Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 4 of 325
Found at i:873084 original size:25 final size:25
Alignment explanation
Indices: 873042--873147 Score: 94
Period size: 24 Copynumber: 4.3 Consensus size: 25
873032 AATTCATATT
873042 CGGGAATGCTCATACGAGCACATA-AA
1 CGGGAA-GCTCATACGAGC-CATATAA
* * *
873068 CGGGAAGCTCTTTCGAGCTATATAA
1 CGGGAAGCTCATACGAGCCATATAA
* * *
873093 CGGGAAGTTTAGGA-GAGCCAT-TAA
1 CGGGAAGCTCA-TACGAGCCATATAA
*
873117 CGGGAAGCTCATACGAGCCA-ATAT
1 CGGGAAGCTCATACGAGCCATATAA
873141 CGGGAAG
1 CGGGAAG
873148 TTCAAGCGAC
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.02
24 30 0.48
25 26 0.41
26 6 0.10
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCATACGAGCCATATAA
Found at i:873161 original size:24 final size:24
Alignment explanation
Indices: 873093--873195 Score: 100
Period size: 24 Copynumber: 4.3 Consensus size: 24
873083 AGCTATATAA
* * * * *
873093 CGGGAAGTTTAGGAGAGCCATTAA
1 CGGGAAGTTCAAGCGAGCCAATAT
*
873117 CGGGAAGCTCATA-CGAGCCAATAT
1 CGGGAAGTTCA-AGCGAGCCAATAT
*
873141 CGGGAAGTTCAAGCGACCCAATAT
1 CGGGAAGTTCAAGCGAGCCAATAT
**
873165 CGAAAAGTTCAAGCGAGCCAATAT
1 CGGGAAGTTCAAGCGAGCCAATAT
*
873189 CAGGAAG
1 CGGGAAG
873196 CTCTGGAGAG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.98
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (24 bp):
CGGGAAGTTCAAGCGAGCCAATAT
Found at i:873269 original size:25 final size:24
Alignment explanation
Indices: 873179--873266 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
873169 AAGTTCAAGC
*
873179 GAGCCAATATCAGGAAGCTCTGGA
1 GAGCCAATATCAGGAAGCTCTGAA
*
873203 GAGTC-ATATTCTAGGAAGCTCGTGAAA
1 GAGCCAATA-TC-AGGAAGCTC-TG-AA
** *
873230 GAGCCTTTAATCGGGAAGCTCTGAA
1 GAGCCAAT-ATCAGGAAGCTCTGAA
873255 GAGCCAAATATC
1 GAGCC-AATATC
873267 GGGGCACTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
23 3 0.06
24 6 0.12
25 19 0.38
26 5 0.10
27 13 0.26
28 3 0.06
29 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (24 bp):
GAGCCAATATCAGGAAGCTCTGAA
Found at i:873355 original size:24 final size:25
Alignment explanation
Indices: 873322--873396 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 25
873312 CACAACCAAT
*
873322 CGGGATGCTCCTAAGAGCTAT-TAA
1 CGGGAAGCTCCTAAGAGCTATATAA
* * *
873346 TGGGAAGCTCGC-AAGAACCATATAA
1 CGGGAAGCTC-CTAAGAGCTATATAA
* *
873371 CGAGAAGCTCATAAGAGCTA-ATAA
1 CGGGAAGCTCCTAAGAGCTATATAA
873395 CG
1 CG
873397 AGATGCTCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
24 21 0.54
25 18 0.46
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCCTAAGAGCTATATAA
Found at i:873386 original size:25 final size:24
Alignment explanation
Indices: 873349--873404 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
873339 CTATTAATGG
*
873349 GAAGCTCGCAAGAACCATATAACGA
1 GAAGCTCACAAGAACCA-ATAACGA
* * *
873374 GAAGCTCATAAGAGCTAATAACGA
1 GAAGCTCACAAGAACCAATAACGA
*
873398 GATGCTC
1 GAAGCTC
873405 TTTCGAGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (24 bp):
GAAGCTCACAAGAACCAATAACGA
Found at i:874253 original size:18 final size:19
Alignment explanation
Indices: 874218--874257 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
874208 CTTCGTCTCC
874218 TTCTTTCTCCCTTTTCTTT
1 TTCTTTCTCCCTTTTCTTT
*
874237 TTCTTTCTTCC-TTTCTTT
1 TTCTTTCTCCCTTTTCTTT
874255 TTC
1 TTC
874258 CTCCTGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTCTTTCTCCCTTTTCTTT
Found at i:877576 original size:17 final size:17
Alignment explanation
Indices: 877556--877602 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 17
877546 TTGTTATAAG
877556 TATTATTTTTAATTATA
1 TATTATTTTTAATTATA
*
877573 TATTATTATTACTTATTATA
1 TATTATT-TT--TAATTATA
877593 TATTATTTTT
1 TATTATTTTT
877603 CTTAAATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.31
18 2 0.08
19 2 0.08
20 14 0.54
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTTTTAATTATA
Found at i:877580 original size:10 final size:10
Alignment explanation
Indices: 877567--877599 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
877557 ATTATTTTTA
877567 ATTATATATT
1 ATTATATATT
877577 ATTAT-TACTT
1 ATTATATA-TT
877587 ATTATATATT
1 ATTATATATT
877597 ATT
1 ATT
877600 TTTCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATATATT
Found at i:877678 original size:2 final size:2
Alignment explanation
Indices: 877671--877699 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
877661 ATTAATTACT
877671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
877700 TGTTTATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:881248 original size:47 final size:48
Alignment explanation
Indices: 881127--881257 Score: 201
Period size: 48 Copynumber: 2.8 Consensus size: 48
881117 GGAATGGAAA
881127 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGT
* * * * *
881175 AACATAGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGT
*
881222 AACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACAT
881258 GTAACGTGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 32 0.44
48 41 0.56
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGT
Found at i:881272 original size:38 final size:38
Alignment explanation
Indices: 881221--881297 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
881211 ATTGATTCAT
*
881221 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAATGGATATACCACGGTTAAACATG
* *
881259 TAACGTGGTGCTAAATGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAATGGATATACCACGGTTAAACATG
881297 T
1 T
881298 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAATGGATATACCACGGTTAAACATG
Found at i:883879 original size:21 final size:21
Alignment explanation
Indices: 883855--883900 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
883845 CTCACAATTA
883855 ATTA-AAAAATTAT-GTGCAACT
1 ATTATAAAAATT-TCGTGCAA-T
*
883876 ATTATGAAAATTTCGTGCAAT
1 ATTATAAAAATTTCGTGCAAT
883897 ATTA
1 ATTA
883901 GAACATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (21 bp):
ATTATAAAAATTTCGTGCAAT
Found at i:883885 original size:22 final size:21
Alignment explanation
Indices: 883860--883908 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
883850 AATTAATTAA
883860 AAAATTAT-GTGCAACTATTATG
1 AAAATT-TCGTGCAA-TATTATG
883882 AAAATTTCGTGCAATATTA-G
1 AAAATTTCGTGCAATATTATG
*
883902 AACATTT
1 AAAATTT
883909 TTTCCCAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 6 0.24
22 12 0.48
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAATTTCGTGCAATATTATG
Found at i:887163 original size:34 final size:34
Alignment explanation
Indices: 887120--887187 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
887110 CCTTGCTCGT
* *
887120 GAGGCAATACAGGGGTTCTAGCGCCTAGAGAGCA
1 GAGGCAATACAAGGGTTCTAGCACCTAGAGAGCA
*
887154 GAGGCAATACAAGGTTTCTAGCACCTAGAGAGCA
1 GAGGCAATACAAGGGTTCTAGCACCTAGAGAGCA
887188 CCTTGTGCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.16
Consensus pattern (34 bp):
GAGGCAATACAAGGGTTCTAGCACCTAGAGAGCA
Found at i:895958 original size:28 final size:29
Alignment explanation
Indices: 895895--895958 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
895885 TAATCCTAAA
895895 TTAATAATAATAAAATTACACTTTAATCTT
1 TTAA-AATAATAAAATTACACTTTAATCTT
* *
895925 TCAAAATAATAAAAATTA-A-TTTAATTTT
1 TTAAAATAAT-AAAATTACACTTTAATCTT
895953 TTAAAA
1 TTAAAA
895959 ATTATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 13 0.43
29 7 0.23
30 10 0.33
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (29 bp):
TTAAAATAATAAAATTACACTTTAATCTT
Found at i:895959 original size:29 final size:29
Alignment explanation
Indices: 895895--895969 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
895885 TAATCCTAAA
*
895895 TTAATAATAATAAAATTACACTTTAATCT
1 TTAAAAATAATAAAATTACACTTTAATCT
* *
895924 TTCAAAATAATAAAAATTA-A-TTTAATTTT
1 TTAAAAATAAT-AAAATTACACTTTAA-TCT
*
895953 TTAAAAATTATTAAAAT
1 TTAAAAA-TAATAAAAT
895970 ATAAACTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 5 0.13
29 23 0.61
30 10 0.26
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAAAATAATAAAATTACACTTTAATCT
Found at i:895981 original size:15 final size:16
Alignment explanation
Indices: 895961--895990 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
