Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 177 of 228
Found at i:52906846 original size:14 final size:13
Alignment explanation
Indices: 52906823--52906871 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
52906813 CATTTTTTTC
* *
52906823 AAAACGAAAAGAA
1 AAAAAGAAAAAAA
52906836 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
*
52906849 ATAAAAG-AAAAAT
1 A-AAAAGAAAAAAA
52906862 AAAAAGAAAA
1 AAAAAGAAAA
52906872 GCAGAGAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 5 0.16
13 21 0.68
14 5 0.16
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:52909139 original size:16 final size:16
Alignment explanation
Indices: 52909102--52909141 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
52909092 TTGATAAAAT
* *
52909102 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
52909118 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
52909134 TAAAATTA
1 TAAAATTA
52909142 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:52909203 original size:66 final size:72
Alignment explanation
Indices: 52909130--52909275 Score: 205
Period size: 66 Copynumber: 2.1 Consensus size: 72
52909120 AAATTAATTG
*
52909130 TTAGTAAAATTATCAAATTATTAATTG-TTAATTG-T-ACTA-ATT-A-TTGTAATAAAATCTAA
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTAACTATATTAATTTGTAACAAAATCTAA
52909189 CATTTGA
66 CATTTGA
*
52909196 TTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATC
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTTAACTATATTAA-T-TTGTAACAAAATC
52909261 TAACATTTGA
63 TAACATTTGA
52909271 TTAGT
1 TTAGT
52909276 TTACATTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
66 27 0.39
68 7 0.10
69 1 0.01
70 3 0.04
71 3 0.04
72 1 0.01
75 27 0.39
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.45
Consensus pattern (72 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTAACTATATTAATTTGTAACAAAATCTAA
CATTTGA
Found at i:52909235 original size:16 final size:16
Alignment explanation
Indices: 52909211--52909249 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
52909201 AAAATTATCA
* *
52909211 AATTATTAATTGTATT
1 AATTGTTAATTATATT
52909227 AATTGTTAATTATATT
1 AATTGTTAATTATATT
52909243 AATTGTT
1 AATTGTT
52909250 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:52909321 original size:19 final size:18
Alignment explanation
Indices: 52909280--52909324 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
52909270 ATTAGTTTAC
*
52909280 ATTTTTGTCTTATCAAAT
1 ATTTTTGTATTATCAAAT
52909298 ATTTTTGTATTATCAAAT
1 ATTTTTGTATTATCAAAT
52909316 ATTTTTGTA
1 ATTTTTGTA
52909325 AACAAATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTTGTATTATCAAAT
Found at i:52909332 original size:16 final size:17
Alignment explanation
Indices: 52909293--52909332 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
52909283 TTTGTCTTAT
*
52909293 CAAATATTTTTGTATTAT
1 CAAATATTTTTGTA-TAA
52909311 CAAATATTTTTGTA-AA
1 CAAATATTTTTGTATAA
52909327 CAAATA
1 CAAATA
52909333 AGTTTACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
18 14 0.67
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (17 bp):
CAAATATTTTTGTATAA
Found at i:52909510 original size:20 final size:19
Alignment explanation
Indices: 52909444--52909509 Score: 96
Period size: 19 Copynumber: 3.4 Consensus size: 19
52909434 TTTGTCGGGG
*
52909444 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
52909463 AAATAAAATTGAAAACATAA
1 AAATAAAATTGAAAAC-TAA
*
52909483 AAATAAAATTGAAAACTCA
1 AAATAAAATTGAAAACTAA
*
52909502 AACTAAAA
1 AAATAAAA
52909510 ACTTAAACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 24 0.56
20 19 0.44
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.20
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:52909518 original size:39 final size:38
Alignment explanation
Indices: 52909444--52909528 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 38
52909434 TTTGTCGGGG
*
52909444 AAATGAAATTGAAAACTAAAAATAAAATTGAAAACATAA
1 AAATAAAATTGAAAACTAAAAATAAAATT-AAAACATAA
* *
52909483 AAATAAAATTGAAAACTCAAACTAAAAACTT-AAACATAA
1 AAATAAAATTGAAAACTAAAAAT-AAAA-TTAAAACATAA
52909522 AAATAAA
1 AAATAAA
52909529 TATATATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
39 35 0.85
40 4 0.10
41 2 0.05
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.20
Consensus pattern (38 bp):
AAATAAAATTGAAAACTAAAAATAAAATTAAAACATAA
Found at i:52909560 original size:61 final size:61
Alignment explanation
Indices: 52909490--52909612 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
52909480 TAAAAATAAA
52909490 ATTGAAAACTCAAACTAAAAACTTAAACATAAAAATAAATATATATATTTTAGAAAAGAAG
1 ATTGAAAACTCAAACTAAAAACTTAAACATAAAAATAAATATATATATTTTAGAAAAGAAG
52909551 ATTGAAAACTCAAACTAAAAACTTAAACATAAAAATAAATATATATATTTTAGAAAAGAAG
1 ATTGAAAACTCAAACTAAAAACTTAAACATAAAAATAAATATATATATTTTAGAAAAGAAG
52909612 A
1 A
52909613 GTAAATGTCG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.26
Consensus pattern (61 bp):
ATTGAAAACTCAAACTAAAAACTTAAACATAAAAATAAATATATATATTTTAGAAAAGAAG
