Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
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: 11097736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 71999 characters in sequence are not A, C, G, or T
File 12 of 22
Found at i:6143973 original size:23 final size:23
Alignment explanation
Indices: 6143947--6143992 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6143937 TATGTTGAAT
6143947 TAAGACCTATTAAGCAAAAGTAC
1 TAAGACCTATTAAGCAAAAGTAC
* *
6143970 TAAGGCCTATTTAGCAAAAGTAC
1 TAAGACCTATTAAGCAAAAGTAC
6143993 AAGCCGGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (23 bp):
TAAGACCTATTAAGCAAAAGTAC
Found at i:6153174 original size:70 final size:68
Alignment explanation
Indices: 6153063--6153198 Score: 245
Period size: 70 Copynumber: 2.0 Consensus size: 68
6153053 TAAAAGGAAC
*
6153063 AAATTACAGACTGTATCATATTTCTTGTCCATCAACATTCATGGCCATAGAAAAATAAAAAGCCT
1 AAATTACAGACTGTATCATATTTCTTGTCCAACAACATTCATGGCCATAGAAAAATAAAAAGCCT
6153128 AAT
66 AAT
6153131 AAATTACAGAATCTGTATCATATTTCTTGTCCAACAACATTCATGGCCATAGAAAAATAAAAAGC
1 AAATTACAG-A-CTGTATCATATTTCTTGTCCAACAACATTCATGGCCATAGAAAAATAAAAAGC
6153196 CTA
64 CTA
6153199 GAGCTTGAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
68 9 0.14
69 1 0.02
70 55 0.85
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (68 bp):
AAATTACAGACTGTATCATATTTCTTGTCCAACAACATTCATGGCCATAGAAAAATAAAAAGCCT
AAT
Found at i:6153648 original size:27 final size:27
Alignment explanation
Indices: 6153533--6153649 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
6153523 ATAAAAAATC
* *
6153533 ATATTAAAAATTTAATTATTAAATATC
1 ATATTAAAATTTTAATTATTAAATATT
* *
6153560 ATATTGAAATTTTAATTATTACATATT
1 ATATTAAAATTTTAATTATTAAATATT
** * *
6153587 ATATTAAAA-AATAATTATTATATTTT
1 ATATTAAAATTTTAATTATTAAATATT
* * *
6153613 ATTTTTAAAATTTTAATTATTAGACATT
1 A-TATTAAAATTTTAATTATTAAATATT
*
6153641 ATAATAAAA
1 ATATTAAAA
6153650 AAATTATTTC
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
26 14 0.20
27 44 0.62
28 13 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATTAAAATTTTAATTATTAAATATT
Found at i:6200689 original size:21 final size:21
Alignment explanation
Indices: 6200665--6200705 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6200655 TTTCAACAAT
*
6200665 GAAGACAATATTTTCTAAAAC
1 GAAGACAATATTTACTAAAAC
*
6200686 GAAGACAATGTTTACTAAAA
1 GAAGACAATATTTACTAAAA
6200706 ACTCTTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (21 bp):
GAAGACAATATTTACTAAAAC
Found at i:6202774 original size:2 final size:2
Alignment explanation
Indices: 6202767--6202799 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6202757 TCAAACCCTT
6202767 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6202800 AAGCTTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6209126 original size:2 final size:2
Alignment explanation
Indices: 6209119--6209153 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6209109 GGACCCGTTC
*
6209119 CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6209154 ATACTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6222442 original size:15 final size:15
Alignment explanation
Indices: 6222422--6222467 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
6222412 ATCATCAAAT
6222422 AAAATTATTAAATAA
1 AAAATTATTAAATAA
*
6222437 AAAATT-TTAAAATTA
1 AAAATTATT-AAATAA
6222452 AAAA-TATTAAA-AA
1 AAAATTATTAAATAA
6222465 AAA
1 AAA
6222468 TAAGTGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 4 0.15
14 6 0.22
15 17 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTATTAAATAA
Found at i:6223154 original size:19 final size:19
Alignment explanation
Indices: 6223115--6223157 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6223105 TTATTTTTAT
* * *
6223115 TATTTTTTATATAGCATTA
1 TATTTTTTATAAAACAATA
6223134 TATTTTTTATAAAACAATA
1 TATTTTTTATAAAACAATA
6223153 TATTT
1 TATTT
6223158 CTAGAGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTTTTTATAAAACAATA
Found at i:6228177 original size:24 final size:25
Alignment explanation
Indices: 6228145--6228194 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
6228135 TAATGTAGGG
6228145 TTTGTTTTAT-ATATT-AATATTGGTT
1 TTTGTTTTATGAT-TTGAAT-TTGGTT
6228170 TTTG-TTTATGATTTGAATTTGGTT
1 TTTGTTTTATGATTTGAATTTGGTT
6228194 T
1 T
6228195 AGTTAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (25 bp):
TTTGTTTTATGATTTGAATTTGGTT
Found at i:6239889 original size:15 final size:15
Alignment explanation
Indices: 6239869--6239902 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
6239859 CATAGGCATG
6239869 TTTAGCTTGGCTTTT
1 TTTAGCTTGGCTTTT
6239884 TTTAGCTTGGCTTTT
1 TTTAGCTTGGCTTTT
6239899 TTTA
1 TTTA
6239903 ACTTAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.62
Consensus pattern (15 bp):
TTTAGCTTGGCTTTT
Found at i:6241027 original size:19 final size:19
Alignment explanation
Indices: 6240988--6241025 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
6240978 ACTTATATAC
6240988 TATATAAGTAAATATTAAA
1 TATATAAGTAAATATTAAA
6241007 TATATATAGTAAATATTAA
1 TATATA-AGTAAATATTAA
6241026 TACAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TATATAAGTAAATATTAAA
Found at i:6249211 original size:18 final size:18
Alignment explanation
Indices: 6249188--6249225 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6249178 TTTGTAGCTT
6249188 AAAAAAAAAAATGAAGAA
1 AAAAAAAAAAATGAAGAA
**
6249206 AAAAAAATGAATGAAGAA
1 AAAAAAAAAAATGAAGAA
6249224 AA
1 AA
6249226 GGAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (18 bp):
AAAAAAAAAAATGAAGAA
Found at i:6249225 original size:14 final size:14
Alignment explanation
Indices: 6249190--6249216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6249180 TGTAGCTTAA
6249190 AAAAAAAAATGAAG
1 AAAAAAAAATGAAG
6249204 AAAAAAAAATGAA
1 AAAAAAAAATGAA
6249217 TGAAGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATGAAG
Found at i:6249998 original size:2 final size:2
Alignment explanation
Indices: 6249979--6250014 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6249969 AACGCAGAAA
* *
6249979 CT CT CC CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6250015 TGAGGCACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:6251929 original size:17 final size:16
Alignment explanation
Indices: 6251905--6251943 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6251895 ACGCTATCAG
6251905 TTTTCTA-TTCTTGTTT
1 TTTTCTATTTCTT-TTT
6251921 TTCTTCTATTTCTTTTT
1 TT-TTCTATTTCTTTTT
6251938 TTTTCT
1 TTTTCT
6251944 TTTATCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 10 0.48
18 5 0.24
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTCTATTTCTTTTT
Found at i:6254879 original size:30 final size:29
Alignment explanation
Indices: 6254843--6254905 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
6254833 ATGTTTTCTC
*
6254843 AATATAAAAACTT-ATTTAATTTAAAATAAA
1 AATATAAAAACTTAATTGAA--TAAAATAAA
* *
6254873 AATATAATAATTTAATTGAATAAAATAAA
1 AATATAAAAACTTAATTGAATAAAATAAA
6254902 AATA
1 AATA
6254906 GATACTATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 13 0.45
30 11 0.38
31 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
AATATAAAAACTTAATTGAATAAAATAAA
Found at i:6259914 original size:4 final size:4
Alignment explanation
Indices: 6259905--6259936 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
6259895 ACATATTAAC
6259905 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
6259937 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:6265001 original size:18 final size:16
Alignment explanation
Indices: 6264978--6265012 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
6264968 GCTTCAGAAG
6264978 TTTGTTTATCCTTTTTTT
1 TTTGTTTAT--TTTTTTT
6264996 TTTGTTTATTTTTTTT
1 TTTGTTTATTTTTTTT
6265012 T
1 T
6265013 CTATTCATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTGTTTATTTTTTTT
Found at i:6265641 original size:192 final size:192
Alignment explanation
Indices: 6265314--6265698 Score: 743
Period size: 192 Copynumber: 2.0 Consensus size: 192
6265304 CAACGGAGCT
*
6265314 AGTTTTTAAACAAGTTTGCTGAAAAGATCCTCTCCTATATTGCAAATAAATGATATATTGGTTTT
1 AGTTTTTAAACAAGTTTGCTGAAAAGATCCTCTCCTATATTGCAAATAAATGATATATAGGTTTT
*
6265379 TCCCTATTTGTATAGAACTGAGCGTAATCCCTTTCTTAATGTCTTTGTAATAGTGGACCATTAAA
66 CCCCTATTTGTATAGAACTGAGCGTAATCCCTTTCTTAATGTCTTTGTAATAGTGGACCATTAAA
6265444 AAATTTATTCAGCTGTTCCTTTCTGAATCGACAGAGACAATATGTTGCATGAATAATGAGGC
131 AAATTTATTCAGCTGTTCCTTTCTGAATCGACAGAGACAATATGTTGCATGAATAATGAGGC
6265506 AGTTTTTAAACAAGTTTGCTGAAAAGATCCTCTCCTATATTGCAAATAAATGATATATAGGTTTT
1 AGTTTTTAAACAAGTTTGCTGAAAAGATCCTCTCCTATATTGCAAATAAATGATATATAGGTTTT
6265571 CCCCTATTTGTATAGAACTGAGCGTAATCCCTTTCTTAATGTCTTTGTAATAGTGGACCATTAAA
66 CCCCTATTTGTATAGAACTGAGCGTAATCCCTTTCTTAATGTCTTTGTAATAGTGGACCATTAAA
*
6265636 AAATTTATTCAGCTGTTCCTTTCTGCATCGACAGAGACAATATGTTGCATGAATAATGAGGC
131 AAATTTATTCAGCTGTTCCTTTCTGAATCGACAGAGACAATATGTTGCATGAATAATGAGGC
6265698 A
1 A
6265699 TGCCTTTTGG
Statistics
Matches: 190, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 190 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (192 bp):
AGTTTTTAAACAAGTTTGCTGAAAAGATCCTCTCCTATATTGCAAATAAATGATATATAGGTTTT
CCCCTATTTGTATAGAACTGAGCGTAATCCCTTTCTTAATGTCTTTGTAATAGTGGACCATTAAA
AAATTTATTCAGCTGTTCCTTTCTGAATCGACAGAGACAATATGTTGCATGAATAATGAGGC
Found at i:6278097 original size:14 final size:14
Alignment explanation
Indices: 6278080--6278121 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
6278070 ATTATGAATT
6278080 TAATTTTTATATTG
1 TAATTTTTATATTG
*
6278094 TAATTTATATAAATTG
1 TAATTT-T-TATATTG
6278110 -AATTTTTATATT
1 TAATTTTTATATT
6278122 TTCGAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 5 0.21
14 7 0.29
15 6 0.25
16 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TAATTTTTATATTG
Found at i:6311063 original size:18 final size:18
Alignment explanation
Indices: 6311040--6311078 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6311030 TGATGTGCCT
*
6311040 CCATCATCACCACCACTG
1 CCATCATCACCACCACCG
*
6311058 CCATCATCACCTCCACCG
1 CCATCATCACCACCACCG
6311076 CCA
1 CCA
6311079 CCCCCACCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.54, G:0.05, T:0.15
Consensus pattern (18 bp):
CCATCATCACCACCACCG
Found at i:6316927 original size:23 final size:23
Alignment explanation
Indices: 6316901--6316961 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
6316891 TGATTAGTTT
6316901 ATATGGGATTGCATGACTGGTTG
1 ATATGGGATTGCATGACTGGTTG
** **
6316924 ATATAAGATTGTGTGACTGGTTG
1 ATATGGGATTGCATGACTGGTTG
*
6316947 ATA-GGCATTGCATGA
1 ATATGGGATTGCATGA