895951 TTTTAAAAAT
895961 TATTAAAAT-ATAAAC
1 TATTAAAATAATAAAC
895976 TATTAAAATAATAAA
1 TATTAAAATAATAAA
895991 ATTATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TATTAAAATAATAAAC
Found at i:897581 original size:129 final size:131
Alignment explanation
Indices: 897344--897632 Score: 322
Period size: 129 Copynumber: 2.2 Consensus size: 131
897334 ACGGGAGATT
*
897344 GCAACCCAGCACGATAGGGCACT-ATTCCCCGAACTGCCAAACATCGAACACTTCTTTCGTTTTA
1 GCAACCCAGCACGATAGGGCA-TGATTCCCCGAACTACCAAACATCGAACAC-TCTTTCGTTTTA
* * * * * * *
897408 GAGGGTTTTTAGAAAACGTGAATGAAACTTCGAAGGGATCTTCGATTGTTTAAAGCAAATGAAAA
64 GAAGGTTTTTAGAAAACATGAATGAAACCTCAAAGGAATATTCGATTGTTTAAAGCAAACGAAAA
*
897473 AGC
129 ACC
* * *
897476 GCAACTCAGCACGATAGGGCATGATTCTCC-AA-TCACCAAACATCGAACA-TCTTTTGTTTT-G
1 GCAACCCAGCACGATAGGGCATGATTCCCCGAACT-ACCAAACATCGAACACTCTTTCGTTTTAG
* ** *
897537 AAAGGTTTTTA-ATAAACATGAGTGAAAACCT-AAAGGAATATTCGATTGTTTTGAGCAAACGAG
65 -AAGGTTTTTAGA-AAACATGAATG-AAACCTCAAAGGAATATTCGATTGTTTAAAGCAAACGAA
897600 AAACC
127 AAACC
*
897605 ACAACCCAGCACGATAGGGCATGATTCC
1 GCAACCCAGCACGATAGGGCATGATTCC
897633 TGAATCGTCA
Statistics
Matches: 133, Mismatches: 19, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
128 2 0.02
129 82 0.62
130 6 0.05
131 17 0.13
132 26 0.20
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (131 bp):
GCAACCCAGCACGATAGGGCATGATTCCCCGAACTACCAAACATCGAACACTCTTTCGTTTTAGA
AGGTTTTTAGAAAACATGAATGAAACCTCAAAGGAATATTCGATTGTTTAAAGCAAACGAAAAAC
C
Found at i:897840 original size:132 final size:132
Alignment explanation
Indices: 897569--897941 Score: 385
Period size: 132 Copynumber: 2.8 Consensus size: 132
897559 TGAAAACCTA
* * * *** * * *
897569 AAGGAATATTCGATTGTTTTGAGCAAACGAGAAACCACAACCCAGCACGATAGGGCATGATTCCT
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC-
* * *** * * * ** * * *
897634 G--AATCGTCAAACGCCGAATATTGCCTTCGTTTTAAATGATTTTT-AGAAGACATGCGTGAAAT
65 GCAAATTGCCAAAAATCGAATCTCGCCTCCGTTTTAAAAAATTTTTGA-AAGGCACGAGTGAAAT
897696 TTTG
129 TTTG
* * *
897700 GAGGGATATTTGGTTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
* *
897765 CAAATTGCCAAAAATCGCA-CATCGCCTCCGTTTTAAAGAATTTTTGAAAGGCACGAGTGAAATT
66 CAAATTGCCAAAAATCGAATC-TCGCCTCCGTTTTAAAAAATTTTTGAAAGGCACGAGTGAAATT
897829 TTG
130 TTG
* * *
897832 AAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCG
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
* * * *
897897 CGAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAAAATTTTT
66 CAAATTGCCAAAAATCGAATCTCGCCTCCGTTTTAAAAAATTTTT
897942 AAATGGATAC
Statistics
Matches: 199, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
130 1 0.01
131 52 0.26
132 144 0.72
133 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (132 bp):
AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
CAAATTGCCAAAAATCGAATCTCGCCTCCGTTTTAAAAAATTTTTGAAAGGCACGAGTGAAATTT
TG
Found at i:902459 original size:14 final size:16
Alignment explanation
Indices: 902434--902465 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
902424 TCAACCTTTA
902434 ATTTTTATAAT-ATTT
1 ATTTTTATAATAATTT
902449 ATTTTTA-AATAATTT
1 ATTTTTATAATAATTT
902464 AT
1 AT
902466 GTAATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.19
15 13 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTATAATAATTT
Found at i:903659 original size:21 final size:21
Alignment explanation
Indices: 903635--903714 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
903625 GTCCCTGGTC
903635 CACACGGGCGTGTGCCTTAGT
1 CACACGGGCGTGTGCCTTAGT
* * *
903656 CACAC-GACTGTGTGCCTCATTT
1 CACACGGGC-GTGTGCCTTA-GT
* *
903678 CACACGGGTGTGTG-TTTCAGT
1 CACACGGGCGTGTGCCTT-AGT
*
903699 CACACGGTCGTGTGCC
1 CACACGGGCGTGTGCC
903715 CCTCTTCACA
Statistics
Matches: 43, Mismatches: 11, Indels: 9
0.68 0.17 0.14
Matches are distributed among these distances:
20 2 0.05
21 28 0.65
22 12 0.28
23 1 0.02
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.28
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTTAGT
Found at i:907084 original size:31 final size:31
Alignment explanation
Indices: 907049--907116 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
907039 CTTAACAACA
* *
907049 CAATGACTTGAATACAAACATTT-GAATAATT
1 CAATGACTTAAATAAAAAC-TTTAGAATAATT
*
907080 CAATGACTTAAATAAAAACTTTAGAATAGTT
1 CAATGACTTAAATAAAAACTTTAGAATAATT
907111 CAATGA
1 CAATGA
907117 TCAAATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTAGAATAATT
Found at i:909028 original size:4 final size:4
Alignment explanation
Indices: 909019--909051 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
909009 TATACACATT
*
909019 TAAA TAAA TAAA TAAA TAAA TAAG TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
909052 TTATATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:909570 original size:21 final size:21
Alignment explanation
Indices: 909546--909634 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
909536 CACACATGCC
* *
909546 CGTGTGGACATGGGACACGCT
1 CGTGTAGACATAGGACACGCT
* * * *
909567 CGTGTGGACCTGGGACACGCC
1 CGTGTAGACATAGGACACGCT
*
909588 CGTGTAGACCTAGGACACGCT
1 CGTGTAGACATAGGACACGCT
*
909609 CGTGTAGCCATAGGACACGCT
1 CGTGTAGACATAGGACACGCT
909630 CGTGT
1 CGTGT
909635 TTTAGACTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.19, C:0.28, G:0.34, T:0.19
Consensus pattern (21 bp):
CGTGTAGACATAGGACACGCT
Found at i:912506 original size:26 final size:26
Alignment explanation
Indices: 912470--912579 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
912460 CATGAAATTC
912470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
912496 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
912522 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
912548 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
912574 TTATCA
1 TTATCA
912580 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:917269 original size:3 final size:3
Alignment explanation
Indices: 917261--917289 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
917251 GCCGCCTATA
917261 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
917290 ATTTACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:921416 original size:9 final size:11
Alignment explanation
Indices: 921394--921419 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
921384 ATTAAAAGCG
921394 TATACGTAATA
1 TATACGTAATA
921405 TATACGTAATA
1 TATACGTAATA
921416 TATA
1 TATA
921420 AAATAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (11 bp):
TATACGTAATA
Found at i:921438 original size:18 final size:18
Alignment explanation
Indices: 921415--921466 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
921405 TATACGTAAT
921415 ATATAAAATA-AAGTATAC
1 ATATAAAATATAA-TATAC
*
921433 ATATAATATATAATATAC
1 ATATAAAATATAATATAC
921451 --ATAAAATATATATATA
1 ATATAAAATATA-ATATA
921467 ATACTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 14 0.47
19 2 0.07
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
ATATAAAATATAATATAC
Found at i:921606 original size:2 final size:2
Alignment explanation
Indices: 921591--921625 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
921581 ACTAATAGTA
921591 AT AT -T AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
921626 AGTGTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:938728 original size:46 final size:43
Alignment explanation
Indices: 938668--938872 Score: 214
Period size: 38 Copynumber: 4.8 Consensus size: 43
938658 TTTGACGTGA
* * * *
938668 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA-TTTCT-TCAGGT
*
938714 TGCCATGGTATCTTTCAACCATGGTCTTA-CA---C-ACAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTTCTTCAGGT
*
938752 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTC-T-TCAGGT
*
938798 TGCCATGGTATCTTTCAACCATGGTCTTA-CA---C-ACAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTTCTTCAGGT
938836 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTC
938873 ATATCAGAGA
Statistics
Matches: 137, Mismatches: 9, Indels: 29
0.78 0.05 0.17
Matches are distributed among these distances:
38 66 0.48
40 5 0.04
41 1 0.01
43 2 0.01
44 4 0.03
46 59 0.43
