Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 213 of 230
Found at i:63295344 original size:12 final size:12
Alignment explanation
Indices: 63295327--63295365 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
63295317 CTCTTAACAT
63295327 CTAACCCCTAAC
1 CTAACCCCTAAC
63295339 CTAACCCCTAATC
1 CTAACCCCTAA-C
*
63295352 CTTAACCCTTAAC
1 C-TAACCCCTAAC
63295365 C
1 C
63295366 CATAAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:63295506 original size:20 final size:21
Alignment explanation
Indices: 63295481--63295524 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
63295471 ATCCTAAATT
*
63295481 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
*
63295501 AACCATATTTATTAAACCCTA
1 AACCATATATATTAAACCCTA
63295522 AAC
1 AAC
63295525 TATAATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:63295557 original size:13 final size:13
Alignment explanation
Indices: 63295539--63295563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63295529 ATGATAATTA
63295539 AATTAAATTAAAT
1 AATTAAATTAAAT
63295552 AATTAAATTAAA
1 AATTAAATTAAA
63295564 AATCAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAATTAAAT
Found at i:63295716 original size:41 final size:41
Alignment explanation
Indices: 63295659--63295737 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
63295649 TTTTAAATCC
*
63295659 CTGAGCATTAGCGGTGCATCATCAAAAACGCCGCTAAAGCA
1 CTGAGCATTAGCGGTGCATCATCAAAAACGCCACTAAAGCA
* * *
63295700 CTGAGCATTAGCGGTGCTTTATTAAAAACGCCACTAAA
1 CTGAGCATTAGCGGTGCATCATCAAAAACGCCACTAAA
63295738 TCCCCGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGTGCATCATCAAAAACGCCACTAAAGCA
Found at i:63295881 original size:114 final size:114
Alignment explanation
Indices: 63295681--63296589 Score: 1184
Period size: 114 Copynumber: 8.0 Consensus size: 114
63295671 GGTGCATCAT
* * *
63295681 CAAAAACGCCGCTAAAGCACTGAGCATTAGCGGTGCTTTA-TTAAAAACGCCACTAAATCCCCGA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTACTTAAAAACGCCGCTAAATCCCCGA
* * * *
63295745 AAACTAAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCTTTTC
65 AAGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
* * * * * *
63295795 CAAAAACGCCGCTAAAGCCCTGAACATTAGCGGTGCGTACATAAAAACGCCGCTAAATTCTCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
*
63295860 AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCC
66 AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
** * * * *
63295909 CGGAAACGCTGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
** * *
63295974 AGCTCAGTAAACGATGTCGTTGGGCTTACGTTTTTTTGCGGCGCTTTCC
66 AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
* * * *
63296023 CAGAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
*
63296088 AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCAC-TTTC
66 AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
* * * *
63296136 CCATAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCTCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
* *
63296201 AGCTCAGTAAACAGCGTCGTTGGGCTTAGGTTTGTTTGCGGCGC-TTTC
66 AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
* * *
63296249 TCATAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAACAAATGCTGCTAAATCCCCG
1 -CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAA-AAACGCCGCTAAATCCCCG
* * * *
63296314 AAAGCTCAGTAAACGGCG-AGTTGGGCTCAGGTTTTTTTGTGGCGCTTTTT
64 AAAGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
* * * * * *
63296364 CTAAAATGCCGCTAAAGCCCTGAGCATTGGCGGCACTTACTTAAAAAATGCCGCTAAATCCCCTA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTT-AAAAACGCCGCTAAATCCCCGA
* * * *
63296429 AAGCTCAATAAACGGCGTCGTTGGGCTTAGG-TTTTTTGTGGTGCTTTTT
65 AAGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
* * *
63296478 CAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTA-TTAAAAAACGCCTCTAGATCCCCG
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTACTT-AAAAACGCCGCTAAATCCCCG
* * * *
63296542 AAAGCTCGGAAAACGGTGTCGTTGGGCTTA-GTTATTTTGCGGCGCTTT
64 AAAGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTT
63296590 ATGGAAAACG
Statistics
Matches: 698, Mismatches: 89, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
113 108 0.15
114 538 0.77
115 52 0.07
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (114 bp):
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
AGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTTC
Found at i:63296582 original size:455 final size:455
Alignment explanation
Indices: 63295689--63296589 Score: 1272
Period size: 455 Copynumber: 2.0 Consensus size: 455
63295679 ATCAAAAACG
*
63295689 CCGCTAAAGCACTGAGCATTAGCGGTGCTTTATTAAAAACGCCACTAAATCCCCGAAAACTAAGA
1 CCGCTAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCCCGAAAACTAAGA
*
63295754 AAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAA
66 AAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAA
* * * *
63295819 CATTAGCGGTGCGTACATAAAAACGCCGCTAAATTCTCGAAAGCTCAGTAAACGGCGTCGTTGGG
131 CATTAGCGGCGCGTACATAAAAACGCCGCTAAATCCCCGAAAGCTCAGTAAACGGCGTAGTTGGG
* * * * * *
63295884 CTTAGGTTTTTTTGCGGCGCTTTCCCGGAAACGCTGCTAAATCCCTGAGCATTAGCGGCGCTTTC
196 CTCAGGTTTTTTTGCGGCGCTTTCCCGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTAC
* * *
63295949 TTAAAAATGCCGCTAAATCCCCGAAAGCTCAGTAAACGATGTCGTTGGGCTTACGTTTTTTTGCG
261 TTAAAAATGCCGCTAAATCCCCGAAAGCTCAATAAACGACGTCGTTGGGCTTACGGTTTTTTGCG
* *
63296014 GCGCTTTCCCAGAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA
326 GCGCTTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAA
* * *
63296079 ATCCCTGAAAGCTCAGTAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCACTTTCCCATAACA
391 ATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTATTTTGCGGCACTTTCCCATAACA
* * * * *
63296144 CCGCTAAAGCCCTGAGCATTAGCGGCGC-TTACTTAAAAACGCCGCTAAATCCTCGAAAGCTCAG
1 CCGCTAAAGCACTGAGCATTAGCGGCGCTTTA-TTAAAAACGCCACTAAATCCCCGAAAACTAAG
* * *
63296208 TAAACAGCGTCGTTGGGCTTAGGTTTGTTTGCGGCGC-TTTCTCATAAACGCCGCTAAAGCCCTG
65 AAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCTTTTC-CAAAAACGCCGCTAAAGCCCTG
* * * * *
63296272 AGCATTAGCGGCGCTTACTTAACAAATGCTGCTAAATCCCCGAAAGCTCAGTAAACGGCG-AGTT
129 AACATTAGCGGCGCGTACATAA-AAACGCCGCTAAATCCCCGAAAGCTCAGTAAACGGCGTAGTT
* ** * * *
63296336 GGGCTCAGGTTTTTTTGTGGCGCTTTTTCTAAAATGCCGCTAAAGCCCTGAGCATTGGCGGCACT
193 GGGCTCAGGTTTTTTTGCGGCGCTTTCCCGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACT
* *
63296401 TACTTAAAAAATGCCGCTAAATCCCCTAAAGCTCAATAAACGGCGTCGTTGGGCTTA-GGTTTTT
258 TACTT-AAAAATGCCGCTAAATCCCCGAAAGCTCAATAAACGACGTCGTTGGGCTTACGGTTTTT
* * **
63296465 TGTGGTGCTTTTTCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAAAACGCC
322 TGCGGCGCTTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATT-AAAAACGCC
* * * * *
63296530 TCTAGATCCCCGAAAGCTCGGAAAACGGTGTCGTTGGGCTTA-GTTATTTTGCGGCGCTTT
386 GCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTATTTTGCGGCACTTT
63296590 ATGGAAAACG
Statistics
Matches: 391, Mismatches: 50, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
454 7 0.02
455 259 0.66
456 125 0.32
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (455 bp):
CCGCTAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCCCGAAAACTAAGA
AAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAA
CATTAGCGGCGCGTACATAAAAACGCCGCTAAATCCCCGAAAGCTCAGTAAACGGCGTAGTTGGG
CTCAGGTTTTTTTGCGGCGCTTTCCCGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTAC
TTAAAAATGCCGCTAAATCCCCGAAAGCTCAATAAACGACGTCGTTGGGCTTACGGTTTTTTGCG
GCGCTTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAA
ATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTATTTTGCGGCACTTTCCCATAACA
Found at i:63300450 original size:23 final size:23
Alignment explanation
Indices: 63300386--63300453 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
63300376 TGTGTATCCT
* * *
63300386 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGTCTCTTCACTA
*
63300409 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTA
63300432 TTCATATTCAAGTCTCTTCACT
1 TTCATATTCAAGTCTCTTCACT
63300454 CTTCTAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.04, T:0.44
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTA
Found at i:63304925 original size:23 final size:23
Alignment explanation
Indices: 63304861--63304928 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
63304851 AGTGTATCCT
* * *
63304861 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGTCTCTTCACTA
*
63304884 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTA
63304907 TTCATATTCAAGTCTCTTCACT
1 TTCATATTCAAGTCTCTTCACT
63304929 CTTTTAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.04, T:0.44
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTA
Found at i:63307962 original size:17 final size:17
Alignment explanation
Indices: 63307934--63307967 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63307924 AGGTCATACC
63307934 ATTTTATATTTATATAAT
1 ATTTTATATTTAT-TAAT
63307952 ATTTT-TATTTATTAAT
1 ATTTTATATTTATTAAT
63307968 TACTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATATTTATTAAT
Found at i:63313215 original size:15 final size:15
Alignment explanation
Indices: 63313195--63313224 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63313185 GTTGTCCATA
63313195 TTAGACAGTTTGGCT
1 TTAGACAGTTTGGCT
63313210 TTAGACAGTTTGGCT
1 TTAGACAGTTTGGCT
63313225 CTTTCAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (15 bp):
TTAGACAGTTTGGCT
Found at i:63314747 original size:16 final size:17
Alignment explanation
Indices: 63314716--63314748 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63314706 CATGTTGGAT
*
63314716 ACATATCCATATCCAAG
1 ACATATCCATACCCAAG
63314733 ACATA-CCATACCCAAG
1 ACATATCCATACCCAAG
63314749 TAACGTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.18
Consensus pattern (17 bp):
ACATATCCATACCCAAG
Found at i:63317761 original size:7 final size:7
Alignment explanation
Indices: 63317749--63317775 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
63317739 TTTTCAACAA
63317749 ATTTAAT
1 ATTTAAT
63317756 ATTTAAT
1 ATTTAAT
63317763 ATTTAAT
1 ATTTAAT
63317770 ATTTAA
1 ATTTAA
63317776 CAATGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTAAT
Found at i:63319184 original size:16 final size:17
Alignment explanation
Indices: 63319163--63319195 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
