Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 178 of 352
Found at i:58370527 original size:41 final size:41
Alignment explanation
Indices: 58370477--58370570 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
58370467 ACGGCTTAGC
58370477 ACACGCTCGTGTGCTTGGCCCGTGTCCTTCACACGGCCATG
1 ACACGCTCGTGTGCTTGGCCCGTGTCCTTCACACGGCCATG
58370518 ACACGCTCGTGTGCTTGGCCCGTGTCCTTCACACGGCCATG
1 ACACGCTCGTGTGCTTGGCCCGTGTCCTTCACACGGCCATG
58370559 ACACGCTCGTGT
1 ACACGCTCGTGT
58370571 CCTGGCTCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.13, C:0.36, G:0.27, T:0.24
Consensus pattern (41 bp):
ACACGCTCGTGTGCTTGGCCCGTGTCCTTCACACGGCCATG
Found at i:58371663 original size:44 final size:45
Alignment explanation
Indices: 58371599--58371714 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 45
58371589 GTGCCGATGC
* * *
58371599 CATGTCCCAGGCATGGTCTTACACTAAC-ACATCTCGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAACTACATCTCG-AGGCTAATA
* *
58371644 CATGTCTCGGACATGTCTTACACTAACTTACATCTCGAGGCTAATA
1 CATGTCCCAGACATGTCTTACACTAAC-TACATCTCGAGGCTAATA
58371690 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
58371715 GCACTCGTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
44 13 0.21
45 12 0.20
46 36 0.59
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAACTACATCTCGAGGCTAATA
Found at i:58372204 original size:30 final size:30
Alignment explanation
Indices: 58372148--58372205 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58372138 AATTCATATA
* **
58372148 TTTGGTAAAATAACCATTTTTTCCCTAGAC
1 TTTGGCAAAATAACCATTTTACCCCTAGAC
*
58372178 TTTGGCAAAATGACCATTTTACCCCTAG
1 TTTGGCAAAATAACCATTTTACCCCTAG
58372206 GCTTGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (30 bp):
TTTGGCAAAATAACCATTTTACCCCTAGAC
Found at i:58377047 original size:13 final size:13
Alignment explanation
Indices: 58377029--58377059 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
58377019 AGCAACAAAA
58377029 AAGATTAAACAAG
1 AAGATTAAACAAG
58377042 AAGATTAAACAAG
1 AAGATTAAACAAG
58377055 AAGAT
1 AAGAT
58377060 GAAGGAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.16, T:0.16
Consensus pattern (13 bp):
AAGATTAAACAAG
Found at i:58384296 original size:27 final size:27
Alignment explanation
Indices: 58384261--58384325 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
58384251 TTCTCTCAGG
*
58384261 GTTCGCCATACATACTATTCATTCAAA
1 GTTCTCCATACATACTATTCATTCAAA
** * *
58384288 GTTCTCCATATGTACTATTCTTTCAGA
1 GTTCTCCATACATACTATTCATTCAAA
58384315 GTT-TACCATAC
1 GTTCT-CCATAC
58384326 CTACCAGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
GTTCTCCATACATACTATTCATTCAAA
Found at i:58384421 original size:29 final size:29
Alignment explanation
Indices: 58384379--58384437 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
58384369 ATGTTACGAC
58384379 TGGATTATGAAGGTTACAACATTTAAACA
1 TGGATTATGAAGGTTACAACATTTAAACA
*
58384408 TGGATTATGAAGGTTAGAACATTTAAACA
1 TGGATTATGAAGGTTACAACATTTAAACA
58384437 T
1 T
58384438 AGTCCACCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (29 bp):
TGGATTATGAAGGTTACAACATTTAAACA
Found at i:58391643 original size:27 final size:27
Alignment explanation
Indices: 58391613--58391711 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
58391603 GGTGTTCCTT
**
58391613 CACAAAGGCTTCCATTTCATAGGTTGC
1 CACAAAGGCTTCCATTTCATAAATTGC
*
58391640 CACAAAGGCTTCCATTTAATAAATTGC
1 CACAAAGGCTTCCATTTCATAAATTGC
* * *
58391667 CATAAAGGATTCCATTTCATAAATACGC
1 CACAAAGGCTTCCATTTCATAAAT-TGC
*
58391695 CACAAAGGCTTTCATTT
1 CACAAAGGCTTCCATTT
58391712 TCTTATGTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 45 0.74
28 16 0.26
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (27 bp):
CACAAAGGCTTCCATTTCATAAATTGC
Found at i:58394655 original size:20 final size:20
Alignment explanation
Indices: 58394630--58394674 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
58394620 AGGGACTAAA
* *
58394630 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
58394650 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
58394670 ATGAA
1 ATGAA
58394675 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:58395348 original size:57 final size:58
Alignment explanation
Indices: 58395216--58395363 Score: 167
Period size: 57 Copynumber: 2.6 Consensus size: 58
58395206 CATTGACCTT
* * * * *
58395216 GTTATATAAAGGATTTAGCCCGGACGGGTAATTCTGATATAATACCTCTTGAGCATAC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAATACCTCTTGAGCATAC
* * * * *
58395274 GTTATGATTATGG-TTTAGCCTGGACTAGTAATCCTAATCGAGCT-CCTC-TGAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGA-ATACCTCTTGAGCATAC
58395331 GTTATATAAAGGATTTAGCCTGGACTGGTAATC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATC
58395364 TTGTTATACG
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 5 0.07
57 33 0.45
58 30 0.41
59 6 0.08
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAATACCTCTTGAGCATAC
Found at i:58395548 original size:19 final size:19
Alignment explanation
Indices: 58395504--58395548 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
58395494 TGATTCAACG
*
58395504 GACATAAAAATCTTGACAT
1 GACATGAAAATCTTGACAT
* *
58395523 GGCATGAAAATCTTGAGAT
1 GACATGAAAATCTTGACAT
*
58395542 GATATGA
1 GACATGA
58395549 TAATGTCTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (19 bp):
GACATGAAAATCTTGACAT
Found at i:58396295 original size:42 final size:42
Alignment explanation
Indices: 58396231--58396312 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
58396221 CCATATAGGT
* * *
58396231 AGACACACAGGTGTTTGTCTAGACTGTGTATGACACACGGCC
1 AGACACAAAGGTGTGTGCCTAGACTGTGTATGACACACGGCC
* *
58396273 AGACACAAATGTGTGTGCCTAGACTGTGTGTGACACACGG
1 AGACACAAAGGTGTGTGCCTAGACTGTGTATGACACACGG
58396313 TATGGTAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (42 bp):
AGACACAAAGGTGTGTGCCTAGACTGTGTATGACACACGGCC
Found at i:58396571 original size:113 final size:113
Alignment explanation
Indices: 58396319--58396557 Score: 460
Period size: 113 Copynumber: 2.1 Consensus size: 113
58396309 ACGGTATGGT
*
58396319 AACATGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
1 AACACGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
*
58396384 ATTGAGCATATAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
66 ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
58396432 AACACGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
1 AACACGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
58396497 ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
66 ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
58396545 AACACGGGCATGT
1 AACACGGGCATGT
58396558 GTCTTGGTTG
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 124 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (113 bp):
AACACGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
Found at i:58396584 original size:113 final size:113
Alignment explanation
Indices: 58396319--58396591 Score: 408
Period size: 113 Copynumber: 2.4 Consensus size: 113
58396309 ACGGTATGGT
* ** *
58396319 AACATGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
1 AACACGGGCATGTAGTTAGGCTGTGTGAACTCTACACCTAAATTTTGAGGAACAGAATGCTCAGA
*
58396384 ATTGAGCATATAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
66 ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
** *
58396432 AACACGGGCATGTAGTTAGGCTGTGTGCCCTCTATACCTAAATTTTGAGGAACAGAATGCTCAGA
1 AACACGGGCATGTAGTTAGGCTGTGTGAACTCTACACCTAAATTTTGAGGAACAGAATGCTCAGA
58396497 ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
66 ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
* * *
58396545 AACACGGGCATGT-GTCTTGGTTGTGTGAAAC-CTGCACCT-AATTTTGA
1 AACACGGGCATGTAGT-TAGGCTGTGTG-AACTCTACACCTAAATTTTGA
58396592 ATTGAATTAA
Statistics
Matches: 150, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
112 10 0.07
113 139 0.93
114 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (113 bp):
AACACGGGCATGTAGTTAGGCTGTGTGAACTCTACACCTAAATTTTGAGGAACAGAATGCTCAGA
ATTGAGCATACAGCAGTGTGTCTCAGCCATGTGTGCCACACGGCCTAG
Found at i:58399900 original size:21 final size:21
Alignment explanation
Indices: 58399861--58399901 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58399851 ATGTTTTGGA
*
58399861 TTAAATTAAATGAATTTTATG
1 TTAAATTAAATGAAATTTATG
* *
58399882 TTAAATTGAATTAAATTTAT
1 TTAAATTAAATGAAATTTAT
58399902 CCGTATAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
TTAAATTAAATGAAATTTATG
Found at i:58400248 original size:23 final size:24
Alignment explanation
Indices: 58400213--58400298 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 24
58400203 GACACACCAC
58400213 AGCTCGTATGAGCTTCTGATT-TT
1 AGCTCGTATGAGCTTCTGATTCTT
*
58400236 AGCTCGTGA-GAGCTTACTGATTCTC
1 AGCTCGT-ATGAGCTT-CTGATTCTT
* *
58400261 AGCTCGTATGAGATTTCTGATTCCT
1 AGCTCGTATGAG-CTTCTGATTCTT
*
58400286 AGCTCGTAAGAGC
1 AGCTCGTATGAGC
58400299 ATACCAATTC
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 13 0.25
24 8 0.15
25 29 0.56
26 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (24 bp):