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (43 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTTCTTCAGGT
Found at i:938763 original size:38 final size:38
Alignment explanation
Indices: 938712--938868 Score: 233
Period size: 38 Copynumber: 3.9 Consensus size: 38
938702 TTTCTGTCAT
938712 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
*
938750 GTTGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAG
938796 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
938834 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
938869 TTTCATATCA
Statistics
Matches: 109, Mismatches: 2, Indels: 16
0.86 0.02 0.13
Matches are distributed among these distances:
38 67 0.61
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
Found at i:938809 original size:84 final size:84
Alignment explanation
Indices: 938668--938879 Score: 338
Period size: 84 Copynumber: 2.5 Consensus size: 84
938658 TTTGACGTGA
* * * * *
938668 TGCCATAGTGTCTTTC-AACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAAAC-ATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCA
938731 ACCATGGTCTTACACACAGGT
64 ACCATGGTCTTACACACAGGT
938752 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
938817 CATGGTCTTACACACAGGT
66 CATGGTCTTACACACAGGT
*
938836 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAG
938880 AGAGCACACT
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
83 4 0.03
84 113 0.94
85 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (84 bp):
TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACACAGGT
Found at i:941008 original size:11 final size:11
Alignment explanation
Indices: 940992--941036 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
940982 CTTTATATAT
940992 TAATAAAATAC
1 TAATAAAATAC
941003 TAATAAAATATC
1 TAATAAAATA-C
* *
941015 TTATTAAAATAT
1 -TAATAAAATAC
941027 TAATAAAATA
1 TAATAAAATA
941037 ATATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 19 0.66
12 1 0.03
13 9 0.31
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAC
Found at i:941021 original size:27 final size:27
Alignment explanation
Indices: 940989--941068 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
940979 TTTCTTTATA
*
940989 TATTAATAAAATACTAATAAAATATCT
1 TATTAATAAAATAATAATAAAATATCT
*
941016 TATTAA-AATATTAATAA-AATAATAT-T
1 TATTAATAA-AATAATAATAA-AATATCT
* *
941042 TATCTAATTAAATAATTATAAAATATC
1 TAT-TAATAAAATAATAATAAAATATC
941069 AAAATATCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
26 8 0.19
27 31 0.74
28 3 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TATTAATAAAATAATAATAAAATATCT
Found at i:941022 original size:24 final size:24
Alignment explanation
Indices: 940986--941041 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
940976 TTCTTTCTTT
940986 ATATATTAATAAAATACTAATAAA
1 ATATATTAATAAAATACTAATAAA
* * *
941010 ATATCTTATTAAAATATTAATAAA
1 ATATATTAATAAAATACTAATAAA
941034 ATAATATT
1 AT-ATATT
941042 TATCTAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATATTAATAAAATACTAATAAA
Found at i:942249 original size:16 final size:17
Alignment explanation
Indices: 942218--942251 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
942208 GATAAAAAAT
*
942218 GAATACTACGATATAAA
1 GAATAATACGATATAAA
942235 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
942251 G
1 G
942252 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:942842 original size:16 final size:15
Alignment explanation
Indices: 942803--942843 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
942793 TACATAACAT
942803 ATATATATAAAAAAA
1 ATATATATAAAAAAA
942818 ATA-ATATAAAAATGAA
1 ATATATATAAAAA--AA
942834 ATATA-ATAAA
1 ATATATATAAA
942844 GATTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 3 0.13
16 10 0.43
17 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
ATATATATAAAAAAA
Found at i:942914 original size:2 final size:2
Alignment explanation
Indices: 942907--942976 Score: 60
Period size: 2 Copynumber: 36.5 Consensus size: 2
942897 ATGAAGTAAC
* *
942907 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA AT A- AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
942947 AT AGT AT AT GA- AA AT AT A- AT A- AT AT AT AT A
1 AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT A
942977 AGAGATGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
1 5 0.09
2 48 0.86
3 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:943010 original size:3 final size:3
Alignment explanation
Indices: 943004--943063 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
942994 ATTTAAGAAA
* * *
943004 AAT AAT ATAT AAT AAGT AAT AAT AAT ATAT AATT AAA AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
943053 AAT AA- AAT AAT
1 AAT AAT AAT AAT
943064 TTTATAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 32 0.70
4 12 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:943027 original size:20 final size:20
Alignment explanation
Indices: 942927--943057 Score: 71
Period size: 20 Copynumber: 6.5 Consensus size: 20
942917 ATATATATAT
*
942927 ATATATAATAAATAATAAATA
1 ATATATAATAAGTAAT-AATA
*
942948 TAGTATATGAA-AATATAATAAT-
1 -A-TATAT-AATAA-GTAATAATA
*
942970 ATATATAAGAGATGTAA-AATA
1 ATATATAATA-A-GTAATAATA
* *
942991 ATA-AT-TTAAG-AAAAATA
1 ATATATAATAAGTAATAATA
943008 ATATATAATAAGTAATAATA
1 ATATATAATAAGTAATAATA
*
943028 ATATATAATTAA-AAATAATA
1 ATATATAA-TAAGTAATAATA
*
943048 CT-TATAATAA
1 ATATATAATAA
943058 AATAATTTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.02
17 8 0.09
18 6 0.07
19 12 0.13
20 33 0.36
21 12 0.13
22 1 0.01
23 10 0.11
24 7 0.08
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATATAATAAGTAATAATA
Found at i:943035 original size:10 final size:10
Alignment explanation
Indices: 942911--943057 Score: 56
Period size: 10 Copynumber: 14.1 Consensus size: 10
942901 AGTAACATAT
942911 ATATATATATA
1 ATATATA-ATA
942922 TATATATATATA
1 -ATATATA-ATA
*
942934 ATAAATAATAA
1 ATATATAAT-A
942945 ATATAGTATATGA
1 ATATA-TA-AT-A
*
942958 AAATATAATA
1 ATATATAATA
942968 ATATAT-ATAA
1 ATATATAAT-A
* *
942978 GAGATGTAA-A
1 -ATATATAATA
942988 ATA-ATAATTTA
1 ATATATAA--TA
* *
942999 AGA-AAAATA
1 ATATATAATA
943008 ATATATAATA
1 ATATATAATA
943018 AGTA-ATAATA
1 A-TATATAATA
943028 ATATATAATTA
1 ATATATAA-TA
*
943039 A-AAATAATA
1 ATATATAATA
*
943048 CT-TATAATA
1 ATATATAATA
943057 A
1 A
943058 AATAATTTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 31
0.68 0.11 0.20
Matches are distributed among these distances:
8 3 0.03
9 18 0.17
10 32 0.31
11 28 0.27
12 16 0.15
13 7 0.07
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (10 bp):
ATATATAATA
Found at i:943035 original size:17 final size:16
Alignment explanation
Indices: 942907--943079 Score: 61
Period size: 17 Copynumber: 10.0 Consensus size: 16
942897 ATGAAGTAAC
942907 ATATATATATATATATATA
1 ATATATA-ATA-ATA-ATA
942926 TATATATAATAAATAATA
1 -ATATATAAT-AATAATA
*
942944 A-ATATAGTATATGAA-A
1 ATATATAATA-AT-AATA
942960 ATATAATAAT-ATATATAA
1 ATAT-ATAATAATA-AT-A
* *
942978 GAGATGTAA-AATAATA
1 -ATATATAATAATAATA
* * *
942994 ATTTAAGAAAAATAAT-
1 ATAT-ATAATAATAATA
943010 ATATAATAAGTAATAATA
1 ATAT-ATAA-TAATAATA
*
943028 ATATATAATTAAAAATA
1 ATATATAA-TAATAATA
943045 ATACTTATAATAA-AATA
1 ATA--TATAATAATAATA
*
943062 ATTTTATAATATATAATA
1 A-TATATAATA-ATAATA
943080 TAAAAGTAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
15 4 0.03
16 30 0.25
17 39 0.32
18 26 0.22
19 13 0.11
20 8 0.07
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (16 bp):
ATATATAATAATAATA
Found at i:943042 original size:37 final size:41
Alignment explanation
Indices: 943001--943084 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
942991 ATAATTTAAG
*
943001 AAAAATAATA-TATAAT-AAGTAA-TAATAATATATAAT-T
1 AAAAATAATACTATAATAAAATAATTAATAATATATAATAT
*
943038 AAAAATAATACTTATAATAAAATAATTTTATAATATATAATAT
1 AAAAATAATAC-TATAATAAAATAA-TTAATAATATATAATAT
943081 AAAA
1 AAAA
943085 GTAAAATTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
37 10 0.26
39 6 0.15
40 5 0.13
42 13 0.33
43 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (41 bp):
AAAAATAATACTATAATAAAATAATTAATAATATATAATAT
Found at i:944713 original size:84 final size:83
Alignment explanation