6316962 TTAATTAATA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.26, C:0.08, G:0.31, T:0.34
Consensus pattern (23 bp):
ATATGGGATTGCATGACTGGTTG
Found at i:6323278 original size:359 final size:350
Alignment explanation
Indices: 6322623--6323316 Score: 1093
Period size: 359 Copynumber: 2.0 Consensus size: 350
6322613 GAGAATACAA
* *
6322623 CAAGCTCAAAGTCATCCATATCAATATTATGTTCTTGTTAATGCACCATAAAATTCCTAGGATGA
1 CAAGCTCAAAGCCATCCATATCAATATTATGTTCTTGTTAATGCACCATAAAATTCCAAGGATGA
6322688 TCTATTACAAATCTCTAAATATTCAGCCATGAATCTGTTCCAAGCAAAGGGCCTATTTATCTCAG
66 TCTATTACAAATCTCTAAATATTCAGCCATGAATCTGTTCCAAGCAAAGGGCCTATTTATCTCAG
* * *
6322753 GATTAAGAAAACCAAATATCAGTTTCTTGCACAACACATGAACGAATGTGTTTTGTAAACACTAC
131 GATTAAGAAAACCAAATATCAGTTTCTTGCACAACACATGAAAGAATATGTTTTGGAAACACTAC
* *
6322818 AACTTCTCATTATGCGCCACCACATAAATAAACATATTGATAAACCCAGATCAAGACAAATCATG
196 AACTACTCAGTATGCGCCACCACATAAATAAACATATTGATAAACCCAGATCAAGACAAATCATG
* *
6322883 ACATACAGATAACTAAATAGACAAATGAACCATTCTACAGCATATAATTCTATCAGTTGATATCA
261 ACATACAGATAACTAAATAGACAAATGAAACATTCTACAGCATATAATTCTATCAGTAGATATC-
6322948 AAACCAAATTCACCATAAAATTCCAG
325 AAACCAAATTCACCATAAAATTCCAG
** *
6322974 CAAGCTCAAAGCCATCTGTATCAATATTATGTTCTTGTTAAATGCATCATAAAATTCCAAGGATG
1 CAAGCTCAAAGCCATCCATATCAATATTATGTTCTTGTT-AATGCACCATAAAATTCCAAGGATG
* * * *
6323039 ATCTATTACAAATCTCTAAATATTCAGTCATGAATCTGTTCCAAGCAATGTGCTTATTTATCTCA
65 ATCTATTACAAATCTCTAAATATTCAGCCATGAATCTGTTCCAAGCAAAGGGCCTATTTATCTCA
*
6323104 GGATTAAGAAACTCAACCAAATATCAGTTTCTTGCACAATACATGAAAAGAATATATGTTTTGCG
130 GGATTAAG-AA---AACCAAATATCAGTTTCTTGCACAACACATG-AAAG-A-ATATGTTTTG-G
* *
6323169 AAA-ATTACAACTACTCAGTATGTGCCACCACATAAATAAACATATTGATAAACCCAGATCAAGA
187 AAACACTACAACTACTCAGTATGCGCCACCACATAAATAAACATATTGATAAACCCAGATCAAGA
* * *
6323233 CAAATTATGACATACAGATAACTAAATAGCCAAATGAAACATTCTACAGCATATAATTCTATCGG
252 CAAATCATGACATACAGATAACTAAATAGACAAATGAAACATTCTACAGCATATAATTCTATCAG
6323298 TAGATATCAAACCAAATTC
317 TAGATATCAAACCAAATTC
6323317 TATACTGAAT
Statistics
Matches: 312, Mismatches: 22, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
351 36 0.12
352 92 0.29
353 2 0.01
356 30 0.10
357 3 0.01
358 12 0.04
359 134 0.43
360 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (350 bp):
CAAGCTCAAAGCCATCCATATCAATATTATGTTCTTGTTAATGCACCATAAAATTCCAAGGATGA
TCTATTACAAATCTCTAAATATTCAGCCATGAATCTGTTCCAAGCAAAGGGCCTATTTATCTCAG
GATTAAGAAAACCAAATATCAGTTTCTTGCACAACACATGAAAGAATATGTTTTGGAAACACTAC
AACTACTCAGTATGCGCCACCACATAAATAAACATATTGATAAACCCAGATCAAGACAAATCATG
ACATACAGATAACTAAATAGACAAATGAAACATTCTACAGCATATAATTCTATCAGTAGATATCA
AACCAAATTCACCATAAAATTCCAG
Found at i:6325976 original size:2 final size:2
Alignment explanation
Indices: 6325969--6326001 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6325959 TCTAATTTGA
6325969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6326002 AAGCGAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6329952 original size:2 final size:2
Alignment explanation
Indices: 6329945--6329980 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6329935 TCAAAAGGGA
6329945 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6329981 GAAGCTGCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6333261 original size:23 final size:23
Alignment explanation
Indices: 6333235--6333279 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
6333225 TAAGTAAATT
*
6333235 TAAAAATTGATAATTTTAAAAAA
1 TAAAAATTCATAATTTTAAAAAA
** *
6333258 TAAATGTTCATAATTTTTAAAA
1 TAAAAATTCATAATTTTAAAAA
6333280 TATTATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAAAATTCATAATTTTAAAAAA
Found at i:6334463 original size:250 final size:249
Alignment explanation
Indices: 6334074--6336531 Score: 1764
Period size: 250 Copynumber: 9.9 Consensus size: 249
6334064 GTATTTAACT
* * * * * * * *
6334074 TAAAGATGTAAGAATTGATGTAAAAA-TCCATAAAAGTGAAATATGTAAATTTAAAATCTTAATG
1 TAAAGTTGTAAGAATTAATGTAAAAACT-TATAAAAGT-AAACAAGCATATTTAAAATCTTAATA
* * * ** *
6334138 TAAATATCTGAGAGTTAACCTAATATGTCAATTAAGTAAAAAAATATAATTTTTGTGTAAAATAA
64 TAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAATATAATTTTAATGAAAAATAA
* * * *
6334203 ATATTTAAATTTATATTTTTAGACTAAAAATATTTAATGATTTATAAATTTTAATTTTAAAATAA
129 ACATTTAAATTTATATTCTTAGACTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAATAA
* * * * *
6334268 ATAATAATAAAGATAAAAATAATTATTGTTAAAAGTTGCAATAGAAAAGCCTTGACG
194 A-AATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * **
6334325 TAAAGCTGTAAAAATAAATTTAAAACCTTATAAAAGTAAACAAACATATTTAAAATCTTAACCTA
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAGTAAACAAGCATATTTAAAATCTTAATATA
* * * * * *
6334390 AATATGTGAGAATTAGCGTAATAGGTCAATAAAGTCATAAAAATCTAATTTTAAT-AAAAATAAA
66 AATATGTGAGAGTTAACGTAATAAGTCAATTAAGT-AAAAAAATATAATTTTAATGAAAAATAAA
* * * * * *
6334454 TAGTTAAATTTATATT-TTGGGACTAAATGTACTTAA-AATTTTACAAATTTTAA-TTTAAAACT
130 CATTTAAATTTATATTCTT-AGACTAAAAGTATTTAATGA-TTTACAAATTTTAATTTTAAAA-T
* *** * * *
6334516 AAATAATAAT-AAGAATAAAAATAATTATTGTTAAAAGTTGTTATTGCAAAG-TTTATATG
192 AAA-AATAATAAAG-ATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTT-GATG
** * * * *
6334575 TAAAGTTAAAAGAATTAACGTAAAAACTCATAAAAGTAGAACAAGCATATTCAAAATTTTAATAT
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAGTA-AACAAGCATATTTAAAATCTTAATAT
* * * ** * * *
6334640 AAATGTATAAGAGTTAACGTAGCAAGTCAATTAAGTCACAAAAATCTAATGTTAATGAAAAATAA
65 AAATATGTGAGAGTTAACGTAATAAGTCAATTAAGT-AAAAAAATATAATTTTAATGAAAAATAA
* ** * * * * * *
6334705 ACATTTAAATTTGTATTCTTAGGTTAAAAATATTTAACGGTTAATAAATTTTAA-TTTAAAA-AT
129 ACATTTAAATTTATATTCTTAGACTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAATAA
* ***
6334768 AAATAAT--A-A-AAAAATAATTATAGTTAAAAATTGTTATTG-AAA------A-G
194 AAATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * *
6334812 T---CTTG-AAGAATTGATGTAAAAACTCATAAAGGTAGAACAAGTATATTTAAAATTTTAACAT
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAGTA-AACAAGCATATTTAAAATCTTAATAT
** * * * ** * * *
6334873 AAGCATGTGAAAGTTAATGTAACAAGTCAATTAAGTCGTAAAAATCTAATTTTAATTAAAAACAA
65 AAATATGTGAGAGTTAACGTAATAAGTCAATTAAGT-AAAAAAATATAATTTTAATGAAAAATAA
* * * * *
6334938 ATATTTAAAGTTGTAT-TTCAT-GGCTAAAAGTATTTAATCATTTACAAATTTTAATTTAAAAAT
129 ACATTTAAA-TT-TATATTCTTAGACTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAAT
* * * * * *
6335001 AAATAATAATAAAGATAAAAACAATTAGAGTTAAAAATTACCATTGAAAAACTTTGAGG
192 AAA-AATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * * * *
6335060 TAAGGCTATAAAAATTGATATAATAAA-TTATAAAAGTAGAACAATCATATTTAAAATTTTAATG
1 TAAAGTTGTAAGAATTAATGTAA-AAACTTATAAAAGTA-AACAAGCATATTTAAAATCTTAATA
* * * * * * * * *
6335124 TAAATTTATAAGAGTTAACGAAAT-AGATCAATCAAGTTATAAAAATGTAATTTTAAAG-AAAAC
64 TAAATATGTGAGAGTTAACGTAATAAG-TCAATTAAG-TAAAAAAATATAATTTTAATGAAAAAT
* * * *
6335187 AAACATTTAAATTTATATT-TTCGGACTAAAAGTATTTAACGATATATAAATTTTAATTTTGAAA
127 AAACATTTAAATTTATATTCTT-AGACTAAAAGTATTTAATGATTTACAAATTTTAATTTT-AAA
** * * * * *
6335251 A-AAAAATAATACGGTTAAAAATAATTATAATTAAAAATTACTATTGAAAAGCCTTGACG
190 ATAAAAATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * * * * *
6335310 TAAAGTTGTAAGAATTGATATAAAAA-TATATAAAGGTGGAGCAGGTAAATTTAAAATCCTAATG
1 TAAAGTTGTAAGAATTAATGTAAAAACT-TATAAAAGT-AAACAAGCATATTTAAAATCTTAATA
* * * * *
6335374 TAAATGTGTGAGAGTTAATGTAATAAGTTAATTAAGTGAAAAAAATTTAATTTTAATGAAAAACA
64 TAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGT-AAAAAAATATAATTTTAATGAAAAATA
* * * * * *
6335439 AACATATAAATGTATATTCTTA-AGCTAAAAGTATTTAACGATATACCAATATTAATTTTAAAAT
128 AACATTTAAATTTATATTCTTAGA-CTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAAT
* * **
6335503 AAAAATAATAAATATAAAAATAATTATAGTAAAAAACTACCATTGAAAAGCCTTGATG
192 AAAAATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * * * *
6335561 CAAAGTTGTAAGAGTTAACGTAAAAAGTTATAAATGTGGAACAAGCAAATTCAAAATCATAA-AG
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAGT-AAACAAGCATATTTAAAATCTTAATA-
* * *
6335625 TAAATATGTGAGAGTTAACATAATAAGTTAATTAAGT-AAAAAATATAATTTTAAT-AAAAAAAG
64 TAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAATATAATTTTAATGAAAAATA-
* * * * * *
6335688 AACATTTACATTTATATTCTCAGACTAAAAATATTTAA-CAGTATACAAATTTTAATTTTAAAAC
128 AACATTTAAATTTATATTCTTAGACTAAAAGTATTTAATGA-TTTACAAATTTTAATTTTAAAAT
* * * * * * *
6335752 AAAAAGTTATAAAAATAAAAATAATTATAATTAAAAGTTATCATTGAAAAGCTTTAATA
192 AAAAA-TAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * * * *
6335811 TAAAATTGTAAGAGTTGATATAAAAGCTTAT-AAAGCTGGAACATGTATATTTAAAATCTTAGTA
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAG-T-AAACAAGCATATTTAAAATCTTAATA
* * * * * * *
6335875 TAAATGTGTGAAAGTTAATGTAACAAATCAATCAAGTAAAACAAATATAATTTTAATAAAAAATA
64 TAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAAAA-AAATATAATTTTAATGAAAAATA
* * *
6335940 AATATTTAAATTTATATTCTT-GATCTAAAAGTATTTAATGATGTACAAATTTTAATTTT-GAAT
128 AACATTTAAATTTATATTCTTAGA-CTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAAT
* * **
6336003 AAATAATAATAAGGAT-AAAATAATTATAATTAAAAGTTACCATTGAAAAATCTTGATG
192 AAA-AATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
* * * * * * *
6336061 TGAAGTTATAAGAATTAATGTAAAAACATATAAAGGTAAAATAAGCAAATTTAAAATCTTAACAT
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAGT-AAACAAGCATATTTAAAATCTTAATAT
* * * * * * * * *
6336126 AAATGTGTAAGAGTTAACATAACAAATTAACTAAGTAAAAAAATTTTTAATTTTAATGAAAAAGA
65 AAATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAA--TATAATTTTAATGAAAAATA
* * * * *
6336191 AACAGTTAAATTTATA-TATTGGGCTAAAATTATTTAATGATTTACAAATTTTAATTTTAAAATA
128 AACATTTAAATTTATATTCTTAGACTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAATA
* * * *
6336255 AAGAATAAT-AAGTATAAAAGTAATTATAATTAAAAGTTACCATTAAAAAGTCTTTGATG
193 AA-AATAATAAAG-ATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAG-CCTTGATG
* * * * * * * * * **
6336314 TAAAATTTTAAGAGTTGACGTAAAGACTTATAAACA-TAAAATAAGTAAATTTAAAATCTTAACG
1 TAAAGTTGTAAGAATTAATGTAAAAACTTATAAA-AGT-AAACAAGCATATTTAAAATCTTAATA
* * * * * * *
6336378 TAAATGTGTAAAAATTAAAGTAATAAGTCACTTAAGTAAAAAAAAATCTAATTTTAAT-AAAAAT
64 TAAATATGTGAGAGTTAACGTAATAAGTCAATTAAGT--AAAAAAATATAATTTTAATGAAAAAT
* * * * * *
6336442 --ATATTTAAATTTATATTC--AGGAGTTAAAGTATTTAACAGA-TTACAAATTTGAATATGT-A
127 AAACATTTAAATTTATATTCTTA-GACTAAAAGTATTTAA-TGATTTACAAATTTTAAT-TTTAA
*
6336501 AATAAATAA-AAGCAAAGATAAAAATAATTAT
189 AATAAA-AATAA-TAAAGATAAAAATAATTAT
6336532 GGTGAAAATT
Statistics
Matches: 1777, Mismatches: 352, Indels: 157
0.78 0.15 0.07
Matches are distributed among these distances:
233 136 0.08
234 14 0.01
235 4 0.00
236 6 0.00
237 2 0.00
238 2 0.00
239 1 0.00
240 25 0.01
241 3 0.00
244 3 0.00
245 28 0.02
246 1 0.00
247 1 0.00
248 10 0.01
249 111 0.06
250 646 0.36