AGCTCGTATGAGCTTCTGATTCTT
Found at i:58400317 original size:50 final size:48
Alignment explanation
Indices: 58400215--58400323 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 48
58400205 CACACCACAG
* * * ** *
58400215 CTCGTATGAGCTTCTGATTTTAGCTCGTGAGAGCTTACTGATTCTCAG
1 CTCGTATGAGCTTCTGATTCTAGCTCGTAAGAGCATACCAATTCTCAA
*
58400263 CTCGTATGAGATTTCTGATTCCTAGCTCGTAAGAGCATACCAATTCAT-AA
1 CTCGTATGAG-CTTCTGATT-CTAGCTCGTAAGAGCATACCAATTC-TCAA
58400313 CTCGTATGAGC
1 CTCGTATGAGC
58400324 ATACATGTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
48 10 0.20
49 8 0.16
50 31 0.62
51 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (48 bp):
CTCGTATGAGCTTCTGATTCTAGCTCGTAAGAGCATACCAATTCTCAA
Found at i:58414079 original size:16 final size:17
Alignment explanation
Indices: 58414048--58414080 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58414038 TTCATAAGTA
*
58414048 TATATCAATCATTTCAT
1 TATATAAATCATTTCAT
58414065 TATATAAAT-ATTTCAT
1 TATATAAATCATTTCAT
58414081 GCACCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATAAATCATTTCAT
Found at i:58414635 original size:46 final size:46
Alignment explanation
Indices: 58414366--58414639 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
58414356 TTTGACATGA
* * * * *
58414366 TGCCATAGTGTCTTTCAACTACGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * ***
58414412 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTTGTCACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* ** **
58414458 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
*
58414504 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
58414550 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
58414596 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
58414640 AGAGCACACT
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:58422962 original size:27 final size:27
Alignment explanation
Indices: 58422911--58422963 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
58422901 CAACTGTTAC
*
58422911 TGATTTTGAGAATGGGCTAGGCCCAAT
1 TGATTTTGAGAATGGGCTAGACCCAAT
58422938 TGATTTTGACG-A-GGGCTGAGACCCAA
1 TGATTTTGA-GAATGGGCT-AGACCCAA
58422964 GTGAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 17 0.74
28 1 0.04
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (27 bp):
TGATTTTGAGAATGGGCTAGACCCAAT
Found at i:58424972 original size:31 final size:29
Alignment explanation
Indices: 58424918--58425006 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 29
58424908 TGGTCTTACA
58424918 AAGCTATCACTATTCACT-T--GTAGCCG
1 AAGCTATCACTATTCACTATCAGTAGCCG
58424944 AAGCTATCACTATTCACTGATCAGGTAGCCG
1 AAGCTATCACTATTCACT-ATCA-GTAGCCG
* * * *
58424975 GAGCTACCATTTTTCACTAATCAAGTAGCCG
1 AAGCTATCACTATTCACT-ATC-AGTAGCCG
58425006 A
1 A
58425007 TGATCAGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.35
28 1 0.02
31 31 0.61
32 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGCTATCACTATTCACTATCAGTAGCCG
Found at i:58425028 original size:46 final size:46
Alignment explanation
Indices: 58424961--58425052 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
58424951 CACTATTCAC
* *
58424961 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
58425007 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
58425053 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:58425045 original size:31 final size:31
Alignment explanation
Indices: 58425007--58425065 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
58424997 AAGTAGCCGA
58425007 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
58425038 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
58425066 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:58425141 original size:50 final size:50
Alignment explanation
Indices: 58425045--58425371 Score: 537
Period size: 50 Copynumber: 6.5 Consensus size: 50
58425035 CATTGATCAG
* * * *
58425045 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
58425096 GTAGCTGAAGCTATCACTTATCACTTTCGTTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
58425146 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
58425196 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
58425246 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
58425296 GTAGCCGAAGCTATCACTTATTACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
58425346 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
58425372 GTTGCCATGG
Statistics
Matches: 258, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
50 236 0.91
51 22 0.09
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:58430205 original size:31 final size:31
Alignment explanation
Indices: 58430170--58430239 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
58430160 CTTGTCACTT
* *
58430170 GTAGCCGAAGCTATCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
58430201 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
58430232 GTAGCCGA
1 GTAGCCGA
58430240 TGATCAGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:58430261 original size:46 final size:46
Alignment explanation
Indices: 58430194--58430285 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
58430184 CACTATTCAC
** *
58430194 TGATCAAGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAAGTAGCCAAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * * *
58430240 TGATCAGGTAGCCAAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAAGTAGCCAAAGCTACCACTTTTCACTAATCAAGTAGCCGA
58430286 AGCTACCACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (46 bp):
TGATCAAGTAGCCAAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:58430278 original size:31 final size:31
Alignment explanation
Indices: 58430240--58430298 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
58430230 AAGTAGCCGA
58430240 TGATCAGGTAGCCAAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCAAAGCTACCACTTTTCAT
*
58430271 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCAAAGCTACCACTTTT
58430299 TACTTGCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCAAAGCTACCACTTTTCAT
Found at i:58430374 original size:50 final size:50
Alignment explanation
Indices: 58430278--58430604 Score: 519
Period size: 50 Copynumber: 6.5 Consensus size: 50
58430268 CATTGATCAG
* * * *
58430278 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
58430329 GTAGCTGAAGCTATCACTTATCACTTTCGTTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
58430379 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
58430429 GTAGCCGAAGCTATCACTTATCACTTTCTTTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
58430479 GTAGCCGAAGCTATCACTTATCACTTTAATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
58430529 GTAGCCGAAGCTATCACTTATTACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
58430579 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
58430605 GTTGCCATGG
Statistics
Matches: 254, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
50 232 0.91
51 22 0.09
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:58437981 original size:20 final size:20
Alignment explanation
Indices: 58437952--58437990 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58437942 AGGTTTGTGG
*
58437952 TTAATGTGGTTATGATTTGC
1 TTAATATGGTTATGATTTGC
58437972 TTAATATGGTTATGATTTG
1 TTAATATGGTTATGATTTG
58437991 TTATAGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (20 bp):
TTAATATGGTTATGATTTGC
Found at i:58440755 original size:43 final size:43
Alignment explanation
Indices: 58440707--58440803 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 43
58440697 AGATATGATT
* * * *
58440707 TCGTGTAATACCACATCTGGGACATTGTCATCGATTTGAGATA
1 TCGTGTAAGACCACATCTGGGACACTGGCATCGATTAGAGATA
*** * *
58440750 TCGTGTAAGACCGTGTCTGGGACACTGGCATTGATTAGAGATT
1 TCGTGTAAGACCACATCTGGGACACTGGCATCGATTAGAGATA
58440793 TCGTGTAAGAC
1 TCGTGTAAGAC
58440804 TCTGTCTGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACATCTGGGACACTGGCATCGATTAGAGATA
Found at i:58440810 original size:43 final size:43
Alignment explanation
Indices: 58440722--58440827 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
58440712 TAATACCACA
* * *
58440722 TCTGGGACATTGTCATCGATTTGAGATATCGTGTAAGACCGTG
1 TCTGGGACACTGGCATCGATTAGAGATATCGTGTAAGACCGTG
* *
58440765 TCTGGGACACTGGCATTGATTAGAGATTTCGTGTAAGACTC-TG
1 TCTGGGACACTGGCATCGATTAGAGATATCGTGTAAGAC-CGTG
* * *
58440808 TCTGAGATAGTGGCATCGAT
1 TCTGGGACACTGGCATCGAT
58440828 ATGTGATTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
TCTGGGACACTGGCATCGATTAGAGATATCGTGTAAGACCGTG
Found at i:58450522 original size:42 final size:42
Alignment explanation
Indices: 58450468--58450585 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
58450458 TGATAGATCA
* * * *
58450468 TGTATCAGTGAAGCTCCCCACGGGAGCTTACGTGATAAGTTG
1 TGTATCAGTGAAGCTCCCCACGAGAGCTTAAGTGACAAGCTG
* *
58450510 TGTATCAATGAAGCTCTCCACGAGAGCTTAAGTGACAAGCTG
1 TGTATCAGTGAAGCTCCCCACGAGAGCTTAAGTGACAAGCTG
*
58450552 TGTATCAGTGAAGCT-CCCATGCA-AGCTTAAGTGA
1 TGTATCAGTGAAGCTCCCCACG-AGAGCTTAAGTGA
58450586 TTACGCTCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