Indices: 944557--944802 Score: 339
Period size: 84 Copynumber: 3.0 Consensus size: 83
944547 TTCAATTTGT
* * * * * *
944557 AAGGATGTCAAATCGTCTTGAGTCTGTCTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
* *
944622 CTTGTTCCTTGTAAGCAT
66 TTTGTTCCTTGTAAGCAC
* * *
944640 AAGGGTGCTTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCG
1 AAGGATGC-CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
*
944705 ATTTGTTCCTTGTAAGTAC
65 ATTTGTTCCTTGTAAGCAC
* * **
944724 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGTTATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
944789 TTTGTTCCTTGTAA
66 TTTGTTCCTTGTAA
944803 ATACAAGAAT
Statistics
Matches: 143, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 71 0.50
84 72 0.50
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:944776 original size:83 final size:83
Alignment explanation
Indices: 944557--944823 Score: 345
Period size: 83 Copynumber: 3.2 Consensus size: 83
944547 TTCAATTTGT
* * * * * *
944557 AAGGATGTCAAATCGTCTTGAGTCTGTCTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
* * *
944622 CTTGTTCCTTGTAAGCAT
66 TTTGTTCCTTGTAAGTAC
* * *
944640 AAGGGTGCTTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCG
1 AAGGATGC-CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
944705 ATTTGTTCCTTGTAAGTAC
65 ATTTGTTCCTTGTAAGTAC
* * **
944724 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGTTATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
944789 TTTGTTCCTTGTAAATAC
66 TTTGTTCCTTGTAAGTAC
* * *
944807 AAGAATACCAAATCATC
1 AAGGATGCCAAACCATC
944824 ATGGATCTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
83 88 0.55
84 72 0.45
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGTAC
Found at i:944962 original size:119 final size:119
Alignment explanation
Indices: 944750--945194 Score: 746
Period size: 119 Copynumber: 3.7 Consensus size: 119
944740 CTTGAGTCTG
* * *
944750 TTTGAGAACATCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAATACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
944815 CAAATCATCATGGATCTACTTCAATATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
* *
944869 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
944934 CAAATCATCTTGGATCTACTTTAGTATAATCATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
944988 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
945053 CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
* * * * * *
945107 TTTGAGAATGTCTAAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTATAGACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
945172 CAAATCATCTTGGATCTACTTCA
66 CAAATCATCTTGGATCTACTTCA
945195 ACATAAATGT
Statistics
Matches: 307, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 307 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
Found at i:956555 original size:16 final size:17
Alignment explanation
Indices: 956524--956557 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
956514 AGATAAAAAT
*
956524 GAATACTACGATATAAA
1 GAATAATACGATATAAA
956541 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
956557 G
1 G
956558 CAAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:957313 original size:3 final size:3
Alignment explanation
Indices: 957307--957366 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
957297 ATTTAAGAAA
* * *
957307 AAT AAT ATAT AAT AAGT AAT AAT AAT ATAT AATT AAA AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
957356 AAT AA- AAT AAT
1 AAT AAT AAT AAT
957367 TTTATAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 32 0.70
4 12 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:957330 original size:20 final size:20
Alignment explanation
Indices: 957266--957360 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
957256 TATGAAAATA
*
957266 TAATAAT-ATATATAAGAGATG
1 TAATAATAATATATAATA-A-G
*
957287 TAA-AATAATA-AT-TTAAG
1 TAATAATAATATATAATAAG
*
957304 -AAAAATAATATATAATAAG
1 TAATAATAATATATAATAAG
957323 TAATAATAATATATAATTAA-
1 TAATAATAATATATAA-TAAG
* *
957343 AAATAATACT-TATAATAA
1 TAATAATAATATATAATAA
957361 AATAATTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
16 2 0.03
17 8 0.13
18 6 0.10
19 10 0.16
20 27 0.44
21 9 0.15
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (20 bp):
TAATAATAATATATAATAAG
Found at i:957345 original size:37 final size:41
Alignment explanation
Indices: 957304--957387 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
957294 ATAATTTAAG
*
957304 AAAAATAATA-TATAAT-AAGTAA-TAATAATATATAAT-T
1 AAAAATAATACTATAATAAAATAATTAATAATATATAATAT
*
957341 AAAAATAATACTTATAATAAAATAATTTTATAATATATAATAT
1 AAAAATAATAC-TATAATAAAATAA-TTAATAATATATAATAT
957384 AAAA
1 AAAA
957388 GTAAAATTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
37 10 0.26
39 6 0.15
40 5 0.13
42 13 0.33
43 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (41 bp):
AAAAATAATACTATAATAAAATAATTAATAATATATAATAT
Found at i:957363 original size:54 final size:52
Alignment explanation
Indices: 957288--957445 Score: 135
Period size: 54 Copynumber: 2.9 Consensus size: 52
957278 TAAGAGATGT
* *
957288 AAAATAATAATT-TAAGAAAAATAATATATAATAAGTAATAATAATATATAATTA
1 AAAATAATACTTATAA-TAAAATAATATATAATAA-TAATAATAA-ATATAATTA
* *
957342 AAAATAATACTTATAATAAAATAATTTTATAATATATAAT-ATAAAAGTAAAATTA
1 AAAATAATACTTATAATAAAATAA-TATATAATA-ATAATAAT-AAA-TATAATTA
* **
957397 GAAATAA-ACGAATAATAAAATATATATATGGAATAAT-ATAATAAATATA
1 AAAATAATACTTATAATAAAATA-ATATAT--AATAATAATAATAAATATA
957446 GGACTAAATT
Statistics
Matches: 86, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
53 3 0.03
54 43 0.50
55 35 0.41
56 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (52 bp):
AAAATAATACTTATAATAAAATAATATATAATAATAATAATAAATATAATTA
Found at i:957373 original size:16 final size:17
Alignment explanation
Indices: 957287--957375 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
957277 ATAAGAGATG
*
957287 TAAAATAATAATT-TAA
1 TAAAATAATACTTATAA
*
957303 GAAAAATAATA--TATAA
1 -TAAAATAATACTTATAA
*
957319 TAAGTAATAATAATATATAA
1 TAA--AATAATACT-TATAA
957339 TTAAAAATAATACTTATAA
1 -T-AAAATAATACTTATAA
*
957358 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
957374 TA
1 TA
957376 TATAATATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.05
16 11 0.18
17 24 0.40
18 1 0.02
19 5 0.08
20 13 0.22
21 1 0.02
22 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:957432 original size:21 final size:21
Alignment explanation
Indices: 957406--957445 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
957396 AGAAATAAAC
*
957406 GAATAATAAAATATATATATG
1 GAATAATAAAATAAATATATG
*
957427 GAATAATATAATAAATATA
1 GAATAATAAAATAAATATA
957446 GGACTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
GAATAATAAAATAAATATATG
Found at i:958579 original size:17 final size:20
Alignment explanation
Indices: 958557--958593 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
958547 TAGTTTTAAT
958557 TGGGTC-AC-GGGT-GTTTG
1 TGGGTCTACTGGGTAGTTTG
958574 TGGGTCTACTGGGTAGTTTG
1 TGGGTCTACTGGGTAGTTTG
958594 GGCCTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 4 0.24
20 5 0.29
ACGTcount: A:0.08, C:0.11, G:0.43, T:0.38
Consensus pattern (20 bp):
TGGGTCTACTGGGTAGTTTG
Found at i:969678 original size:15 final size:15
Alignment explanation
Indices: 969654--969694 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
969644 TTTATTATTA
969654 TTATTA-TTTTAAAT
1 TTATTATTTTTAAAT
969668 TTATGTATTTTTAAAT
1 TTAT-TATTTTTAAAT
969684 ATT-TTATTTTT
1 -TTATTATTTTT
969695 TTTCTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 9 0.38
17 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTATTTTTAAAT
Found at i:969694 original size:16 final size:17
Alignment explanation
Indices: 969649--969695 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
969639 TCTCCTTTAT
969649 TATTATTATTATTTTAAA
1 TATTATTATT-TTTTAAA
969667 T-TTATGTA-TTTTTAAA
1 TATTAT-TATTTTTTAAA
969683 TATT-TTATTTTTT
1 TATTATTATTTTTT
969696 TTCTTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.08
16 14 0.54
17 7 0.27
18 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTATTATTTTTTAAA
Found at i:973122 original size:25 final size:25
Alignment explanation
Indices: 973057--973107 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
973047 GATTGCATAC
973057 TTAGAAAAAATTAATTAGGTGATGA
1 TTAGAAAAAATTAATTAGGTGATGA
973082 TTAGAAAAAATTAATTAGGTGATGA
1 TTAGAAAAAATTAATTAGGTGATGA
973107 T
1 T
973108 GTGACACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (25 bp):
TTAGAAAAAATTAATTAGGTGATGA
Found at i:976251 original size:6 final size:7
Alignment explanation
Indices: 976232--976258 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
976222 CTACCCCTTC
976232 AATTTTT
1 AATTTTT
976239 AATTTTT
1 AATTTTT
976246 AATTTTT
1 AATTTTT
976253 AATTTT
1 AATTTT
976259 CTTTCCACTC
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:978234 original size:21 final size:22
Alignment explanation
Indices: 978208--978253 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
978198 TGTGGGGTCA
978208 ACACGCCCATATGAA-GGAGGC
1 ACACGCCCATATGAAGGGAGGC
* *
978229 ACACGCCCCTGTGAAGGGAGGC
1 ACACGCCCATATGAAGGGAGGC
978251 ACA
1 ACA
978254 TGGTGGTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.09
Consensus pattern (22 bp):
ACACGCCCATATGAAGGGAGGC
Found at i:978769 original size:13 final size:12
Alignment explanation
Indices: 978747--978780 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
978737 GGCTCGCTCG
978747 TATTAATTTTTTA
1 TATT-ATTTTTTA
978760 TATTA-TTTTTA
1 TATTATTTTTTA
978771 TATTATTTTT
1 TATTATTTTT
978781 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:978786 original size:13 final size:11
Alignment explanation
Indices: 978754--978781 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
978744 TCGTATTAAT
978754 TTTTTATATTA
1 TTTTTATATTA
978765 TTTTTATATTA
1 TTTTTATATTA
978776 TTTTTA
1 TTTTTA
978782 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:978973 original size:19 final size:20
Alignment explanation
Indices: 978936--978973 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
978926 CCTTTAAAAT
978936 AATAAGATTATTAACAATAA
1 AATAAGATTATTAACAATAA
978956 AATAAG-TT-TTATACAATA
1 AATAAGATTATTA-ACAATA
978974 TCCAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 8 0.47
20 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
AATAAGATTATTAACAATAA
Found at i:981120 original size:19 final size:21
Alignment explanation
Indices: 981098--981139 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
981088 TATAAACTTT
*
981098 AAATATAAA-TTA-TAAAAAA
1 AAATATAAAGATATTAAAAAA
*
981117 AAATTTAAAGATATTAAAAAA
1 AAATATAAAGATATTAAAAAA
981138 AA
1 AA
981140 GTTTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATATAAAGATATTAAAAAA
Found at i:986150 original size:2 final size:2
Alignment explanation
Indices: 986143--986170 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
986133 GTGAAAAAGG
986143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
986171 GAAAAGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:991347 original size:29 final size:31
Alignment explanation
Indices: 991299--991356 Score: 102
Period size: 29 Copynumber: 1.9 Consensus size: 31
991289 AGATTACAAA
991299 ATCATATCTTCAAGATTGCATATCATATCAT
1 ATCATATCTTCAAGATTGCATATCATATCAT
991330 ATCATATC-T-AAGATTGCATATCATATC
1 ATCATATCTTCAAGATTGCATATCATATC
991357 TAAGATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 18 0.67
30 1 0.04
31 8 0.30
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (31 bp):
ATCATATCTTCAAGATTGCATATCATATCAT
Found at i:991351 original size:19 final size:19
Alignment explanation
Indices: 991327--991370 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
991317 CATATCATAT
991327 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
991346 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
991365 CATATC
1 CATATC
991371 CTTAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:991531 original size:23 final size:22
Alignment explanation
Indices: 991490--991532 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
991480 CTTGGACTTC
**
991490 ATTTTTTTTTTGGGTTTATTAT
1 ATTTTTTTTTTGGACTTATTAT
991512 ATTTTTATTTTTGGACTTATT
1 ATTTTT-TTTTTGGACTTATT
991533 TCTGGGCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.16, C:0.02, G:0.12, T:0.70
Consensus pattern (22 bp):
ATTTTTTTTTTGGACTTATTAT
Found at i:992784 original size:79 final size:79
Alignment explanation
Indices: 992653--992818 Score: 226
Period size: 79 Copynumber: 2.1 Consensus size: 79
992643 GCGGAGTACA
* * * * *
992653 GAGGGAGTTACTTTGACAGGTTAGATGAAGATAGGAAAATTTGGCATAATGGAGGAATGGACGAA
1 GAGGGAGTTACTTTAACAGGTTAGATAAAGATAAGAAAATTTGACATAATGGAGGAATGGACAAA
*
992718 CTGAAAGGAGACTC
66 CTAAAAGGAGACTC
* * * *
992732 GAGGGAGTTACTTTAACGGGTTAGATAAAGATAAGAAAATTTGACGTGATGGAGGAATGGGCAAA
1 GAGGGAGTTACTTTAACAGGTTAGATAAAGATAAGAAAATTTGACATAATGGAGGAATGGACAAA
*
992797 CTAAAAGGAGACTT
66 CTAAAAGGAGACTC
992811 GA-GGAGTT
1 GAGGGAGTT
992819 TGGTGGCATC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
78 6 0.08
79 70 0.92
ACGTcount: A:0.37, C:0.08, G:0.33, T:0.22
Consensus pattern (79 bp):
GAGGGAGTTACTTTAACAGGTTAGATAAAGATAAGAAAATTTGACATAATGGAGGAATGGACAAA
CTAAAAGGAGACTC
Found at i:994245 original size:12 final size:12
Alignment explanation
Indices: 994228--994257 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
994218 CGCCATGTTC
994228 TATCTTTCCATT
1 TATCTTTCCATT
994240 TATCTTTCCATT
1 TATCTTTCCATT
994252 TATCTT
1 TATCTT
994258 CTTTATTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:1009028 original size:18 final size:20
Alignment explanation
Indices: 1008982--1009028 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
1008972 TGATCATTTG
1008982 AATATTTCATTTCAAAAAAT
1 AATATTTCATTTCAAAAAAT
*
1009002 ATATAATTT-ATTTC-AAATAT
1 A-AT-ATTTCATTTCAAAAAAT
1009022 AATATTT
1 AATATTT
1009029 TTAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 4 0.17
19 2 0.08
20 7 0.29
21 7 0.29
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTTCATTTCAAAAAAT
Found at i:1013387 original size:24 final size:23
Alignment explanation
Indices: 1013330--1013389 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
1013320 ATGAATTTTT
*
1013330 AGTATTAAATTTATATAAAAAATT
1 AGTATTAAA-TTATATAAAAAATA
1013354 AGTATGTTAAATTAGTA-AAAAGAATA
1 AGTA--TTAAATTA-TATAAAA-AATA
1013380 AGTATTAAAT
1 AGTATTAAAT
1013390 ATAATTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (23 bp):
AGTATTAAATTATATAAAAAATA
Found at i:1016975 original size:18 final size:18
Alignment explanation
Indices: 1016947--1016990 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1016937 TGACTTCATT
1016947 TATAT-TATTTTAAAAAA
1 TATATATATTTTAAAAAA
* * *
1016964 TATTTATATTTTATAATA
1 TATATATATTTTAAAAAA
1016982 TATATATAT
1 TATATATAT
1016991 ATATAAGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATATTTTAAAAAA
Found at i:1020260 original size:2 final size:2
Alignment explanation
Indices: 1020255--1020315 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
1020245 TATGCATGTC
1020255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1020297 AT AC AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1020316 TTATGTACCC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1029401 original size:2 final size:2
Alignment explanation
Indices: 1029394--1029420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1029384 ATAATATTAG
1029394 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1029421 ATAGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1029488 original size:12 final size:11
Alignment explanation
Indices: 1029449--1029484 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
1029439 ATGACTAATG
1029449 ATAT-TAAAAT
1 ATATATAAAAT
1029459 ATATATAATAAT
1 ATATATAA-AAT
1029471 ATATATAAAAT
1 ATATATAAAAT
1029482 ATA
1 ATA
1029485 ATATTAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 9 0.38
12 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:1029701 original size:13 final size:14
Alignment explanation
Indices: 1029683--1029713 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1029673 ATGTACGAAT
1029683 ATATACATATA-TA
1 ATATACATATATTA
1029696 ATATACATATATTA
1 ATATACATATATTA
1029710 ATAT
1 ATAT