63319153 TCCTCCATAC
63319163 AAAAAAGAAA-AAAAAA
1 AAAAAAGAAAGAAAAAA
63319179 AAAAAAGAAAGAAAAAA
1 AAAAAAGAAAGAAAAAA
63319196 CAGCACCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAA
Found at i:63324715 original size:16 final size:17
Alignment explanation
Indices: 63324682--63324723 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
63324672 ATTTTTATTA
*
63324682 AATTATATT-TAATAAT
1 AATTATATTAAAATAAT
63324698 AATTATATTAAAAT-AT
1 AATTATATTAAAATAAT
*
63324714 AATTAAATTA
1 AATTATATTA
63324724 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATTAAAATAAT
Found at i:63324732 original size:26 final size:25
Alignment explanation
Indices: 63324661--63324733 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 25
63324651 TTTCTAATAT
* *
63324661 TATATTATATTA-TTTTTATTAAAT
1 TATATTAAATTATTTTTTATTAAAA
* * * *
63324685 TATATTTAATAATAATTATATTAAAA
1 TATATTAAATTAT-TTTTTATTAAAA
63324711 TATAATTAAATTATTTTTTATTA
1 TAT-ATTAAATTATTTTTTATTA
63324734 TTTTTATTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
24 9 0.25
26 19 0.53
27 8 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTAAATTATTTTTTATTAAAA
Found at i:63324733 original size:61 final size:61
Alignment explanation
Indices: 63324659--63324779 Score: 188
Period size: 61 Copynumber: 2.0 Consensus size: 61
63324649 ATTTTCTAAT
*
63324659 ATTATATTATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
1 ATTATATTATATTATTTTTATTAAATTACATTTAATAATAATTATATTAAAATATAATTAA
* * * * *
63324720 ATTATTTTTTATTATTTTTATTAAATTACGTTTAATAATAATTTTATTAAAATTTAATTA
1 ATTATATTATATTATTTTTATTAAATTACATTTAATAATAATTATATTAAAATATAATTA
63324780 CAATAATCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (61 bp):
ATTATATTATATTATTTTTATTAAATTACATTTAATAATAATTATATTAAAATATAATTAA
Found at i:63332750 original size:14 final size:13
Alignment explanation
Indices: 63332731--63332760 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
63332721 ATGAAATATA
63332731 TATATATAATTTTT
1 TATATA-AATTTTT
63332745 TATATAAATTTTT
1 TATATAAATTTTT
63332758 TAT
1 TAT
63332761 TTTTTTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATAAATTTTT
Found at i:63336233 original size:12 final size:11
Alignment explanation
Indices: 63336191--63336278 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 11
63336181 CAAAACTGTC
63336191 ATATAATAATA
1 ATATAATAATA
* *
63336202 GTATGATAAGTA
1 ATATAATAA-TA
63336214 A-A-AATAAT-
1 ATATAATAATA
63336222 ATA-AATAATA
1 ATATAATAATA
*
63336232 ATATTATAAATA
1 ATATAAT-AATA
63336244 ATAGTAATAATA
1 ATA-TAATAATA
*
63336256 A-ATGATAATA
1 ATATAATAATA
63336266 CAT-TAA-AATA
1 -ATATAATAATA
63336276 ATA
1 ATA
63336279 AAAAAATGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
8 1 0.02
9 10 0.17
10 18 0.30
11 14 0.23
12 14 0.23
13 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (11 bp):
ATATAATAATA
Found at i:63336234 original size:15 final size:15
Alignment explanation
Indices: 63336193--63336279 Score: 68
Period size: 15 Copynumber: 5.5 Consensus size: 15
63336183 AAACTGTCAT
63336193 ATAATAATAGTATGATAA
1 ATAATAATA--AT-ATAA
* *
63336211 GTAAAAATAATATAA
1 ATAATAATAATATAA
*
63336226 ATAATAATATTATAA
1 ATAATAATAATATAA
*
63336241 ATAATAGTAATAATAA
1 ATAATAATAAT-ATAA
*
63336257 ATGATAATACAT-TAAA
1 ATAATAATA-ATAT-AA
63336273 ATAATAA
1 ATAATAA
63336280 AAAAATGATG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
15 26 0.46
16 21 0.38
17 2 0.04
18 7 0.12
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAATAATATAA
Found at i:63336264 original size:31 final size:30
Alignment explanation
Indices: 63336218--63336278 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
63336208 TAAGTAAAAA
63336218 TAATATAAATAATAAT-ATTATAAATAATAG
1 TAATATAAATAATAATAATTA-AAATAATAG
*
63336248 TAATAATAAATGATAATACATTAAAATAATA
1 TAAT-ATAAATAATAATA-ATTAAAATAATA
63336279 AAAAAATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 4 0.15
31 11 0.41
32 8 0.30
33 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (30 bp):
TAATATAAATAATAATAATTAAAATAATAG
Found at i:63336998 original size:11 final size:12
Alignment explanation
Indices: 63336982--63337010 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
63336972 CTGGAACAAG
63336982 TAAAAA-GAAAA
1 TAAAAAGGAAAA
63336993 TAAAAAGGAAAA
1 TAAAAAGGAAAA
63337005 TAAAAA
1 TAAAAA
63337011 AACGAATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (12 bp):
TAAAAAGGAAAA
Found at i:63338310 original size:47 final size:46
Alignment explanation
Indices: 63338248--63338698 Score: 200
Period size: 48 Copynumber: 9.6 Consensus size: 46
63338238 ACAATTTAGG
* * * *
63338248 CAGCATATATACAACATATT-GAGCAGCATTTTTGCACCAAAATTAGA
1 CAGCTTATACACAACAAATTGGA-CAGCATTTTTACACCAAAATT-GA
* *
63338295 CAGCTTATACACAACAAATTGGACAGCA--ATTACACAACAAATTGA
1 CAGCTTATACACAACAAATTGGACAGCATTTTTACACCA-AAATTGA
* * * *
63338340 GCAGCATTTTTACACCAA-AAATTTGGACAGC-TTATATACAAC-AAATTGG
1 -CAGC--TTATACA-CAACAAA-TTGGACAGCATT-TTTACACCAAAATTGA
** * *
63338389 CAGCAAATATACAACAAATT-GAGCAGCATTTTTGCACCAAAATTGGA
1 CAGCTTATACACAACAAATTGGA-CAGCATTTTTACACCAAAATT-GA
* *
63338436 CAGCTTATACACAACAAATTGGACAGCA--ATTACACAACAAATTGA
1 CAGCTTATACACAACAAATTGGACAGCATTTTTACACCA-AAATTGA
* * * * *
63338481 GCAGCATTTTTACACCAA-AAATTGGACAGC-TTATATAAAAC-AAATTGG
1 -CAGC--TTATACA-CAACAAATTGGACAGCATT-TTTACACCAAAATTGA
** * *
63338529 CAGCAAATATACAACAAATT-AAGCAGCATTTTTACACCAAAAATTGA
1 CAGCTTATACACAACAAATTGGA-CAGCATTTTTACACC-AAAATTGA
* * * * * *
63338576 GTAGCATTTTTACACCAA-AAATTGGACAGC-TTATATAAAAC-AAATTGG
1 -CAGC--TTATACA-CAACAAATTGGACAGCATT-TTTACACCAAAATTGA
** * **
63338624 CAGCAAATATACAACAAATT-GAGCAGCATTTTTACATAAAAAATTGGA
1 CAGCTTATACACAACAAATTGGA-CAGCATTTTTACA-CCAAAATT-GA
*
63338672 CAGCTTATATACAACAAATTGG-CAGCA
1 CAGCTTATACACAACAAATTGGACAGCA
63338699 AATATACAAC
Statistics
Matches: 299, Mismatches: 63, Indels: 84
0.67 0.14 0.19
Matches are distributed among these distances:
44 11 0.04
45 63 0.21
46 36 0.12
47 68 0.23
48 69 0.23
49 24 0.08
50 20 0.07
51 8 0.03
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.25
Consensus pattern (46 bp):
CAGCTTATACACAACAAATTGGACAGCATTTTTACACCAAAATTGA
Found at i:63338571 original size:70 final size:70
Alignment explanation
Indices: 63338200--63338574 Score: 538
Period size: 70 Copynumber: 5.3 Consensus size: 70
63338190 CCAAACTAAA
* * * * * * *
63338200 CAGCAATTTCACACCAAAATTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCAAATATACAACAA
63338265 ATTGAG
65 ATTGAG
* * * * *
63338271 CAGCATTTTTGCACC-AAAATTAGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAAATATACAACAA
63338335 ATTGAG
65 ATTGAG
63338341 CAGCATTTTTACACCAAAAATTTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAA
1 CAGCATTTTTACACCAAAAA-TTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAA
63338406 ATTGAG
65 ATTGAG
* * * *
63338412 CAGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAAATATACAACAA
63338476 ATTGAG
65 ATTGAG
*
63338482 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
*
63338547 TTAAG
66 TTGAG
63338552 CAGCATTTTTACACCAAAAATTG
1 CAGCATTTTTACACCAAAAATTG
63338575 AGTAGCATTT
Statistics
Matches: 272, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
69 28 0.10
70 139 0.51
71 80 0.29
72 25 0.09
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (70 bp):
CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
TTGAG
Found at i:63338573 original size:95 final size:94
Alignment explanation
Indices: 63338465--63338749 Score: 373
Period size: 95 Copynumber: 3.0 Consensus size: 94
63338455 TGGACAGCAA
63338465 TTACACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGC
1 TTACACAA-AAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGC
*
63338530 AGCAAATATACAACAAATTAAGCAGCATTT
65 AGCAAATATACAACAAATTGAGCAGCATTT
*
63338560 TTACACCAAAAATTGAGTAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGC
1 TTACA-CAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGC
63338625 AGCAAATATACAACAAATTGAGCAGCATTT
65 AGCAAATATACAACAAATTGAGCAGCATTT
* * * ** *
63338655 TTACATAAAAAATTG-GACAGC-TTATATACA--ACAAATTGG-CAGCAAATATACAACAAATTG
1 TTACA-CAAAAATTGAG-CAGCATT-TTTACACCAAAAATTGGACAGCTTATATAAAACAAATTG
* *
63338715 AGCAGCATATATATACAAGAAATTGTGCAGCATTT
63 -GCAGCA-A-ATATACAACAAATTGAGCAGCATTT
63338750 AAGCATAAAA
Statistics
Matches: 172, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
92 18 0.10
93 14 0.08
94 4 0.02
95 133 0.77
96 3 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (94 bp):
TTACACAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCA
GCAAATATACAACAAATTGAGCAGCATTT
Found at i:63338574 original size:141 final size:140
Alignment explanation
Indices: 63338200--63338570 Score: 625
Period size: 141 Copynumber: 2.6 Consensus size: 140
63338190 CCAAACTAAA
* * * * * * *
63338200 CAGCAATTTCACACCAAAATTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCAAATATACAACAA
*
63338265 ATTGAGCAGCATTTTTGCACCAAAATTAGACAGCTTATACACAACAAATTGGACAGCAATTACAC
65 ATTGAGCAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACAC
63338330 AACAAATTGAG
130 AACAAATTGAG
63338341 CAGCATTTTTACACCAAAAATTTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAA
1 CAGCATTTTTACACCAAAAA-TTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAA
63338406 ATTGAGCAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACAC
65 ATTGAGCAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACAC
63338471 AACAAATTGAG
130 AACAAATTGAG
*
63338482 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
* *
63338547 TTAAGCAGCATTTTTACACCAAAA
66 TTGAGCAGCATTTTTGCACCAAAA
63338571 ATTGAGTAGC
Statistics
Matches: 218, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
140 66 0.30
141 129 0.59
142 23 0.11
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (140 bp):
CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
TTGAGCAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACA
ACAAATTGAG
Found at i:63338585 original size:165 final size:165
Alignment explanation
Indices: 63338404--63338749 Score: 534
Period size: 165 Copynumber: 2.1 Consensus size: 165
63338394 AATATACAAC
* * *
63338404 AAATTGAGCAGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTA
1 AAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATACAAAACAAATTGG-CAGCAAATA
*