41 15 0.23
42 51 0.77
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
TGTATCAGTGAAGCTCCCCACGAGAGCTTAAGTGACAAGCTG
Found at i:58465803 original size:34 final size:34
Alignment explanation
Indices: 58465760--58465829 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
58465750 CCTTTACAAT
58465760 AAACCAAGTCATACAATTATACTTTTAAACATTA
1 AAACCAAGTCATACAATTATACTTTTAAACATTA
*
58465794 AAACCAAGTCATATAATTATACTTTTAAACATTA
1 AAACCAAGTCATACAATTATACTTTTAAACATTA
58465828 AA
1 AA
58465830 TAACATTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (34 bp):
AAACCAAGTCATACAATTATACTTTTAAACATTA
Found at i:58467441 original size:24 final size:24
Alignment explanation
Indices: 58467414--58467462 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58467404 ATTTTACAAA
58467414 AGAAGGTTTGTAGAAAAAATTGAG
1 AGAAGGTTTGTAGAAAAAATTGAG
58467438 AGAAGGTTTGTAGAAAAAATTGAG
1 AGAAGGTTTGTAGAAAAAATTGAG
58467462 A
1 A
58467463 AAAAAATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (24 bp):
AGAAGGTTTGTAGAAAAAATTGAG
Found at i:58475827 original size:46 final size:45
Alignment explanation
Indices: 58475758--58475930 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
58475748 GTAATCCGCC
* *
58475758 CCTAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
58475803 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** *
58475853 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
58475896 CTGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 C-CTAAGTGAACTCGGACTCAACTCAACGAGTTCG
58475931 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 58 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:58475872 original size:93 final size:92
Alignment explanation
Indices: 58475764--58475934 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 92
58475754 CGCCCCTAAG
** *
58475764 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58475829 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTC-GATGCCTAGTTACATCTCA
* * **
58475857 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCTGTAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
58475922 ACGAGTTCGATGC
66 ACAAGTTCGATGC
58475935 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 5 0.07
93 65 0.93
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (92 bp):
TGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGATGCCTAGTTACATCTCA
Found at i:58478613 original size:41 final size:41
Alignment explanation
Indices: 58478406--58478602 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
58478396 TTTATCGTTA
* * * * *
58478406 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58478447 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58478488 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58478529 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
58478570 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58478603 AAGAGCCGGT
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 142 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:58478875 original size:33 final size:33
Alignment explanation
Indices: 58478819--58478916 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
58478809 AGATATATAT
*
58478819 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
58478851 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
58478884 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
58478917 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:58486291 original size:41 final size:41
Alignment explanation
Indices: 58486084--58486280 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
58486074 TTTATCGTTA
* * * * *
58486084 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58486125 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58486166 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58486207 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
58486248 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58486281 AAGAGCCGGT
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 142 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:58486555 original size:33 final size:33
Alignment explanation
Indices: 58486499--58486596 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
58486489 ATATGTATAT
*
58486499 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
58486531 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
58486564 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
58486597 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:58490963 original size:30 final size:30
Alignment explanation
Indices: 58490927--58490985 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
58490917 CAAATTCGAA
*
58490927 TGTTGGTAAGGTACTGATGAAAGCTAGTAT
1 TGTTGGTAAGGTACTAATGAAAGCTAGTAT
58490957 TGTTGGTAAGGTACTAATGAAAGCTAGTA
1 TGTTGGTAAGGTACTAATGAAAGCTAGTA
58490986 AACGTATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (30 bp):
TGTTGGTAAGGTACTAATGAAAGCTAGTAT
Found at i:58491396 original size:5 final size:5
Alignment explanation
Indices: 58491386--58491414 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
58491376 TGACTTGTTA
58491386 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
58491415 AATGCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:58498653 original size:26 final size:26
Alignment explanation
Indices: 58498623--58498704 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
58498613 TAAAATTCCC
58498623 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58498649 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58498675 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58498701 ATCA
1 ATCA
58498705 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58505655 original size:26 final size:26
Alignment explanation
Indices: 58505625--58505706 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
58505615 TGAAATTCCC
58505625 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58505651 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58505677 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58505703 ATCA
1 ATCA
58505707 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58516832 original size:16 final size:17
Alignment explanation
Indices: 58516805--58516857 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 17
58516795 AGCCTAATCT
*
58516805 TAAATTAATAAAATAAAA
1 TAAA-TAATAAAACAAAA
58516823 TAAA-AAT-AAACAAAA
1 TAAATAATAAAACAAAA
58516838 TAAATAATAAAACCAAAA
1 TAAATAATAAAA-CAAAA
58516856 TA
1 TA
58516858 TCTTCTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 11 0.35
16 6 0.19
17 3 0.10
18 11 0.35
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAATAATAAAACAAAA
Found at i:58520108 original size:18 final size:18
Alignment explanation
Indices: 58520085--58520120 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
58520075 GTTTTATTTT
58520085 TGAAGAAGATGGAGAAGA
1 TGAAGAAGATGGAGAAGA
*
58520103 TGAAGAAGATGGATAAGA
1 TGAAGAAGATGGAGAAGA
58520121 AATTGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (18 bp):
TGAAGAAGATGGAGAAGA
Found at i:58520353 original size:9 final size:9
Alignment explanation
Indices: 58520339--58520367 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
58520329 TATTTGGGTT
58520339 TGGGTTAAG
1 TGGGTTAAG
58520348 TGGGTTAAG
1 TGGGTTAAG
58520357 TGGGTTAAG
1 TGGGTTAAG
58520366 TG
1 TG
58520368 AGGTGGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (9 bp):
TGGGTTAAG
Found at i:58527174 original size:21 final size:22
Alignment explanation
Indices: 58527145--58527189 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
58527135 GCCTAATCCT
*
58527145 AAATTAATAAAATAAA-AATAA
1 AAATAAATAAAATAAATAATAA
58527166 AAATAAATAAAATAAATAATAA
1 AAATAAATAAAATAAATAATAA
58527188 AA
1 AA
58527190 CCAAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATAAATAAAATAAATAATAA
Found at i:58527175 original size:16 final size:16
Alignment explanation
Indices: 58527144--58527188 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
58527134 AGCCTAATCC
58527144 TAAATTAATAAAATAAAAA
1 TAAA-TAAT-AAAT-AAAA
58527163 TAAA-AATAAATAAAA
1 TAAATAATAAATAAAA
58527178 TAAATAATAAA
1 TAAATAATAAA
58527189 ACCAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 10 0.40
17 3 0.12
19 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAATAAATAAAA
Found at i:58541333 original size:26 final size:26
Alignment explanation
Indices: 58541298--58541405 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
58541288 TGAAATGCCC
58541298 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
58541324 ATCATAGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
58541350 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
58541376 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
58541402 ATCA
1 ATCA
58541406 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 4 0.05
26 67 0.91
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:58543231 original size:46 final size:46