Found at i:52909712 original size:13 final size:13
Alignment explanation
Indices: 52909688--52909728 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
52909678 AATGAAATTG
52909688 AAAACT-AAAACT
1 AAAACTAAAAACT
52909700 AAAACTAAAAACT
1 AAAACTAAAAACT
*
52909713 TAAACATAAAAA-T
1 AAAAC-TAAAAACT
52909726 AAA
1 AAA
52909729 TATATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 6 0.24
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAACTAAAAACT
Found at i:52909715 original size:50 final size:50
Alignment explanation
Indices: 52909614--52909717 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
52909604 AAAAGAAGAG
* * *
52909614 TAAA-TGTCGGGGAAATGATATTGAAAACATAAAAATAAAATTGAAAACT
1 TAAACTGTCGGGGAAATGAAATTGAAAACATAAAAATAAAACTAAAAACT
*
52909663 TAAACTGTCAGGGGAAATGAAATTGAAAAC-TAAAACTAAAACTAAAAACT
1 TAAACTGTC-GGGGAAATGAAATTGAAAACATAAAAATAAAACTAAAAACT
52909713 TAAAC
1 TAAAC
52909718 ATAAAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
49 4 0.08
50 26 0.53
51 19 0.39
ACGTcount: A:0.54, C:0.10, G:0.14, T:0.22
Consensus pattern (50 bp):
TAAACTGTCGGGGAAATGAAATTGAAAACATAAAAATAAAACTAAAAACT
Found at i:52909762 original size:16 final size:16
Alignment explanation
Indices: 52909741--52909773 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52909731 TATATTTTTT
52909741 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
52909757 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
52909773 A
1 A
52909774 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:52914721 original size:9 final size:9
Alignment explanation
Indices: 52914685--52914731 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
52914675 TAGATTTTAT
52914685 TTTTTATTA
1 TTTTTATTA
*
52914694 TTTGT-TT-
1 TTTTTATTA
*
52914701 TGTTTA-TA
1 TTTTTATTA
52914709 TTTTTATTA
1 TTTTTATTA
52914718 TTTTTATTA
1 TTTTTATTA
52914727 TTTTT
1 TTTTT
52914732 GTGAGATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 4 0.13
8 7 0.23
9 20 0.65
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTA
Found at i:52915471 original size:21 final size:21
Alignment explanation
Indices: 52915443--52915495 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
52915433 AACAGCGGTG
*
52915443 GCGGTGAGATTGTGTACTGTA
1 GCGGTGAGATTGGGTACTGTA
*
52915464 GTGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTGGGTACTGTA
52915485 GCGGTGAGATT
1 GCGGTGAGATT
52915496 AGAAACAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.08, G:0.42, T:0.32
Consensus pattern (21 bp):
GCGGTGAGATTGGGTACTGTA
Found at i:52926757 original size:12 final size:12
Alignment explanation
Indices: 52926742--52926888 Score: 78
Period size: 12 Copynumber: 12.0 Consensus size: 12
52926732 TATTGGTGGA
52926742 GGTGTTGGAGGT
1 GGTGTTGGAGGT
*
52926754 GGTGTTGGTGGT
1 GGTGTTGGAGGT
* * **
52926766 GGTATAGGAATT
1 GGTGTTGGAGGT
** *
52926778 GGAATAGGAGGT
1 GGTGTTGGAGGT
52926790 GGTGTTGGAGGT
1 GGTGTTGGAGGT
*
52926802 GGTGTTGGTGGT
1 GGTGTTGGAGGT
* * **
52926814 GGTATAGGAATT
1 GGTGTTGGAGGT
**
52926826 GGAATTGGAGGT
1 GGTGTTGGAGGT
* *
52926838 GGAGGTATAGGAGTT
1 GG-TGT-T-GGAGGT
*
52926853 GGAGTTGGAGGT
1 GGTGTTGGAGGT
* *
52926865 GGTGGTGGTGGT
1 GGTGTTGGAGGT
*
52926877 GGTGGTGGAGGT
1 GGTGTTGGAGGT
52926889 ATAGGAGGTG
Statistics
Matches: 101, Mismatches: 31, Indels: 6
0.73 0.22 0.04
Matches are distributed among these distances:
12 89 0.88
13 2 0.02
14 3 0.03
15 7 0.07
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.31
Consensus pattern (12 bp):
GGTGTTGGAGGT
Found at i:52926790 original size:27 final size:27
Alignment explanation
Indices: 52926760--52926870 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
52926750 AGGTGGTGTT
*
52926760 GGTGGTGGTATAGGAATTGGAATAGGA
1 GGTGGTGGTATAGGAATTGGAATTGGA
** **
52926787 GGTGGT-GT-T-GGAGGTGG---TGTT
1 GGTGGTGGTATAGGAATTGGAATTGGA
52926808 GGTGGTGGTATAGGAATTGGAATTGGA
1 GGTGGTGGTATAGGAATTGGAATTGGA
* * *
52926835 GGTGGAGGTATAGGAGTTGGAGTTGGA
1 GGTGGTGGTATAGGAATTGGAATTGGA
52926862 GGTGGTGGT
1 GGTGGTGGT
52926871 GGTGGTGGTG
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
21 7 0.11
22 2 0.03
23 1 0.02
24 12 0.18
25 1 0.02
26 2 0.03
27 40 0.62
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (27 bp):
GGTGGTGGTATAGGAATTGGAATTGGA
Found at i:52926807 original size:48 final size:48
Alignment explanation
Indices: 52926742--52926839 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
52926732 TATTGGTGGA
52926742 GGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAATTGGAATAGGAGGT
1 GGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAATTGGAATAGGAGGT
*
52926790 GGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAATTGGAATTGGAGGT
1 GGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAATTGGAATAGGAGGT
52926838 GG
1 GG
52926840 AGGTATAGGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (48 bp):
GGTGTTGGAGGTGGTGTTGGTGGTGGTATAGGAATTGGAATAGGAGGT
Found at i:52926898 original size:15 final size:15