251 424 0.24
252 243 0.14
253 110 0.06
255 7 0.00
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (249 bp):
TAAAGTTGTAAGAATTAATGTAAAAACTTATAAAAGTAAACAAGCATATTTAAAATCTTAATATA
AATATGTGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAATATAATTTTAATGAAAAATAAAC
ATTTAAATTTATATTCTTAGACTAAAAGTATTTAATGATTTACAAATTTTAATTTTAAAATAAAA
ATAATAAAGATAAAAATAATTATAGTTAAAAGTTACCATTGAAAAGCCTTGATG
Found at i:6334746 original size:17 final size:17
Alignment explanation
Indices: 6334726--6334758 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6334716 TGTATTCTTA
6334726 GGTTAA-AAATATTTAAC
1 GGTTAATAAAT-TTTAAC
6334743 GGTTAATAAATTTTAA
1 GGTTAATAAATTTTAA
6334759 TTTAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (17 bp):
GGTTAATAAATTTTAAC
Found at i:6334991 original size:233 final size:234
Alignment explanation
Indices: 6334584--6335018 Score: 592
Period size: 233 Copynumber: 1.9 Consensus size: 234
6334574 GTAAAGTTAA
* *
6334584 AAGAATTAACGTAAAAACTCATAAAAGTAGAACAAGCATATTCAAAATTTTAATATAAATGTATA
1 AAGAATTAACGTAAAAACTCATAAAAGTAGAACAAGCATATTCAAAATTTTAACATAAATGTAGA
* *
6334649 AGAGTTAACGTAGCAAGTCAATTAAGTCACAAAAATCTAATGTTAATGAAAAATAAACATTTAAA
66 AGAGTTAACGTAACAAGTCAATTAAGTCACAAAAATCTAATGTTAATGAAAAACAAACATTTAAA
* * * * *
6334714 TTTGTATTCTTAGGTTAAAAATATTTAACGGTTAATAAATTTTAATTTAAAAATAAATAATAA-A
131 GTTGTATTCATAGGCTAAAAATATTTAACGATTAACAAATTTTAATTTAAAAATAAATAATAATA
6334778 AAAATAATTATAGTTAAAAATTGTTATTGAAAAGTCTTG
196 AAAATAATTATAGTTAAAAATTGTTATTGAAAAGTCTTG
* * * * *
6334817 AAGAATTGATGTAAAAACTCATAAAGGTAGAACAAGTATATTTAAAATTTTAACATAAGCATGT-
1 AAGAATTAACGTAAAAACTCATAAAAGTAGAACAAGCATATTCAAAATTTTAACATAA--ATGTA
* ** * * *
6334881 GAA-AGTTAATGTAACAAGTCAATTAAGTCGTAAAAATCTAATTTTAATTAAAAACAAATATTTA
64 GAAGAGTTAACGTAACAAGTCAATTAAGTCACAAAAATCTAATGTTAATGAAAAACAAACATTTA
* *
6334945 AAGTTGTATTTCAT-GGCTAAAAGTATTTAATC-ATTTACAAATTTTAATTTAAAAATAAATAAT
129 AAGTTGTA-TTCATAGGCTAAAAATATTTAA-CGATTAACAAATTTTAATTTAAAAATAAATAAT
*
6335008 AATAAAGATAA
192 AATAAAAATAA
6335019 AAACAATTAG
Statistics
Matches: 174, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
233 156 0.90
234 14 0.08
235 4 0.02
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (234 bp):
AAGAATTAACGTAAAAACTCATAAAAGTAGAACAAGCATATTCAAAATTTTAACATAAATGTAGA
AGAGTTAACGTAACAAGTCAATTAAGTCACAAAAATCTAATGTTAATGAAAAACAAACATTTAAA
GTTGTATTCATAGGCTAAAAATATTTAACGATTAACAAATTTTAATTTAAAAATAAATAATAATA
AAAATAATTATAGTTAAAAATTGTTATTGAAAAGTCTTG
Found at i:6335537 original size:15 final size:15
Alignment explanation
Indices: 6335497--6335526 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6335487 ATATTAATTT
6335497 TAAA-ATAAAAATAA
1 TAAATATAAAAATAA
6335511 TAAATATAAAAATAA
1 TAAATATAAAAATAA
6335526 T
1 T
6335527 TATAGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATATAAAAATAA
Found at i:6335831 original size:501 final size:495
Alignment explanation
Indices: 6334082--6336604 Score: 1848
Period size: 501 Copynumber: 5.1 Consensus size: 495
6334072 CTTAAAGATG
* * * *
6334082 TAAGAATTGATGTAAAAATCCATAAAAGT-GAA-ATATGTAAATTTAAAATCTTAATGTAAATAT
1 TAAGAATTAATGTAAAAAT-TATAAAAGTAGAACA-A-GCAAATTTAAAATCTTAAAGTAAATAT
* * * * * ** * * *
6334145 CTGAGAGTTAACCTAATATGTCAATTAAGTAAAAAAATATAATTTTTGTGTAAAATA-AATATTT
63 GTAAGAGTTAACATAATAAGTTAATTAAGT-AAAAAATATAATTTTAAT-AAAAAAAGAACATTT
** * * *
6334209 AAATTTATATTTTTAGACTAAAAATATTTAATGATTTATAAATTTTAATTTTAAAATAAATAATA
126 AAATTTATA-TTTCGGACTAAAAATATTTAACGATATACAAATTTTAATTTTAAAA-AAA-AATA
** * * * * ** *
6334274 ATAA-AGATAAAAATAATTATTGTTAAAAGTTGCAATAGAAAAGCCTTGACGTAAAGCTGTAAAA
188 ATAAGA-ATAAAAATAATTATAATTAAAAGTTAC-ATTGAAAAGCTTTGATGTAAAATTGTAAGA
* ** * * ** * ** *
6334338 ATAAATTTAAAACCTTATAAA-A-GTAAACAAACATATTTAAAATCTTAACCTAAATATGTGAGA
251 GTTGATATAAAA-CTTATAAAGATG-GAACAAGTAAATTTAAAATCTTAATGTAAATGTGTGA-A
** * * * * * * * *
6334401 A-TTAGCGTAATAGGTCAATAAAGT-CATAAAAATCTAATTTTAATAAAAATAAATAGTTAAATT
313 AGTTAATGTAACAAGTCAATTAAGTAGAAAAAAATCTAATTTTAATAAAAACAAATATTTAAATG
* * * * *
6334464 TATATT-TTGGGACTAAATGTACTTAA-AATTTTACAAATTTTAA-TTTAAAACTAAATAATAAT
378 TATATTCTT-AG-CTAAAAGTATTTAACGA-TATACAAATTTTAATTTTAAAA-TAAATAATAAT
* * *** * ** *
6334526 -AAGAATAAAAATAATTATTGTTAAAAGTTGTTATTG-CAAAGTTTATATGTAAAGTTA
439 AAAG-ATAAAAATAATTATAGTTAAAAATTACCATTGAAAAACCTT-GATGTAAAGTTA
* * * * * * * *
6334583 AAAGAATTAACGTAAAAACTCATAAAAGTAGAACAAGCATATTCAAAATTTTAATA-TAAATGTA
1 TAAGAATTAATGTAAAAA-TTATAAAAGTAGAACAAGCAAATTTAAAATCTTAA-AGTAAATATG
* ** * * * *
6334647 TAAGAGTTAACGTAGCAAGTCAATTAAGTCACAAAAATCTAATGTTAATGAAAAATA-AACATTT
64 TAAGAGTTAACATAATAAGTTAATTAAGT-A-AAAAATATAATTTTAAT-AAAAAAAGAACATTT
* * * * * *
6334711 AAATTTGTATTCTTAGG-TTAAAAATATTTAACGGT-TAATAAATTTTAA-TTTAAAAATAAATA
126 AAATTTATA-T-TTCGGACTAAAAATATTTAACGATAT-ACAAATTTTAATTTTAAAAAAAAATA
* * ** *
6334773 AT---AA-AAAAATAATTATAGTTAAAAATTGTTATTGAAAAG-TCTTGA---AGAA-T-T--GA
188 ATAAGAATAAAAATAATTATAATTAAAAGTT-ACATTGAAAAGCT-TTGATGTAAAATTGTAAGA
* * * * * ** ***
6334826 --TG-TA-AAAACTCATAAAGGTAGAACAAGTATATTTAAAATTTTAACATAAGCATGTGAAAGT
251 GTTGATATAAAACTTATAAAGATGGAACAAGTAAATTTAAAATCTTAATGTAAATGTGTGAAAGT
* *
6334887 TAATGTAACAAGTCAATTAAGTCG-TAAAAATCTAATTTTAATTAAAAACAAATATTTAAAGTTG
316 TAATGTAACAAGTCAATTAAGTAGAAAAAAATCTAATTTTAA-TAAAAACAAATATTTAAA--TG
* * * *
6334951 TAT-TTCATGGCTAAAAGTATTTAATC-ATTTACAAATTTTAATTTAAAAATAAATAATAATAAA
378 TATATTCTTAGCTAAAAGTATTTAA-CGATATACAAATTTTAATTTTAAAATAAATAATAATAAA
* * * * * *
6335014 GATAAAAACAATTAGAGTTAAAAATTACCATTGAAAAACTTTGAGGTAAGGCTA
442 GATAAAAATAATTATAGTTAAAAATTACCATTGAAAAACCTTGATGTAAAGTTA
* * * * * * * * *
6335068 TAAAAATTGATATAATAAATTATAAAAGTAGAACAATCATATTTAAAATTTTAATGTAAATTTAT
1 TAAGAATTAATGTAA-AAATTATAAAAGTAGAACAAGCAAATTTAAAATCTTAAAGTAAATATGT
* * * *
6335133 AAGAGTTAACGA-AAT-AGATCAATCAAGTTATAAAAATGTAATTTTAA-AGAAAACA-AACATT
65 AAGAGTTAAC-ATAATAAG-TTAATTAAG-TA-AAAAATATAATTTTAATA-AAAAAAGAACATT
* *
6335194 TAAATTTATATTTTCGGACTAAAAGTATTTAACGATATATAAATTTTAATTTTGAAAAAAAAATA
125 TAAATTTATA-TTTCGGACTAAAAATATTTAACGATATACAAATTTTAATTTT-AAAAAAAAATA
* ** * * * * *
6335259 ATACGGTTAAAAATAATTATAATTAAAAATTACTATTGAAAAGCCTTGACGTAAAGTTGTAAGAA
188 ATAAGAATAAAAATAATTATAATTAAAAGTTAC-ATTGAAAAGCTTTGATGTAAAATTGTAAGAG
* * * * * *
6335324 TTGATATAAAAATATATAAAGGTGGAGCAGGTAAATTTAAAATCCTAATGTAAATGTGTGAGAGT
252 TTGATATAAAACT-TATAAAGATGGAACAAGTAAATTTAAAATCTTAATGTAAATGTGTGAAAGT
* * * * *
6335389 TAATGTAATAAGTTAATTAAGT-GAAAAAAATTTAATTTTAATGAAAAACAAACATATAAATGTA
316 TAATGTAACAAGTCAATTAAGTAGAAAAAAATCTAATTTTAAT-AAAAACAAATATTTAAATGTA
* * *
6335453 TATTCTTAAGCTAAAAGTATTTAACGATATACCAATATTAATTTTAAAATAAA-AATAATAAATA
380 TATTCTT-AGCTAAAAGTATTTAACGATATACAAATTTTAATTTTAAAATAAATAATAATAAAGA
* * * * *
6335517 TAAAAATAATTATAGTAAAAAACTACCATTGAAAAGCCTTGATGCAAAGTTG
444 TAAAAATAATTATAGTTAAAAATTACCATTGAAAAACCTTGATGTAAAGTTA
* * * * * *
6335569 TAAGAGTTAACGTAAAAAGTTATAAATGTGGAACAAGCAAATTCAAAATCATAAAGTAAATATGT
1 TAAGAATTAATGTAAAAA-TTATAAAAGTAGAACAAGCAAATTTAAAATCTTAAAGTAAATATGT
* *
6335634 GAGAGTTAACATAATAAGTTAATTAAGTAAAAAATATAATTTTAATAAAAAAAGAACATTTACAT
65 AAGAGTTAACATAATAAGTTAATTAAGTAAAAAATATAATTTTAATAAAAAAAGAACATTTAAAT
* *
6335699 TTATATTCTCAGACTAAAAATATTTAAC-AGTATACAAATTTTAATTTTAAAACAAAAAGTTATA
130 TTATATT-TCGGACTAAAAATATTTAACGA-TATACAAATTTTAATTTTAAAA-AAAAA-TAATA
* * *
6335763 AAAATAAAAATAATTATAATTAAAAGTTATCATTGAAAAGCTTTAATATAAAATTGTAAGAGTTG
191 AGAATAAAAATAATTATAATTAAAAGTTA-CATTGAAAAGCTTTGATGTAAAATTGTAAGAGTTG
* * * * *
6335828 ATATAAAAGCTTATAAAGCTGGAACATGTATATTTAAAATCTTAGTATAAATGTGTGAAAGTTAA
255 ATATAAAA-CTTATAAAGATGGAACAAGTAAATTTAAAATCTTAATGTAAATGTGTGAAAGTTAA
* * * * * *
6335893 TGTAACAAATCAATCAAGTA-AAACAAATATAATTTTAATAAAAAATAAATATTTAAATTTATAT
319 TGTAACAAGTCAATTAAGTAGAAAAAAATCTAATTTTAAT-AAAAACAAATATTTAAATGTATAT
* * * * *
6335957 TCTTGATCTAAAAGTATTTAATGATGTACAAATTTTAATTTT-GAATAAATAATAATAAGGAT-A
383 TCTT-AGCTAAAAGTATTTAACGATATACAAATTTTAATTTTAAAATAAATAATAATAAAGATAA
* * * *
6336020 AAATAATTATAATTAAAAGTTACCATTGAAAAATCTTGATGTGAAGTTA
447 AAATAATTATAGTTAAAAATTACCATTGAAAAACCTTGATGTAAAGTTA
* * * * *
6336069 TAAGAATTAATGTAAAAACATATAAAGGTAAAATAAGCAAATTTAAAATCTTAACA-TAAATGTG
1 TAAGAATTAATGTAAAAA-TTATAAAAGTAGAACAAGCAAATTTAAAATCTTAA-AGTAAATATG
* * * * * *
6336133 TAAGAGTTAACATAACAAATTAACTAAGTAAAAAAATTTTTAATTTTAAT-GAAAAAGAAACAGT
64 TAAGAGTTAACATAATAAGTTAATTAAGT-AAAAAA--TATAATTTTAATAAAAAAAG-AACATT
* * * *
6336197 TAAATTTATATATT-GGGCTAAAATTATTTAATGATTTACAAATTTTAATTTTAAAATAAAGAAT
125 TAAATTTATAT-TTCGGACTAAAAATATTTAACGATATACAAATTTTAATTTTAAAA-AAA-AAT
* * * *
6336261 AATAAGTATAAAAGTAATTATAATTAAAAGTTACCATTAAAAAGTCTTTGATGTAAAATTTTAAG
187 AATAAGAATAAAAATAATTATAATTAAAAGTTA-CATTGAAAAG-CTTTGATGTAAAATTGTAAG
** * ** * * *
6336326 AGTTGACGTAAAGACTTATAAACATAAAATAAGTAAATTTAAAATCTTAACGTAAATGTGTAAAA
250 AGTTGATATAAA-ACTTATAAAGATGGAACAAGTAAATTTAAAATCTTAATGTAAATGTGTGAAA
* * * * * * *
6336391 ATTAAAGTAATAAGTCACTTAAGTAAAAAAAAATCTAATTTTAAT-AAAA-ATATATTTAAATTT
314 GTTAATGTAACAAGTCAATTAAGTAGAAAAAAATCTAATTTTAATAAAAACAAATATTTAAATGT
** * * * *
6336454 ATATTCAGGAG-TTAAAGTATTTAACAGAT-TACAAATTTGAATATGT-AAATAAATAA-AAGCA
379 ATATTC-TTAGCTAAAAGTATTTAAC-GATATACAAATTTTAAT-TTTAAAATAAATAATAA-TA
* * * *** * ** *
6336515 AAGATAAAAATAATTATGGTGAAAATTTGTAATTGAAAAACCTTAACATAAAATTA
440 AAGATAAAAATAATTATAGTTAAAAATTACCATTGAAAAACCTTGATGTAAAGTTA
* * *
6336571 AAAGTATTAACGTAAAAAATTAT-AAAGTTAGAAC
1 TAAGAATTAATGT-AAAAATTATAAAAG-TAGAAC
6336605 GATTATTGTT
Statistics
Matches: 1629, Mismatches: 307, Indels: 171
0.77 0.15 0.08
Matches are distributed among these distances:
483 14 0.01
484 119 0.07
485 175 0.11
486 36 0.02
487 5 0.00
488 1 0.00
490 36 0.02
491 1 0.00
492 2 0.00
493 2 0.00
494 1 0.00
495 34 0.02
496 1 0.00
497 3 0.00
499 35 0.02
500 220 0.14
501 462 0.28
502 338 0.21
503 125 0.08
504 19 0.01
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (495 bp):
TAAGAATTAATGTAAAAATTATAAAAGTAGAACAAGCAAATTTAAAATCTTAAAGTAAATATGTA
AGAGTTAACATAATAAGTTAATTAAGTAAAAAATATAATTTTAATAAAAAAAGAACATTTAAATT
TATATTTCGGACTAAAAATATTTAACGATATACAAATTTTAATTTTAAAAAAAAATAATAAGAAT
AAAAATAATTATAATTAAAAGTTACATTGAAAAGCTTTGATGTAAAATTGTAAGAGTTGATATAA
AACTTATAAAGATGGAACAAGTAAATTTAAAATCTTAATGTAAATGTGTGAAAGTTAATGTAACA
AGTCAATTAAGTAGAAAAAAATCTAATTTTAATAAAAACAAATATTTAAATGTATATTCTTAGCT
AAAAGTATTTAACGATATACAAATTTTAATTTTAAAATAAATAATAATAAAGATAAAAATAATTA
TAGTTAAAAATTACCATTGAAAAACCTTGATGTAAAGTTA
Found at i:6336681 original size:18 final size:19
Alignment explanation
Indices: 6336649--6336709 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 19
6336639 ATTTAAAGTA
6336649 ATAAATTATAA-TAATAAAT
1 ATAAATTA-AATTAATAAAT