1029714 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:1029813 original size:12 final size:12
Alignment explanation
Indices: 1029775--1029814 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
1029765 TGAAAATAAT
1029775 TAAT-ATATTAA
1 TAATAATATTAA
* *
1029786 TAAAAATACTAA
1 TAATAATATTAA
1029798 TAATAATATTAA
1 TAATAATATTAA
1029810 TAATA
1 TAATA
1029815 TGTAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:1031932 original size:71 final size:71
Alignment explanation
Indices: 1031693--1031942 Score: 240
Period size: 74 Copynumber: 3.5 Consensus size: 71
1031683 AATTAAAAGA
* * * * * *
1031693 CTCAACTCACCTCTCGTAATATGAATTGACTCTTTAAGAT--A-GAATTTGAAAATACCTTAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TTT-AGATAAATGAAATTGAAATTACCTCAACG
1031755 TGCCGCAAGG
63 TGCC-CAAGG
* * *
1031765 CTCAACTCACCTCTCGCAATATGAGTCGATTTTAGATTTAATGGGAAATTGAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-TAAAT--GAAATTGAAATTACCTCAACG
1031830 TGCCCAAGG
63 TGCCCAAGG
* * *
1031839 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AACAT-AAATTGAAATTACCTCAACGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAA-ATGAAATTGAAATTACCTCAACGTG
***
1031902 TCTTGAGG
65 -CCCAAGG
*
1031910 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
1031943 CTTGGAAAAC
Statistics
Matches: 152, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
69 3 0.02
70 25 0.16
71 35 0.23
72 28 0.18
73 2 0.01
74 37 0.24
75 22 0.14
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTAGATAAATGAAATTGAAATTACCTCAACGTGC
CCAAGG
Found at i:1044500 original size:2 final size:2
Alignment explanation
Indices: 1044493--1044525 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1044483 ATAATATTAG
1044493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1044526 ATAGTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1044593 original size:12 final size:11
Alignment explanation
Indices: 1044554--1044589 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
1044544 ATGACTAATG
1044554 ATAT-TAAAAT
1 ATATATAAAAT
1044564 ATATATAATAAT
1 ATATATAA-AAT
1044576 ATATATAAAAT
1 ATATATAAAAT
1044587 ATA
1 ATA
1044590 ATATTAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 9 0.38
12 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:1044806 original size:13 final size:14
Alignment explanation
Indices: 1044788--1044818 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1044778 ATGTACGAAT
1044788 ATATACATATA-TA
1 ATATACATATATTA
1044801 ATATACATATATTA
1 ATATACATATATTA
1044815 ATAT
1 ATAT
1044819 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:1044918 original size:12 final size:12
Alignment explanation
Indices: 1044880--1044919 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
1044870 TGAAAATAAT
1044880 TAAT-ATATTAA
1 TAATAATATTAA
* *
1044891 TAAAAATACTAA
1 TAATAATATTAA
1044903 TAATAATATTAA
1 TAATAATATTAA
1044915 TAATA
1 TAATA
1044920 TGTAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:1048084 original size:20 final size:20
Alignment explanation
Indices: 1048059--1048104 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1048049 AAAATTGTCA
1048059 TTTTTTTACTATTTTATTGC
1 TTTTTTTACTATTTTATTGC
* * *
1048079 TTTTTTTCCTGTTTTGTTGC
1 TTTTTTTACTATTTTATTGC
1048099 TATTTT
1 T-TTTT
1048105 CTTGTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.72
Consensus pattern (20 bp):
TTTTTTTACTATTTTATTGC
Found at i:1048715 original size:31 final size:31
Alignment explanation
Indices: 1048679--1048753 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
1048669 TAATTTGGTC
1048679 ACTAAATTATTTTAAAGTTTTCATTTAAGTA
1 ACTAAATTATTTTAAAGTTTTCATTTAAGTA
** * *
1048710 ACTAAATTATTCAAAAGTTTTTATTTAAGTC
1 ACTAAATTATTTTAAAGTTTTCATTTAAGTA
* *
1048741 ACTGAATTTTTTT
1 ACTAAATTATTTT
1048754 TTTTAAAGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (31 bp):
ACTAAATTATTTTAAAGTTTTCATTTAAGTA
Found at i:1053095 original size:19 final size:19
Alignment explanation
Indices: 1053071--1053110 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1053061 TAGTACATTA
1053071 TTCCAATTATAAAATAAAC
1 TTCCAATTATAAAATAAAC
1053090 TTCCAATTATAAAATAAAC
1 TTCCAATTATAAAATAAAC
1053109 TT
1 TT
1053111 AGTACAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (19 bp):
TTCCAATTATAAAATAAAC
Found at i:1053179 original size:23 final size:23
Alignment explanation
Indices: 1053113--1053179 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
1053103 ATAAACTTAG
* *
1053113 TACAATTCTAGCCTAGCATTTAA
1 TACAATTCTAACCTAACATTTAA
* * *
1053136 AACAAATTCTAGA-ATAA-ATTTAC
1 TAC-AATTCTA-ACCTAACATTTAA
1053159 TACAATTCTAACCTAACATTT
1 TACAATTCTAACCTAACATTT
1053180 GCAGCCTAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
21 1 0.03
22 10 0.30
23 13 0.39
24 9 0.27
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.34
Consensus pattern (23 bp):
TACAATTCTAACCTAACATTTAA
Found at i:1056514 original size:3 final size:3
Alignment explanation
Indices: 1056506--1056542 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1056496 AAACAAACAC
1056506 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1056543 TGGATGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1058107 original size:15 final size:16
Alignment explanation
Indices: 1058087--1058130 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1058077 TCAAAATTGG
*
1058087 ATTATTTTGAGTT-GA
1 ATTATTTTGAATTCGA
*
1058102 ATTATTTTAAATTCGA
1 ATTATTTTGAATTCGA
1058118 ATTATTTTGAATT
1 ATTATTTTGAATT
1058131 TAGATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (16 bp):
ATTATTTTGAATTCGA
Found at i:1058121 original size:16 final size:15
Alignment explanation
Indices: 1058081--1058130 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1058071 AATTTTTCAA
*
1058081 AATTGGATTATTTTG
1 AATTGAATTATTTTG
* *
1058096 AGTTGAATTATTTTA
1 AATTGAATTATTTTG
1058111 AATTCGAATTATTTTG
1 AATT-GAATTATTTTG
1058127 AATT
1 AATT
1058131 TAGATTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (15 bp):
AATTGAATTATTTTG
Found at i:1075924 original size:14 final size:13
Alignment explanation
Indices: 1075892--1075934 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
1075882 ACCAAAATCA
*
1075892 TAAATT-TTATAT
1 TAAATTATTAAAT
*
1075904 AAAATTATTGAAAT
1 TAAATTATT-AAAT
1075918 TAAATTATTAAAT
1 TAAATTATTAAAT
1075931 TAAA
1 TAAA
1075935 AATACTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 10 0.38
14 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
TAAATTATTAAAT
Found at i:1079008 original size:136 final size:137
Alignment explanation
Indices: 1078764--1079049 Score: 484
Period size: 136 Copynumber: 2.1 Consensus size: 137
1078754 CATTGGGCCT
** * * * *
1078764 AAGCCCATTCAGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1078829 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
1078893 CATATGC
131 CATATGC
1078900 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
* *
1078965 AGCCCTTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
1079030 CATATGC
131 CATATGC
*
1079037 AAGCCTATTTGGG
1 AAGCCCATTTGGG
1079050 GAGACTACTC
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
136 119 0.85
137 21 0.15
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:1080856 original size:26 final size:26
Alignment explanation
Indices: 1080815--1080898 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
1080805 CATGAATTTC
1080815 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
1080841 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
1080867 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
1080893 TTATCA
1 TTATCA
1080899 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:1090100 original size:18 final size:17
Alignment explanation
Indices: 1090067--1090104 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
1090057 TTTATATATG
*
1090067 ATATTAATTATTATAAA
1 ATATTAATTATCATAAA
1090084 ATATTATATTATCATAAA
1 ATATTA-ATTATCATAAA
1090102 ATA
1 ATA
1090105 AATTTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTAATTATCATAAA
Found at i:1094647 original size:43 final size:43
Alignment explanation
Indices: 1094582--1094853 Score: 368