63338468 CACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGC
65 CACAACAAATTGAGCAGCATTTTTACACAAAAAATTGGACAGCTTATATAAAACAAATTGGCAGC
63338533 AAATATACAACAAATTAAGCAGCATTTTTACACCAA
130 AAATATACAACAAATTAAGCAGCATTTTTACACCAA
* * *
63338569 AAATTGAGTAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATAT
1 AAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATACAAAACAAATTGGCAGCAAATAC
* *
63338634 ACAACAAATTGAGCAGCATTTTTACATAAAAAATTGGACAGCTTATATACAACAAATTGGCAGCA
66 ACAACAAATTGAGCAGCATTTTTACACAAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCA
* * * *
63338699 AATATACAACAAATTGAGCAGCATATATATA-CAA
131 AATATACAACAAATTAAGCAGCATTTTTACACCAA
*
63338733 GAAATTGTGCAGCATTT
1 -AAATTGAGCAGCATTT
63338750 AAGCATAAAA
Statistics
Matches: 164, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
164 3 0.02
165 132 0.80
166 29 0.18
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (165 bp):
AAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATACAAAACAAATTGGCAGCAAATAC
ACAACAAATTGAGCAGCATTTTTACACAAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCA
AATATACAACAAATTAAGCAGCATTTTTACACCAA
Found at i:63338595 original size:24 final size:25
Alignment explanation
Indices: 63338544--63338598 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
63338534 AATATACAAC
63338544 AAATTAAGCAGCATTTTTACACCAA
1 AAATTAAGCAGCATTTTTACACCAA
* *
63338569 AAATTGAGTAGCATTTTTACACCAA
1 AAATTAAGCAGCATTTTTACACCAA
63338594 AAATT
1 AAATT
63338599 GGACAGCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (25 bp):
AAATTAAGCAGCATTTTTACACCAA
Found at i:63338726 original size:23 final size:22
Alignment explanation
Indices: 63338220--63338747 Score: 313
Period size: 23 Copynumber: 22.5 Consensus size: 22
63338210 ACACCAAAAT
*
63338220 TTGGACAGCATATATACAACAAT
1 TTGG-CAGCATATATACAACAAA
*
63338243 TTAGGCAGCATATATACAACATA
1 TT-GGCAGCATATATACAACAAA
* * * *
63338266 TTGAGCAGCATTTTTGCACCAAAA
1 TTG-GCAGCATATATACAAC-AAA
* * *
63338290 TTAGACAGCTTATACACAACAAA
1 TT-GGCAGCATATATACAACAAA
*
63338313 TTGGACAGCA-ATTACACAACAAA
1 TTGG-CAGCATA-TATACAACAAA
* * *
63338336 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
*
63338361 TTTGGACAGCTTATATACAACAAA
1 -TTGG-CAGCATATATACAACAAA
*
63338385 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
* * * *
63338407 TTGAGCAGCATTTTTGCACCAAAA
1 TTG-GCAGCATATATACAAC-AAA
* *
63338431 TTGGACAGCTTATACACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
63338454 TTGGACAGCA-ATTACACAACAAA
1 TTGG-CAGCATA-TATACAACAAA
* * *
63338477 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
* *
63338502 TTGGACAGCTTATATAAAACAAA
1 TTGG-CAGCATATATACAACAAA
*
63338525 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
* * * *
63338547 TTAAGCAGCATTTTTACACCAAAAA
1 TT-GGCAGCATATATACA--ACAAA
* * * *
63338572 TTGAGTAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
* *
63338597 TTGGACAGCTTATATAAAACAAA
1 TTGG-CAGCATATATACAACAAA
*
63338620 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
* * *
63338642 TTGAGCAGCATTTTTACATAAAAAA
1 TTG-GCAGCATATATAC--AACAAA
*
63338667 TTGGACAGCTTATATACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
63338690 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
*
63338712 TTGAGCAGCATATATATACAAGAAA
1 TTG-GCAGC--ATATATACAACAAA
63338737 TTGTGCAGCAT
1 TTG-GCAGCAT
63338748 TTAAGCATAA
Statistics
Matches: 393, Mismatches: 79, Indels: 66
0.73 0.15 0.12
Matches are distributed among these distances:
22 77 0.20
23 168 0.43
24 39 0.10
25 96 0.24
26 13 0.03
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (22 bp):
TTGGCAGCATATATACAACAAA
Found at i:63338738 original size:70 final size:69
Alignment explanation
Indices: 63338225--63338739 Score: 399
Period size: 70 Copynumber: 7.3 Consensus size: 69
63338215 AAAATTTGGA
* * * * * *
63338225 CAGCA-TATATACAACAATTTAGG-CAGCATATATACAACATATTGAGCAGCATTTTTGCACCAA
1 CAGCATTATACACAACAAATT-GGACAGCAAATATACAACAAATTG-GCAGCATTTTTACAAC-A
63338288 AATT-AG
63 AATTGAG
* * *
63338294 ACAGC-TTATACACAACAAATTGGACAGCAATTACACAACAAATTGAGCAGCATTTTTACACCAA
1 -CAGCATTATACACAACAAATTGGACAGCAAATATACAACAAATTG-GCAGCATTTTTACA--AC
63338358 AAATTTG-G
62 AAA-TTGAG
* * *
63338366 ACAGC-TTATATACAACAAATTGG-CAGCAAATATACAACAAATTGAGCAGCATTTTTGCACCAA
1 -CAGCATTATACACAACAAATTGGACAGCAAATATACAACAAATTG-GCAGCATTTTTACAAC-A
63338429 AATTG-G
63 AATTGAG
* * *
63338435 ACAGC-TTATACACAACAAATTGGACAGCAATTACACAACAAATTGAGCAGCATTTTTACACCAA
1 -CAGCATTATACACAACAAATTGGACAGCAAATATACAACAAATTG-GCAGCATTTTTACA--AC
63338499 AAATTG-G
62 AAATTGAG
* * * *
63338506 ACAGC-TTATATAAAACAAATTGG-CAGCAAATATACAACAAATTAAGCAGCATTTTTACACCAA
1 -CAGCATTATACACAACAAATTGGACAGCAAATATACAACAAATT-GGCAGCATTTTTACA--AC
63338569 AAATTGAG
62 AAATTGAG
* * ** * ** *
63338577 TAGCATTTTTACACCAA-AAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAA
1 CAGCA-TTATACA-CAACAAATTGGACAGCAAATATACAACAAATTGGCAGCATTTTTACAACAA
63338641 ATTGAG
64 ATTGAG
* * * ** ** *
63338647 CAGCATTTTTACATAAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
1 CAGCA-TTATACACAACAAATTGGACAGCAAATATACAACAAATTGGCAGCATTTTTACAACAAA
63338712 TTGAG
65 TTGAG
* *
63338717 CAGCATATATATACAAGAAATTG
1 CAGCAT-TATACACAACAAATTG
63338740 TGCAGCATTT
Statistics
Matches: 382, Mismatches: 45, Indels: 36
0.83 0.10 0.08
Matches are distributed among these distances:
69 31 0.08
70 219 0.57
71 65 0.17
72 48 0.13
73 19 0.05
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (69 bp):
CAGCATTATACACAACAAATTGGACAGCAAATATACAACAAATTGGCAGCATTTTTACAACAAAT
TGAG
Found at i:63341522 original size:18 final size:18
Alignment explanation
Indices: 63341501--63341539 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
63341491 GATTGAGAGT
* *
63341501 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
63341519 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
63341537 GAA
1 GAA
63341540 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:63344302 original size:28 final size:27
Alignment explanation
Indices: 63344270--63344367 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 27
63344260 TTTAATAAGT
* *
63344270 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCT-TATAATTAAAC
* *
63344298 TCGCACACTTAGTGCTTTTCCATTAAAC
1 TCGCACACTTAGTGCTTAT-AATTAAAC
*
63344326 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGC-TTATAATTAAAC
*
63344354 TTGCACACTTAGTG
1 TCGCACACTTAGTG
63344368 TCGAAAGTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 57 0.95
29 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (27 bp):
TCGCACACTTAGTGCTTATAATTAAAC
Found at i:63351435 original size:21 final size:22
Alignment explanation
Indices: 63351389--63351435 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
63351379 TTTAATAATT
* *
63351389 TATATATTTTATTTCATTTATA
1 TATATATTTTATCTCATATATA
*
63351411 -ATATGTTTTATCT-ATATATA
1 TATATATTTTATCTCATATATA
63351431 TATAT
1 TATAT
63351436 TTACTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TATATATTTTATCTCATATATA
Found at i:63352379 original size:20 final size:21
Alignment explanation
Indices: 63352350--63352392 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
63352340 CTCATACCAT
*
63352350 AATTTTTGAATTG-ATTGATG
1 AATTTGTGAATTGCATTGATG
63352370 AATTTGTGAATTGCCATTGATG
1 AATTTGTGAATTG-CATTGATG
63352392 A
1 A
63352393 TAGCTTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
AATTTGTGAATTGCATTGATG
Found at i:63354033 original size:39 final size:39
Alignment explanation
Indices: 63353860--63354055 Score: 207
Period size: 39 Copynumber: 5.0 Consensus size: 39
63353850 GACCTAACTG
* * * *
63353860 ACCTAGAATAATCATCCCTT-TTCAGCTCATCTTTCTCCC
1 ACCTAGAATATTCAT-CCTTATTCCGATCATCTTTCCCCC
* * * *
63353899 ACCTAGAATATTCATCCCTCTTCTGATCATCTTTTCCCC
1 ACCTAGAATATTCATCCTTATTCCGATCATCTTTCCCCC
* * * * **
63353938 ATCTAGAGTATTCATCCTTATTCCGGTCACCCATCCCCC
1 ACCTAGAATATTCATCCTTATTCCGATCATCTTTCCCCC
*
63353977 ACCTAGAATATTCATCCTTATTCCGGTCATCTTTCCCCC
1 ACCTAGAATATTCATCCTTATTCCGATCATCTTTCCCCC
* *
63354016 ACCTAGAATATTCATCC-TATTCTGATCATCATTCTCCCC
1 ACCTAGAATATTCATCCTTATTCCGATCATCTTTC-CCCC
63354055 A
1 A
63354056 TAAGCTTTGG
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 17 0.13
39 114 0.87
ACGTcount: A:0.22, C:0.36, G:0.07, T:0.35
Consensus pattern (39 bp):
ACCTAGAATATTCATCCTTATTCCGATCATCTTTCCCCC
Found at i:63355143 original size:177 final size:177
Alignment explanation
Indices: 63354847--63355190 Score: 557
Period size: 177 Copynumber: 1.9 Consensus size: 177
63354837 GACCTTTCTT
*
63354847 AACCATTTCCTTCATACGACCTCTCGCTCTGTCAGTATCAGAATCAGATTCACTACCCATGTCCC
1 AACCATTTCCTTCATACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCCC
63354912 TCTCTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGC
66 TCTCTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGC
***
63354977 CTCCCACCATCAGAATCAAAGTTGTCCTCACTGGAGTTGTGCCCATG
131 CTCCCACCATCAGAATCAAAGTCACCCTCACTGGAGTTGTGCCCATG
* * *
63355024 AACCATTTCTTTTC-TATGACCTCTTGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCC
1 AACCATTTC-CTTCATACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCC
* **
63355088 CTCTCTCTCCTCTGGCTCCTAGTTGACTCAATC-TTCCGTTTTTGAACTTCACCTCTCTTCTTTT
65 CTCTCTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCC-TTTTTGAACTTCACCTCTCTTCTTTT
*
63355152 GCCTCCCACCATCAGAATCAGAGTCACCCTCACTGGAGT
129 GCCTCCCACCATCAGAATCAAAGTCACCCTCACTGGAGT
63355191 CATGCCCTTG
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
176 4 0.03
177 147 0.95
178 3 0.02
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.34
Consensus pattern (177 bp):
AACCATTTCCTTCATACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCCC
TCTCTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGC
CTCCCACCATCAGAATCAAAGTCACCCTCACTGGAGTTGTGCCCATG
Found at i:63357117 original size:13 final size:13
Alignment explanation
Indices: 63357099--63357123 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63357089 TGCTCGAGGA
63357099 TTTCCTTGTTAGG
1 TTTCCTTGTTAGG
63357112 TTTCCTTGTTAG
1 TTTCCTTGTTAG
63357124 CTCAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.20, T:0.56
Consensus pattern (13 bp):
TTTCCTTGTTAGG
Found at i:63361984 original size:14 final size:14
Alignment explanation
Indices: 63361965--63361992 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63361955 CGGAGCGGAT
63361965 CGAATTTGGGTTAG