Alignment explanation
Indices: 52926832--52926900 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 15
52926822 AATTGGAATT
52926832 GGAGGTGGAGGTATA
1 GGAGGTGGAGGTATA
* * **
52926847 GGAGTTGGAGTTGGA
1 GGAGGTGGAGGTATA
* * *
52926862 GGTGGTGGTGGTGGT-
1 GGAGGTGGAGGT-ATA
*
52926877 GGTGGTGGAGGTATA
1 GGAGGTGGAGGTATA
52926892 GGAGGTGGA
1 GGAGGTGGA
52926901 ATTGGTGGAG
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
14 1 0.03
15 38 0.95
16 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (15 bp):
GGAGGTGGAGGTATA
Found at i:52926898 original size:24 final size:24
Alignment explanation
Indices: 52926878--52926924 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
52926868 GGTGGTGGTG
*
52926878 GTGGTGGAGGTATAGGAGGTGGAA
1 GTGGTGGAGGCATAGGAGGTGGAA
* *
52926902 TTGGTGGAGGCATAGGAGTTGGA
1 GTGGTGGAGGCATAGGAGGTGGA
52926925 GGCGGAGCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.51, T:0.23
Consensus pattern (24 bp):
GTGGTGGAGGCATAGGAGGTGGAA
Found at i:52939861 original size:8 final size:8
Alignment explanation
Indices: 52939840--52939874 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
52939830 TATCAAATAA
*
52939840 AAATATTT
1 AAATATAT
*
52939848 ATATATAT
1 AAATATAT
52939856 AAATATAT
1 AAATATAT
52939864 AAATATAT
1 AAATATAT
52939872 AAA
1 AAA
52939875 AAGTTCAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AAATATAT
Found at i:52944263 original size:6 final size:6
Alignment explanation
Indices: 52944252--52944277 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52944242 TGCCCACCAT
52944252 CCCTCC CCCTCC CCCTCC CCCTCC CC
1 CCCTCC CCCTCC CCCTCC CCCTCC CC
52944278 GTACACCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.85, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCTCC
Found at i:52946843 original size:44 final size:44
Alignment explanation
Indices: 52946776--52946919 Score: 170
Period size: 44 Copynumber: 3.3 Consensus size: 44
52946766 AACGGGACAA
* *
52946776 ATTTCTGACAAGTGTGGGCTTGAACATATCTTGTGTTCCTCAGCC
1 ATTTCTGATAAGTGT-GGATTGAACATATCTTGTGTTCCTCAGCC
*
52946821 ATTT-TGATAAGTGTAGGATTGAACATATCTTGTGTTCCTCA-AC
1 ATTTCTGATAAGTGT-GGATTGAACATATCTTGTGTTCCTCAGCC
* * *
52946864 -TGTTCTGATAAGTGTGGGTGAGAACATATCTTATGTTCCTCAGCC
1 AT-TTCTGATAAGTGTGGAT-TGAACATATCTTGTGTTCCTCAGCC
52946909 -TTTCTGATAAG
1 ATTTCTGATAAG
52946920 ACAAGTTTGT
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
42 1 0.01
43 6 0.07
44 74 0.85
45 6 0.07
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (44 bp):
ATTTCTGATAAGTGTGGATTGAACATATCTTGTGTTCCTCAGCC
Found at i:52947709 original size:20 final size:21
Alignment explanation
Indices: 52947669--52947710 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
52947659 TAATATATGG
52947669 TATCGATACCTTATTAGAAAA
1 TATCGATACCTTATTAGAAAA
52947690 TATCGATA-CTTAGTTA-AAAA
1 TATCGATACCTTA-TTAGAAAA
52947710 T
1 T
52947711 CAATACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (21 bp):
TATCGATACCTTATTAGAAAA
Found at i:52948999 original size:15 final size:15
Alignment explanation
Indices: 52948992--52949020 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52948982 TTCGCATTCA
52948992 ATCAGTTCACATATC
1 ATCAGTTCACATATC
52949007 ATCAGTTCACATAT
1 ATCAGTTCACATAT
52949021 AACTAACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (15 bp):
ATCAGTTCACATATC
Found at i:52949896 original size:20 final size:19
Alignment explanation
Indices: 52949873--52949914 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
52949863 ATCCTACCCC
52949873 ATAACCAAATAT-AGACATTA
1 ATAA-CAAATATGAGA-ATTA
*
52949893 ATAACAGATATGAGAATTA
1 ATAACAAATATGAGAATTA
52949912 ATA
1 ATA
52949915 TATCATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (19 bp):
ATAACAAATATGAGAATTA
Found at i:52954340 original size:14 final size:14
Alignment explanation
Indices: 52954323--52954352 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
52954313 GCCTTATACA
52954323 AACAATTCGCATAT
1 AACAATTCGCATAT
52954337 AACAATTCGCATAT
1 AACAATTCGCATAT
52954351 AA
1 AA
52954353 ATGGGTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (14 bp):
AACAATTCGCATAT
Found at i:52956945 original size:18 final size:19
Alignment explanation
Indices: 52956922--52956971 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
52956912 AGTTTTTTTT
52956922 AATTATTAAAA-TATAGAA-
1 AATTATTAAAATTATA-AAG
52956940 AATTATTTAAAAATTATAAAG
1 AATTA-TT-AAAATTATAAAG
52956961 AATTATTAAAA
1 AATTATTAAAA
52956972 AATTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 8 0.29
21 9 0.32
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AATTATTAAAATTATAAAG
Found at i:52956979 original size:11 final size:11
Alignment explanation
Indices: 52956938--52956981 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
52956928 TAAAATATAG
*
52956938 AAAATTATTTA
1 AAAATTATTAA
52956949 AAAATTA-TAA
1 AAAATTATTAA
*
52956959 AGAATTATTAA
1 AAAATTATTAA
52956970 AAAATTATTAA
1 AAAATTATTAA
52956981 A