Alignment explanation
Indices: 58543178--58543268 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
58543168 TATATATACA
* *
58543178 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
58543224 CATCTCATACGCATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
58543269 ATACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:58543316 original size:47 final size:46
Alignment explanation
Indices: 58543242--58543667 Score: 532
Period size: 47 Copynumber: 9.1 Consensus size: 46
58543232 ACGCATTTCG
* * * * *
58543242 CATTAGCCATTCGGCTTTACCACATATATACACTTC-CATGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCAGTTCACA--TTCATCA
* *
58543289 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-GTTCACATTCATCA
*
58543336 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-GTTCACATTCATCA
* * * *
58543383 CATTGGCCATTCGGCCTTATCACACATATACACTTCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCAGTT-CACATTCATCA
* *
58543430 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-GTTCACATTCATCA
* * *
58543477 CATTGGCCATTCAGCCTTATCACATATGTACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-GTTCACATTCATCA
* *
58543524 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACCTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-GTTCACATTCATCA
*
58543571 CATTGGCCATTCGGCCTTATCACACATATGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-GTTCACATTCATCA
* * *
58543618 CATTTGCCATTCGGCCTTAGCTCATATATATACA-TTCACATTCATCA
1 CATTGGCCATTCGGCCTTA--TCACATATATGCAGTTCACATTCATCA
58543665 CAT
1 CAT
58543668 AAAATCCTAA
Statistics
Matches: 337, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.01
47 318 0.94
48 5 0.01
49 12 0.04
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (46 bp):
CATTGGCCATTCGGCCTTATCACATATATGCAGTTCACATTCATCA
Found at i:58543412 original size:141 final size:141
Alignment explanation
Indices: 58543242--58543667 Score: 642
Period size: 141 Copynumber: 3.0 Consensus size: 141
58543232 ACGCATTTCG
* * * *
58543242 CATTAGCCATTCGGCTTTACCACATATATACACTTCCATGTTCATCACATTGGCCATTCTGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
*
58543307 ATCACATATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTT
66 ATCACATATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATGTACATGTT
58543372 CACATTCATCA
131 CACATTCATCA
*
58543383 CATTGGCCATTCGGCCTTATCACACATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
*
58543448 ATCACATATATGCATGTTCACATTTATCACATTGGCCATTCAGCCTTATCACATATGTACATGTT
66 ATCACATATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATGTACATGTT
58543513 CACATTCATCA
131 CACATTCATCA
* * * * *
58543524 CATTGGCCATTCGGCCTTATCACATATGTGCA-TGTTCACCTTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTGCCT
* * * * * *
58543588 TATCACACATATGCACGTTCACATTCATCACATTTGCCATTCGGCCTTAGCTCATATATATACA-
65 TATCACATATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTA--TCACATATGTACAT
58543652 -TTCACATTCATCA
128 GTTCACATTCATCA
58543665 CAT
1 CAT
58543668 AAAATCCTAA
Statistics
Matches: 262, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
140 1 0.00
141 250 0.95
143 11 0.04
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
ATCACATATATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATGTACATGTT
CACATTCATCA
Found at i:58543523 original size:25 final size:24
Alignment explanation
Indices: 58543303--58543573 Score: 97
Period size: 25 Copynumber: 11.5 Consensus size: 24
58543293 GGCCATTCTG
* *
58543303 CCTTATCACATATATGCATGTTCA
1 CCTTATCACATATGTCCATGTTCA
* * *
58543327 CATTTATCACAT-TGGCCA--TTCGG
1 C-CTTATCACATATGTCCATGTTC-A
*
58543350 CCTTATCACATATGTGCATGTTCA
1 CCTTATCACATATGTCCATGTTCA
* * *
58543374 CATTCATCACAT-TGGCCA--TTCGG
1 CCTT-ATCACATATGTCCATGTTC-A
* * * *
58543397 CCTTATCACACATATACACT-TCCA
1 CCTTATCACATATGTCCA-TGTTCA
* * *
58543421 CGTTCATCACAT-TGGCCA--TTCTG
1 CCTT-ATCACATATGTCCATGTTC-A
* *
58543444 CCTTATCACATATATGCATGTTCA
1 CCTTATCACATATGTCCATGTTCA
* *
58543468 CATTTATCACAT-TGGCCA--TTCA
1 C-CTTATCACATATGTCCATGTTCA
*
58543490 GCCTTATCACATATGTACATGTTCA
1 -CCTTATCACATATGTCCATGTTCA
* * *
58543515 CATTCATCACAT-TGGCCA--TTCGG
1 CCTT-ATCACATATGTCCATGTTC-A
*
58543538 CCTTATCACATATGTGCATGTTCA
1 CCTTATCACATATGTCCATGTTCA
58543562 CCTTCATCACAT
1 CCTT-ATCACAT
58543574 TGGCCATTCG
Statistics
Matches: 174, Mismatches: 47, Indels: 51
0.64 0.17 0.19
Matches are distributed among these distances:
22 53 0.30
23 29 0.17
24 32 0.18
25 60 0.34
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.35
Consensus pattern (24 bp):
CCTTATCACATATGTCCATGTTCA
Found at i:58543596 original size:24 final size:24
Alignment explanation
Indices: 58543522--58543597 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
58543512 TCACATTCAT
58543522 CACATTGGCCATTCGGCCTTATCA
1 CACATTGGCCATTCGGCCTTATCA
* *
58543546 CATA-TGTG-CATGTTC-ACC-T-TCA
1 CACATTG-GCCA--TTCGGCCTTATCA
58543568 TCACATTGGCCATTCGGCCTTATCA
1 -CACATTGGCCATTCGGCCTTATCA
58543593 CACAT
1 CACAT
58543598 ATGCACGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 16 0.41
25 6 0.15
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (24 bp):
CACATTGGCCATTCGGCCTTATCA
Found at i:58550979 original size:21 final size:20
Alignment explanation
Indices: 58550941--58550983 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
58550931 ATCCCAGTCC
58550941 CATGCATCAGATAATAACAA
1 CATGCATCAGATAATAACAA
58550961 CATGCATGCAG-TAAATAACAA
1 CATGCAT-CAGAT-AATAACAA
58550982 CA
1 CA
58550984 GTCAAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.19
Consensus pattern (20 bp):
CATGCATCAGATAATAACAA
Found at i:58551032 original size:25 final size:26
Alignment explanation
Indices: 58550995--58551046 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
58550985 TCAAACATGC
58550995 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
58551021 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
58551046 A
1 A
58551047 AAATTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:58552559 original size:26 final size:26
Alignment explanation
Indices: 58552524--58552631 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
58552514 TGAAATGCCC
* *
58552524 ATCATGGAACATTTACCTAAACCATT
1 ATCATAGAACATTTACCTAACCCATT
58552550 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
* * *
58552576 ATCATAGAATATTTACCTAATCTATT
1 ATCATAGAACATTTACCTAACCCATT
*
58552602 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
58552628 ATCA
1 ATCA
58552632 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:58555093 original size:40 final size:40
Alignment explanation
Indices: 58555020--58555164 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
58555010 CTCGCACAAG
* * * * * *
58555020 GCCTTCGGGTCTTAACCCGTATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
58555060 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
58555100 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCAGAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
58555141 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58555165 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:58559989 original size:18 final size:18
Alignment explanation
Indices: 58559966--58560014 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
58559956 CTTGTTGTCG
58559966 TGTTATTTTGAAATCAAT
1 TGTTATTTTGAAATCAAT
58559984 TGTTATTTTGAAATCAAT
1 TGTTATTTTGAAATCAAT
* *
58560002 TTTTTTTTTGAAA
1 TGTTATTTTGAAA
58560015 ACGCGCCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (18 bp):
TGTTATTTTGAAATCAAT
Found at i:58560771 original size:25 final size:27
Alignment explanation
Indices: 58560734--58560786 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
58560724 TCAAACATGC
58560734 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
58560760 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
58560786 A
1 A
58560787 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:58562308 original size:26 final size:26
Alignment explanation
Indices: 58562273--58562380 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
58562263 TGAAATGCCC
*
58562273 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58562299 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58562325 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58562351 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58562377 ATCA
1 ATCA
58562381 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58567675 original size:15 final size:16
Alignment explanation
Indices: 58567655--58567690 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
58567645 TGGATAATAT
58567655 TTTTATTATTA-TTTC
1 TTTTATTATTATTTTC
58567670 TTTTATTATTATTTTC
1 TTTTATTATTATTTTC
58567686 TTTTA
1 TTTTA
58567691 CCCGTATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTATTATTTTC
Found at i:58568156 original size:30 final size:30
Alignment explanation
Indices: 58568106--58568165 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
58568096 TAAGTGCAGA
*
58568106 CTTCACACGGCCTGGGCACAC-GCCCATGTC