1 CGAATTTGGGTTAG
63361979 CGAATTTGGGTTAG
1 CGAATTTGGGTTAG
63361993 ACTTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
CGAATTTGGGTTAG
Found at i:63376830 original size:18 final size:19
Alignment explanation
Indices: 63376771--63376833 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 19
63376761 ACAAAATAGT
* *
63376771 AACAATATAATAACAAAAC
1 AACAAAATAATGACAAAAC
63376790 GACACCAAAATAATGACAAAAC
1 -A-A-CAAAATAATGACAAAAC
*
63376812 AACAAAATAGTGA-AAAAC
1 AACAAAATAATGACAAAAC
63376830 AACA
1 AACA
63376834 GTAAAAAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.24
19 10 0.26
20 2 0.05
21 2 0.05
22 15 0.39
ACGTcount: A:0.65, C:0.17, G:0.06, T:0.11
Consensus pattern (19 bp):
AACAAAATAATGACAAAAC
Found at i:63377248 original size:6 final size:6
Alignment explanation
Indices: 63377237--63377261 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63377227 TTTTTTTTAT
63377237 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
63377262 AAAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:63392758 original size:25 final size:23
Alignment explanation
Indices: 63392714--63392774 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
63392704 ATTTTGATTT
*
63392714 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
63392738 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
63392762 ATATAAATTATAT
1 AT-TTAATTATAT
63392775 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:63392777 original size:35 final size:35
Alignment explanation
Indices: 63392722--63392801 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
63392712 TTATTTAATA
* *
63392722 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
63392756 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
63392791 ATATAAT-TAAA
1 ATATAATATAAA
63392802 CAAATAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:63393271 original size:35 final size:35
Alignment explanation
Indices: 63393231--63393300 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
63393221 GTCACCAATC
**
63393231 AATTTAAGAAAGAGGTTTTATAATTATAAATATAA
1 AATTTAAGAAAGACATTTTATAATTATAAATATAA
*
63393266 AATTTAAGAATGACATTTTATAATTATAAATATAA
1 AATTTAAGAAAGACATTTTATAATTATAAATATAA
63393301 TAGTTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (35 bp):
AATTTAAGAAAGACATTTTATAATTATAAATATAA
Found at i:63397116 original size:189 final size:189
Alignment explanation
Indices: 63396796--63397352 Score: 799
Period size: 189 Copynumber: 2.9 Consensus size: 189
63396786 AAAAGTTTGA
* * * *
63396796 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCGTAAAAAGGAATTGATTAAGGAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAG
* *
63396861 GTCGTCAAAGGCATGACTCCAGTGAGGGTGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
66 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
** * * *
63396926 GGTGAAGCTCAAAAACGGAAGATTGAGTCAACTAGGAGCCAGAGGAGAGCGAGGGACAT
131 GGTGAAGCTCAAAAACGGAAGATTGAGTTGACTGGGAGCCAGAAGAGAGAGAGGGACAT
* * *
63396985 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAG
** ** * *
63397050 GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
66 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
*
63397115 GGTGAAGCTCAAAAACGAAAGATTGAGTTGACTGGGAGCCAGAAGAGAGAGAGGGACAT
131 GGTGAAGCTCAAAAACGGAAGATTGAGTTGACTGGGAGCCAGAAGAGAGAGAGGGACAT
* *
63397174 GGGTAGTGAATCTGATTCTGATACTGACAGAGCGAGGGGTCGTAAGAAGGAAATGGTTAAGAAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAG
* * * * * * *
63397239 GTTGTCGTCGGAATGACTCCAGTGAGGATGACTCTGATTCTGATGTTGAGAGGAAAAAGAAGAGA
66 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
* * * * *
63397304 GGTGAAGTTCAGAAAGGGAAGATCGAGTTGACTGGGAGCCAGACGAGAG
131 GGTGAAGCTCAAAAACGGAAGATTGAGTTGACTGGGAGCCAGAAGAGAG
63397353 GCAGTGATAG
Statistics
Matches: 323, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
189 323 1.00
ACGTcount: A:0.34, C:0.12, G:0.35, T:0.19
Consensus pattern (189 bp):
GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAG
GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
GGTGAAGCTCAAAAACGGAAGATTGAGTTGACTGGGAGCCAGAAGAGAGAGAGGGACAT
Found at i:63398082 original size:39 final size:39
Alignment explanation
Indices: 63398023--63398219 Score: 241
Period size: 39 Copynumber: 5.0 Consensus size: 39
63398013 CCAAAGCTTA
* *
63398023 TGGGGAGAATGATGATCGGAATAGGGATGAATATTCTAGG
1 TGGGG-GAAAGATGACCGGAATAGGGATGAATATTCTAGG
*
63398063 TGGGGGAAAGATGACCGGAATAAGGATGAATATTCTAGG
1 TGGGGGAAAGATGACCGGAATAGGGATGAATATTCTAGG
** * * *
63398102 TGGGGGATGGGTGACCGGAATAGGGATGAATACTCTAGA
1 TGGGGGAAAGATGACCGGAATAGGGATGAATATTCTAGG
* * *
63398141 TGGGGAAAAGATGACCAGAAGAGGGATGAATATTCTAGG
1 TGGGGGAAAGATGACCGGAATAGGGATGAATATTCTAGG
* * * * *
63398180 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGAAAGATGACCGGAATAGGGATGAATATTCTAGG
63398219 T
1 T
63398220 CAGTTAGGTC
Statistics
Matches: 134, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
39 129 0.96
40 5 0.04
ACGTcount: A:0.34, C:0.07, G:0.37, T:0.22
Consensus pattern (39 bp):
TGGGGGAAAGATGACCGGAATAGGGATGAATATTCTAGG
Found at i:63401747 original size:10 final size:9
Alignment explanation
Indices: 63401710--63401823 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 9
63401700 ACAATAATAC
63401710 AAATA-ATA
1 AAATATATA
63401718 TAAATATATA
1 -AAATATATA
63401728 CAAAT-T-TA
1 -AAATATATA
63401736 AAATAT-TA
1 AAATATATA
*
63401744 TAAATTTATA
1 -AAATATATA
63401754 AGAATATATA
1 A-AATATATA
*
63401764 AAAGTACA-A
1 AAA-TATATA
*
63401773 AAAAATATAA
1 AAATATAT-A
*
63401783 AAACATATTA
1 AAATATA-TA
*
63401793 TAAATGAAATA
1 -AAAT-ATATA
63401804 AAATATATA
1 AAATATATA
*
63401813 AATTAT-TA
1 AAATATATA
63401821 AAA
1 AAA
63401824 ATTGCCAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
7 4 0.05
8 11 0.13
9 27 0.33
10 32 0.39
11 6 0.07
12 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
AAATATATA
Found at i:63401748 original size:16 final size:17
Alignment explanation
Indices: 63401719--63401751 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63401709 CAAATAATAT
63401719 AAATATATACAAATTTA
1 AAATATATACAAATTTA
*
63401736 AAATAT-TATAAATTTA
1 AAATATATACAAATTTA
63401752 TAAGAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATACAAATTTA
Found at i:63401903 original size:21 final size:21
Alignment explanation
Indices: 63401879--63401923 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
63401869 TGTAAATTAC
63401879 AAAAAAATTTAAAAAT-TATGA
1 AAAAAAATTTAAAAATATA-GA
* *
63401900 AAAAATATTTTAAAATATAGA
1 AAAAAAATTTAAAAATATAGA
63401921 AAA
1 AAA
63401924 TAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAAAAATTTAAAAATATAGA
Found at i:63402528 original size:30 final size:30
Alignment explanation
Indices: 63402485--63402546 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
63402475 CCCTTCTCTT
* * * *
63402485 TTTCTCTCTTTCCTTTCT-TCATCCTCTGCC
1 TTTCTATCATTCCTTCCTATCATCATCT-CC
63402515 TTTCTATCATTCCTTCCTATCATCATCTCC
1 TTTCTATCATTCCTTCCTATCATCATCTCC
63402545 TT
1 TT
63402547 CATCTTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.10, C:0.37, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTCTATCATTCCTTCCTATCATCATCTCC
Found at i:63404878 original size:16 final size:16
Alignment explanation
Indices: 63404857--63404891 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
63404847 GTTCAAGTTC
63404857 TAAGTG-TGTTTTGATT
1 TAAGTGTTGTTTTG-TT
63404873 TAAGTGTTGTTTTGTT
1 TAAGTGTTGTTTTGTT
63404889 TAA
1 TAA
63404892 AATTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (16 bp):
TAAGTGTTGTTTTGTT
Found at i:63409592 original size:49 final size:49
Alignment explanation
Indices: 63409535--63409633 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
63409525 GAACTGTCAC
63409535 ATTCCACCACTACCATCTTGAATGGAGAGAGCATGAAAAATGCCCCACA
1 ATTCCACCACTACCATCTTGAATGGAGAGAGCATGAAAAATGCCCCACA
*
63409584 ATTCCACCACTACCTTCTTGAATGGAGAGAGCATGAAAAATGCCCCACA
1 ATTCCACCACTACCATCTTGAATGGAGAGAGCATGAAAAATGCCCCACA
63409633 A
1 A
63409634 CTCCGCTCCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.19
Consensus pattern (49 bp):
ATTCCACCACTACCATCTTGAATGGAGAGAGCATGAAAAATGCCCCACA
Found at i:63410359 original size:120 final size:120
Alignment explanation
Indices: 63410221--63410723 Score: 918
Period size: 120 Copynumber: 4.2 Consensus size: 120
63410211 TTTAAACATA
63410221 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
*
63410286 ATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATT
66 ATGAATCTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATT
63410341 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
*
63410406 ATGAATCTACTCAAATAATAATATATGATACTATAAAATATAATTTAACATAATT
66 ATGAATCTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATT
63410461 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
63410526 ATGAATCTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATT
66 ATGAATCTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATT
*
63410581 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTAT
1 ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
* * *
63410646 ATGAATTTACTAAAAACATAATATATGATACTATAAAATATAATTTGAA-ATAATT
66 ATGAATCTACTCAAATCATAATATATGATACTATAAAATATAATTT-AACATAATT
* *
63410701 AATATTAAATATATTTTAATTAA
1 ATTATTAAATATATTATAATTAA
63410724 TATTAAATAA
Statistics
Matches: 373, Mismatches: 9, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 371 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTAT
ATGAATCTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATT
Found at i:63410368 original size:16 final size:16
Alignment explanation
Indices: 63410324--63410370 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
63410314 TACTATAAAA
*
63410324 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
63410340 TATTATT-AAATATAT
1 TATAATTAAAATATAT
63410355 TATAATTAAAATATAT
1 TATAATTAAAATATAT
63410371 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:63410488 original size:16 final size:16
Alignment explanation
Indices: 63410444--63410490 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
63410434 TACTATAAAA
*
63410444 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
63410460 TATTATT-AAATATAT
1 TATAATTAAAATATAT
63410475 TATAATTAAAATATAT
1 TATAATTAAAATATAT