1 A
52956982 TTTATTAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:52957570 original size:11 final size:11
Alignment explanation
Indices: 52957556--52957614 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
52957546 TTTTTAATGA
52957556 TTTTTATAATT
1 TTTTTATAATT
52957567 TTTTTATAA-T
1 TTTTTATAATT
*
52957577 TTTTAATAATT
1 TTTTTATAATT
**
52957588 TTTAAATAA-T
1 TTTTTATAATT
*
52957598 TTTCTATAATT
1 TTTTTATAATT
*
52957609 ATTTTA
1 TTTTTA
52957615 AAAAATCACG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 17 0.43
11 23 0.57
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:52957572 original size:21 final size:21
Alignment explanation
Indices: 52957546--52957615 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
52957536 CATTTAATAA
*
52957546 TTTTTAATGATTTTTATAATT
1 TTTTTAATAATTTTTATAATT
52957567 TTTTT-ATAATTTTTAATAA-T
1 TTTTTAATAATTTTT-ATAATT
*
52957587 TTTTAAATAATTTTCTATAATT
1 TTTTTAATAATTTT-TATAATT
*
52957609 ATTTTAA
1 TTTTTAA
52957616 AAAATCACGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 13 0.32
21 21 0.51
22 7 0.17
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTTTAATAATTTTTATAATT
Found at i:52957608 original size:10 final size:10
Alignment explanation
Indices: 52957538--52957600 Score: 83
Period size: 10 Copynumber: 6.2 Consensus size: 10
52957528 GGACGTTGCA
52957538 TTTAATAATT
1 TTTAATAATT
*
52957548 TTTAATGATT
1 TTTAATAATT
52957558 TTT-ATAATTT
1 TTTAATAA-TT
*
52957568 TTTTATAATT
1 TTTAATAATT
52957578 TTTAATAATT
1 TTTAATAATT
52957588 TTTAAATAATT
1 TTT-AATAATT
52957599 TT
1 TT
52957601 CTATAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
9 3 0.06
10 31 0.66
11 13 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:52958703 original size:16 final size:17
Alignment explanation
Indices: 52958682--52958714 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52958672 TATGTTGATC
52958682 AGAAACA-TATATTATA
1 AGAAACAGTATATTATA
*
52958698 AGAAACAGTCTATTATA
1 AGAAACAGTATATTATA
52958715 CCTGATATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (17 bp):
AGAAACAGTATATTATA
Found at i:52967738 original size:36 final size:36
Alignment explanation
Indices: 52967697--52967887 Score: 240
Period size: 36 Copynumber: 5.0 Consensus size: 36
52967687 GGTAGCTTTA
52967697 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
52967733 GCTACACTTATCTGATCAAGAGACAAAA-TGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGA-AAAAGTGAT-A-----AG---T
52967778 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
52967815 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52967851 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52967887 G
1 G
52967888 GTAGCTTAGC
Statistics
Matches: 139, Mismatches: 4, Indels: 24
0.83 0.02 0.14
Matches are distributed among these distances:
36 97 0.70
37 6 0.04
40 2 0.01
42 2 0.01
45 6 0.04
46 26 0.19
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52967798 original size:82 final size:82
Alignment explanation
Indices: 52967661--52967851 Score: 348
Period size: 82 Copynumber: 2.3 Consensus size: 82
52967651 TTTGAGTACT
52967661 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
52967726 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
52967743 TCTGATCAAGAGACAAAA-TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
1 TCTGATCAAGAGA-AAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
*
52967807 TGATAAGTGCTATACTTA
65 TGATAAGTGCTACACTTA
*
52967825 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
52967852 CTATACTTAT
Statistics
Matches: 105, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
81 4 0.04
82 97 0.92
83 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:52967835 original size:21 final size:20
Alignment explanation
Indices: 52967807--52967872 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
52967797 AGTGAAAAAG
52967807 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
* **
52967827 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGCTATACTTATC
52967843 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
52967863 TGATCAAGTG
1 TGAT-AAGTG
52967873 ACAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGTGCTATACTTATC
Found at i:52975145 original size:46 final size:45
Alignment explanation
Indices: 52975093--52975326 Score: 247
Period size: 36 Copynumber: 5.6 Consensus size: 45
52975083 TTTGAGTACT
* *
52975093 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
52975139 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
**
52975175 TCTGATCAAGACACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
52975221 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
52975257 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
52975302 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
52975327 ATTATACGTA
Statistics
Matches: 159, Mismatches: 10, Indels: 41
0.76 0.05 0.20
Matches are distributed among these distances:
36 57 0.36
37 2 0.01
