGATGTTTATT
50871130 T
1 T
50871131 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:50872406 original size:21 final size:21
Alignment explanation
Indices: 50872364--50872406 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
50872354 ATATGCACTT
*
50872364 AAGGCAATTATAATTCAAAAC
1 AAGGCAATTACAATTCAAAAC
*
50872385 AAGGGAATTACAA-TCAACAAC
1 AAGGCAATTACAATTCAA-AAC
50872406 A
1 A
50872407 GCAAAACTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (21 bp):
AAGGCAATTACAATTCAAAAC
Found at i:50885601 original size:18 final size:18
Alignment explanation
Indices: 50885566--50885613 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
50885556 AAATCCAAAA
50885566 CAGATT-AAAA-AA-AAT
1 CAGATTCAAAAGAATAAT
50885581 CAGA-TCACAAAGAATAAT
1 CAGATTCA-AAAGAATAAT
50885599 CAGATTCAAAAGAAT
1 CAGATTCAAAAGAAT
50885614 TCTAGGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 5 0.18
16 3 0.11
17 2 0.07
18 14 0.50
19 3 0.11
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.19
Consensus pattern (18 bp):
CAGATTCAAAAGAATAAT
Found at i:50897681 original size:104 final size:104
Alignment explanation
Indices: 50897558--50897767 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
50897548 TAACACTTAA
50897558 CCAACTAAACAAATAACTCATTTAATTCCTAAAAATGCATAGATAATCTTAAAAATTAAGGAATG
1 CCAACTAAACAAATAACTCATTTAATTCCTAAAAATGCATAGATAATCTTAAAAATTAAGGAATG
50897623 ACCACTCTCTCTCACTTCACAAACCCAATTTTGCTAACC
66 ACCACTCTCTCTCACTTCACAAACCCAATTTTGCTAACC
50897662 CCAACTAAACAAATAACTCATTTAATTCCTAAAAATGCATAGATAATCTTAAAAATTAAGGAATG
1 CCAACTAAACAAATAACTCATTTAATTCCTAAAAATGCATAGATAATCTTAAAAATTAAGGAATG
50897727 ACCACTCTCTCTCACTTCACAAACCCAATTTTGCTAACC
66 ACCACTCTCTCTCACTTCACAAACCCAATTTTGCTAACC
50897766 CC
1 CC
50897768 CGATTTTTGG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.28
Consensus pattern (104 bp):
CCAACTAAACAAATAACTCATTTAATTCCTAAAAATGCATAGATAATCTTAAAAATTAAGGAATG
ACCACTCTCTCTCACTTCACAAACCCAATTTTGCTAACC
Done.