63410491 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:63410608 original size:16 final size:16
Alignment explanation
Indices: 63410564--63410610 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
63410554 TACTATAAAA
*
63410564 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
63410580 TATTATT-AAATATAT
1 TATAATTAAAATATAT
63410595 TATAATTAAAATATAT
1 TATAATTAAAATATAT
63410611 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:63412651 original size:3 final size:3
Alignment explanation
Indices: 63412640--63412701 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
63412630 CAATAATACC
* * *
63412640 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
63412685 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
63412702 AGTTAACAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 50 0.98
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63414629 original size:45 final size:45
Alignment explanation
Indices: 63414574--63414717 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 45
63414564 GACGCAAGGC
* *
63414574 TTTGTTTTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * ** ** * * * *
63414619 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCAATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* *
63414662 TGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
63414707 TTTGTCTTCAA
1 TTTGTCTTCAA
63414718 CCAGCTCTAT
Statistics
Matches: 69, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 16 0.23
44 27 0.39
45 26 0.38
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (45 bp):
TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
Found at i:63414670 original size:43 final size:43
Alignment explanation
Indices: 63414621--63414758 Score: 134
Period size: 44 Copynumber: 3.2 Consensus size: 43
63414611 CAAGATCTTT
63414621 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
* * * ** ** * * * * *
63414664 TGTCTTCGATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCTTT
1 TGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-TTG
63414709 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
63414752 TGTCTTC
1 TGTCTTC
63414759 GATCTGCTTC
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 23 0.34
44 28 0.42
45 16 0.24
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
Found at i:63414692 original size:88 final size:88
Alignment explanation
Indices: 63414497--63414794 Score: 415
Period size: 88 Copynumber: 3.4 Consensus size: 88
63414487 TGTTTTTTTT
* ** * * * * *
63414497 GATCTGCTTTGCTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCA-CTGCAATC
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACC
** *
63414560 GATGGACGCAAGGCTTTGT-T-TTC
65 GAAAGAGGCAAGG-TTTGTGTCTTC
* *
63414583 AATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
63414648 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
* *
63414671 GATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
63414736 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
63414759 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
63414795 GTAACTTCAT
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
86 39 0.20
87 28 0.15
88 124 0.65
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (88 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
AAAGAGGCAAGGTTTGTGTCTTC
Found at i:63414700 original size:44 final size:44
Alignment explanation
Indices: 63414652--63414790 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
63414642 CAACCGAAAG
*
63414652 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
* * * * * ** ** * *
63414696 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGAAGGA
* *
63414740 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
63414784 AGGCAAG
1 AGGCAAG
63414791 ATCTGTAACT
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 16 0.24
44 34 0.52
45 16 0.24
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
Found at i:63417034 original size:18 final size:19
Alignment explanation
Indices: 63416998--63417053 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 19
63416988 TTTCTTTTTC
* *
63416998 TCATTTTCATTTTGA-TCT
1 TCATTTTGATTTTTATTCT
*
63417016 TGATTTTGATTTTT-TTCT
1 TCATTTTGATTTTTATTCT
* *
63417034 TCTTTTTGTTTTTTATTCT
1 TCATTTTGATTTTTATTCT
63417053 T
1 T
63417054 AAGCCTTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (19 bp):
TCATTTTGATTTTTATTCT
Found at i:63422092 original size:3 final size:3
Alignment explanation
Indices: 63422081--63422148 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
63422071 CAATAATACC
* * *
63422081 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
63422126 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
63422149 AGTTAACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 56 0.98
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63423945 original size:25 final size:25
Alignment explanation
Indices: 63423911--63423962 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
63423901 AAGAATCAGT
*
63423911 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAAACGGGACTGGTGA
63423936 AAACTTAAACAAACGGGACTGGTGA
1 AAACTTAAACAAACGGGACTGGTGA
63423961 AA
1 AA
63423963 TATAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAAACGGGACTGGTGA
Found at i:63424309 original size:136 final size:138
Alignment explanation
Indices: 63424063--63424330 Score: 425
Period size: 136 Copynumber: 2.0 Consensus size: 138
63424053 CTTAAAATTG
* * *
63424063 AAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAGCT
1 AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
* * *
63424128 ACAAAAGTAATTTAACAACATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGATAT
66 ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGACAT
63424192 GCCCAAATA
130 GCCCAAATA
* *
63424201 AAATCATTTATGGCATGAGTTACATTC-AAATAACAAT-AACAAAAGATGGATATAACACTAACT
1 AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
*
63424264 ACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
66 ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
63424329 CC
131 CC
63424331 ATTTTCTGAA
Statistics
Matches: 120, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
136 85 0.71
137 11 0.09
138 24 0.20
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (138 bp):
AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
CCCAAATA
Found at i:63426548 original size:13 final size:12
Alignment explanation
Indices: 63426526--63426568 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
63426516 CTACCCAATT
63426526 ACCCAGGCCCAA
1 ACCCAGGCCCAA
63426538 ACCCGAGGCCCAAA
1 ACCC-AGGCCC-AA
63426552 ACCCTA-GCCCAA
1 ACCC-AGGCCCAA
63426564 ACCCA
1 ACCCA
63426569 TAACAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 10 0.36
14 7 0.25
ACGTcount: A:0.35, C:0.49, G:0.14, T:0.02
Consensus pattern (12 bp):
ACCCAGGCCCAA
Found at i:63427234 original size:21 final size:22
Alignment explanation
Indices: 63427194--63427240 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
63427184 TCTTTTTAGA
*
63427194 AAGGAAGAAGAATGATTTTTTAT
1 AAGGAAGAAGAATGA-ATTTTAT
63427217 AAGGAA-AA-AATGAATTTTAT
1 AAGGAAGAAGAATGAATTTTAT
63427237 AAGG
1 AAGG
63427241 CCCCTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 2 0.09
23 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
AAGGAAGAAGAATGAATTTTAT
Found at i:63427613 original size:30 final size:27
Alignment explanation
Indices: 63427544--63427617 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
63427534 ACGCGTCACA
**
63427544 ATTTAGTCCCTTTTGTTTTTTTATTTCG
1 ATTTAGTCCCTTTT-TTTTTTTACGTCG
* *
63427572 ATTTCGCCCCTTATTTTTGCTTTTACGTCG
1 ATTTAGTCCCTT-TTTTT--TTTTACGTCG
63427602 ATTTAGTCCCTTTTTT
1 ATTTAGTCCCTTTTTT
63427618 AGCACTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 13 0.35
29 6 0.16
30 18 0.49
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.58
Consensus pattern (27 bp):
ATTTAGTCCCTTTTTTTTTTTACGTCG
Found at i:63429256 original size:1 final size:1
Alignment explanation
Indices: 63429211--63429248 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
63429201 AATATTTTAA
63429211 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
63429249 ATATTTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:63429521 original size:3 final size:3
Alignment explanation
Indices: 63429513--63429541 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63429503 TCACAGAGGC
63429513 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
63429542 GAGGAAATAT
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:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:63442750 original size:25 final size:25
Alignment explanation
Indices: 63442710--63442761 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
63442700 AGTTAGTTTT
* *
63442710 ATTTTGTTTAAGAAATAATGATGTA
1 ATTTTGTATAAAAAATAATGATGTA
63442735 ATTTTGTATAAAAAATAATGATGTA
1 ATTTTGTATAAAAAATAATGATGTA
63442760 AT
1 AT
63442762 CTATTACAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (25 bp):
ATTTTGTATAAAAAATAATGATGTA
Found at i:63445951 original size:14 final size:15
Alignment explanation
Indices: 63445926--63445959 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
63445916 AAAGAAAAAA
63445926 AAAACAAAATAAGAG
1 AAAACAAAATAAGAG
63445941 AAAAC-AAATAAGAG
1 AAAACAAAATAAGAG
63445955 AAAAC
1 AAAAC
63445960 CAAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.74, C:0.09, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAACAAAATAAGAG
Found at i:63447071 original size:86 final size:88
Alignment explanation
Indices: 63446969--63447310 Score: 392
Period size: 88 Copynumber: 3.9 Consensus size: 88
63446959 TGTAACCTTT
* ** * * *
63446969 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* * *
63447031 CAAGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTGTTGTCTTC
* * * ** * * *
63447055 AACTAGCTCCA-CTGCAATCGATGGACGCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* *
63447117 TAGGAAGGCAAGATCTTTTGTCTTC
64 CAGGAAGGCAAGATCTGTTGTCTTC
* *
63447142 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
63447207 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTGTTGTCTTC
*
63447230 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
63447295 GGAAGGCAAGATCTGT
66 GGAAGGCAAGATCTGT
63447311 AACTTCATTG
Statistics
Matches: 228, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