38 1 0.01
39 2 0.01
40 6 0.04
41 2 0.01
42 4 0.03
43 12 0.08
44 8 0.05
45 14 0.09
46 51 0.32
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:52975230 original size:82 final size:82
Alignment explanation
Indices: 52975093--52975326 Score: 393
Period size: 82 Copynumber: 2.9 Consensus size: 82
52975083 TTTGAGTACT
*
52975093 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
52975158 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
52975175 TCTGATCAAGACACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
52975240 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * *
52975257 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC-AGGGACAAA-T
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
52975319 GATAAGTG
66 GATAAGTG
52975327 ATTATACGTA
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
79 9 0.06
80 7 0.05
81 20 0.14
82 109 0.75
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:52978814 original size:13 final size:13
Alignment explanation
Indices: 52978796--52978821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52978786 AAAGAGATTT
52978796 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
52978809 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
52978822 AAAATTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:52978892 original size:19 final size:20
Alignment explanation
Indices: 52978855--52978894 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
52978845 TCTTTTCGCA
* *
52978855 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
52978875 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
52978894 T
1 T
52978895 AAATACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:52980782 original size:18 final size:19
Alignment explanation
Indices: 52980742--52980781 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
52980732 GCAAATGTTC
52980742 TTTCATTCTTTATGATTTT
1 TTTCATTCTTTATGATTTT
52980761 TTTCATTCTTTCA-GATTTT
1 TTTCATTCTTT-ATGATTTT
52980780 TT
1 TT
52980782 CTGCCAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTATGATTTT
Found at i:52981744 original size:7 final size:7
Alignment explanation
Indices: 52981720--52981767 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
52981710 TTGAGTCGTA
52981720 AAAAATG
1 AAAAATG
*
52981727 ATAATATG
1 A-AAAATG
52981735 AAAAATG
1 AAAAATG
52981742 AAAAAGTG
1 AAAAA-TG
52981750 -AAAATG
1 AAAAATG
*
52981756 AAAACTG
1 AAAAATG
52981763 AAAAA
1 AAAAA
52981768 ATGGAAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.06
7 24 0.71
8 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:52981751 original size:15 final size:15
Alignment explanation
Indices: 52981720--52981781 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
52981710 TTGAGTCGTA
*
52981720 AAAAATGATAATA-TG
1 AAAAATGA-AAAAGTG
52981735 AAAAATGAAAAAGTG
1 AAAAATGAAAAAGTG
*
52981750 -AAAATG-AAAACTG
1 AAAAATGAAAAAGTG
*
52981763 AAAAAATGGAAAAGT-
1 -AAAAATGAAAAAGTG
52981778 AAAA
1 AAAA
52981782 CGGAGAGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 6 0.15
14 13 0.32
15 16 0.40
16 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.16, T:0.16
Consensus pattern (15 bp):
AAAAATGAAAAAGTG
Found at i:52981782 original size:22 final size:21
Alignment explanation
Indices: 52981719--52981775 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
52981709 TTTGAGTCGT
*
52981719 AAAAAATGATAATATGAAAAATG
1 AAAAAATGA-AA-ATGAAAACTG
*
52981742 AAAAAGTGAAAATGAAAACTG
1 AAAAAATGAAAATGAAAACTG
52981763 AAAAAATGGAAAA
1 AAAAAAT-GAAAA
52981776 GTAAAACGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.50
22 7 0.23
23 8 0.27
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAAAATGAAAATGAAAACTG
Found at i:52983214 original size:132 final size:132
Alignment explanation
Indices: 52982967--52983716 Score: 1106
Period size: 132 Copynumber: 5.7 Consensus size: 132
52982957 AGAGCAGGTT
* *
52982967 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
52983032 GGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCA
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCA
52983097 AA
131 AA
* * * *
52983099 TATGGTGGATTTTACCTCTCTGATGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * * *
52983164 GAGCAGCAGTGGAATAGATTGAAGATTACAGACCTTATATCCCTATGTAGTAGTGGAGCAGATCA
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCA
52983229 AA
131 AA
* * * *
52983231 GATGGTGGATTTTACCTCCCAGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCTCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
52983296 GGGCAGCAGTGGAATAAATTGAATATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATC-
52983361 AAA
130 AAA
* * *
52983364 -ATAGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCC
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
52983428 GGGCAGCAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCA
52983493 AA
131 AA
* *
52983495 GATGGTAGATTTTACCTCTCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