6336668 -TAAATTAAATTAATTAAAT
1 ATAAATTAAATTAA-TAAAT
*
6336687 ATAACATTAATATTAAAAAAT
1 ATAA-ATTAA-ATTAATAAAT
6336708 AT
1 AT
6336710 TCTTATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 2 0.06
18 10 0.28
19 5 0.14
20 3 0.08
21 11 0.31
22 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAATTAAATTAATAAAT
Found at i:6336684 original size:14 final size:16
Alignment explanation
Indices: 6336665--6336697 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
6336655 TATAATAATA
6336665 AATTAAAT-TAA-ATT
1 AATTAAATATAACATT
6336679 AATTAAATATAACATT
1 AATTAAATATAACATT
6336695 AAT
1 AAT
6336698 ATTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATATAACATT
Found at i:6345763 original size:15 final size:15
Alignment explanation
Indices: 6345743--6345811 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
6345733 GATATTATGT
6345743 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
*
6345758 TTAAATTTAAATATAA
1 TTAAATTTAAACA-AA
** * * *
6345774 -TGGA--TAGATAAT
1 TTAAATTTAAACAAA
6345786 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
6345801 TTAAATTTAAA
1 TTAAATTTAAA
6345812 TTTATATCCT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
15 30 0.75
16 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (15 bp):
TTAAATTTAAACAAA
Found at i:6346947 original size:15 final size:16
Alignment explanation
Indices: 6346927--6346966 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6346917 TTTTATTAAT
6346927 TATTTTTT-ACTTTTA
1 TATTTTTTAACTTTTA
*
6346942 TATTTTTTAATTTTTA
1 TATTTTTTAACTTTTA
6346958 TATATTTTT
1 TAT-TTTTT
6346967 TATATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 5 0.23
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTTTAACTTTTA
Found at i:6346970 original size:9 final size:9
Alignment explanation
Indices: 6346937--6346971 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
6346927 TATTTTTTAC
6346937 TTTTATATT
1 TTTTATATT
6346946 TTTTA-ATT
1 TTTTATATT
6346954 TTTATATATT
1 TTT-TATATT
6346964 TTTTATAT
1 TTTTATAT
6346972 AATTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 6 0.25
9 12 0.50
10 6 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTATATT
Found at i:6347363 original size:42 final size:43
Alignment explanation
Indices: 6347311--6347405 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
6347301 CATTAATGAT
* *
6347311 TAATATTTTATTTAAAATT-TAATCATTAATAT-TTTAAAATAC
1 TAATATTTTATTTAAAATTAAAAT-ATTAATATGATTAAAATAC
* * *
6347353 TAATATTTTATTTATAATTAAAATATTATTATGATTAAAATAT
1 TAATATTTTATTTAAAATTAAAATATTAATATGATTAAAATAC
6347396 TAAT-TTTTAT
1 TAATATTTTAT
6347406 AATATATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 31 0.67
43 15 0.33
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (43 bp):
TAATATTTTATTTAAAATTAAAATATTAATATGATTAAAATAC
Found at i:6347389 original size:17 final size:17
Alignment explanation
Indices: 6347364--6347397 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6347354 AATATTTTAT
6347364 TTATAATTAAAATATTA
1 TTATAATTAAAATATTA
*
6347381 TTATGATTAAAATATTA
1 TTATAATTAAAATATTA
6347398 ATTTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATAATTAAAATATTA
Found at i:6347664 original size:16 final size:16
Alignment explanation
Indices: 6347643--6347675 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6347633 AATTTATATT
6347643 TTTATTAAAAATTTAA
1 TTTATTAAAAATTTAA
*
6347659 TTTATTAATAATTTAA
1 TTTATTAAAAATTTAA
6347675 T
1 T
6347676 AAGTTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATTAAAAATTTAA
Found at i:6347697 original size:24 final size:23
Alignment explanation
Indices: 6347662--6347706 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
6347652 AATTTAATTT
6347662 ATTAATAATTTAATAA-GTTAAAC
1 ATTAATAATTTAA-AATGTTAAAC
*
6347685 ATTAATATTTTTAAAATGTTAA
1 ATTAATA-ATTTAAAATGTTAA
6347707 TATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTAATAATTTAAAATGTTAAAC
Found at i:6348089 original size:23 final size:23
Alignment explanation
Indices: 6348045--6348089 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6348035 AGGTTAGAGA
* *
6348045 GAGAAAGAGAGAGGCAAGAATGT
1 GAGAAAGAGAGAAGCAAAAATGT
6348068 GAGAAAGAGAGAAAG-AAAAATG
1 GAGAAAGAGAG-AAGCAAAAATG
6348090 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.56, C:0.02, G:0.36, T:0.07
Consensus pattern (23 bp):
GAGAAAGAGAGAAGCAAAAATGT
Found at i:6351272 original size:174 final size:173
Alignment explanation
Indices: 6350964--6351305 Score: 513
Period size: 174 Copynumber: 2.0 Consensus size: 173
6350954 AAAGTCACTT
* *
6350964 AAGATCTTACACAATCAATATAATAAAAAAAGAAAAAAATCAAATACACTTACAAAAACATAAGA
1 AAGATCTTACACAATCAATATAATAAAAAAAGAAAAAAATCAAACACACTCACAAAAACATAAGA
* * * * *
6351029 AATTTATGTGGTTTGATTTTCTGATGACCTACTTCAACGACATAGCGGCAAAGAAAGATTCAGTA
66 AATTTATATGGTTCGATTTTCTGATGACCTACGTCAACGACATAGCAGCAAAGAAAGATTCACTA
*
6351094 AGAAAAATCAAGAGTTTACAAGTTCAGTTTCAAACTCACAAGC
131 AGAAAAATCAAGAGTTTACAAGTTCAATTTCAAACTCACAAGC
** * *
6351137 AAGATCTTAGGCAATCAATATAATAAAAAAAGAAAAAAAATCAAACACACTCACAAGAATATAAG
1 AAGATCTTACACAATCAATATAATAAAAAAAG-AAAAAAATCAAACACACTCACAAAAACATAAG
* * * ** *
6351202 AAATTTATATGGTTCGATTTTCTGATGACTTACGTCCACGACATTGCAGTTAAGAAATATTCACT
65 AAATTTATATGGTTCGATTTTCTGATGACCTACGTCAACGACATAGCAGCAAAGAAAGATTCACT
6351267 AAGAAAAATCAAGAGTTTACAAGTTCAATTTCAAACTCA
130 AAGAAAAATCAAGAGTTTACAAGTTCAATTTCAAACTCA
6351306 TAACTCTTGT
Statistics
Matches: 150, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
173 30 0.20
174 120 0.80
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (173 bp):
AAGATCTTACACAATCAATATAATAAAAAAAGAAAAAAATCAAACACACTCACAAAAACATAAGA
AATTTATATGGTTCGATTTTCTGATGACCTACGTCAACGACATAGCAGCAAAGAAAGATTCACTA
AGAAAAATCAAGAGTTTACAAGTTCAATTTCAAACTCACAAGC
Found at i:6362907 original size:12 final size:11
Alignment explanation
Indices: 6362880--6362909 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6362870 CTTATTCTCT
*
6362880 GAAAAAGATCA
1 GAAAAAGACCA
6362891 GAAAAAGACCA
1 GAAAAAGACCA
6362902 GAAAAAGA
1 GAAAAAGA
6362910 AGATCAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.10, G:0.20, T:0.03
Consensus pattern (11 bp):
GAAAAAGACCA
Found at i:6366692 original size:29 final size:28
Alignment explanation
Indices: 6366616--6366701 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
6366606 AGTTAATAAG
*
6366616 GAAAAGCTGTATGTGAACAGGTACAAGA
1 GAAAAGCTGTACGTGAACAGGTACAAGA
* *
6366644 GAAGAAGCTATACATGAACAGGTACAAGA
1 GAA-AAGCTGTACGTGAACAGGTACAAGA
* * *
6366673 GAAAAGACTGTACGTAAACAAGTATAAGA
1 GAAAAG-CTGTACGTGAACAGGTACAAGA
6366702 AAACAAGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 6 0.12
29 42 0.88
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (28 bp):
GAAAAGCTGTACGTGAACAGGTACAAGA
Found at i:6367379 original size:67 final size:67
Alignment explanation
Indices: 6367262--6367387 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
6367252 GTCAATATTT
*
6367262 TTTTTTGTAATATTTGATTGATTTCGTAATAATATTTTTCATATAAATAAGATTTTCAAGATATA
1 TTTTTTGTAATATTTGATTGATTACGTAATAATATTTTTCATATAAATAAGATTTTCAAGATATA
6367327 TA
66 TA
*
6367329 TTTTTT-TAATATTTGATTGATTACGTAATAATAATTTTTCATATACATAAGATTTTCAA
1 TTTTTTGTAATATTTGATTGATTACGTAATAAT-ATTTTTCATATAAATAAGATTTTCAA
6367388 AATACAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
66 25 0.45
67 31 0.55
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.51
Consensus pattern (67 bp):
TTTTTTGTAATATTTGATTGATTACGTAATAATATTTTTCATATAAATAAGATTTTCAAGATATA
TA
Found at i:6368068 original size:3 final size:3
Alignment explanation
Indices: 6368060--6368181 Score: 62
Period size: 3 Copynumber: 42.0 Consensus size: 3
6368050 GCCGCCTCTT
*
6368060 TTA TTA TTA TTA TTA TT- TT- TTA TT- TTA CTT- TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * * * *
6368102 TAA TTG TT- TTG TTA -TA TATA TTAA TAA TAA ATA TATA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA T-TA TTA TTA TTA
* *
6368148 TT- TTA TT- TTG TTA TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6368182 GTATATGTAT
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
2 16 0.17
3 68 0.72
4 10 0.11
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6368215 original size:79 final size:78
Alignment explanation
Indices: 6368063--6368222 Score: 186
Period size: 79 Copynumber: 2.0 Consensus size: 78
6368053 GCCTCTTTTA
* *
6368063 TTATTATTATTATTTTTTATTTTACTTTTTTTATTATTATAATTGTTTTGTTATATATATTAATA
1 TTATTATTATTATTTTTTATTTTACTTTTTTTATTATTATAATTGTTATGATATATATATT-ATA
6368128 ATAAATATATATTT
65 ATAAATATATATTT
6368142 TTATTATT-TTATTTTGTTATTATTA-TTTTTATTATTATTAGT-ATATGTATAT-ATATATATA
1 TTATTATTATTATTTT-TTATT-TTACTTTTT-TTATTATTA-TAAT-TGT-TATGATATATATA
**
6368203 TT-TAATTTATATATATTT
60 TTATAATAAATATATATTT
6368221 TT
1 TT
6368223 TAATTGACAA
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
78 7 0.10
79 34 0.48
80 14 0.20
81 14 0.20
82 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (78 bp):
TTATTATTATTATTTTTTATTTTACTTTTTTTATTATTATAATTGTTATGATATATATATTATAA
TAAATATATATTT
Found at i:6370250 original size:28 final size:26
Alignment explanation
Indices: 6370199--6370250 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6370189 AAGTTCATTC
*
6370199 ATTTTTTATATATTTTTTATTTTTTT
1 ATTTTATATATATTTTTTATTTTTTT
*
6370225 ATTTTATATATATATTTTTATATTTT
1 ATTTTATATATAT-TTTTTATTTTTT
6370251 CTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (26 bp):
ATTTTATATATATTTTTTATTTTTTT
Found at i:6370257 original size:28 final size:26
Alignment explanation
Indices: 6370199--6370257 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
6370189 AAGTTCATTC
* *
6370199 ATTTTTTATATATTTTTTATTTTTTT
1 ATTTTATATATATTTTTTATTTTTCT
6370225 ATTTTATATATATATTTTTATATTTTCT
1 ATTTTATATATAT-TTTTTAT-TTTTCT
*
6370253 CTTTT
1 ATTTT
6370258 TTTTGAGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.43
27 7 0.25
28 9 0.32
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (26 bp):
ATTTTATATATATTTTTTATTTTTCT
Found at i:6370627 original size:42 final size:42
Alignment explanation
Indices: 6370568--6370654 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
6370558 TAATTCGAGA
6370568 TGAGGTTGTTCCTGACACTAAGGCTATTCCTGTTGTTGAAGT
1 TGAGGTTGTTCCTGACACTAAGGCTATTCCTGTTGTTGAAGT
*
6370610 TGAGGTTGTTCCTGACACTGAGGCTATTCCTGTTGTTGAAGT
1 TGAGGTTGTTCCTGACACTAAGGCTATTCCTGTTGTTGAAGT
6370652 TGA
1 TGA
6370655 TACTAATGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (42 bp):
TGAGGTTGTTCCTGACACTAAGGCTATTCCTGTTGTTGAAGT
Found at i:6371594 original size:52 final size:52
Alignment explanation
Indices: 6371537--6371693 Score: 128