1 CTTCACACGGCCTGGACACACGGCCC-TGTC
58568136 CTTCACACGG-CTGAGACACACGGCCCTGTC
1 CTTCACACGGCCTG-GACACACGGCCCTGTC
58568166 TTTGCCCGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 20 0.74
31 4 0.15
ACGTcount: A:0.18, C:0.42, G:0.23, T:0.17
Consensus pattern (30 bp):
CTTCACACGGCCTGGACACACGGCCCTGTC
Found at i:58572958 original size:21 final size:21
Alignment explanation
Indices: 58572924--58572967 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
58572914 AGATCTCTAC
*
58572924 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
58572945 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
58572966 AA
1 AA
58572968 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:58575037 original size:21 final size:21
Alignment explanation
Indices: 58575011--58575061 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
58575001 CCCACAATCG
58575011 GAGCAACCACAACCCCTGCCA
1 GAGCAACCACAACCCCTGCCA
*
58575032 GAGCAACCACAACCCCTGCTA
1 GAGCAACCACAACCCCTGCCA
58575053 GAGCAACCA
1 GAGCAACCA
58575062 AGGAGGAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.43, G:0.16, T:0.06
Consensus pattern (21 bp):
GAGCAACCACAACCCCTGCCA
Found at i:58577806 original size:22 final size:24
Alignment explanation
Indices: 58577760--58577812 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
58577750 TAATAACTGT
*
58577760 AAGCTCAATTAAGCTGGAAACGGG
1 AAGCTCTATTAAGCTGGAAACGGG
*
58577784 AAGCTCTATTGAGCT-G-AACGGG
1 AAGCTCTATTAAGCTGGAAACGGG
58577806 AAGCTCT
1 AAGCTCT
58577813 TACGAGCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 13 0.48
23 1 0.04
24 13 0.48
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (24 bp):
AAGCTCTATTAAGCTGGAAACGGG
Found at i:58577819 original size:22 final size:22
Alignment explanation
Indices: 58577778--58577820 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58577768 TTAAGCTGGA
*
58577778 AACGGGAAGCTCTATTGAGCTG
1 AACGGGAAGCTCTATCGAGCTG
58577800 AACGGGAAGCTCT-TACGAGCT
1 AACGGGAAGCTCTAT-CGAGCT
58577821 ATGGTGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (22 bp):
AACGGGAAGCTCTATCGAGCTG
Found at i:58593195 original size:126 final size:126
Alignment explanation
Indices: 58592837--58593335 Score: 716
Period size: 126 Copynumber: 4.0 Consensus size: 126
58592827 GCCAACCATA
* *
58592837 AACTACTATAGAGAAAA-AGCGTCCACGTGGGAGCTTTTTTC-AGAAATTTTGCTGACATTGCAT
1 AACTACTATAGA-AAAAGAGCGTCCACGTGGGAGCTTTTTTCTA-TAATTTTGCTGACAGTGCAT
* *
58592900 CCTCCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATCAGG
64 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGG
* * *
58592963 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTCTATAATTTTACTGATAGTGCATCC
1 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATCC
* * * * *
58593027 TACTTGAAGCGTTTTTGACACTAGTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCATG
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGG
* * * * ** * * *
58593088 AACTACTGTAGAAAAAGAGAGTCCATGTGGTAGCTTTTTTCCGTAATTTTGTTCACAGTGCATCT
1 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATCC
* **
58593153 TGCTTGAAGCTTTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAGG
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGG
* * *
58593214 AACTACTATAGAAAAAGAGCGCCCATGTGGGAGCTTTTTTCTATAATTTTGCTAACAGTGCATCC
1 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATCC
58593279 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
58593336 TAGGGTACAA
Statistics
Matches: 331, Mismatches: 39, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
125 114 0.34
126 217 0.66
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGG
Found at i:58593483 original size:34 final size:34
Alignment explanation
Indices: 58593439--58593510 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
58593429 CCTAATTTAC
* *
58593439 TTTATTTAAAATCC-TAGAACCCTAATTT-ACTTAA
1 TTTATCTAAAAACCGTA-AACCCTAATTTAACTT-A
*
58593473 TTTATCTAAAAACCGTAAACCTTAATTTAACTTA
1 TTTATCTAAAAACCGTAAACCCTAATTTAACTTA
58593507 TTTA
1 TTTA
58593511 AAACACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.42
Consensus pattern (34 bp):
TTTATCTAAAAACCGTAAACCCTAATTTAACTTA
Found at i:58593521 original size:56 final size:58
Alignment explanation
Indices: 58593460--58593600 Score: 161
Period size: 56 Copynumber: 2.6 Consensus size: 58
58593450 TCCTAGAACC
* * *
58593460 CTAATTTACTTAATTTATCTAAAAACCGTAAACCT-TAAT-TTAACTTATTTAAAACA
1 CTAATTTACTTAATTTATCTAAAAACCCTAAACCTAAAATCCTAACTTATTTAAAACA
* * * *
58593516 CTAATTTATTTAATTTATTTAAAAACCCTAAACCTAAAATCCTAATTTATTTAAAACC
1 CTAATTTACTTAATTTATCTAAAAACCCTAAACCTAAAATCCTAACTTATTTAAAACA
*
58593574 CT-A---ACTTAATTTAT-TTAAAACCCTAAA
1 CTAATTTACTTAATTTATCTAAAAACCCTAAA
58593601 ACCCTAATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 12 0.16
54 10 0.14
56 32 0.43
57 4 0.05
58 16 0.22
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.39
Consensus pattern (58 bp):
CTAATTTACTTAATTTATCTAAAAACCCTAAACCTAAAATCCTAACTTATTTAAAACA
Found at i:58593584 original size:22 final size:22
Alignment explanation
Indices: 58593558--58593599 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
58593548 CCTAAAATCC
58593558 TAATTTATTTAAAACCCTAACT
1 TAATTTATTTAAAACCCTAACT
58593580 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
58593600 AACCCTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAACT
Found at i:58593603 original size:30 final size:31
Alignment explanation
Indices: 58593567--58593646 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 31
58593557 CTAATTTATT
58593567 TAAAACCCTAACTTAATTTATTTAA-AACCC
1 TAAAACCCTAACTTAATTTATTTAACAACCC
*
58593597 TAAAACCCTAATTTACTTAATTTATTTAACAACTC
1 TAAAACCCT-A---ACTTAATTTATTTAACAACCC
*
58593632 T-AAACCCTAATTTAA
1 TAAAACCCTAACTTAA
58593647 ATAATTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
30 14 0.33
31 1 0.02
33 1 0.02
34 22 0.51
35 5 0.12
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAACCCTAACTTAATTTATTTAACAACCC
Found at i:58593620 original size:34 final size:34
Alignment explanation
Indices: 58593577--58593645 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 34
58593567 TAAAACCCTA
58593577 ACTTAATTTATTTAA-AACCCTAAAACCCTAATTT
1 ACTTAATTTATTTAACAACCCT-AAACCCTAATTT
*
58593611 ACTTAATTTATTTAACAACTCTAAACCCTAATTT
1 ACTTAATTTATTTAACAACCCTAAACCCTAATTT
58593645 A
1 A
58593646 AATAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 28 0.85
35 5 0.15
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (34 bp):
ACTTAATTTATTTAACAACCCTAAACCCTAATTT
Found at i:58593652 original size:34 final size:34
Alignment explanation
Indices: 58593580--58593661 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
58593570 AACCCTAACT
**
58593580 TAATTTATTTAAAACCCTAAAACCCTAATTTACT
1 TAATTTATTTAAAACCCTAAAACCCTAATTTAAA
*
58593614 TAATTTATTTAACAACTCT-AAACCCTAATTTAAA
1 TAATTTATTTAA-AACCCTAAAACCCTAATTTAAA
58593648 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
58593662 TAACACTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 4 0.09
34 34 0.79
35 5 0.12
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (34 bp):
TAATTTATTTAAAACCCTAAAACCCTAATTTAAA
Found at i:58594720 original size:20 final size:21
Alignment explanation
Indices: 58594682--58594722 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58594672 CTAACAAATT
* *
58594682 ATTTTAAAAATAAATAAGAAA
1 ATTTGAAAAAGAAATAAGAAA
58594703 ATTTGAAAAAGAAA-AAGAAA
1 ATTTGAAAAAGAAATAAGAAA
58594723 TAATGTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (21 bp):
ATTTGAAAAAGAAATAAGAAA
Found at i:58595231 original size:23 final size:24
Alignment explanation
Indices: 58595205--58595265 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
58595195 TCCTTTTTCA
* *
58595205 ATTTTTTTTCATTTTAAG-TTTTT
1 ATTTATTTACATTTTAAGTTTTTT
*
58595228 ATTTATTTACTTTTTAAGTTTTTT
1 ATTTATTTACATTTTAAGTTTTTT
* *
58595252 ATTTGTTTATATTT
1 ATTTATTTACATTT
58595266 ATTTTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (24 bp):
ATTTATTTACATTTTAAGTTTTTT
Found at i:58595255 original size:24 final size:23
Alignment explanation
Indices: 58595216--58595260 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
58595206 TTTTTTTTCA
58595216 TTTTAAGTTTTTATTTATTTACT
1 TTTTAAGTTTTTATTTATTTACT
*
58595239 TTTTAAGTTTTTTATTTGTTTA
1 TTTTAAG-TTTTTATTTATTTA
58595261 TATTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (23 bp):
TTTTAAGTTTTTATTTATTTACT
Found at i:58595266 original size:23 final size:23
Alignment explanation
Indices: 58595217--58595284 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
58595207 TTTTTTTCAT
* *
58595217 TTTAAG-TTTTTATTTATTTACTT
1 TTTAAGTTTTTTATTTGTTTA-TA
58595240 TTTAAGTTTTTTATTTGTTTATA
1 TTTAAGTTTTTTATTTGTTTATA
*
58595263 TTT-ATTTTATTTATTTGTTTAT
1 TTTAAGTTT-TTTATTTGTTTAT
58595285 TATTGATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.10
23 23 0.57
24 13 0.32
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.72
Consensus pattern (23 bp):
TTTAAGTTTTTTATTTGTTTATA
Found at i:58595293 original size:24 final size:23