52983560 GGGCAGCAGTGGAATAGATTGAAGATTACAGATTTTATCTCTCTAGGCAGTAGTGGAGTAGATCA
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCA
52983625 AA
131 AA
* * * * *
52983627 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGAAATATATTGAAGCCAGTAATTCTATCTTCCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * *
52983692 GGTCGGTAGTGGAATCGATCGAAGA
66 GGGCAGCAGTGGAATAGATTGAAGA
52983717 AAGTAGATCT
Statistics
Matches: 559, Mismatches: 57, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 2 0.00
132 554 0.99
133 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCA
AA
Found at i:52983351 original size:44 final size:44
Alignment explanation
Indices: 52983287--52983622 Score: 159
Period size: 44 Copynumber: 7.6 Consensus size: 44
52983277 CCAATAATTC
* * *
52983287 TATCTCTCTGGGCAGCAGTGGAATAAATTGAATATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTACAGATCT
* * * * *
52983331 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAA-AATAGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTA-CAGATCT
* * * * * * *
52983375 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAATAGATTGAA--TATTACAGATCT
**
52983419 TATCTCCCCGGGCAGCAGTGGAATAGATTGAATATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTACAGATCT
* * * * * *** *
52983463 TATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGTAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTACAGATCT
* * * * * * * * *
52983507 TACCTCTCTGAGGTTA-CAGTAGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAATAGATTGAA--TATTACAGATCT
* * *
52983551 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTACAGATCT
* * *
52983595 TATCTCTCTAGGCAGTAGTGGAGTAGAT
1 TATCTCCCTAGGCAGCAGTGGAATAGAT
52983623 CAAAGATGGC
Statistics
Matches: 209, Mismatches: 65, Indels: 36
0.67 0.21 0.12
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 39 0.19
44 118 0.56
45 34 0.16
46 4 0.02
47 1 0.00
48 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTGAATATTACAGATCT
Found at i:52983629 original size:44 final size:44
Alignment explanation
Indices: 52983551--52983647 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
52983541 CCAGTAATTC
* ** *
52983551 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATCAAAGATGACAGATTT
* * * *
52983595 TATCTCTCTAGGCAGTAGTGGAGTAGATCAAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATCAAAGATGACAGATTT
*
52983639 TACCTCCCT
1 TATCTCCCT
52983648 GAGGTTACAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATCAAAGATGACAGATTT
Found at i:52983758 original size:44 final size:44
Alignment explanation
Indices: 52983708--52983849 Score: 185
Period size: 44 Copynumber: 3.2 Consensus size: 44
52983698 TAGTGGAATC
*
52983708 GATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTA
* *
52983752 GATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGTATGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTA
* * *** * *
52983796 GATCAAAGAGAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTA
52983841 GATCGAAGA
1 GATCGAAGA
52983850 TACAAGTCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 70 0.83
45 14 0.17
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (44 bp):
GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTA
Found at i:52983922 original size:44 final size:44
Alignment explanation
Indices: 52983867--52984012 Score: 147
Period size: 44 Copynumber: 3.4 Consensus size: 44
52983857 CTTATCTCCC
*
52983867 TGAAGTAGCAGTGGAGCAGACAGAAGTAACCAATCCTATCTCTT
1 TGAAGTTGCAGTGGAGCAGACAGAAGTAACCAATCCTATCTCTT
* * * * * *
52983911 TGAAGTTGCAGTTGAGCAGATC-GCA-T--CCAGTCTTATCCCTC
1 TGAAGTTGCAGTGGAGCAGA-CAGAAGTAACCAATCCTATCTCTT
* * * * *
52983952 TGAAGTTGCAGAGGAGCAGACAGAAGAAATCGATCCTATCTCCT
1 TGAAGTTGCAGTGGAGCAGACAGAAGTAACCAATCCTATCTCTT
52983996 TGAAGTTGCAGTGGAGC
1 TGAAGTTGCAGTGGAGC
52984013 GGATTAAAAT
Statistics
Matches: 78, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
40 1 0.01
41 31 0.40
43 1 0.01
44 44 0.56
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGACAGAAGTAACCAATCCTATCTCTT
Found at i:52983999 original size:85 final size:85
Alignment explanation
Indices: 52983854--52984012 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
52983844 CGAAGATACA
* * *
52983854 AGTCTTATCTCCCTGAAGTAGCAGTGGAGCAGACAGAAGTAACCAATCCTATCTCTTTGAAGTTG
1 AGTCTTATCTCCCTGAAGTAGCAGAGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTTG
*
52983919 CAGTTGAGCAGATCGCATCC
66 CAGTGGAGCAGATCGCATCC
* * *
52983939 AGTCTTATC-CCTCTGAAGTTGCAGAGGAGCAGACAGAAGAAATCGATCCTATCTCCTTGAAGTT
1 AGTCTTATCTCC-CTGAAGTAGCAGAGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTT
52984003 GCAGTGGAGC
65 GCAGTGGAGC
52984013 GGATTAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 2 0.03
85 64 0.97
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (85 bp):
AGTCTTATCTCCCTGAAGTAGCAGAGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTTG
CAGTGGAGCAGATCGCATCC
Found at i:52987679 original size:21 final size:21
Alignment explanation