Period size: 52 Copynumber: 3.1 Consensus size: 52
6371527 AGCAAAATCA
6371537 TGAGCGATAAAGCTAGTGGTTGAAATGTTAATGATAAATTATGGTCAAAGAT
1 TGAGCGATAAAGCTAGTGGTTGAAATGTTAATGATAAATTATGGTCAAAGAT
* *** ** ** *
6371589 TGAGCGATATAGCT--TGCGACCAATATCATAAT-AT-AATTACAG-CTAA-AT
1 TGAGCGATAAAGCTAGTG-GTTGAA-ATGTTAATGATAAATTATGGTCAAAGAT
* * *
6371637 CATGAGCGATAAAGCTAGCGGTTGAAACGTTAATGATAAATTATGATCAAAGAT
1 --TGAGCGATAAAGCTAGTGGTTGAAATGTTAATGATAAATTATGGTCAAAGAT
6371691 TGA
1 TGA
6371694 ACAATATAGC
Statistics
Matches: 74, Mismatches: 21, Indels: 20
0.64 0.18 0.17
Matches are distributed among these distances:
48 2 0.03
49 3 0.04
50 26 0.35
51 10 0.14
52 28 0.38
53 3 0.04
54 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (52 bp):
TGAGCGATAAAGCTAGTGGTTGAAATGTTAATGATAAATTATGGTCAAAGAT
Found at i:6371663 original size:102 final size:100
Alignment explanation
Indices: 6371482--6371856 Score: 510
Period size: 102 Copynumber: 3.7 Consensus size: 100
6371472 AGCTAAGGCT
* * *
6371482 AAAGA-TGAGCGATGA-AGCTTGCAACCAATAACATAATATTATTACAGCAAAATCATGAGCGAT
1 AAAGATTGAGCGAT-ATAGCTTGCGACCAAT-ATATAATATTATTACAGCTAAATCATGAGCGAT
*
6371545 AAAGCTAGTGGTTGAAATGTTAATGATAAATTATGGTC
64 AAAGCTAGCGGTTGAAA-GTTAATGATAAATTATGGTC
*
6371583 AAAGATTGAGCGATATAGCTTGCGACCAATATCATAATATAATTACAGCTAAATCATGAGCGATA
1 AAAGATTGAGCGATATAGCTTGCGACCAATAT-ATAATATTATTACAGCTAAATCATGAGCGATA
*
6371648 AAGCTAGCGGTTGAAACGTTAATGATAAATTATGATC
65 AAGCTAGCGGTTGAAA-GTTAATGATAAATTATGGTC
* *
6371685 AAAGATTGAACAATATAGCTTGCGACCAATAATATAATATTATTACAG-TCAAATCATGAGCGAT
1 AAAGATTGAGCGATATAGCTTGCGACCAAT-ATATAATATTATTACAGCT-AAATCATGAGCGAT
*
6371749 AAAGCTAGCGGCTG-AA-TT-ATGATAAATTATGGTC
64 AAAGCTAGCGGTTGAAAGTTAATGATAAATTATGGTC
* * * * *
6371783 AAAGATTGAGCGATATAGCTTGCTACCAAAAATATAATATCATTACAGCCAAATCATGAGTGATA
1 AAAGATTGAGCGATATAGCTTGCGACC-AATATATAATATTATTACAGCTAAATCATGAGCGATA
6371848 AAGCTAGCG
65 AAGCTAGCG
6371857 ACCGAATTAT
Statistics
Matches: 248, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
98 78 0.31
99 4 0.02
101 10 0.04
102 154 0.62
103 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (100 bp):
AAAGATTGAGCGATATAGCTTGCGACCAATATATAATATTATTACAGCTAAATCATGAGCGATAA
AGCTAGCGGTTGAAAGTTAATGATAAATTATGGTC
Found at i:6371943 original size:88 final size:88
Alignment explanation
Indices: 6371773--6371944 Score: 267
Period size: 88 Copynumber: 2.0 Consensus size: 88
6371763 AATTATGATA
*
6371773 AATTATGGTCAAAGATTGAGCGATATAGCTTGCTACCAAAAATATAATATCATTACAGCCAAATC
1 AATTATGGTCAAAGATTGAGCGATATAGCTTGCTACCAAAAATATAATATCATTACAGCAAAATC
* **
6371838 ATGAGTGATAAAGCTAGCGACCG
66 ATAAGCAATAAAGCTAGCGACCG
*
6371861 AATTATGGTCAAAGATTGAGTGATATAGCTTGCTACCAAAAATATAATATCATTACAGCAAAGAT
1 AATTATGGTCAAAGATTGAGCGATATAGCTTGCTACCAAAAATATAATATCATTACAGCAAA-AT
6371926 -ATAAGCAATGAAA-CTAGCG
65 CATAAGCAAT-AAAGCTAGCG
6371945 GCTAAAATAG
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
88 72 0.94
89 5 0.06
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (88 bp):
AATTATGGTCAAAGATTGAGCGATATAGCTTGCTACCAAAAATATAATATCATTACAGCAAAATC
ATAAGCAATAAAGCTAGCGACCG
Found at i:6375648 original size:73 final size:73
Alignment explanation
Indices: 6375529--6375676 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
6375519 TTCTAACCGT
*
6375529 ATTCTTTTTGAGACAGATAGTTTATTAGTACTGAATAAGATCATATTCTTGATGTCTTCCAGTAA
1 ATTCTTTTTGAGACAGATAGTTTATTAGTACTGAATAAGATCATATTCATGATGTCTTCCAGTAA
6375594 CAAGTTGG
66 CAAGTTGG
*
6375602 ATTCTTTTTGAGACAGATTGTTTATTAGTACTGAATAAGATCATATTCATGATGTCTTCCAGTAA
1 ATTCTTTTTGAGACAGATAGTTTATTAGTACTGAATAAGATCATATTCATGATGTCTTCCAGTAA
6375667 CAAGTTGG
66 CAAGTTGG
6375675 AT
1 AT
6375677 CTCATAAGCA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (73 bp):
ATTCTTTTTGAGACAGATAGTTTATTAGTACTGAATAAGATCATATTCATGATGTCTTCCAGTAA
CAAGTTGG
Found at i:6381408 original size:23 final size:23
Alignment explanation
Indices: 6381381--6381448 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
6381371 CATTTATAAG
6381381 ATTAATATTTTAAATTAAAAATT
1 ATTAATATTTTAAATTAAAAATT
**
6381404 ATTAAT-TATTTAATATCTAATTA-T
1 ATTAATAT-TTTAA-AT-TAAAAATT
*
6381428 AATAATA-TTTAAATTAAAAAT
1 ATTAATATTTTAAATTAAAAAT
6381449 AAAATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
21 4 0.11
22 3 0.09
23 16 0.46
24 8 0.23
25 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAATATTTTAAATTAAAAATT
Found at i:6381481 original size:16 final size:16
Alignment explanation
Indices: 6381448--6381491 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
6381438 AAATTAAAAA
6381448 TAAAATATATAATATTT
1 TAAAATAT-TAATATTT
*
6381465 TAAAATATTAATTTTT
1 TAAAATATTAATATTT
*
6381481 TAAATTATTAA
1 TAAAATATTAA
6381492 GTGAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:6381741 original size:15 final size:15
Alignment explanation
Indices: 6381717--6381774 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
6381707 TTGTAATTAT
* *
6381717 ATATTATAAAGAATA
1 ATATTTTAAATAATA
*
6381732 ATATTTTAAATTATTA
1 ATATTTTAAA-TAATA
6381748 ATATTTTAATCATAATA
1 ATATTTTAA--ATAATA
6381765 ATA-TTTAAAT
1 ATATTTTAAAT
6381775 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 2 0.06
15 9 0.25
16 17 0.47
17 7 0.19
18 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATTTTAAATAATA
Found at i:6381825 original size:14 final size:17
Alignment explanation
Indices: 6381792--6381838 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 17
6381782 AAAAAACTAT
6381792 TAATTATAAATTATAAA
1 TAATTATAAATTATAAA
6381809 TAATTA-AAA-TA-AAA
1 TAATTATAAATTATAAA
* *
6381823 TAATGATATATTATAA
1 TAATTATAAATTATAA
6381839 TAAATGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.32
15 4 0.16
16 5 0.20
17 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATTATAAATTATAAA
Found at i:6385431 original size:34 final size:34
Alignment explanation
Indices: 6385345--6385431 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 34
6385335 CTAAAACATT
6385345 TAAAAAGGAAATAATTCTTTTTAGAAAAAATCAAAG
1 TAAAAA-GAAATAATT-TTTTTAGAAAAAATCAAAG
* * *
6385381 -AAATCA-AAATATTTTTTTTA-AAAAAATTGAAAG
1 TAAA-AAGAAATAATTTTTTTAGAAAAAA-TCAAAG
6385414 TAAAAAGAAATAATTTTT
1 TAAAAAGAAATAATTTTT
6385432 AGTTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
32 6 0.14
33 12 0.29
34 20 0.48
35 3 0.07
36 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (34 bp):
TAAAAAGAAATAATTTTTTTAGAAAAAATCAAAG
Found at i:6385699 original size:48 final size:48
Alignment explanation
Indices: 6385618--6385711 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
6385608 TTTTTTAGAA
*
6385618 TTTTTAAAAATTAAAAAATTATTTTTATGTTTTTAAAATTTATAAATT
1 TTTTTAAAAATTAAAAAATTATTTTAATGTTTTTAAAATTTATAAATT
* * *
6385666 TTTTTCAAAAATTTAAAAA-TATTTCTAAT-TTTTTAAATTTTTTAAA
1 TTTTT-AAAAATTAAAAAATTATTT-TAATGTTTTTAAAATTTATAAA
6385712 AATGATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 25 0.62
49 15 0.38
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (48 bp):
TTTTTAAAAATTAAAAAATTATTTTAATGTTTTTAAAATTTATAAATT
Found at i:6394593 original size:11 final size:10
Alignment explanation
Indices: 6394577--6394603 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6394567 AAATATCTAC
6394577 AAAAAAATTT
1 AAAAAAATTT
6394587 AAAAAAATTT
1 AAAAAAATTT
6394597 AAAAAAA
1 AAAAAAA
6394604 GTGATTGATC
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:6399413 original size:47 final size:47
Alignment explanation
Indices: 6399239--6399426 Score: 223
Period size: 47 Copynumber: 3.9 Consensus size: 47
6399229 TTTGAGGGAC
* * *
6399239 AGTGGACCTTGAATCTCACATCGGTTGTCTAGTTACACAACTGAAGGAT
1 AGTGGACCTTGAATCCCACATCGGTTGTGTACTT--ACAACTGAAGGAT
* * * *
6399288 AGTGAACCTTGAATCCAACATCGGTTGTTTACTTACAACTGAACGAT
1 AGTGGACCTTGAATCCCACATCGGTTGTGTACTTACAACTGAAGGAT
* ** **
6399335 AGTGTGACCGTGAATCCCGTATCGGTTGTGTACTTACAACCAAAGGAT
1 AGTG-GACCTTGAATCCCACATCGGTTGTGTACTTACAACTGAAGGAT
* *
6399383 AGTGGACCATGAATCCCACATTGGTTGTGTACTTACAACTGAAG
1 AGTGGACCTTGAATCCCACATCGGTTGTGTACTTACAACTGAAG
6399427 CAGGTTAGTG
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 50 0.43
48 38 0.32
49 29 0.25
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
AGTGGACCTTGAATCCCACATCGGTTGTGTACTTACAACTGAAGGAT
Found at i:6399583 original size:92 final size:92
Alignment explanation
Indices: 6399426--6399598 Score: 328
Period size: 92 Copynumber: 1.9 Consensus size: 92
6399416 TACAACTGAA
*
6399426 GCAGGTTAGTGTGGACTGTGCCACATAACCTTCTCATGTGTATACTCAAATGCCAAACTTATATA
1 GCAGGTTAGTGTGGACTGTGCCACATAACCTTCTCATGTGCATACTCAAATGCCAAACTTATATA
6399491 GTTGAGTAATTATCAAATCAATACTTT
66 GTTGAGTAATTATCAAATCAATACTTT
*
6399518 GCAGGTTAGTGTGGACTGTGCCACATAACCTTGTCATGTGCATACTCAAATGCCAAACTTATATA
1 GCAGGTTAGTGTGGACTGTGCCACATAACCTTCTCATGTGCATACTCAAATGCCAAACTTATATA
6399583 GTTGAGTAATTATCAA
66 GTTGAGTAATTATCAA
6399599 TAATTCCATT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (92 bp):
GCAGGTTAGTGTGGACTGTGCCACATAACCTTCTCATGTGCATACTCAAATGCCAAACTTATATA
GTTGAGTAATTATCAAATCAATACTTT
Found at i:6407280 original size:21 final size:20
Alignment explanation
Indices: 6407256--6407296 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6407246 CTTACTTGAA
6407256 ATACAATACAAATATTTATAT
1 ATACAATACAAA-ATTTATAT
**
6407277 ATACAATTTAAAATTTATAT
1 ATACAATACAAAATTTATAT
6407297 TTAAAAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
ATACAATACAAAATTTATAT
Found at i:6419836 original size:146 final size:146
Alignment explanation
Indices: 6419588--6419879 Score: 512
Period size: 146 Copynumber: 2.0 Consensus size: 146
6419578 TCCAGCTTTT
* *
6419588 GATTGAATTAGACTTAAACTCTACTATGCTTACTTAGCTCTCCTGGTTTTGCTCCAACATTCATC
1 GATTGAATTAGACTTAAACTCTACTATGCTTACTTAGCTCTCCTGGTTTTGCTCCAACATCCATA
6419653 TAACTAGTTACAACAGATGCCTAACTCAGTATACATGCTGACCAGGTTTTTCTCTAACTCTTTAA
66 TAACTAGTTACAACAGATGCCTAACTCAGTATACATGCTGACCAGGTTTTTCTCTAACTCTTTAA
6419718 GGCTTTTTCTCAACTC
131 GGCTTTTTCTCAACTC
*
6419734 GATTGAATTAGACTTAAACTCTATTATGCTTACTTAGCTCTCCTGGTTTTGCTCCAACATCCATA
1 GATTGAATTAGACTTAAACTCTACTATGCTTACTTAGCTCTCCTGGTTTTGCTCCAACATCCATA
* * * *
6419799 TAATTAGTTACAACATATGCCTAACTCAGTATGCATGCTGACCAGGTTTTTCTCTAACTCTTTGA
66 TAACTAGTTACAACAGATGCCTAACTCAGTATACATGCTGACCAGGTTTTTCTCTAACTCTTTAA
*
6419864 GGTTTTTTCTCAACTC
131 GGCTTTTTCTCAACTC
6419880 CCTGATTTGG
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 138 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (146 bp):
GATTGAATTAGACTTAAACTCTACTATGCTTACTTAGCTCTCCTGGTTTTGCTCCAACATCCATA
TAACTAGTTACAACAGATGCCTAACTCAGTATACATGCTGACCAGGTTTTTCTCTAACTCTTTAA
GGCTTTTTCTCAACTC
Found at i:6419908 original size:21 final size:21
Alignment explanation