Period size: 43 Copynumber: 6.3 Consensus size: 43
1094572 TTGAAAAAAT
* *
1094582 GCCGCTAAAGATCATGATCTTTAACGGCGCTTTTTCC-ACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTCCTACAAAC
*
1094625 GCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTCCCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* * *
1094667 GCCGCTAAATATCAAGATCTTTAGCGGCGCTTTTCCTACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* * * *
1094710 ACCGCTAAATATCAAGATCTTTAGCGGCGCTTTTCCTACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* * * *
1094753 ACCGCTTAAGATCATAACCTTTAGCGGCACTTTTCCTACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* *
1094796 GCCGCTAAAGATCAAGACCTTTAGCGGCACTTTTCCTACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTACAAAC
*
1094839 GCCGCTAAAAATCAT
1 GCCGCTAAAGATCAT
1094854 AAAATTCAAA
Statistics
Matches: 208, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 5 0.02
42 33 0.16
43 170 0.82
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTACAAAC
Found at i:1095108 original size:19 final size:18
Alignment explanation
Indices: 1095086--1095124 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1095076 ATTTAGAATC
1095086 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAAT-ATA
* *
1095105 AAAATTAAATTAAATATA
1 AAAACTAAAATAAATATA
1095123 AA
1 AA
1095125 GATATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACTAAAATAAATATA
Found at i:1099072 original size:19 final size:19
Alignment explanation
Indices: 1099045--1099089 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
1099035 CTAATCTCTA
*
1099045 TTTTATATTTTATTTTTAT
1 TTTTATATTTCATTTTTAT
*
1099064 TTTTGTATTTCATTTTTAT
1 TTTTATATTTCATTTTTAT
1099083 TTGTTAT
1 TT-TTAT
1099090 CAATGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTATATTTCATTTTTAT
Found at i:1099575 original size:14 final size:14
Alignment explanation
Indices: 1099531--1099569 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1099521 TCATAAACCT
*
1099531 TAAACCCTCAATCA
1 TAAACCCTAAATCA
*
1099545 TATACCCTAAATCA
1 TAAACCCTAAATCA
1099559 TAAACCCTAAA
1 TAAACCCTAAA
1099570 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:1099777 original size:15 final size:15
Alignment explanation
Indices: 1099734--1099787 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
1099724 TATAAACTCT
* *
1099734 TAAT-CCTAGACCCC
1 TAATCCCTAAACCCA
1099748 TAA-CCCTTAAA-CCA
1 TAATCCC-TAAACCCA
1099762 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
1099777 TAATCCATAAA
1 TAATCCCTAAA
1099788 ACTTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:1099784 original size:22 final size:21
Alignment explanation
Indices: 1099745--1099786 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1099735 AATCCTAGAC
*
1099745 CCCTAACCCTTAAACCATAAT
1 CCCTAACCCATAAACCATAAT
*
1099766 CCCTAAACCCATAATCCATAA
1 CCCT-AACCCATAAACCATAA
1099787 AACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCATAAACCATAAT
Found at i:1099986 original size:17 final size:16
Alignment explanation
Indices: 1099955--1099995 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
1099945 CATGTGATGT
*
1099955 TTTTTGGGGTTTAGTA
1 TTTTAGGGGTTTAGTA
1099971 TTTTAGGGG-TTA-TA
1 TTTTAGGGGTTTAGTA
*
1099985 GTTTAGGGGTT
1 TTTTAGGGGTT
1099996 AAGTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (16 bp):
TTTTAGGGGTTTAGTA
Found at i:1099991 original size:14 final size:13
Alignment explanation
Indices: 1099972--1100001 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1099962 GGTTTAGTAT
1099972 TTTAGGGGTTATAG
1 TTTAGGGGTTA-AG
1099986 TTTAGGGGTTAAG
1 TTTAGGGGTTAAG
1099999 TTT
1 TTT
1100002 TTTTAAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (13 bp):
TTTAGGGGTTAAG
Found at i:1100148 original size:41 final size:41
Alignment explanation
Indices: 1100091--1100308 Score: 298
Period size: 41 Copynumber: 5.4 Consensus size: 41
1100081 GTTATATGAC
* *
1100091 TTTTAGCGGCGTTTTACCGAAAGCCCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
1100132 TTTTAGCGGTGTTTTACCAAAAGCGCCGTTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
1100173 TTTTAGCGGCATTTTACCAAAAGCGCTGCTAATGCT-TCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GGT
*
1100214 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* ** *
1100254 TTTTAGCGGCGTTTTAACAAAAAAGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1100294 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
1100309 TGGTAAAACG
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 54 0.34
41 104 0.65
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:1100378 original size:12 final size:12
Alignment explanation
Indices: 1100363--1100388 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1100353 GTTTTTTGGT
1100363 AAAACGCCGCTA
1 AAAACGCCGCTA
1100375 AAAACGCCGCTA
1 AAAACGCCGCTA
1100387 AA
1 AA
1100389 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:1101156 original size:9 final size:9
Alignment explanation
Indices: 1101142--1101172 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1101132 CATCAATCTG
1101142 TTATTCGAA
1 TTATTCGAA
*
1101151 TTATTCGAG
1 TTATTCGAA
1101160 TTATTCGAA
1 TTATTCGAA
1101169 TTAT
1 TTAT
1101173 GAGATTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:1101694 original size:20 final size:20
Alignment explanation
Indices: 1101644--1101695 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1101634 TAATTATTTA
*
1101644 TATTTAATATTATCATAAAT
1 TATTTAATATTATAATAAAT
* *
1101664 TA-TTAATTATTTTAATAATT
1 TATTTAA-TATTATAATAAAT
1101684 TATTTAATATTA
1 TATTTAATATTA
1101696 CAATTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATATTATAATAAAT
Found at i:1101956 original size:22 final size:22
Alignment explanation
Indices: 1101911--1101957 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1101901 TCTTTGATTA
* *
1101911 TTAGCACATTAGTTCTTTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* *
1101933 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCCGT
1101955 TTA
1 TTA
1101958 ATAGTACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:1102882 original size:26 final size:26
Alignment explanation
Indices: 1102846--1102981 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
1102836 TGATACAAAT
*
1102846 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1102872 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
1102898 TGATAATTGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1102924 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
1102950 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
1102976 TGATAA
1 TGATAA
1102982 GAATTTCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:1104700 original size:27 final size:26
Alignment explanation
Indices: 1104596--1104710 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
1104586 TGGAGGAAGC
* *
1104596 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
1104623 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
*
1104650 GTTCTGGTGGCTTTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
** *
1104677 GTATCTGGTAACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
1104704 GTTCTGG
1 GTTCTGG
1104711 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.72
28 15 0.20
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:1104703 original size:54 final size:54
Alignment explanation
Indices: 1104596--1104710 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
1104586 TGGAGGAAGC
**
1104596 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTAACTCTGCCACATATATCT
* * * *
1104650 GTTCTGGTGGCTTTGCCACGATTATCTGTATCTGGTAACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTAACTCTGCCACATATATCT
1104704 GTTCTGG
1 GTTCTGG
1104711 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTAACTCTGCCACATATATCT
Found at i:1105863 original size:23 final size:22
Alignment explanation
Indices: 1105837--1105896 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
1105827 TTTAATTAGA
1105837 TAATTATTATTTATTTAATATTT
1 TAATTA-TATTTATTTAATATTT
* *
1105860 TAATAAGATATTTA-TTATTATTT
1 TAAT--TATATTTATTTAATATTT
1105883 T-ATTAT-TTTATTTA
1 TAATTATATTTATTTA