Alignment explanation
Indices: 58595249--58595296 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
58595239 TTTTAAGTTT
*
58595249 TTTATTTGTTTATATTTATTTTA
1 TTTATTTGTTTATATTGATTTTA
58595272 TTTATTTGTTTATTATTGATTTTA
1 TTTATTTGTTTA-TATTGATTTTA
58595296 T
1 T
58595297 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTATTTGTTTATATTGATTTTA
Found at i:58595360 original size:21 final size:20
Alignment explanation
Indices: 58595323--58595414 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
58595313 ATTTGAAGGG
58595323 TTTTATAATAT-TATTTTTATAA
1 TTTTA-AATATAT-TTTTTA-AA
58595345 TTTTAAATATATTTTTTAAA
1 TTTTAAATATATTTTTTAAA
*
58595365 ----AAAT-TAGTTTTTAAA
1 TTTTAAATATATTTTTTAAA
* *
58595380 -TTTAAAAAGTATTTTTAAAA
1 TTTTAAATA-TATTTTTTAAA
58595400 TTTTAAATAT-TTTTT
1 TTTTAAATATATTTTT
58595415 AATAATATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
15 10 0.17
16 4 0.07
18 3 0.05
19 5 0.09
20 12 0.21
21 18 0.31
22 6 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTAAATATATTTTTTAAA
Found at i:58595395 original size:34 final size:35
Alignment explanation
Indices: 58595323--58595399 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
58595313 ATTTGAAGGG
* * *
58595323 TTTTATAATATTATTTTTATAATTTTAAATATATT
1 TTTTAAAAAATTATTTTTATAATTTTAAAAATATT
58595358 TTTTAAAAAATTAGTTTTTA-AA-TTTAAAAAGTA-T
1 TTTTAAAAAATTA-TTTTTATAATTTTAAAAA-TATT
58595392 TTTTAAAA
1 TTTTAAAA
58595400 TTTTAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 16 0.43
35 15 0.41
36 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (35 bp):
TTTTAAAAAATTATTTTTATAATTTTAAAAATATT
Found at i:58595672 original size:20 final size:20
Alignment explanation
Indices: 58595646--58595692 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
58595636 TTAGAAAAAA
58595646 TAAAAAAATGATTTATTTG-
1 TAAAAAAATGATTTATTTGT
58595665 TAAAAAAATGATTTATTTGT
1 TAAAAAAATGATTTATTTGT
58595685 TAAAAAAA
1 TAAAAAAA
58595693 CTATGACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (20 bp):
TAAAAAAATGATTTATTTGT
Found at i:58595763 original size:21 final size:21
Alignment explanation
Indices: 58595705--58595763 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
58595695 ATGACTTTAT
58595705 TTAAAATATATATATTAAAAAA
1 TTAAAA-ATATATATTAAAAAA
* * *
58595727 GTAAAAATTTAAATTAAAAAA
1 TTAAAAATATATATTAAAAAA
*
58595748 TTAAAAACATATATTA
1 TTAAAAATATATATTA
58595764 TAATTGGTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAA
Found at i:58599972 original size:57 final size:57
Alignment explanation
Indices: 58599898--58600035 Score: 206
Period size: 57 Copynumber: 2.4 Consensus size: 57
58599888 TGATACGATT
* **
58599898 AAGG-TTTAGCATGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATACGTTACATA
1 AAGGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATAAATTACATA
* * *
58599954 AAGGATTTAGCCTAGACTGGTGATCCTTATTGAGCTCTTCTGAGCATAAATTACATA
1 AAGGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATAAATTACATA
*
58600011 AAGCATTTAGCCTGGACTGGTAATC
1 AAGGATTTAGCCTGGACTGGTAATC
58600036 TTGTAATACG
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 4 0.06
57 68 0.94
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (57 bp):
AAGGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGCATAAATTACATA
Found at i:58602781 original size:20 final size:21
Alignment explanation
Indices: 58602758--58602803 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
58602748 TAAAATATTA
*
58602758 ATTTTTAAAAT-TTTAAATAT
1 ATTTATAAAATGTTTAAATAT
*
58602778 ATTTATAAAATGTTTGAATAT
1 ATTTATAAAATGTTTAAATAT
*
58602799 CTTTA
1 ATTTA
58602804 GAATTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTATAAAATGTTTAAATAT
Found at i:58602864 original size:29 final size:30
Alignment explanation
Indices: 58602794--58602881 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 30
58602784 AAAATGTTTG
* *
58602794 AATATCTTTAGAATTAATTTAAAAATTAAT
1 AATATATTTAAAATTAATTTAAAAATTAAT
* *
58602824 AATTTA-TAAAAATTATATTT-AAAATTAA-
1 AATATATTTAAAATTA-ATTTAAAAATTAAT
58602852 AATATATTTAAAA-T-ATTATAAAAA-TAAT
1 AATATATTTAAAATTAATT-TAAAAATTAAT
58602880 AA
1 AA
58602882 ATTTGAAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
26 3 0.06
27 4 0.09
28 12 0.26
29 20 0.43
30 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AATATATTTAAAATTAATTTAAAAATTAAT
Found at i:58602869 original size:19 final size:18
Alignment explanation
Indices: 58602832--58602865 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
58602822 ATAATTTATA
58602832 AAAATTATATTTAAAATT
1 AAAATTATATTTAAAATT
58602850 AAAA-TATATTTAAAAT
1 AAAATTATATTTAAAAT
58602866 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTATATTTAAAATT
Found at i:58602984 original size:19 final size:18
Alignment explanation
Indices: 58602954--58603011 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
58602944 GTTTTATATT
58602954 ATTAAAAA-ATATTTAAA
1 ATTAAAAATATATTTAAA
58602971 ATTAAAAATCATATTTAAA
1 ATTAAAAAT-ATATTTAAA
58602990 ATTTAAAAATAATAATTTAAA
1 A-TTAAAAAT-AT-ATTTAAA
58603011 A
1 A
58603012 AATATATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 8 0.22
19 10 0.28
20 10 0.28
21 8 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAAAAATATATTTAAA
Found at i:58603048 original size:23 final size:23
Alignment explanation
Indices: 58603005--58603049 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58602995 AAAATAATAA
*
58603005 TTTAAAAAATATATGTTTAAAAT
1 TTTAAAAAATATATGTATAAAAT
58603028 TTTAAAAAATAATAT-TATAAAA
1 TTTAAAAAAT-ATATGTATAAAA
58603050 CATTTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAAAAATATATGTATAAAAT
Found at i:58605656 original size:13 final size:13
Alignment explanation
Indices: 58605638--58605664 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58605628 TCGATAGAGT
58605638 AGTTTTAACAACA
1 AGTTTTAACAACA
58605651 AGTTTTAACAACA
1 AGTTTTAACAACA
58605664 A
1 A
58605665 CAGTTTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
AGTTTTAACAACA
Found at i:58612969 original size:111 final size:112
Alignment explanation
Indices: 58612761--58612994 Score: 250
Period size: 111 Copynumber: 2.1 Consensus size: 112
58612751 TTAAATAAAT
** * *
58612761 AAAAAATTACCTTTAAAATAAAATTTGTTGTTGCCTCTCATCCTTCAAAAACCATAAAATTAAAC
1 AAAAAATTACCTTTAAAATAAAATTTGCAGTTGCCTCTCATCCTT-AAAAACCACAAAATCAAAC
*
58612826 AAATAATAAGTAATCCAAAACCATAAACAAATAA-TAA-TAGTTACTA
65 AAATAATAAGTAATCCAAAACCATAAACAAATAATTAATTAATTACTA
* * *
58612872 AAAAAATTACCTTTAAAA-GAAATTTGGCAGTTGCCTCTTCTTCTCCTT-AAATCCACAAAATCA
1 AAAAAATTACCTTTAAAATAAAATTT-GCAGTTGCCTC-TC--ATCCTTAAAAACCACAAAATCA
*
58612935 AACAATTAATAA-TGAA-CCATAAACACA-AAA-AAATAATTAATTAATTACTA
62 AACAAATAATAAGT-AATCCA-AAAC-CATAAACAAATAATTAATTAATTACTA
*
58612985 AAAAACTTAC
1 AAAAAATTAC
58612995 TGTTCAAAAC
Statistics
Matches: 104, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
110 6 0.06
111 37 0.36
112 37 0.36
113 19 0.18
114 5 0.05
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.29
Consensus pattern (112 bp):
AAAAAATTACCTTTAAAATAAAATTTGCAGTTGCCTCTCATCCTTAAAAACCACAAAATCAAACA
AATAATAAGTAATCCAAAACCATAAACAAATAATTAATTAATTACTA
Found at i:58615556 original size:48 final size:46
Alignment explanation
Indices: 58615474--58615750 Score: 258
Period size: 48 Copynumber: 5.8 Consensus size: 46
58615464 GGGCGATATG
* * *
58615474 AGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTA
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTA
*
58615520 AGCACGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTA
1 AG-A-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTA
* * * **
58615568 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGG-CATTAAGA
1 --AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTA
* *
58615616 CGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGACATGT-
1 --AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-C-ACAT-TA
58615667 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-C-ACAT-TA
* * *
58615715 -GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
58615751 ACAATTCACC
Statistics
Matches: 198, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 187 0.94
49 1 0.01
50 2 0.01
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTA
Found at i:58615634 original size:96 final size:95
Alignment explanation
Indices: 58615467--58615750 Score: 315
Period size: 96 Copynumber: 3.0 Consensus size: 95
58615457 GCCATTTGGG
* * *
58615467 CGATATGAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAG-C-A-CGCTA
1 CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--GCATTAAGACGAGAGCTA
58615529 GTGTAAGACCATGTCTAGGACATGGCATCGGCCA
63 GTGTAAGACCATGT-TAGGACATGGCATCGGCCA
*
58615563 C-ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTAAGACGAGAGCTAGT
1 CGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCTAGT
* * *
58615627 GTAAGACCATGTTTGGGACATGGCATTGGCCT
65 GTAAGACCATG-TTAGGACATGGCATCGGCCA
* * * * ** * * * *
58615659 CGACATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTG
1 CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCTAGTG
*
58615724 TAAGACCATGTTTGGAACATGGCATCG
66 TAAGACCATGTTAGG-ACATGGCATCG
58615751 ACAATTCACC
Statistics
Matches: 161, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
93 7 0.04
94 1 0.01
95 7 0.04
96 144 0.89
97 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (95 bp):
CGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCTAGTG
TAAGACCATGTTAGGACATGGCATCGGCCA
Found at i:58621877 original size:98 final size:95
Alignment explanation
Indices: 58621702--58621919 Score: 282
Period size: 98 Copynumber: 2.3 Consensus size: 95
58621692 TTAAGGGTGC
* * *
58621702 AAAAAGCCCTCAAA-CTTTTC-AAAAAAAAAACAATTAAGCCCATGCTTCTTTTTTTGCACTTAT
1 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAACAATTAAGCCCATCCTTCTTTTTTTGCACTCAA
*
58621765 TTGGATACTTGAACTTTCAAAGATGCATAAA
66 TTGGATACTTGAACTTTCAAA-ATGAATAAA
* *
58621796 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAAGCAATTAAGCCCCTACCTTTTTTTTTTGCACTC
1 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAA-CAATTAAGCCCAT-CCTTCTTTTTTTGCACTC
*
58621861 AATTGTG-TACTTGAACTTTCAAAATGAATCAA
64 AATTG-GATACTTGAACTTTCAAAATGAATAAA
* * *
58621893 AAAGA-CCCTCAAACTTTTTCACAAAAA
1 AAAAAGCCCTCAAACCTTTTCAAAAAAA
58621920 GCAATGAAGT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
94 14 0.13
95 6 0.06
96 30 0.28
97 23 0.21
98 35 0.32
99 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (95 bp):
AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAACAATTAAGCCCATCCTTCTTTTTTTGCACTCAA
TTGGATACTTGAACTTTCAAAATGAATAAA
Found at i:58622067 original size:19 final size:18
Alignment explanation
Indices: 58622045--58622115 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 18
58622035 TAATAATTAG
58622045 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAAT-AT
58622064 AAAAAAGAATATAAAAA-ATT
1 -AAAAA-AATATAAAAATA-T
*
58622084 GTAAAAAATAT-AAAATAT
1 -AAAAAAATATAAAAATAT
* *
58622102 ATAGAAATATAAAA
1 AAAAAAATATAAAA
58622116 TTTTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 7 0.17
18 8 0.19
19 7 0.17
20 10 0.24
21 10 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAAAATATAAAAATAT
Found at i:58622079 original size:10 final size:9
Alignment explanation
Indices: 58622046--58622115 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
58622036 AATAATTAGA
58622046 AAAAAATAT
1 AAAAAATAT
*
58622055 AAAAATCATAA
1 AAAAA--ATAT
58622066 AAAAGAATAT
1 AAAA-AATAT
*
58622076 AAAAAATTGT
1 AAAAAA-TAT
58622086 AAAAAATAT
1 AAAAAATAT
*
58622095 AAAATATAT
1 AAAAAATAT
*
58622104 -AGAAATAT
1 AAAAAATAT
58622112 AAAA
1 AAAA
58622116 TTTTATAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 6 0.12
9 19 0.40
10 15 0.31
11 7 0.15
12 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:58622463 original size:10 final size:10
Alignment explanation
Indices: 58622371--58622464 Score: 68
Period size: 10 Copynumber: 9.4 Consensus size: 10
58622361 ATAAAAAATC
58622371 TAATTTTTAA
1 TAATTTTTAA
*
58622381 TAAATTTTAA
1 TAATTTTTAA
* *
58622391 -ATTTTTTAT
1 TAATTTTTAA
**
58622400 TAAAATTTAA
1 TAATTTTTAA
58622410 TAATTTTTCTAA
1 TAA-TTTT-TAA
*
58622422 -AATTTTTTA
1 TAATTTTTAA
*
58622431 TACTTTTT-A
1 TAATTTTTAA
*
58622440 TAATTTTTTTA
1 TAA-TTTTTAA
58622451 TAATTTTTAA
1 TAATTTTTAA
58622461 TAAT
1 TAAT
58622465 AGCATGGTCT
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
9 11 0.17
10 42 0.66
11 8 0.12
12 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:58622627 original size:88 final size:89
Alignment explanation
Indices: 58622478--58622641 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 89
58622468 ATGGTCTTGA
58622478 TTGCTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAG
1 TTGCTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAG
58622543 TAAAA-AAAAAGGGGCTTAATTAC
66 TAAAAGAAAAAGGGGCTTAATTAC
* * * *
58622566 TTGCTTTTTTTGA-AGAAATTTGA-GG-CATTTTTTATGTATTTTGAAAGTTCAAGTGCTCAATT
1 TTGC-TTTTTTGATA-AAATTTGAGGGTC-TTTTTGATGCATTTTGAAAGTTCAAGTACCCAATT
58622628 GAGTAAAAGAAAAA
63 GAGTAAAAGAAAAA
58622642 AAGAGCTTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
87 1 0.01
88 46 0.68
89 21 0.31
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (89 bp):
TTGCTTTTTTGATAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAG
TAAAAGAAAAAGGGGCTTAATTAC
Found at i:58623193 original size:30 final size:31
Alignment explanation
Indices: 58623158--58623233 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 31
58623148 CATACATGTA
58623158 ATAATGTTTTAC-TCTATTTATTCTTTTTAG
1 ATAATGTTTTACATCTATTTATTCTTTTTAG
*
58623188 ATAATGTCTTAAAACATCTATTTATTCTTTTTAG
1 ATAATGT-TT--TACATCTATTTATTCTTTTTAG
*
58623222 ATAATGTCTTAC
1 ATAATGTTTTAC
58623234 CTTATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 7 0.18
31 4 0.10
33 3 0.08
34 25 0.64
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.53
Consensus pattern (31 bp):
ATAATGTTTTACATCTATTTATTCTTTTTAG
Found at i:58624076 original size:20 final size:20
Alignment explanation
Indices: 58624037--58624076 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58624027 CCGCACTCAT
*
58624037 AAAATATTTTTATTTTTTTA
1 AAAATATTTATATTTTTTTA
58624057 AAAATA-TTATATTATTTTTA
1 AAAATATTTATATT-TTTTTA
58624077 TTTAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AAAATATTTATATTTTTTTA
Found at i:58625336 original size:18 final size:19
Alignment explanation
Indices: 58625283--58625333 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
58625273 AATTACAAAA
*
58625283 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
*
58625302 AAATTTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
58625321 AAAATTAAAAATA
1 AAAATTCAAAATA
58625334 TTTATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:58629823 original size:37 final size:38
Alignment explanation
Indices: 58629743--58629831 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 38
58629733 TAGATAGATA
** *
58629743 GCTAGGATTATTAGTTACCTTTAGGATTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
* *
58629781 ACTAGGATTAAAAGATATCTTTAGG-TTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
58629818 GCTAGGATTAAAAG
1 GCTAGGATTAAAAG
58629832 TTTATTTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
37 25 0.56
38 20 0.44
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (38 bp):
GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
Found at i:58632482 original size:3 final size:3
Alignment explanation
Indices: 58632467--58632514 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
58632457 AGGCTAAGAC
* * * *
58632467 GGT GGT GGC GGT GGT GGT CGT GGT GGT GGT GGT GGT GAT GAT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
58632515 CAAGAGAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.04, C:0.04, G:0.60, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:58638318 original size:20 final size:19
Alignment explanation
Indices: 58638293--58638330 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
58638283 ATGCGATACA
58638293 CTTTGTGTACCAGATATGCG
1 CTTTGTGTACCAGA-ATGCG
*
58638313 CTTTGTGTGCCAGAATGC
1 CTTTGTGTACCAGAATGC
58638331 ACTTCGTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (19 bp):
CTTTGTGTACCAGAATGCG
Found at i:58646220 original size:24 final size:22
Alignment explanation
Indices: 58646191--58646257 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 22
58646181 CTATTGAGTC
58646191 TATTTATCTTTATGCTTATTTT
1 TATTTATCTTTATGCTTATTTT
58646213 TACTTTTATCTTTAT-CTTTATTTT
1 TA--TTTATCTTTATGC-TTATTTT
*
58646237 TATTT-T-TTTATGTTTATTTT
1 TATTTATCTTTATGCTTATTTT
58646257 T
1 T
58646258 TTATATTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 13 0.32
21 1 0.03
22 5 0.12
23 1 0.03
24 20 0.50
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.73
Consensus pattern (22 bp):
TATTTATCTTTATGCTTATTTT
Found at i:58646252 original size:14 final size:14
Alignment explanation
Indices: 58646229--58646261 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
58646219 TATCTTTATC
*
58646229 TTTATTTTTATTTT
1 TTTATGTTTATTTT
58646243 TTTATGTTTATTTT
1 TTTATGTTTATTTT
58646257 TTTAT
1 TTTAT
58646262 ATTTTGAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTATGTTTATTTT
Found at i:58659723 original size:35 final size:35
Alignment explanation
Indices: 58659683--58659753 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
58659673 CCAAGAAAGA
* *
58659683 AAGATTATTTCAACTTTAGGAGTTGGAAGAATTCC
1 AAGATTATTCCAACTTTAGGAATTGGAAGAATTCC
58659718 AAGATTATTCCAACTTTAGGAATTGGAAGAATTCC
1 AAGATTATTCCAACTTTAGGAATTGGAAGAATTCC
58659753 A
1 A
58659754 TTTTATGGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (35 bp):
AAGATTATTCCAACTTTAGGAATTGGAAGAATTCC
Found at i:58660454 original size:11 final size:12
Alignment explanation
Indices: 58660438--58660466 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58660428 TTTTGTCACC
58660438 AAAAAAG-AAAG
1 AAAAAAGAAAAG
58660449 AAAAAAGAAAAG
1 AAAAAAGAAAAG
58660461 AAAAAA
1 AAAAAA