Indices: 6419884--6419924 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6419874 CAACTCCCTG
*
6419884 ATTTGGTGCAACATTCACTTT
1 ATTTGATGCAACATTCACTTT
*
6419905 ATTTGATGCAACGTTCACTT
1 ATTTGATGCAACATTCACTT
6419925 CATTCTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (21 bp):
ATTTGATGCAACATTCACTTT
Found at i:6420135 original size:122 final size:122
Alignment explanation
Indices: 6419918--6420273 Score: 633
Period size: 122 Copynumber: 2.9 Consensus size: 122
6419908 TGATGCAACG
* **
6419918 TTCACTTCATTCT-TGACCTATAAATACAGCCTCACACCCTCACTCACAACACACACCAAAGCTT
1 TTCACTTCACTCTCT-ACCTATAAATACAGTTTCACACCCTCACTCACAACACACACCAAAGCTT
6419982 CTCATCTTTTAAGTCTTCTCTGTTTATTTTCTCTACTTCTTTGCTTTCTTTATTGGGT
65 CTCATCTTTTAAGTCTTCTCTGTTTATTTTCTCTACTTCTTTGCTTTCTTTATTGGGT
6420040 TTCACTTCACTCTCTACCTATAAATACAGTTTCACACCCTCACTCACAACACACACCAAAGCTTC
1 TTCACTTCACTCTCTACCTATAAATACAGTTTCACACCCTCACTCACAACACACACCAAAGCTTC
6420105 TCATCTTTTAAGTCTTCTCTGTTTATTTTCTCTACTTCTTTGCTTTCTTTATTGGGT
66 TCATCTTTTAAGTCTTCTCTGTTTATTTTCTCTACTTCTTTGCTTTCTTTATTGGGT
6420162 TTCACTTCACTCTCTACCTATAAATACAGTTTCACACCCTCACTCACAACACACACCAAAGCTTC
1 TTCACTTCACTCTCTACCTATAAATACAGTTTCACACCCTCACTCACAACACACACCAAAGCTTC
* * * *
6420227 TCATCTTCTAAGTCTTCTCTATTTATTTTCTCTGCTTCTTTTCTTTC
66 TCATCTTTTAAGTCTTCTCTGTTTATTTTCTCTACTTCTTTGCTTTC
6420274 CTTGTTGAGG
Statistics
Matches: 226, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
122 225 1.00
123 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (122 bp):
TTCACTTCACTCTCTACCTATAAATACAGTTTCACACCCTCACTCACAACACACACCAAAGCTTC
TCATCTTTTAAGTCTTCTCTGTTTATTTTCTCTACTTCTTTGCTTTCTTTATTGGGT
Found at i:6421592 original size:146 final size:146
Alignment explanation
Indices: 6421397--6421688 Score: 478
Period size: 146 Copynumber: 2.0 Consensus size: 146
6421387 TTCAGCTTTT
* *
6421397 GATTGAATTAGACTTAAACTCTACTATGTTTACTTAGCTCTCCTAGTTTTGCTCCAACATCCACC
1 GATTGAATTAGACTTAAACTCTACTATGCTTACCTAGCTCTCCTAGTTTTGCTCCAACATCCACC
* *
6421462 TGACTAGTTACAACATATGCCTAACTTAGTATACATGCTGA-TCAGGTTTTTCTCCAACTCTTTG
66 TAACTAGTTACAACATATGCCTAACTCAGTATACATGCTGACT-AGGTTTTTCTCCAACTCTTTG
6421526 AGGCTTTTTCTCAACTC
130 AGGCTTTTTCTCAACTC
* *
6421543 GATTGAATTAGACTTAAACTCTACTATGCTTACCTAGCTCTCCTGGTTTTGCTCCAACATCCATC
1 GATTGAATTAGACTTAAACTCTACTATGCTTACCTAGCTCTCCTAGTTTTGCTCCAACATCCACC
** * *
6421608 TAACTAGTTTTAACATATGCCTAACTCAGTATATATGCTGACTAGGTTTTTCTCTAACTCTTTGA
66 TAACTAGTTACAACATATGCCTAACTCAGTATACATGCTGACTAGGTTTTTCTCCAACTCTTTGA
6421673 GGCTTTTTCTCAACTC
131 GGCTTTTTCTCAACTC
6421689 CTTGATTTGG
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
146 134 0.99
147 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.38
Consensus pattern (146 bp):
GATTGAATTAGACTTAAACTCTACTATGCTTACCTAGCTCTCCTAGTTTTGCTCCAACATCCACC
TAACTAGTTACAACATATGCCTAACTCAGTATACATGCTGACTAGGTTTTTCTCCAACTCTTTGA
GGCTTTTTCTCAACTC
Found at i:6421923 original size:122 final size:122
Alignment explanation
Indices: 6421706--6421942 Score: 388
Period size: 122 Copynumber: 1.9 Consensus size: 122
6421696 TGGTGCAGCG
*
6421706 TTCACTTCATTCTTGACCTATAAATACAGCCTCACACCCTCACTCATAACACACACCAAAGCTTC
1 TTCACTTCATTCTTGACCTATAAATACAGCCTCACACCCTCACTCACAACACACACCAAAGCTTC
*
6421771 TCATCTTCTAAGTCTTCTCTGTTTATTTTCTCTACTTATTTGCTTTCCTTATTGGGT
66 TCATCTTCTAAGTCTTCTCTATTTATTTTCTCTACTTATTTGCTTTCCTTATTGGGT
*
6421828 TTCACTTCACTT-TCTG-CCTATAAATACAGCTTCACACCCTCACTCACAACACACACCAAAGCT
1 TTCACTTCA-TTCT-TGACCTATAAATACAGCCTCACACCCTCACTCACAACACACACCAAAGCT
* * *
6421891 TTTCATCTTCTAAGTCTTCTCTATTTATTTTCTCTACTTCTTTTCTTTCCTT
64 TCTCATCTTCTAAGTCTTCTCTATTTATTTTCTCTACTTATTTGCTTTCCTT
6421943 GCTGAGTTCT
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
122 103 0.96
123 4 0.04
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (122 bp):
TTCACTTCATTCTTGACCTATAAATACAGCCTCACACCCTCACTCACAACACACACCAAAGCTTC
TCATCTTCTAAGTCTTCTCTATTTATTTTCTCTACTTATTTGCTTTCCTTATTGGGT
Found at i:6437645 original size:5 final size:5
Alignment explanation
Indices: 6437635--6437668 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
6437625 GCTATTTTGT
6437635 TAAAA TAAAA TAAAA TAAGAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAA
6437669 TTATTATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:6437659 original size:16 final size:16
Alignment explanation
Indices: 6437638--6437668 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6437628 ATTTTGTTAA
6437638 AATAAAATAAAATAAG
1 AATAAAATAAAATAAG
6437654 AATAAAATAAAATAA
1 AATAAAATAAAATAA
6437669 TTATTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAAATAAAATAAG
Found at i:6441515 original size:2 final size:2
Alignment explanation
Indices: 6441503--6441533 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6441493 ATTTATTAGG
*
6441503 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6441534 GTTAGAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6442148 original size:14 final size:13
Alignment explanation
Indices: 6442121--6442155 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
6442111 AAGTAAAGTT
6442121 TTTATTTAATTTA
1 TTTATTTAATTTA
6442134 TTTATTTATATTTA
1 TTTATTTA-ATTTA
6442148 TTT-TTTAA
1 TTTATTTAA
6442156 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 12 0.57
14 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTAATTTA
Found at i:6452668 original size:199 final size:198
Alignment explanation
Indices: 6452328--6452749 Score: 456
Period size: 199 Copynumber: 2.1 Consensus size: 198
6452318 TCATCTTAGA
* ** * **
6452328 CCTAATATCTCTCATAAGGTCCCATGTCAATTAAGATTTAAGTATGTATGTCACTTGTCATGAGC
1 CCTAATATCTCTCAT-GGGTCCCACATCAATTAAGATTTAAGTATGCATGTCACTTGTCACAAGC
* * * ** * * * *
6452393 TTACGTGTCCGTTTTTCAAGCAAAAAGACTCGTTTTTTATAGTCTACCTCGATTCTAATATCTCT
65 TCACATGTCCGTTTTCCAAGCAAAAAGACAAGTCTTTCAGAGTCTACCTCAATTCTAATATCTCT
* * * * * * * * * *
6452458 CATAGGGTTCCACATTAATTAAAATTTGAGTATGCTTGCTTTGATATCACTTGTTACGGGTTCAT
130 CATAGGGTTCCACATCAATTAAAATTTGAATATGCATACTTTGACATCAATTGTCACAGGCTCAA
6452523 GTGT
195 GTGT
* *
6452527 CCTAATATCTCTCATGTGGTCCCACATCAATTAAGGTTTGAGTATGCATGTCACTTGTCACAAGC
1 CCTAATATCTCTCATG-GGTCCCACATCAATTAAGATTTAAGTATGCATGTCACTTGTCACAAGC
* *
6452592 TCGCATGT-C-TATTTCCAA-CAAAAAAGACAAGTCTTTCAGAGTCTGCCTCAA-TCTTAATATC
65 TCACATGTCCGT-TTTCCAAGC-AAAAAGACAAGTCTTTCAGAGTCTACCTCAATTC-TAATATC
* *
6452653 TCTCATGGGGGTTCCACATCAATTAAGATTTGAATATGCATACTTTGACATCAATTGTCACAGGC
127 TCTCAT-AGGGTTCCACATCAATTAAAATTTGAATATGCATACTTTGACATCAATTGTCACAGGC
6452718 TCAAGTGT
191 TCAAGTGT
* *
6452726 CCTGATATCTTTCATAGGGTCCCA
1 CCTAATATCTCTCAT-GGGTCCCA
6452750 ACTCATGTGT
Statistics
Matches: 184, Mismatches: 33, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
197 4 0.02
198 44 0.24
199 135 0.73
200 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (198 bp):
CCTAATATCTCTCATGGGTCCCACATCAATTAAGATTTAAGTATGCATGTCACTTGTCACAAGCT
CACATGTCCGTTTTCCAAGCAAAAAGACAAGTCTTTCAGAGTCTACCTCAATTCTAATATCTCTC
ATAGGGTTCCACATCAATTAAAATTTGAATATGCATACTTTGACATCAATTGTCACAGGCTCAAG
TGT
Found at i:6452876 original size:43 final size:43
Alignment explanation
Indices: 6452828--6452913 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
6452818 AATTCTACCA
*
6452828 TAATATAGGATCCATGACATTCTATCCTACCCAATTGTATAAT
1 TAATATAGGATCCATGACATTCTACCCTACCCAATTGTATAAT
*
6452871 TAATATAGGATCCATGACATTCTACCCTACCCAATTGTGTAAT
1 TAATATAGGATCCATGACATTCTACCCTACCCAATTGTATAAT
6452914 GCCTTTGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (43 bp):
TAATATAGGATCCATGACATTCTACCCTACCCAATTGTATAAT
Found at i:6455413 original size:16 final size:16
Alignment explanation
Indices: 6455387--6455426 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6455377 CTCTGTCTAC
6455387 CCTTCTTTTTTCTTCCT
1 CCTT-TTTTTTCTTCCT
* *
6455404 CCTTTTTTTTTTTCTT
1 CCTTTTTTTTCTTCCT
6455420 CCTTTTT
1 CCTTTTT
6455427 GCAGTTAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
CCTTTTTTTTCTTCCT
Found at i:6466468 original size:13 final size:12
Alignment explanation
Indices: 6466450--6466480 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6466440 TTCTTCAAAA
6466450 ATATATATATTTT
1 ATATATATA-TTT
6466463 ATATATATATTT
1 ATATATATATTT
6466475 ATATAT
1 ATATAT
6466481 CCTCTGTGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATATATATTT
Found at i:6470619 original size:20 final size:20
Alignment explanation
Indices: 6470568--6470619 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
6470558 TTGACATATC
* *
6470568 ATTAAATTTAATAATATAAT
1 ATTAAATTTGATAATATAAA
* *
6470588 ATTAAATATGATACTATAAA
1 ATTAAATTTGATAATATAAA
*
6470608 ATTATATTTGAT
1 ATTAAATTTGAT
6470620 GATGTGATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
ATTAAATTTGATAATATAAA
Found at i:6475223 original size:2 final size:2
Alignment explanation
Indices: 6475216--6475244 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6475206 TGGCAGCCAT
6475216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6475245 CTGCCAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6479622 original size:51 final size:51
Alignment explanation
Indices: 6479546--6479674 Score: 170
Period size: 51 Copynumber: 2.5 Consensus size: 51
6479536 AAGTGCAGAG
* * *
6479546 TGCCAGCAGGGACGCCCAGCACAGCCCCCTGGGCGAGCTAACCCGT-CAAGA
1 TGCCAGCAGGGGCGCACAGCACAGCCCCCTGGGCGAGCCAACCC-TACAAGA
* * *
6479597 TGCCAGCAGGGGCGCACAGCACAGCCACCTGGGCGAGCCAGCCCTACAGGA
1 TGCCAGCAGGGGCGCACAGCACAGCCCCCTGGGCGAGCCAACCCTACAAGA
* *
6479648 TGACAGAAGGGGCGCACAGCACAGCCC
1 TGCCAGCAGGGGCGCACAGCACAGCCC
6479675 GACAGAGAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.01
51 67 0.99
ACGTcount: A:0.25, C:0.37, G:0.32, T:0.06
Consensus pattern (51 bp):
TGCCAGCAGGGGCGCACAGCACAGCCCCCTGGGCGAGCCAACCCTACAAGA
Found at i:6480030 original size:15 final size:15
Alignment explanation
Indices: 6480012--6480045 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6480002 TACGTAGAAT
*
6480012 GCAGGTGCACTGCAC
1 GCAGGTGCACGGCAC
*
6480027 GCAGGTGCGCGGCAC
1 GCAGGTGCACGGCAC
6480042 GCAG
1 GCAG
6480046 AATGGCTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.32, G:0.41, T:0.09
Consensus pattern (15 bp):
GCAGGTGCACGGCAC
Found at i:6480290 original size:14 final size:15
Alignment explanation
Indices: 6480250--6480291 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
6480240 TTTCCCTCCC
* *
6480250 AAATGTTTTGGAGGG
1 AAATATTTTGGGGGG
6480265 AAATATTTTGGGGGG
1 AAATATTTTGGGGGG
6480280 AAATA-TTTGGGG
1 AAATATTTTGGGG
6480292 AAAAATGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (15 bp):
AAATATTTTGGGGGG
Found at i:6487609 original size:2 final size:2
Alignment explanation
Indices: 6487602--6487632 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6487592 AAAACCACTT