85 1 0.00
86 73 0.32
87 28 0.12
88 126 0.55
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTGTTGTCTTC
Found at i:63447143 original size:45 final size:45
Alignment explanation
Indices: 63447088--63447308 Score: 139
Period size: 44 Copynumber: 5.0 Consensus size: 45
63447078 GACGCAAGGC
* *
63447088 TTTGTTTTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * ** ** * * * *
63447133 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCAATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* *
63447176 TGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * ** ** * * * *
63447221 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCAATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* * *
63447264 TGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
63447309 GTAACTTCAT
Statistics
Matches: 120, Mismatches: 48, Indels: 16
0.65 0.26 0.09
Matches are distributed among these distances:
43 32 0.27
44 55 0.46
45 33 0.28
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (45 bp):
TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
Found at i:63447205 original size:88 final size:88
Alignment explanation
Indices: 63447081--63447308 Score: 406
Period size: 88 Copynumber: 2.6 Consensus size: 88
63447071 ATCGATGGAC
* *
63447081 GCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAA
1 GCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAA
63447144 CCAGCTCTATCACAACCGAAAGAG
65 CCAGCTCTATCACAACCGAAAGAG
63447168 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
63447233 CAGCTCTATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
*
63447256 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
63447309 GTAACTTCAT
Statistics
Matches: 136, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
86 5 0.04
87 7 0.05
88 124 0.91
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
CAGCTCTATCACAACCGAAAGAG
Found at i:63449555 original size:16 final size:17
Alignment explanation
Indices: 63449530--63449563 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63449520 TTGATCTTGA
*
63449530 TTTTGATTTTTTCTTCT
1 TTTTGATTTTTTATTCT
63449547 TTTTG-TTTTTTATTCT
1 TTTTGATTTTTTATTCT
63449563 T
1 T
63449564 AAGCCTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTGATTTTTTATTCT
Found at i:63454569 original size:3 final size:3
Alignment explanation
Indices: 63454558--63454624 Score: 84
Period size: 3 Copynumber: 22.7 Consensus size: 3
63454548 CAATAATACC
* * *
63454558 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
63454603 AAT AAT -AT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
63454625 AGTTAACAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.05
3 52 0.95
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63456416 original size:25 final size:25
Alignment explanation
Indices: 63456382--63456433 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
63456372 AAGAATCAGT
*
63456382 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAAACGGGACTGGTGA
63456407 AAACTTAAACAAACGGGACTGGTGA
1 AAACTTAAACAAACGGGACTGGTGA
63456432 AA
1 AA
63456434 TATAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAAACGGGACTGGTGA
Found at i:63456782 original size:137 final size:138
Alignment explanation
Indices: 63456535--63456803 Score: 434
Period size: 137 Copynumber: 2.0 Consensus size: 138
63456525 CTTAAAATTG
* * *
63456535 AAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAGCT
1 AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
* * *
63456600 ACAAAAGTAATTTAACAACATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGATAT
66 ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGACAT
63456664 GCCCAAATA
130 GCCCAAATA
* *
63456673 AAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAACT
1 AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
*
63456737 ACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
66 ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
63456802 CC
131 CC
63456804 ATTTTCTGAA
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 85 0.70
138 36 0.30
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.25
Consensus pattern (138 bp):
AAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAACT
ACAAAAGTAATTTAACAACATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATG
CCCAAATA
Found at i:63459027 original size:13 final size:12
Alignment explanation
Indices: 63459005--63459047 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
63458995 CTACCCAATT
63459005 ACCCAGGCCCAA
1 ACCCAGGCCCAA
63459017 ACCCGAGGCCCAAA
1 ACCC-AGGCCC-AA
63459031 ACCCTA-GCCCAA
1 ACCC-AGGCCCAA
63459043 ACCCA
1 ACCCA
63459048 TAACAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 10 0.36
14 7 0.25
ACGTcount: A:0.35, C:0.49, G:0.14, T:0.02
Consensus pattern (12 bp):
ACCCAGGCCCAA
Found at i:63459719 original size:21 final size:22
Alignment explanation
Indices: 63459679--63459725 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
63459669 TCTTTTTAGA
*
63459679 AAGGAAGAAGAATGATTTTTTAT
1 AAGGAAGAAGAATGA-ATTTTAT
63459702 AAGGAA-AA-AATGAATTTTAT
1 AAGGAAGAAGAATGAATTTTAT
63459722 AAGG
1 AAGG
63459726 CCCCTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 2 0.09
23 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
AAGGAAGAAGAATGAATTTTAT
Found at i:63460099 original size:30 final size:27
Alignment explanation
Indices: 63460030--63460103 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
63460020 ACGCGTCACA
**
63460030 ATTTAGTCCCTTTTGTTTTTTTATTTCG
1 ATTTAGTCCCTTTT-TTTTTTTACGTCG
* *
63460058 ATTTCGCCCCTTATTTTTGCTTTTACGTCG
1 ATTTAGTCCCTT-TTTTT--TTTTACGTCG
63460088 ATTTAGTCCCTTTTTT
1 ATTTAGTCCCTTTTTT
63460104 AGCACTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 13 0.35
29 6 0.16
30 18 0.49
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.58
Consensus pattern (27 bp):
ATTTAGTCCCTTTTTTTTTTTACGTCG
Found at i:63462203 original size:3 final size:3
Alignment explanation
Indices: 63462195--63462223 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63462185 TCACAGAGGC
63462195 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
63462224 GAGGAAATAT
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:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:63464262 original size:18 final size:21
Alignment explanation
Indices: 63464239--63464278 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
63464229 ATTTCAAAAC
63464239 TTAAG-TATT-TTA-AAACAA
1 TTAAGTTATTATTATAAACAA
63464257 TTAAGTTATTATTATAAACAA
1 TTAAGTTATTATTATAAACAA
63464278 T
1 T
63464279 GACATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 3 0.16
21 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TTAAGTTATTATTATAAACAA
Found at i:63466080 original size:12 final size:12
Alignment explanation
Indices: 63466065--63466103 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
63466055 ACTTTCTTCT
* *
63466065 TTACTTACTTGC
1 TTACTTGCTTAC
*
63466077 TTACTTGTTTAC
1 TTACTTGCTTAC
63466089 TTACTTGCTTAC
1 TTACTTGCTTAC
63466101 TTA
1 TTA
63466104 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:63466089 original size:20 final size:20
Alignment explanation
Indices: 63466064--63466102 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
63466054 TACTTTCTTC
63466064 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
63466084 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
63466103 AAATAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:63466429 original size:50 final size:50
Alignment explanation
Indices: 63466357--63466497 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 50
63466347 CCTGTACTGT
* * **
63466357 CAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTAC
1 CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTAC
* * ** * * *
63466407 CCATGCCATGTCCCAGACATGGTCTTACCGGGGACCTCTCATCTCGGTGC
1 CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTAC
* * *
63466457 CAATGCCATATCCTAGACATGGTCTTGCATGGGACCTCTCA
1 CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCA
63466498 AAATCTCAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
CAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTAC
Found at i:63468161 original size:29 final size:30
Alignment explanation
Indices: 63468129--63468209 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
63468119 TTAAAATAAC
63468129 AAAAAGTATATGTAAATTA-CAAAAAA-A-TT
1 AAAAA-TATATG-AAATTATCAAAAAATATTT
*
63468158 AAAAAT-TATGAAATTATGAAAAAATATTT
1 AAAAATATATGAAATTATCAAAAAATATTT
*
63468187 AAAAATATA-GAAAATTATTAAAA
1 AAAAATATATG-AAATTATCAAAA
63468210 TTGTTAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
26 6 0.13
27 10 0.22
28 2 0.04
29 14 0.31
30 13 0.29
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (30 bp):
AAAAATATATGAAATTATCAAAAAATATTT
Found at i:63472501 original size:3 final size:3
Alignment explanation
Indices: 63472493--63472543 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
63472483 GTAATTTAGC
63472493 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
63472541 CTT
1 CTT
63472544 TTACACAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:63490349 original size:17 final size:16
Alignment explanation
Indices: 63490329--63490393 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
63490319 AAAATAATAC
63490329 AAATATATACAAATTTA
1 AAATATATA-AAATTTA
*
63490346 AAATATTATAAAGTTATAA
1 AAATA-TATAAAATT-T-A
* *
63490365 AAACATATAAAAGTTA
1 AAATATATAAAATTTA
63490381 AAATAATATAAAA
1 AAAT-ATATAAAA
63490394 ACATATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.10
17 18 0.46
18 12 0.31
19 5 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AAATATATAAAATTTA
Found at i:63490377 original size:19 final size:17
Alignment explanation
Indices: 63490305--63490393 Score: 56
Period size: 19 Copynumber: 4.9 Consensus size: 17
63490295 ATATTTTATA
63490305 TTAAAAATAATATAAAA-
1 TTAAAAA-AATATAAAAG
* *
63490322 ATAATACAAATATATACAAAT
1 TTAA-A-AAA-ATATA-AAAG
* *
63490343 TTAAAATATTAT-AAAG
1 TTAAAAAAATATAAAAG
63490359 TTATAAAAACATATAAAAG
1 TTA-AAAAA-ATATAAAAG
*
63490378 TTAAAATAATATAAAA
1 TTAAAAAAATATAAAA
63490394 ACATATTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
16 6 0.11
17 15 0.27
18 12 0.21
19 16 0.29
20 4 0.07