58660467 ATGAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:58690560 original size:14 final size:15
Alignment explanation
Indices: 58690536--58690565 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
58690526 GGATATCAAA
58690536 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
58690551 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
58690565 A
1 A
58690566 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:58691448 original size:426 final size:426
Alignment explanation
Indices: 58690655--58691499 Score: 1465
Period size: 426 Copynumber: 2.0 Consensus size: 426
58690645 TTTAGTTCAT
58690655 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCAT
1 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCAT
* * * *
58690720 GAAGGGGAAATTGATGAGAGATCTTCAGTCTTGATGATGAATCTGACTTCTTAGATGGATCAATC
66 GAAGGAGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * * *
58690785 GGCTTCCTTAGAGTAATTCCTTACTCCCTATTATGTGTCTCCTTTTTCCTCCTCCTCTACGGTGT
131 AGCTTCCTTAGAGGAATTCCTTAATCCCTATTATGTGTCTCCTCTTTCCTCCTCCTCTACGGTGT
*
58690850 ATTTATAGGCTTTGGAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
196 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
58690915 GGCTCGACAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
261 GGCTCGACAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
* * *
58690980 GGCCGTGTGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTC
326 GGCCATATGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
*
58691045 TTCTTTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
391 TCCTTTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
* *
58691081 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAATCCAAAACTCCT
1 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCAT
58691146 GAAGGAGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
66 GAAGGAGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * * *
58691211 AGCTTCCTTGGAGGAATTCCTTAATCCTTATTATGTGTCTCCTCTTTCTTCCTCCTCTAGGGTGT
131 AGCTTCCTTAGAGGAATTCCTTAATCCCTATTATGTGTCTCCTCTTTCCTCCTCCTCTACGGTGT
58691276 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
196 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
* * * *
58691341 GGCTCGGCAGGGACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTGTCAAATTGACAT
261 GGCTCGACAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
*
58691406 GGCCATATGGTCTACCCGTGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
326 GGCCATATGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
*
58691471 TCCTTTTTTGGCCTGTTTCTCGTTCCTTT
391 TCCTTTTTTGGCCCGTTTCTCGTTCCTTT
58691500 CACTCTCTTA
Statistics
Matches: 394, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
426 394 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (426 bp):
AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCAT
GAAGGAGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
AGCTTCCTTAGAGGAATTCCTTAATCCCTATTATGTGTCTCCTCTTTCCTCCTCCTCTACGGTGT
ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
GGCTCGACAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
GGCCATATGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
TCCTTTTTTGGCCCGTTTCTCGTTCCTTTAGTATAA
Found at i:58695889 original size:19 final size:19
Alignment explanation
Indices: 58695865--58695902 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
58695855 ATATTAAATG
58695865 TTATACTATGTCCTTACTA
1 TTATACTATGTCCTTACTA
58695884 TTATACTATGTCCTTACTA
1 TTATACTATGTCCTTACTA
58695903 AGTTGTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (19 bp):
TTATACTATGTCCTTACTA
Found at i:58706516 original size:24 final size:24
Alignment explanation
Indices: 58706484--58706532 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58706474 ACTGAATGTG
58706484 CCTCTTATTTATTTAAAATCTTTT
1 CCTCTTATTTATTTAAAATCTTTT
58706508 CCTCTTATTTATTTAAAATCTTTT
1 CCTCTTATTTATTTAAAATCTTTT
58706532 C
1 C
58706533 TAAGGCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.57
Consensus pattern (24 bp):
CCTCTTATTTATTTAAAATCTTTT
Found at i:58708888 original size:25 final size:23
Alignment explanation
Indices: 58708860--58708936 Score: 55
Period size: 25 Copynumber: 3.1 Consensus size: 23
58708850 AATGCTTTCT
58708860 AAATGACTTGCCACAAGGGCTCCCC
1 AAAT-ACTTGCCACAA-GGCTCCCC
* * ***
58708885 AAATAATACGCCACATAGGCTTTTC
1 AAATACT-TGCCACA-AGGCTCCCC
58708910 AAATAACTTGCCACAAAGGCTCCCC
1 AAAT-ACTTGCCAC-AAGGCTCCCC
58708935 AA
1 AA
58708937 GTAATACGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
24 2 0.05
25 32 0.84
26 4 0.11
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.19
Consensus pattern (23 bp):
AAATACTTGCCACAAGGCTCCCC
Found at i:58708947 original size:25 final size:25
Alignment explanation
Indices: 58708869--58708949 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
58708859 TAAATGACTT
*
58708869 GCCACAAGGGCTCCCCAAATAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
* *** *
58708894 GCCACATAGGCTTTTCAAATAACT-T
1 GCCACAAAGGCTCCCCAAATAA-TAC
*
58708919 GCCACAAAGGCTCCCCAAGTAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
58708944 GCCACA
1 GCCACA
58708950 TAACTTTTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (25 bp):
GCCACAAAGGCTCCCCAAATAATAC
Found at i:58708983 original size:49 final size:50
Alignment explanation
Indices: 58708865--58709028 Score: 249
Period size: 50 Copynumber: 3.3 Consensus size: 50
58708855 TTTCTAAATG
* * *
58708865 ACTTGCCACAAGGGCTCCCCAAATAATACGCCACATAGGCTTTTCAAATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* *
58708915 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATA-ACTTTTTAGATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* * *
58708964 ACTTGCCACAAAAGTTCCCCAAGTAATACGCAACATAGGCTTTTCAGATA
1 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
58709014 ACTTGCCACAAAGGC
1 ACTTGCCACAAAGGC
58709029 CCTATGTGGT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 43 0.43
50 58 0.57
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.23
Consensus pattern (50 bp):
ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
Found at i:58718024 original size:27 final size:27
Alignment explanation
Indices: 58717993--58718170 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58717983 TAAATTGTAC
58717993 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58718020 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58718046 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58718074 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
58718102 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58718129 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58718156 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58718171 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58718107 original size:82 final size:81
Alignment explanation
Indices: 58717994--58718149 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58717984 AAATTGTACA
* *
58717994 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58718058 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58718075 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58718140 TGCGAGTTGA
65 TGCGAATTGA
58718150 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58718161 original size:82 final size:81
Alignment explanation
Indices: 58717990--58718170 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
58717980 GATTAAATTG
* *
58717990 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58718055 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58718071 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58718135 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58718153 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58718171 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58726201 original size:27 final size:27
Alignment explanation
Indices: 58726170--58726347 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
58726160 TAAATTGTAC
58726170 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
58726197 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58726222 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
58726251 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
58726279 AGCACTAAGTGTGCGATTTGACTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58726306 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58726333 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58726348 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
27 99 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58726311 original size:82 final size:81
Alignment explanation
Indices: 58726171--58726326 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
58726161 AAATTGTACA
* *
58726171 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
58726236 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
58726252 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
58726315 TGTGCGAGTTGA
63 TGTGCGAATTGA
58726327 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Done.