6487602 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6487633 GCTTCTCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6493886 original size:20 final size:21
Alignment explanation
Indices: 6493850--6493888 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6493840 TTAGAAGGAA
6493850 TGAACTGAAAAAGGTAGGACT
1 TGAACTGAAAAAGGTAGGACT
*
6493871 TGAACTGAAATA-GTAGGA
1 TGAACTGAAAAAGGTAGGA
6493889 TACCGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.08, G:0.28, T:0.21
Consensus pattern (21 bp):
TGAACTGAAAAAGGTAGGACT
Found at i:6498876 original size:16 final size:17
Alignment explanation
Indices: 6498857--6498888 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6498847 TGATAATTTT
6498857 TAAAATTA-ATAAAAAA
1 TAAAATTATATAAAAAA
6498873 TAAAATTATATAAAAA
1 TAAAATTATATAAAAA
6498889 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATTATATAAAAAA
Found at i:6506027 original size:19 final size:19
Alignment explanation
Indices: 6506003--6506039 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6505993 ACAAAGAAAA
* *
6506003 ATTTTTGAGCGTTTTGAAC
1 ATTTTTAAGCATTTTGAAC
6506022 ATTTTTAAGCATTTTGAA
1 ATTTTTAAGCATTTTGAA
6506040 ATGGTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (19 bp):
ATTTTTAAGCATTTTGAAC
Found at i:6506072 original size:61 final size:61
Alignment explanation
Indices: 6505971--6506085 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 61
6505961 CATTTTGAGT
* * * * *
6505971 ATTTTGGAGTGGTTTTTGATACACAAAGAAAAATTTTTGAGCGTTTTGAACATTTTTAAGC
1 ATTTTGAAATGGTTTTTGATACACAAAGAAAAACTATTGAGCATTTTGAACATTTTTAAGC
* * *
6506032 ATTTTGAAATGGTTTTTTATACATAAAGAAAAACTATTGAGCATTTTGTACATT
1 ATTTTGAAATGGTTTTTGATACACAAAGAAAAACTATTGAGCATTTTGAACATT
6506086 CTTTGTCAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (61 bp):
ATTTTGAAATGGTTTTTGATACACAAAGAAAAACTATTGAGCATTTTGAACATTTTTAAGC
Found at i:6506266 original size:22 final size:22
Alignment explanation
Indices: 6506187--6506266 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
6506177 GTTTTGGTGG
* * *
6506187 TTTTTAGGTATTATGTAACCGA
1 TTTTTAAGTATTATATAACTGA
** * *
6506209 TTTTTGGGTATTACATAACTAA
1 TTTTTAAGTATTATATAACTGA
* *
6506231 TTTTTAAATATTATATGACTGA
1 TTTTTAAGTATTATATAACTGA
6506253 TTTTTAAGTATTAT
1 TTTTTAAGTATTAT
6506267 GTGATTGGCT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (22 bp):
TTTTTAAGTATTATATAACTGA
Found at i:6506401 original size:22 final size:22
Alignment explanation
Indices: 6506373--6506435 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
6506363 TAGCTATTAC
*
6506373 CTAAAAA-TCAATCATGCAATAT
1 CTAAAAACT-AATCATACAATAT
*
6506395 CTAAAAACTAATCATATAATAT
1 CTAAAAACTAATCATACAATAT
*
6506417 CT-AAAACTAATCACACAAT
1 CTAAAAACTAATCATACAAT
6506436 GTACAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 15 0.42
22 20 0.56
23 1 0.03
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (22 bp):
CTAAAAACTAATCATACAATAT
Found at i:6520106 original size:21 final size:21
Alignment explanation
Indices: 6520080--6520122 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6520070 TAATCTTGAA
6520080 AAATGTCCCTAATCTATCAAT
1 AAATGTCCCTAATCTATCAAT
* * *
6520101 AAATGTTCTTCATCTATCAAT
1 AAATGTCCCTAATCTATCAAT
6520122 A
1 A
6520123 GATAAGTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATGTCCCTAATCTATCAAT
Found at i:6520157 original size:21 final size:20
Alignment explanation
Indices: 6520111--6520158 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6520101 AAATGTTCTT
**
6520111 CATCTATCAATAGATAAGTC
1 CATCTATCAATAGATAAGAA
6520131 CATCTATCAATAGATGAAGAA
1 CATCTATCAATAGAT-AAGAA
6520152 CATCTAT
1 CATCTAT
6520159 TGATAGCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (20 bp):
CATCTATCAATAGATAAGAA
Found at i:6521638 original size:33 final size:35
Alignment explanation
Indices: 6521601--6521667 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
6521591 TAATAGAGTA
*
6521601 TCCATGTGT-A-AGAGTTAAACAAATTTGAGATAT
1 TCCATGTGTGAGACAGTTAAACAAATTTGAGATAT
6521634 TCCATGTGTGAGACAGTTAAACAAATTTGAGATA
1 TCCATGTGTGAGACAGTTAAACAAATTTGAGATA
6521668 CCCATTAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 9 0.29
34 1 0.03
35 21 0.68
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (35 bp):
TCCATGTGTGAGACAGTTAAACAAATTTGAGATAT
Found at i:6538811 original size:22 final size:22
Alignment explanation
Indices: 6538760--6538813 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6538750 CTTCCTTCAC
* *
6538760 CTTCTCTCTATCCTCTTCCTCG
1 CTTCTCTCTTTCCACTTCCTCG
* *
6538782 CTTGTCTCTTTCCACTTCCTCT
1 CTTCTCTCTTTCCACTTCCTCG
*
6538804 TTTCTCTCTT
1 CTTCTCTCTT
6538814 CTTCTCTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.04, T:0.52
Consensus pattern (22 bp):
CTTCTCTCTTTCCACTTCCTCG
Found at i:6561758 original size:18 final size:18
Alignment explanation
Indices: 6561727--6561761 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6561717 TGAGATTTTT
* *
6561727 TTATTTTTTGTATTTATA
1 TTATTATTTATATTTATA
6561745 TTATTATTTATATTTAT
1 TTATTATTTATATTTAT
6561762 TTTTTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATTATTTATATTTATA
Found at i:6561773 original size:13 final size:13
Alignment explanation
Indices: 6561725--6561776 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 13
6561715 TATGAGATTT
6561725 TTTTATTTTTTGTA
1 TTTTATTTTTT-TA
6561739 TTTATATTATTATTTA
1 TTT-TATT-TT-TTTA
*
6561755 TATTTATTTTTTAA
1 T-TTTATTTTTTTA
6561769 TTTTATTT
1 TTTTATTT
6561777 GATCATATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 7 0.21
14 7 0.21
15 6 0.18
16 9 0.27
17 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:6565329 original size:71 final size:71
Alignment explanation
Indices: 6565253--6565411 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 71
6565243 TTTTTTAATC
*
6565253 TTTTAATTTTTATTTTCAGTAAAATTTTAAAATATTAATAATTTATAAT-TAAATTATTAATATA
1 TTTTAATTTTTATTTTCAGTAAAAATTT-AAATATTAATAATTTA-AATATAAATTATTAATATA
6565317 ATTGTTATTTTAA
64 A-T-TTA--TT-A
** * *
6565330 TTTCTTTTTATTTATTTTCATTAAAAATTTAAATATTAATAATTTAATTATAAATTATTAATATA
1 TTT-TAATT-TTTATTTTCAGTAAAAATTTAAATATTAATAATTTAAATATAAATTATTAATATA
6565395 ATTTATTA
64 ATTTATTA
6565403 TTTTAATTT
1 TTTTAATTT
6565412 CTTTTCATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
71 1 0.01
72 3 0.04
73 4 0.06
74 2 0.03
76 3 0.04
77 6 0.08
78 35 0.49
79 18 0.25
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (71 bp):
TTTTAATTTTTATTTTCAGTAAAAATTTAAATATTAATAATTTAAATATAAATTATTAATATAAT
TTATTA
Found at i:6565391 original size:78 final size:80
Alignment explanation
Indices: 6565261--6565421 Score: 247
Period size: 79 Copynumber: 2.0 Consensus size: 80
6565251 TCTTTTAATT
* *
6565261 TTTATTTTCAGTAAAATTTTAAAATATTAATAATTTATAATTAAATTATTAATATAA-TTGTTAT
1 TTTATTTTCAGTAAAAATTTAAAATATTAATAATTTATAATTAAATTATTAATATAATTTATTAT
*
6565325 TTTAATTTCTTTTTA
66 TTTAATTTCTTTTCA
* *
6565340 TTTATTTTCATTAAAAATTT-AAATATTAATAATTTA-ATTATAAATTATTAATATAATTTATTA
1 TTTATTTTCAGTAAAAATTTAAAATATTAATAATTTATAAT-TAAATTATTAATATAATTTATTA
6565403 TTTTAATTTCTTTTCA
65 TTTTAATTTCTTTTCA
6565419 TTT
1 TTT
6565422 TTTATTTATA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
77 2 0.03
78 32 0.43
79 41 0.55
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (80 bp):
TTTATTTTCAGTAAAAATTTAAAATATTAATAATTTATAATTAAATTATTAATATAATTTATTAT
TTTAATTTCTTTTCA
Found at i:6568542 original size:15 final size:16
Alignment explanation
Indices: 6568515--6568564 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
6568505 TAAAGTTTTT
*
6568515 TTTAAATTTTTTTA-A
1 TTTATATTTTTTTATA
6568530 TTTATATTATTTTTATA
1 TTTATATT-TTTTTATA
6568547 TTTATATTTTTTTTATA
1 TTTATA-TTTTTTTATA
6568564 T
1 T
6568565 ATTTTAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 7 0.23
16 6 0.19
17 16 0.52
18 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATATTTTTTTATA
Found at i:6568549 original size:17 final size:17
Alignment explanation
Indices: 6568523--6568564 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
6568513 TTTTTAAATT
6568523 TTTTTA-ATTTATATTA
1 TTTTTATATTTATATTA
*
6568539 TTTTTATATTTATATTT
1 TTTTTATATTTATATTA
6568556 TTTTTATAT
1 TTTTTATAT
6568565 ATTTTAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATATTTATATTA
Found at i:6569389 original size:14 final size:15
Alignment explanation
Indices: 6569370--6569399 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6569360 ATTATAATTA
6569370 ATATAT-ATATTTTT
1 ATATATAATATTTTT
6569384 ATATATAATATTTTT
1 ATATATAATATTTTT
6569399 A
1 A
6569400 AAGTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATATAATATTTTT
Found at i:6582211 original size:10 final size:10
Alignment explanation
Indices: 6582180--6582213 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6582170 TTTTAACAAC
6582180 TTTTTCTTTT
1 TTTTTCTTTT
*
6582190 TCTTTCTTTT
1 TTTTTCTTTT
*
6582200 TTTTTGTTTT
1 TTTTTCTTTT
6582210 TTTT
1 TTTT
6582214 GTGGGGCGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:6585978 original size:2 final size:2
Alignment explanation
Indices: 6585971--6586007 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6585961 ACTGAAGAAC
*
6585971 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6586008 TATTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6586481 original size:151 final size:151
Alignment explanation
Indices: 6586240--6586541 Score: 595
Period size: 151 Copynumber: 2.0 Consensus size: 151
6586230 TGCATATACG
6586240 ATCATTTTGAAGAAAATATTAAGATAATTATATAAATTATTTAGTTAAAATTATTATACGATACT
1 ATCATTTTGAAGAAAATATTAAGATAATTATATAAATTATTTAGTTAAAATTATTATACGATACT
6586305 ATTATCTAGTTAGATTACAACATCTTATTAGAGTTATACTGTAATATTGTTTGTTAGTTTTAGTT
66 ATTATCTAGTTAGATTACAACATCTTATTAGAGTTATACTGTAATATTGTTTGTTAGTTTTAGTT
6586370 AAATTATGAATAAGATTAGGA
131 AAATTATGAATAAGATTAGGA
6586391 ATCATTTTGAAGAAAATATTAAGATAATTATATAAATTATTTAGTTAAAATTATTATACGATACT
1 ATCATTTTGAAGAAAATATTAAGATAATTATATAAATTATTTAGTTAAAATTATTATACGATACT
*
6586456 ATTATCTAGTTAGATTACAGCATCTTATTAGAGTTATACTGTAATATTGTTTGTTAGTTTTAGTT
66 ATTATCTAGTTAGATTACAACATCTTATTAGAGTTATACTGTAATATTGTTTGTTAGTTTTAGTT
6586521 AAATTATGAATAAGATTAGGA
131 AAATTATGAATAAGATTAGGA
6586542 TTCGCCATAT
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 150 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (151 bp):
ATCATTTTGAAGAAAATATTAAGATAATTATATAAATTATTTAGTTAAAATTATTATACGATACT
ATTATCTAGTTAGATTACAACATCTTATTAGAGTTATACTGTAATATTGTTTGTTAGTTTTAGTT
AAATTATGAATAAGATTAGGA
Found at i:6589412 original size:23 final size:23
Alignment explanation
Indices: 6589359--6589476 Score: 146