21 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (17 bp):
TTAAAAAAATATAAAAG
Found at i:63490468 original size:30 final size:31
Alignment explanation
Indices: 63490432--63490515 Score: 109
Period size: 33 Copynumber: 2.7 Consensus size: 31
63490422 AACTATAAAA
*
63490432 ATTATTAAAAATTACAAAAAA-G-CATTAATC
1 ATTATT-AAAATTACAAAAAATGACATGAATC
*
63490462 ATTATTAAAATAACAAAAAGTATGACATGAATC
1 ATTATTAAAATTACAAAAA--ATGACATGAATC
63490495 ATTATTAAAATTACAAAAAAT
1 ATTATTAAAATTACAAAAAAT
63490516 AAAAATTGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
29 12 0.26
30 6 0.13
31 3 0.06
32 1 0.02
33 25 0.53
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (31 bp):
ATTATTAAAATTACAAAAAATGACATGAATC
Found at i:63496799 original size:20 final size:18
Alignment explanation
Indices: 63496761--63496799 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
63496751 ATTTCAAAAC
63496761 TTAAGTATTTTAAAACAA
1 TTAAGTATTTTAAAACAA
*
63496779 TTAAGGTATTATTATAACAA
1 TTAA-GTATT-TTAAAACAA
63496799 T
1 T
63496800 GACATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
TTAAGTATTTTAAAACAA
Found at i:63501096 original size:102 final size:102
Alignment explanation
Indices: 63500903--63501198 Score: 380
Period size: 102 Copynumber: 2.9 Consensus size: 102
63500893 CGACCTATCA
* * * * * * *** * * *
63500903 TTCT-GGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGA
1 TTCTCGGTACACATAGTAGCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATACACGT
*
63500966 AGTAGCCTTCACACAGTACTACACACGTGATCAAAGC
66 AGTAGCCTTCACACAGTACTACACACGTGACCAAAGC
* *
63501003 TTTTCGGTACACATAGTATCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATACACGT
1 TTCTCGGTACACATAGTAGCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATACACGT
* *
63501068 AGTAGCCTTAACACTGTACTACACACGTGACCAAAGC
66 AGTAGCCTTCACACAGTACTACACACGTGACCAAAGC
* * * *
63501105 TTCTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACAT
1 TTCTCGGTACACATAGTAGCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATACACGT
*
63501170 AGTAGTCTTCACACAGTACTACACACGTG
66 AGTAGCCTTCACACAGTACTACACACGTG
63501199 TTCATCGATA
Statistics
Matches: 168, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 3 0.02
101 39 0.23
102 126 0.75
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (102 bp):
TTCTCGGTACACATAGTAGCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATACACGT
AGTAGCCTTCACACAGTACTACACACGTGACCAAAGC
Found at i:63501149 original size:51 final size:51
Alignment explanation
Indices: 63500754--63501198 Score: 291
Period size: 51 Copynumber: 8.8 Consensus size: 51
63500744 TCAATGATAC
* * * * * *
63500754 CGGTTCACATAGTAGCATGCACATAGTACTACACAGGTGACC--ATCATTAT
1 CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTCT
** * * * * *
63500804 CCAATACACGTAATAGCCTGCACATAGTACTACACACGTGATCGAAGCTATC-
1 -CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCT-TCT
* * * * * * * * *
63500856 CAGTACGCATAGTAGCCTGCACATATTACTACATATGCGACC-TATCATTCT
1 CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTCT
* * * *
63500907 -GGTACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAG-TTTT
1 CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT
* * * *
63500955 ACGGTTCACGA-AGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTTTT
1 -CGGTACAC-ATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT
* * * * * * *
63501007 CGGTACACATAGTATCCTTCACTTAGTACCACACATGTGACCATCA-TTTAT
1 CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTCT
* * *
63501058 CGATACACGTAGTAGCCTTAACACT-GTACTACACACGTGACCAAAGCTTCT
1 CGGTACACATAGTAGCCTTCACA-TAGTACTACACACGTGACCAAAGCTTCT
* * * * * *
63501109 CGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
1 CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTTCT
* * *
63501160 CGATACACATAGTAGTCTTCACACAGTACTACACACGTG
1 CGGTACACATAGTAGCCTTCACATAGTACTACACACGTG
63501199 TTCATCGATA
Statistics
Matches: 306, Mismatches: 72, Indels: 32
0.75 0.18 0.08
Matches are distributed among these distances:
48 3 0.01
50 76 0.25
51 216 0.71
52 8 0.03
53 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT
Found at i:63501188 original size:153 final size:151
Alignment explanation
Indices: 63500909--63501194 Score: 332
Period size: 153 Copynumber: 1.9 Consensus size: 151
63500899 ATCATTCTGG
* * *
63500909 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGAAGTAGCCT
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGTTCTACGGTACACGAAGTAGCCT
* * **
63500974 TCACACAGTACTACACACGTGATCAAAGCTTTTCGGTACACATAGTATCCTTCACTTAGTACCAC
66 TCACACAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTATCCTTCACACAGTACCAC
63501039 ACATGTGACCATCATTTATCGA
130 ACATGTGACCATCATTTATCGA
*
63501061 TACACGTAGTAGCCTTA-ACACT-GTACTACACACGTGACCAAAGCTTCT-CGGTACAC-ATTGT
1 TACACGTAGTAGCC-TACACA-TAGTACTACACACGTGACC-AAG-TTCTACGGTACACGA-AGT
** * *
63501122 AGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACATAGTAGT-CTTCACACA
61 AGCCTTCACACAGTACTACACACGTGACCA-AACTTT-TCGATACACATAGTA-TCCTTCACACA
*
63501185 GTACTACACA
123 GTACCACACA
63501195 CGTGTTCATC
Statistics
Matches: 113, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
152 37 0.33
153 71 0.63
154 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (151 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGTTCTACGGTACACGAAGTAGCCT
TCACACAGTACTACACACGTGACCAAACTTTTCGATACACATAGTATCCTTCACACAGTACCACA
CATGTGACCATCATTTATCGA
Found at i:63515001 original size:30 final size:31
Alignment explanation
Indices: 63514962--63515021 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
63514952 GGAGGTGTGA
*
63514962 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
63514993 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
63515022 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:63521717 original size:14 final size:14
Alignment explanation
Indices: 63521698--63521728 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63521688 GTAAGGAATC
63521698 ATCTTGGTGGTCAA
1 ATCTTGGTGGTCAA
*
63521712 ATCTTGGTGGTCTA
1 ATCTTGGTGGTCAA
63521726 ATC
1 ATC
63521729 ATTTTGGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (14 bp):
ATCTTGGTGGTCAA
Found at i:63521735 original size:17 final size:16
Alignment explanation
Indices: 63521694--63521735 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
63521684 TTTTGTAAGG
63521694 AATCATCTTGGTGGTC
1 AATCATCTTGGTGGTC
63521710 AA--ATCTTGGTGGTC
1 AATCATCTTGGTGGTC
*
63521724 TAATCATTTTGG
1 -AATCATCTTGG
63521736 ACTGCCTCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 12 0.55
15 2 0.09
16 2 0.09
17 6 0.27
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.40
Consensus pattern (16 bp):
AATCATCTTGGTGGTC
Found at i:63526375 original size:10 final size:10
Alignment explanation
Indices: 63526344--63526377 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
63526334 TTTATATTAA
63526344 AAATAATATAC
1 AAAT-ATATAC
63526355 AAATA-ATAC
1 AAATATATAC
63526364 AAATATATAC
1 AAATATATAC
63526374 AAAT
1 AAAT
63526378 TTAAAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATATATAC
Found at i:63526408 original size:10 final size:10
Alignment explanation
Indices: 63526395--63526435 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
63526385 GTTATAAATT
63526395 TATAAAAACA
1 TATAAAAACA
63526405 TAT-AAAA-A
1 TATAAAAACA
*
63526413 TACAAAAACA
1 TATAAAAACA
63526423 TATAAAAACA
1 TATAAAAACA
63526433 TAT
1 TAT
63526436 TATAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 8 0.30
10 16 0.59
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (10 bp):
TATAAAAACA
Found at i:63526580 original size:29 final size:27
Alignment explanation
Indices: 63526541--63526599 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
63526531 TTAAAATTAC
*
63526541 AAAAAAATAAAA-ATTGTAAAATTATGA
1 AAAAAAATAAAATATAG-AAAATTATGA
*
63526568 AAAAAAATTTAAAATATAGAAAATTATTA
1 AAAAAAA--TAAAATATAGAAAATTATGA
63526597 AAA
1 AAA
63526600 TTGTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAAAAATAAAATATAGAAAATTATGA
Found at i:63526589 original size:20 final size:21
Alignment explanation
Indices: 63526549--63526590 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
63526539 ACAAAAAAAT
63526549 AAAAATTGTAAAATTATGAAA
1 AAAAATTGTAAAATTATGAAA
63526570 AAAAATT-TAAAA-TATAGAAA
1 AAAAATTGTAAAATTAT-GAAA
63526590 A
1 A
63526591 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 10 0.50
21 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAATTGTAAAATTATGAAA
Found at i:63527480 original size:14 final size:14
Alignment explanation
Indices: 63527461--63527497 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
63527451 AAAATTATCC
63527461 CTCCTTTTATTCAT
1 CTCCTTTTATTCAT
63527475 CTCC-TTTATTCAT
1 CTCCTTTTATTCAT
*
63527488 -TCCTATTATT
1 CTCCTTTTATT
63527498 TCCTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (14 bp):
CTCCTTTTATTCAT
Found at i:63536386 original size:29 final size:30
Alignment explanation
Indices: 63536329--63536386 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
63536319 ACTTTGACCC
* **
63536329 TTTAAAAATAATAAAAATTTGATTTTATTT
1 TTTAAAAATAATAAAAATATGATAGTATTT
*
63536359 TTTAAAAATTATAAAAATAT-ATAGTATT
1 TTTAAAAATAATAAAAATATGATAGTATT
63536387 AAAATTGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTAAAAATAATAAAAATATGATAGTATTT
Found at i:63538455 original size:17 final size:17
Alignment explanation
Indices: 63538433--63538468 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
63538423 AAAGGCATGA
63538433 CTCCAGTGAGGGTGACT
1 CTCCAGTGAGGGTGACT
63538450 CTCCAGTGAGGGTGACT
1 CTCCAGTGAGGGTGACT
63538467 CT
1 CT
63538469 GATTCTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (17 bp):
CTCCAGTGAGGGTGACT
Found at i:63538775 original size:188 final size:187
Alignment explanation
Indices: 63538450--63538924 Score: 684
Period size: 188 Copynumber: 2.5 Consensus size: 187
63538440 GAGGGTGACT
* * *
63538450 CTCCAGTGAGGGTGACTCTGATTCTGAAGGTGGGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAAC
1 CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTC-AAAA-
** *
63538515 GGAAGATTGAGTCAACTAGGAGCCAGAGGAGAGAGAGGGACATGGGTAGTGAATCTGATTCTGAT
64 GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGGGTAGTGAATCTGATTCTGAT
* *
63538580 GCTGACAGAGCAAGAGGTCAT-AGAAAAGAAATGGTTAAGAAAGGTCGTCATAGGCACAA