1105897 GTATATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
22 2 0.06
23 13 0.42
24 6 0.19
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTATATTTATTTAATATTT
Found at i:1105869 original size:31 final size:31
Alignment explanation
Indices: 1105827--1105892 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
1105817 TTTATAATTA
*
1105827 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
* *
1105858 TTTAATAAGATATTTATTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
1105889 TTTA
1 TTTA
1105893 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:1113376 original size:21 final size:21
Alignment explanation
Indices: 1113326--1113382 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1113316 CATCGTTAAG
*
1113326 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
1113347 AGAAGCTCGTAAGAGTTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
*
1113368 AGAAGCTCGTGAGAG
1 AGAAGCTCGTAAGAG
1113383 CTGATCCACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.18
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGTTGAAC
Found at i:1116168 original size:173 final size:173
Alignment explanation
Indices: 1115954--1116291 Score: 543
Period size: 173 Copynumber: 2.0 Consensus size: 173
1115944 TTTATTGGAA
*
1115954 AAAAACGCCGCTAAAGGTAAAGGCTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
1 AAAAACGCCGCTAAAGGTAAAGGCTTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
* *
1116019 GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGC-TCTTAGCGGCGTTTGTGG
66 GGCTTTTAGCGGCGTTT-TGCGAAAAGCGCCGCTAAAGGTCAAGCCTTCTTAGCGGCGTTTGTGG
* *
1116083 GAAAAGCGCCGCTAAAGGTCGAGGCTTTTAGCGGCGTTTGTGGG
130 GAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * ** *
1116127 AAAAGCGCCGTTAAAGGTCGAGGCTTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCGA
1 AAAAACGCCGCTAAAGGTAAAGGCTTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
* * *
1116192 GGCTTTTAGCGGCGTTTTGCGAAAAGCGCCGCTAAAGGTCGAGCCTTTTTAGCGGCGTTTGTGGT
66 GGCTTTTAGCGGCGTTTTGCGAAAAGCGCCGCTAAAGGTCAAGCCTTCTTAGCGGCGTTTGTGGG
1116257 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
131 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1116292 CTTTTTTTAC
Statistics
Matches: 151, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
172 25 0.17
173 126 0.83
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (173 bp):
AAAAACGCCGCTAAAGGTAAAGGCTTTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCAA
GGCTTTTAGCGGCGTTTTGCGAAAAGCGCCGCTAAAGGTCAAGCCTTCTTAGCGGCGTTTGTGGG
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:1116314 original size:43 final size:43
Alignment explanation
Indices: 1115954--1116291 Score: 525
Period size: 43 Copynumber: 7.8 Consensus size: 43
1115944 TTTATTGGAA
* *
1115954 AAAAACGCCGCTAAAGGTAAAGGCTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
1115998 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
1116041 AAAAGCGCCGCTAAAGGTCAAGGCTCTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
1116084 AAAAGCGCCGCTAAAGGTCGAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
1116127 AAAAGCGCCGTTAAAGGTCGAGGCTTTTTAGCGACGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
* *
1116171 AAAAGCGCCGCTAAAGGTCGAGGCTTTTAGCGGCGTTT-TGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
1116213 AAAAGCGCCGCTAAAGGTCGAGCCTTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
*
1116257 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1116292 CTTTTTTTAC
Statistics
Matches: 275, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
42 26 0.09
43 163 0.59
44 86 0.31
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:1116401 original size:31 final size:31
Alignment explanation
Indices: 1116366--1116446 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
1116356 CTTCCTGCAT
* *
1116366 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
1116397 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
1116428 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
1116447 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:1116716 original size:21 final size:21
Alignment explanation
Indices: 1116692--1116737 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1116682 GCTCGTGTCT
*
1116692 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
1116713 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
1116734 CTGC
1 CTGC
1116738 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:1122371 original size:9 final size:9
Alignment explanation
Indices: 1122357--1122564 Score: 125
Period size: 9 Copynumber: 22.6 Consensus size: 9
1122347 TATTTAAGTA
1122357 TTATGTAAG
1 TTATGTAAG
*
1122366 TTATGTAAT
1 TTATGTAAG
*
1122375 TTATGATATG
1 TTATG-TAAG
* * *
1122385 ATATAT-AT
1 TTATGTAAG
*
1122393 TTATGTAAA
1 TTATGTAAG
* *
1122402 TTATAT-AT
1 TTATGTAAG
*
1122410 TTATCTAAG
1 TTATGTAAG
*
1122419 TTATATAAG
1 TTATGTAAG
1122428 TTATGTAAG
1 TTATGTAAG
*
1122437 TTATGTAAA
1 TTATGTAAG
*
1122446 TTATGATATAAAA
1 TTATG---T-AAG
*
1122459 TATATTTAAG
1 T-TATGTAAG
1122469 TATTATGTAAG
1 --TTATGTAAG
1122480 TTATGTAAG
1 TTATGTAAG
* *
1122489 TTATAT-AT
1 TTATGTAAG
*
1122497 TTATCTAAG
1 TTATGTAAG
*
1122506 TTATATAAG
1 TTATGTAAG
*
1122515 TTATATAAG
1 TTATGTAAG
1122524 TTATGTAAG
1 TTATGTAAG
* *
1122533 TTATATATG
1 TTATGTAAG
*
1122542 TTATATAAG
1 TTATGTAAG
*
1122551 TTATGTAAA
1 TTATGTAAG
1122560 TTATG
1 TTATG
1122565 ATATCAAATA
Statistics
Matches: 157, Mismatches: 31, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.10
9 117 0.75
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:1122435 original size:71 final size:69
Alignment explanation
Indices: 1122357--1122518 Score: 191
Period size: 71 Copynumber: 2.3 Consensus size: 69
1122347 TATTTAAGTA
* * * * *
1122357 TTATGTAAGTTATGTAATTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
1122421 ATATAAG
64 ATAT-AG
* *
1122428 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
1122493 ATAT
66 ATAG
* * *
1122497 TTATCTAAGTTATATAAGTTAT
1 TTATGTAAGTTATGTAAATTAT
1122519 ATAAGTTATG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 26 0.33
70 15 0.19
71 38 0.48
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:1122436 original size:18 final size:18
Alignment explanation
Indices: 1122357--1122563 Score: 142
Period size: 18 Copynumber: 11.7 Consensus size: 18
1122347 TATTTAAGTA
* *
1122357 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
1122375 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
1122393 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
1122410 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
1122428 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
1122446 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
1122459 TATATTTAAGTATTATGTAAG
1 T-TATGTAAG--TTATATAAG
*
1122480 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
1122497 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
1122515 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* *
1122533 TTATATATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
1122551 TTATGTAAATTAT
1 TTATGTAAGTTAT
1122564 GATATCAAAT
Statistics
Matches: 150, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
13 4 0.03
14 6 0.04
16 2 0.01
17 37 0.25
18 81 0.54
19 7 0.05
20 10 0.07
21 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:1122467 original size:114 final size:114
Alignment explanation
Indices: 1122333--1122595 Score: 368
Period size: 114 Copynumber: 2.3 Consensus size: 114
1122323 ACTAGTTATG
* * * *
1122333 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* * *
1122397 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
* *
1122447 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
1122512 AAGTTATATAAGTTATGTAAGTTATATATGTTATATAAGTTATGTAAAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
* *
1122561 TATGATATCAAATATATTTATGTATTATGTAAGTT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTT
1122596 TTTTATTTCA
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
112 4 0.03
113 18 0.14
114 111 0.83
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATATAAGTTATGTAAAT
Done.