Period size: 23 Copynumber: 5.1 Consensus size: 23
6589349 TTTTCAAGAG
* * *
6589359 TCACGAACTTGGACTTTGTCTTGA
1 TCACGAACTTCGCCGTTG-CTTGA
* * *
6589383 TCACGAACTTCGCCGCTACTTTA
1 TCACGAACTTCGCCGTTGCTTGA
*
6589406 TCACGAACTTCGCTGTTGCTTGA
1 TCACGAACTTCGCCGTTGCTTGA
*
6589429 TCACGAACTTCGCTGTTGCTTGA
1 TCACGAACTTCGCCGTTGCTTGA
*
6589452 TCACGAACTTTGCCGTTGCTTGA
1 TCACGAACTTCGCCGTTGCTTGA
6589475 TC
1 TC
6589477 TTCACCCCAG
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
23 69 0.84
24 13 0.16
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (23 bp):
TCACGAACTTCGCCGTTGCTTGA
Found at i:6589540 original size:18 final size:18
Alignment explanation
Indices: 6589513--6589556 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6589503 TTGATCTCTG
6589513 AAATGC-TCTCAATCTTC
1 AAATGCTTCTCAATCTTC
* *
6589530 GAATGCTTCTCTATCTTC
1 AAATGCTTCTCAATCTTC
6589548 AAATGCTTC
1 AAATGCTTC
6589557 CGAATGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (18 bp):
AAATGCTTCTCAATCTTC
Found at i:6589975 original size:80 final size:80
Alignment explanation
Indices: 6589783--6590118 Score: 473
Period size: 80 Copynumber: 4.2 Consensus size: 80
6589773 AATTTGATTT
* * * ** *
6589783 TTATCTCTAAATTAATATA-A-TTA-TTAGAGATAATTTAAATGACCAATAATTAA-ATTTTAAT
1 TTATCTCTAAA-TAATTTAGATTTATTTAGAGATAAATTGAATGACCAATAGCTAATA-TTTGAT
* *
6589844 TGGTCAAAAATATGAAGA
64 TGGTC-AAAATATAAATA
* * * *
6589862 TTATCTCCAAATTATTTGGATTTATTTAGAGATAAATTGGATGACCAATAGCTAATATTTGATTG
1 TTATCTCTAAATAATTTAGATTTATTTAGAGATAAATTGAATGACCAATAGCTAATATTTGATTG
6589927 GTCAAAATATAAATA
66 GTCAAAATATAAATA
6589942 TTATCTCTAAATAATTTAGATTTATTTAGAGATAAATTGAATGACCAATAGCTAATATTTGATTG
1 TTATCTCTAAATAATTTAGATTTATTTAGAGATAAATTGAATGACCAATAGCTAATATTTGATTG
*
6590007 GTCAAAGTATAAATA
66 GTCAAAATATAAATA
*
6590022 TTATCTCTAAATAATTTAGATTTATTTAGAGATAAATTGGATGACCAATAGCTAATATTTGATTG
1 TTATCTCTAAATAATTTAGATTTATTTAGAGATAAATTGAATGACCAATAGCTAATATTTGATTG
*
6590087 GTCAAAATATGAATA
66 GTCAAAATATAAATA
*
6590102 TTATCTCTAAATTATTT
1 TTATCTCTAAATAATTT
6590119 TGGGAGATAA
Statistics
Matches: 232, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
78 4 0.02
79 11 0.05
80 181 0.78
81 35 0.15
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (80 bp):
TTATCTCTAAATAATTTAGATTTATTTAGAGATAAATTGAATGACCAATAGCTAATATTTGATTG
GTCAAAATATAAATA
Found at i:6589978 original size:38 final size:38
Alignment explanation
Indices: 6589935--6590058 Score: 99
Period size: 38 Copynumber: 3.2 Consensus size: 38
6589925 TGGTCAAAAT
6589935 ATAAATATTATCTCTAAATAATTTAGATTTATTTAGAG
1 ATAAATATTATCTCTAAATAATTTAGATTTATTTAGAG
* ** * * ** * *
6589973 ATAAAT-TGAATGACCAATAGCTAATATTTGA-TTGGTCAAAG
1 ATAAATAT-TATCTCTAA-A--TAAT-TTAGATTTATTTAGAG
6590014 TATAAATATTATCTCTAAATAATTTAGATTTATTTAGAG
1 -ATAAATATTATCTCTAAATAATTTAGATTTATTTAGAG
6590053 ATAAAT
1 ATAAAT
6590059 TGGATGACCA
Statistics
Matches: 60, Mismatches: 18, Indels: 16
0.64 0.19 0.17
Matches are distributed among these distances:
37 1 0.02
38 21 0.35
39 11 0.18
41 11 0.18
42 15 0.25
43 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.40
Consensus pattern (38 bp):
ATAAATATTATCTCTAAATAATTTAGATTTATTTAGAG
Found at i:6593117 original size:39 final size:39
Alignment explanation
Indices: 6593023--6593157 Score: 137
Period size: 39 Copynumber: 3.5 Consensus size: 39
6593013 GAAAATTATG
* *
6593023 AGTAGTATTCAAAACA-CCCTCAGAAGAAAAAGAATTGTG
1 AGTAGTATTCGAAACACCCCT-AGAAGAAAAAGAATTGTA
* * * * *
6593062 AGTAGAATTTGGAACACCCCTAGAAGAAGAAGCATTGTA
1 AGTAGTATTCGAAACACCCCTAGAAGAAAAAGAATTGTA
* * * *
6593101 AATAGTATTCGAAACACCCCTAGAAGAATAAGTATTGCA
1 AGTAGTATTCGAAACACCCCTAGAAGAAAAAGAATTGTA
* *
6593140 AGTAGTACTCGGAACACC
1 AGTAGTATTCGAAACACC
6593158 TTCAGGAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 74 0.95
40 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (39 bp):
AGTAGTATTCGAAACACCCCTAGAAGAAAAAGAATTGTA
Found at i:6598106 original size:19 final size:20
Alignment explanation
Indices: 6598069--6598106 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6598059 TTATAAAGGG
**
6598069 TTGCAATATTAAGGCGTTAT
1 TTGCAATATTAAGAAGTTAT
6598089 TTGCAAT-TTAAGAAGTTA
1 TTGCAATATTAAGAAGTTA
6598107 ATCAACCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (20 bp):
TTGCAATATTAAGAAGTTAT
Found at i:6598775 original size:3 final size:3
Alignment explanation
Indices: 6598767--6598795 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6598757 ATAACGGCAA
6598767 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6598796 ATACATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6603318 original size:23 final size:23
Alignment explanation
Indices: 6603291--6603334 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6603281 AAACCTAGTA
6603291 AAAGCA-AAGAAGAGAAAGAGAAG
1 AAAGCAGAA-AAGAGAAAGAGAAG
*
6603314 AAAGCAGAAAAGAGGAAGAGA
1 AAAGCAGAAAAGAGAAAGAGA
6603335 GAATAGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.64, C:0.05, G:0.32, T:0.00
Consensus pattern (23 bp):
AAAGCAGAAAAGAGAAAGAGAAG
Found at i:6603611 original size:17 final size:15
Alignment explanation
Indices: 6603591--6603629 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
6603581 AAAGCAAAAA
6603591 AAAAAAAAAAGAGAAGG
1 AAAAAAAAAA-AG-AGG
6603608 AAAAACAAAAAAGAGG
1 AAAAA-AAAAAAGAGG
6603624 AAAAAA
1 AAAAAA
6603630 GAATTGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 8 0.38
17 7 0.33
18 5 0.24
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAGG
Found at i:6603722 original size:296 final size:291
Alignment explanation
Indices: 6603043--6603726 Score: 788
Period size: 291 Copynumber: 2.3 Consensus size: 291
6603033 AGAACAAGAG
*
6603043 AGAATAGTTGGTGCATTGAGAATGAAATGAAGGCTGGTATATATTTTATAACGTTAAACAATCAA
1 AGAATAGTTGGTGCATTGAGAATGAAGTGAAGGCTGGTATATATTTTATAACGTTAAACAATCAA
* * * * *
6603108 GATAAAATCTTTTATAAGACCT-AATCAAATATTCGACAATGTTGAAACATTATTTTGAAAGACC
66 GATAAAATATTTTATAA-AACTAAATCAAATATCCGACAACGTTGAAACATTATTTAGAAAGACC
* * *
6603172 AAATCAAATATTCAGAATACCAAATCAGATAGGATTTAACAAACTCTTCTTGATTAGTTTACTCA
130 AAATCAAATATTCAGAATACCAAATCAAACAGGATTCAACAAACTCTTCTTGATTAGTTTACTCA
* * * * * * * *
6603237 AATTATTAAGAATATAGGAACAACAAGAAATTATAACTAAGAAAAAACCTAGTAAAAGCAAAGAA
195 AACTATCAAAAATACAAGAACAACAAGAAATTATAAATAAGAAAAAACCTAGCAAAAGCAAAAAA
* * * * * *
6603302 GAGAAAGAGAAGAAAGCAGAAAAGAGGAAGAG
260 AAAAAAGAGAAGAAAACAAAAAAGAGGAAAAA
* ** *
6603334 AGAATAGTTGGTGCATTAAGAATGAAGTGAAGGCCAGTATATATTTTTTAACGTTAAACAATCAA
1 AGAATAGTTGGTGCATTGAGAATGAAGTGAAGGCTGGTATATATTTTATAACGTTAAACAATCAA
* * * **
6603399 GATAAACTATTTTATAAAACCAAATCAAATATCCTTA-AACGTTGAAATGTTATTCTAG-AAGAC
66 GATAAAATATTTTATAAAACTAAATCAAATATCC-GACAACGTTGAAACATTATT-TAGAAAGAC
* * *** *
6603462 CAAATTAAATATTCAGAATACCAAATGAAACAGGATTCAACAGGTTTTTC-TGATTAGTTTACAT
129 CAAATCAAATATTCAGAATACCAAATCAAACAGGATTCAACAAACTCTTCTTGATTAGTTTAC-T
* *
6603526 -AAACTATCAAAAATACAAGAACCAC-AGAAAATTCTAAATAAGAAAAAA-CTCAGCAAAAGCAA
193 CAAACTATCAAAAATACAAGAACAACAAG-AAATTATAAATAAGAAAAAACCT-AGCAAAAGC--
6603588 AAAAAAAAAAAAAGAGAAGGAAAAACAAAAAAGAGGAAAAA
254 -AAAAAAAAAAAAGAGAA-G-AAAACAAAAAAGAGGAAAAA
* * * * * * *
6603629 AGAATTGTTGGTGCATTGAGAAAGAAGTGAAAGGTTGGCATATATTTAATGACGTTAAAGAATCA
1 AGAATAGTTGGTGCATTGAGAATGAAGTG-AAGGCTGGTATATATTTTATAACGTTAAACAATCA
6603694 AGATAAAATATTTTATAAAACTAAATCAAATAT
65 AGATAAAATATTTTATAAAACTAAATCAAATAT
6603727 TCTAAAGCAT
Statistics
Matches: 328, Mismatches: 53, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
289 4 0.01
290 59 0.18
291 147 0.45
292 3 0.01
293 14 0.04
294 1 0.00
295 42 0.13
296 58 0.18
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (291 bp):
AGAATAGTTGGTGCATTGAGAATGAAGTGAAGGCTGGTATATATTTTATAACGTTAAACAATCAA
GATAAAATATTTTATAAAACTAAATCAAATATCCGACAACGTTGAAACATTATTTAGAAAGACCA
AATCAAATATTCAGAATACCAAATCAAACAGGATTCAACAAACTCTTCTTGATTAGTTTACTCAA
ACTATCAAAAATACAAGAACAACAAGAAATTATAAATAAGAAAAAACCTAGCAAAAGCAAAAAAA
AAAAAGAGAAGAAAACAAAAAAGAGGAAAAA
Found at i:6607755 original size:2 final size:2
Alignment explanation
Indices: 6607748--6607774 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6607738 TTGCAAGGAT
6607748 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6607775 TGAATATGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6609451 original size:28 final size:27
Alignment explanation
Indices: 6609399--6609450 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
6609389 AATGATATTC
*
6609399 CATGCTCATTAAGTTTCTAAAAAAATT
1 CATGCTCATTAAGTTACTAAAAAAATT
6609426 CATGCTCATTAAGTTACTAAAAAAA
1 CATGCTCATTAAGTTACTAAAAAAA
6609451 ACATACCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (27 bp):
CATGCTCATTAAGTTACTAAAAAAATT
Found at i:6617714 original size:2 final size:2
Alignment explanation
Indices: 6617709--6617739 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6617699 GTTTCTTTTT
6617709 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6617740 TGTTTTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6618957 original size:6 final size:6
Alignment explanation
Indices: 6618921--6618946 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6618911 GCGGAACAAC
6618921 AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AA
6618947 TAAAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:6620015 original size:15 final size:15
Alignment explanation
Indices: 6619995--6620028 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6619985 TAGGGTTTAG
6619995 TTATAATTTAGTAAT
1 TTATAATTTAGTAAT
* *
6620010 TTATAATTTTGTATT
1 TTATAATTTAGTAAT
6620025 TTAT
1 TTAT
6620029 TTGTTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTATAATTTAGTAAT
Found at i:6629622 original size:26 final size:26
Alignment explanation
Indices: 6629592--6629642 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6629582 TGAACTACAA
*
6629592 GGTAGAAGTTGACAATTAAAACTATG
1 GGTAGAAGTTAACAATTAAAACTATG
6629618 GGTAGAAGTTAACAATTAAAACTAT
1 GGTAGAAGTTAACAATTAAAACTAT
6629643 AGTTCACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (26 bp):
GGTAGAAGTTAACAATTAAAACTATG
Found at i:6634870 original size:43 final size:42
Alignment explanation
Indices: 6634804--6634884 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
6634794 TCTAAGTAAT
*
6634804 AAAATCAAAATACTTTTTGCTATAATTAAATAATATTTCACA
1 AAAATCAAAATACTTTTTACTATAATTAAATAATATTTCACA
*
6634846 AAAATACAAATATA-TTTTTACTATAATTTAATAATATTT
1 AAAAT-CAAA-ATACTTTTTACTATAATTAAATAATATTT
6634885 TGTATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 5 0.14
43 27 0.77
44 3 0.09
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (42 bp):
AAAATCAAAATACTTTTTACTATAATTAAATAATATTTCACA
Done.