129 ACTGACAGAGCAAGAGGTCATAAG-AAAGAAATGGTTAAGAAAGGTCGTCATAGGAACAA
** *
63538639 CTCCAGTGAGGACAACTTTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAGG
1 CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAGG
63538704 AAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT-GGTAAGTGAATCTGATTCTGAT
66 -AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGGGT-AGTGAATCTGATTCTGAT
* * * * **
63538768 ACTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAGGTCGTCGTAGGAATGA
129 ACTGACAGAGCAAGAGGTCATAAGAAAGAAATGGTTAAGAAAGGTCGTCATAGGAACAA
* *
63538827 CTCCAGTGAGGATGACTCTGATTCTGATGTTGAGAGGAAAAAGAAGAGAGGTGAAGTTCAGAAAG
1 CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCA-AAA-
* *
63538892 GGAAGATCGAGTTGAATGGGAGCCAGAGGAGAG
64 GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAG
63538925 GCAGTGATAG
Statistics
Matches: 257, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
187 5 0.02
188 163 0.63
189 87 0.34
190 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.35, T:0.19
Consensus pattern (187 bp):
CTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGAAGTTCAAAAGG
AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGGGTAGTGAATCTGATTCTGATAC
TGACAGAGCAAGAGGTCATAAGAAAGAAATGGTTAAGAAAGGTCGTCATAGGAACAA
Found at i:63539652 original size:39 final size:39
Alignment explanation
Indices: 63539591--63539787 Score: 223
Period size: 39 Copynumber: 5.0 Consensus size: 39
63539581 CCAAAGCTTA
*
63539591 TGGGGAGAATGATGATCAGAATAGGGATGAATATTCTAGG
1 TGGGG-GAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * *
63539631 TGGGGGAAAGATGACCGGAATAAGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
** * * * * * *
63539670 TGGGGGATGGGTGACCGGAATAAGGATGAATACTCTAGA
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* *
63539709 TGGGGAAAAGATGATCAGAAGAGGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * * *
63539748 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
63539787 T
1 T
63539788 CAGTTAGGTC
Statistics
Matches: 133, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 128 0.96
40 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.36, T:0.23
Consensus pattern (39 bp):
TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
Found at i:63545398 original size:19 final size:18
Alignment explanation
Indices: 63545374--63545427 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
63545364 TACAAAAAAT
63545374 AAAAATTTTAAAATTATGA
1 AAAAATTTTAAAATTAT-A
*
63545393 AAAAATATTTAAAAGTATA
1 AAAAAT-TTTAAAATTATA
*
63545412 GAAAATTATTAAAATT
1 AAAAATT-TTAAAATT
63545428 GTTAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 19 0.63
20 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAAATTTTAAAATTATA
Found at i:63545421 original size:20 final size:20
Alignment explanation
Indices: 63545374--63545416 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
63545364 TACAAAAAAT
*
63545374 AAAAAT-TTTAAAATTATGA
1 AAAAATATTTAAAAGTATGA
63545393 AAAAATATTTAAAAGTATAGA
1 AAAAATATTTAAAAGTAT-GA
63545414 AAA
1 AAA
63545417 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAAATATTTAAAAGTATGA
Found at i:63546048 original size:18 final size:18
Alignment explanation
Indices: 63546025--63546060 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
63546015 CCAAGAAAAT
63546025 AAAATACAACA-GGCCCAA
1 AAAATACAA-ATGGCCCAA
63546043 AAAATACAAATGGCCCAA
1 AAAATACAAATGGCCCAA
63546061 TTTAGCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.56, C:0.25, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAATACAAATGGCCCAA
Found at i:63549922 original size:21 final size:18
Alignment explanation
Indices: 63549884--63549923 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
63549874 ATTTCAAAAC
63549884 TTAAGTATTTTAAAACAA
1 TTAAGTATTTTAAAACAA
63549902 TTAAGGTATTATTATAAACAA
1 TTAA-GTATT-TTA-AAACAA
63549923 T
1 T
63549924 GACATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 3 0.16
21 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (18 bp):
TTAAGTATTTTAAAACAA
Found at i:63550910 original size:29 final size:29
Alignment explanation
Indices: 63550868--63550934 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
63550858 TTACAAAAAA
63550868 TAAAAATTATG-AAATTATGAAAAATTGTT
1 TAAAAATTATGAAAATTAT-AAAAATTGTT
*
63550897 TAAAAA-TATAGAAAATTATTAAAATTGTT
1 TAAAAATTAT-GAAAATTATAAAAATTGTT
*
63550926 AATAAAATT
1 TA-AAAATT
63550935 TACAAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 17 0.53
30 11 0.34
31 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAAAATTATGAAAATTATAAAAATTGTT
Found at i:63550933 original size:30 final size:30
Alignment explanation
Indices: 63550879--63550942 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
63550869 AAAAATTATG
* *
63550879 AAATTATGAAAAATTGTTTAAAAATATAGA
1 AAATTATGAAAAATTGTTAAAAAATATACA
* *
63550909 AAATTAT-TAAAATTGTTAATAAAATTTACA
1 AAATTATGAAAAATTGTTAA-AAAATATACA
63550939 AAAT
1 AAAT
63550943 AGTTACCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (30 bp):
AAATTATGAAAAATTGTTAAAAAATATACA
Found at i:63552184 original size:26 final size:26
Alignment explanation
Indices: 63552145--63552194 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
63552135 TTTTGTATTA
*
63552145 AAAATAATACAAATATATACAAATTT
1 AAAATAATACAAATATATAAAAATTT
* * *
63552171 AAAATATTATAAATTTATAAAAAT
1 AAAATAATACAAATATATAAAAAT
63552195 ATATAAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAATAATACAAATATATAAAAATTT
Found at i:63552200 original size:10 final size:10
Alignment explanation
Indices: 63552143--63552247 Score: 50
Period size: 10 Copynumber: 11.4 Consensus size: 10
63552133 TATTTTGTAT
63552143 TAAAAATA-A
1 TAAAAATATA
*
63552152 TACAAATATA
1 TAAAAATATA
*
63552162 TACAAAT-T-
1 TAAAAATATA
63552170 T-AAAATAT-
1 TAAAAATATA
* *
63552178 TATAAATTTA
1 TAAAAATATA
63552188 TAAAAATATA
1 TAAAAATATA
* *
63552198 TAAAAGTACA
1 TAAAAATATA
63552208 -AAAAATA-A
1 TAAAAATATA
*
63552216 T-AACATAT-
1 TAAAAATATA
* *
63552224 TATAAATGAAA
1 TAAAAAT-ATA
63552235 T-AAAATATA
1 TAAAAATATA
63552244 TAAA
1 TAAA
63552248 TTATTAAAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
7 4 0.06
8 10 0.14
9 25 0.35
10 31 0.44
11 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
TAAAAATATA
Found at i:63552818 original size:72 final size:72
Alignment explanation
Indices: 63552701--63552917 Score: 398
Period size: 72 Copynumber: 3.0 Consensus size: 72
63552691 GAGAGTCACC
63552701 ACAAGTCGGTGCAACAGTTTCAGCATCCTTTTCATGACTATCATCCCTTGGTGTTAGTGGCAGAG
1 ACAAGTCGGTGCAACAGTTTCAGCATCCTTTTCATGACTATCATCCCTTGGTGTTAGTGGCAGAG
63552766 CAAAGCA
66 CAAAGCA
63552773 ACAAGTCGGTGCAACAGTTTCAGCATCCTTTTCATGACTATCATCCCTTGGTGTTAGTGGCAGAG
1 ACAAGTCGGTGCAACAGTTTCAGCATCCTTTTCATGACTATCATCCCTTGGTGTTAGTGGCAGAG
63552838 CAAAGCA
66 CAAAGCA
* ** *
63552845 ACAAGTCGGTGCAACAGATTCAGCATCCTTTTCATGAGGAACATCCCTTGGTGTTAGTGGCAGAG
1 ACAAGTCGGTGCAACAGTTTCAGCATCCTTTTCATGACTATCATCCCTTGGTGTTAGTGGCAGAG
63552910 CAAAGCA
66 CAAAGCA
63552917 A
1 A
63552918 TGAAGGTCTC
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 141 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (72 bp):
ACAAGTCGGTGCAACAGTTTCAGCATCCTTTTCATGACTATCATCCCTTGGTGTTAGTGGCAGAG
CAAAGCA
Found at i:63553135 original size:39 final size:39
Alignment explanation
Indices: 63553074--63553155 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
63553064 TAGATGCAGG
* *
63553074 TCTTTTTCTTCGACAAAGGCCATATCACTCAGACAAAGA
1 TCTTTTGCTACGACAAAGGCCATATCACTCAGACAAAGA
* * * *
63553113 TCTTTTGCTACGACCAATGCCATATCACTTAGACAAAGG
1 TCTTTTGCTACGACAAAGGCCATATCACTCAGACAAAGA
63553152 TCTT
1 TCTT
63553156 GGGCTTCAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (39 bp):
TCTTTTGCTACGACAAAGGCCATATCACTCAGACAAAGA
Found at i:63553174 original size:39 final size:40
Alignment explanation
Indices: 63553091--63553177 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 40
63553081 CTTCGACAAA
** *
63553091 GGCCATATCACTCAGACAAAGATCTTTTGCTACGACCAAT
1 GGCCATATCACTCAGACAAAGATCTTGGGCTACAACCAAT
* * *
63553131 -GCCATATCACTTAGACAAAGGTCTTGGGCTTCAACC-AT
1 GGCCATATCACTCAGACAAAGATCTTGGGCTACAACCAAT
63553169 GGCCATATC
1 GGCCATATC
63553178 GTAATCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (40 bp):
GGCCATATCACTCAGACAAAGATCTTGGGCTACAACCAAT
Found at i:63567156 original size:72 final size:74
Alignment explanation
Indices: 63567036--63567221 Score: 213
Period size: 72 Copynumber: 2.5 Consensus size: 74
63567026 ATAGAATTGT
* * *
63567036 TAAC-AGAATAAAGAAATCAATGATCAATCCAATTCACTGATTTGATTACAGAGTATCAATCA-C
1 TAACAAGAATAAAG-AATCAATGATCAATCTAATTCACTGATTTAATTACAGAGTACCAATCATC
63567099 CTTCTATTGAC
65 C-TCTATTGAC
* * ** *
63567110 TAA-AAGAATAAA-ACT-AATGATCTTATCTAATTCA-TCGATTTAATTACAGTTTACCAATTAT
1 TAACAAGAATAAAGAATCAATGATC-AATCTAATTCACT-GATTTAATTACAGAGTACCAATCAT
*
63567171 CCTCTATTGAT
64 CCTCTATTGAC
63567182 TAACAAGAATAAAGAATCAATGATCAATCTAATTCACTGA
1 TAACAAGAATAAAGAATCAATGATCAATCTAATTCACTGA
63567222 ATTACAGATT
Statistics
Matches: 93, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
71 8 0.09
72 41 0.44
73 11 0.12
74 25 0.27
75 8 0.09
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (74 bp):
TAACAAGAATAAAGAATCAATGATCAATCTAATTCACTGATTTAATTACAGAGTACCAATCATCC
TCTATTGAC
Found at i:63582420 original size:24 final size:22
Alignment explanation
Indices: 63582372--63582426 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
63582362 CTTATTTTCT
63582372 TTTTATTTTTAAATTTTAATTAA
1 TTTTATTTTTAAATTTT-ATTAA
63582395 TTTTATTTGTTAAATATTT-TTCAA
1 TTTTATTT-TTAAAT-TTTATT-AA
63582419 -TTTATTTT
1 TTTTATTTT
63582427 GTATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.03
23 17 0.59
24 8 0.28
25 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTAAATTTTATTAA
Found at i:63587269 original size:43 final size:43
Alignment explanation
Indices: 63587220--63587307 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
63587210 ATCCTTCAAA
63587220 AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
1 AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
* *
63587263 AACAGATGAAGAGTCGGAGTAATATAGTTTTAATCCATATGAG
1 AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
63587306 AA
1 AA
63587308 ACAGGCAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (43 bp):
AACAGATGAAGAGTCGGAGTAAAATAGTTCTAATCCATATGAG
Done.