Indices: 52987655--52987703 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
52987645 TTTAACATTA
52987655 AGTATCAATACCTTGAATAAG
1 AGTATCAATACCTTGAATAAG
52987676 AGTATCAATACCTTGAATAAG
1 AGTATCAATACCTTGAATAAG
52987697 AGTATCA
1 AGTATCA
52987704 GTACTTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
AGTATCAATACCTTGAATAAG
Found at i:52989688 original size:2 final size:2
Alignment explanation
Indices: 52989683--52989707 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52989673 AACTCGTGGC
52989683 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 T
52989708 TTCTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52996708 original size:31 final size:29
Alignment explanation
Indices: 52996640--52996711 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
52996630 CTCAGGTTAG
*
52996640 ATTTTAGTCACTTATATTTGAAATGTTAT
1 ATTTTAGTCACTTATATTTGAAATGTAAT
* ***
52996669 GTTTTAGTCACTTATATTATCGTGTTGTAAT
1 ATTTTAGTCACTTATATT-T-GAAATGTAAT
52996700 ATTTTAGTCACT
1 ATTTTAGTCACT
52996712 GAGTCGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (29 bp):
ATTTTAGTCACTTATATTTGAAATGTAAT
Found at i:52999817 original size:33 final size:36
Alignment explanation
Indices: 52999740--52999815 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
52999730 TCTGTAAGAA
* *
52999740 ATTATTAATAATATTTTTAAATTATAATATATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
*
52999776 ATTATTAATAATAGTTTTAAACTATAATGTATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
52999812 ATTA
1 ATTA
52999816 ATATTTATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (36 bp):
ATTATTAATAATAGTTTTAAACTATAATATATTAAT
Found at i:53002626 original size:6 final size:7
Alignment explanation
Indices: 53002605--53002634 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
53002595 TGTATATCAA
53002605 TTTCTTT
1 TTTCTTT
53002612 TTTCTTT
1 TTTCTTT
53002619 TTTCTTT
1 TTTCTTT
53002626 TTTCATTT
1 TTTC-TTT
53002634 T
1 T
53002635 ACATATTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTCTTT
Found at i:53009834 original size:5 final size:6
Alignment explanation
Indices: 53009804--53009832 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
53009794 AATGTAAATG
53009804 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
53009833 TATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:53013492 original size:105 final size:105
Alignment explanation
Indices: 53013320--53013993 Score: 724
Period size: 105 Copynumber: 6.4 Consensus size: 105
53013310 GTCAGTTAAT
* * * * * * *
53013320 TGTTTAAGAATTGCGATCTTGAATCAGTTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAAC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
* * * *
53013385 TAACCTTTATAATTCCAATTGTGAACGTAGGTCAGGGACC
66 TAACCTTTATAATTCCAGTTGTGAACATAGGTCAGTGAGC
* * *
53013425 TGTTTAGGAGTTGCAATATTAAATCAGCTAACTCAAAGAAATTTAGGTTATGATCTTAAATCAAC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
* * * *
53013490 TAACCTTTATAATTCCAGCTGTGAATATAGGTTAGTGAGT
66 TAACCTTTATAATTCCAGTTGTGAACATAGGTCAGTGAGC
* * * * *
53013530 TGTTTAAGAGTTGCGATATTAAATCAGCTAACTTAACGAAATTTAGGTTGTGATATTAAATTAGC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
* * * *
53013595 TAACCTTTATAATTCCAGTTGTGAACACATGTTAGCGAGC
66 TAACCTTTATAATTCCAGTTGTGAACATAGGTCAGTGAGC
* * * * * *
53013635 TGTTTAGGAGTTGCGATCTTAAACCAGCTAACTCAAAGAAAATTGGGTTGCGATATTAAATCAGC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
* * * * ** ** *
53013700 TAACTTTTATAATTTCAGTGGTGAACGTAGGTTTGCAATC
66 TAACCTTTATAATTCCAGTTGTGAACATAGGTCAGTGAGC
* * * * * * *
53013740 TGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATTTAGGCTATGATCTTAAATGAAT
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
** * *
53013805 TAACCTTTATAATTCCAACTGTAAATATAGGTCAGTGAGC
66 TAACCTTTATAATTCCAGTTGTGAACATAGGTCAGTGAGC
* * * * * *
53013845 TATTTAGGAGTTGTGATCTTAAATCAACTAACTC--AGAAACTTAGGTTGTGATATTAAATCAGC
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
* *
53013908 TAACCTTTATAATTCTAGTTGTG-ACTGTAGGTCAGTGAGC
66 TAACCTTTATAATTCCAGTTGTGAAC-ATAGGTCAGTGAGC
* ** * *
53013948 TGTTTAGAAGTTATGATCTTAAATCAGCTAACTCAAATAAATTTAG
1 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAG
53013994 ACATGAAAAT
Statistics
Matches: 469, Mismatches: 97, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
102 1 0.00
103 84 0.18
105 384 0.82
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (105 bp):
TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGAAATTTAGGTTGTGATATTAAATCAAC
TAACCTTTATAATTCCAGTTGTGAACATAGGTCAGTGAGC
Found at i:53022461 original size:44 final size:44
Alignment explanation
Indices: 53022403--53022759 Score: 159
Period size: 44 Copynumber: 7.7 Consensus size: 44
53022393 ATTTTAATCC
* * *
53022403 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAACCT
1 GCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAACCT
* * * *
53022447 GCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
1 GCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAACCT
* * * * * *
53022491 GACGCGATCTACTCTACTATAACTTCAGAGAGATAAGA-TCCTTTGTTTTAATCC-
1 ---GC--TCTACTGTA--AT--C-TCAGGGAGATAAGATTAC-TAGCTTCAA-CCT
* * *
53022545 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAACCT
* * * *
53022589 GCT-TCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGACGC
1 GCTCT-ACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA-C---C-T
* * * * * * *
53022638 GATCTACTTTACTGTAA-CTTAAGAGAGATAAGA-TCCTTTGTTTTAA-TT
1 G--CT-C--TACTGTAATC-TCAGGGAGATAAGATTAC-TAGCTTCAACCT
* * *
53022686 CGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 -GCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAACCT
*
53022731 GCTCCACTGTAATCTCAGGGAGATAAGAT
1 GCTCTACTGTAATCTCAGGGAGATAAGAT
53022760 CTATAATTCC
Statistics
Matches: 231, Mismatches: 50, Indels: 64
0.67 0.14 0.19
Matches are distributed among these distances:
43 1 0.00
44 142 0.61
45 7 0.03
46 1 0.00
47 6 0.03
48 1 0.00
49 16 0.07
51 6 0.03
53 6 0.03
54 43 0.19
55 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
GCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAACCT
Found at i:53022559 original size:142 final size:142
Alignment explanation
Indices: 53022265--53022759 Score: 807
Period size: 142 Copynumber: 3.5 Consensus size: 142
53022255 GGCGCTTCGA
*
53022265 TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGA
* * * * * * *
53022330 TAAGA--CCTGACCTCAATCTGATGCGATCTACTCTGCTGTAACTTTAGAGAGATAAGATCTTTT
66 TAAGATTTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTT
*
53022393 ATTTTAATCCGC
131 GTTTTAATCCGC
* *
53022405 TCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAACCTGC-TCTGCTGTAATCTCAGGGAG
1 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTC-GCTGTAATCTCAGGGAG
* *
53022469 ATAAGATTTCTGGCTTCAATCTGACGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTT
65 ATAAGATTTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTT
53022534 TGTTTTAATCCGC
130 TGTTTTAATCCGC
53022547 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGA
*
53022612 TAAGATTTCTGGCTTCAATCTGACGCGATCTACTTTACTGTAACTTAAGAGAGATAAGATCCTTT
66 TAAGATTTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTT
*
53022677 GTTTTAATTCGC
131 GTTTTAATCCGC
* *
53022689 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGA
53022754 TAAGAT
66 TAAGAT
53022760 CTATAATTCC
Statistics
Matches: 331, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
139 2 0.01
140 64 0.19
142 263 0.79
143 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (142 bp):
TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGA
TAAGATTTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTT
GTTTTAATCCGC
Found at i:53042017 original size:20 final size:20
Alignment explanation
Indices: 53041971--53042009 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53041961 TTAGTGCCTT
53041971 GCTTGTACTTCAGTACCCCA
1 GCTTGTACTTCAGTACCCCA
*
53041991 GCTTGTACTTCGGTACCCC
1 GCTTGTACTTCAGTACCCC
53042010 TATTTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.36, G:0.18, T:0.31
Consensus pattern (20 bp):
GCTTGTACTTCAGTACCCCA
Found at i:53043346 original size:25 final size:25
Alignment explanation
Indices: 53043316--53043409 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
53043306 GTCACGACCC
*
53043316 ACAGCTCGTATGAGCATACTGATTT
1 ACAGCTCATATGAGCATACTGATTT
* *
53043341 ATAGCTCATGA-GAGCATATTGATCTT
1 ACAGCTCAT-ATGAGCATACTGAT-TT
* * *
53043367 -CAGCTCGAT-TGAGCATACCGGTTC
1 ACAGCTC-ATATGAGCATACTGATTT
53043391 ACAGCTCATATGAGCATAC
1 ACAGCTCATATGAGCATAC
53043410 ATGTACATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
24 3 0.05
25 47 0.85
26 5 0.09
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAGCTCATATGAGCATACTGATTT
Found at i:53051551 original size:20 final size:18
Alignment explanation
Indices: 53051515--53051596 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 18
53051505 ACACTGTTTG
*
53051515 TACTTCGGTACCCCCTATT
1 TACTTCGATA-CCCCTATT
53051534 TATCATTCGATACCCCTAATT
1 TA-C-TTCGATACCCCT-ATT
*
53051555 GTACTTCGGTACCCCTATTT
1 -TACTTCGATACCCCTA-TT
* *
53051575 GTACTTCGGTACCCCTGTT
1 -TACTTCGATACCCCTATT
53051594 TAC
1 TAC
53051597 ACGTTCGTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
18 3 0.05
19 5 0.09
20 35 0.64
21 10 0.18
22 2 0.04
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.38
Consensus pattern (18 bp):
TACTTCGATACCCCTATT
Found at i:53064541 original size:29 final size:29
Alignment explanation
Indices: 53064504--53064581 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
53064494 TCAGAGTCTC
*
53064504 ACCACAAAGGCATTCTTTTAATAAAGATA
1 ACCACAAAGGCATCCTTTTAATAAAGATA
* * *
53064533 ACCATAAAGGTATCCTTTTAATAGAGATA
1 ACCACAAAGGCATCCTTTTAATAAAGATA
* *
53064562 GCCACAAAGGC-TCCATTTAA
1 ACCACAAAGGCATCCTTTTAA
53064582 CAGAGTTAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 8 0.20
29 33 0.80
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (29 bp):
ACCACAAAGGCATCCTTTTAATAAAGATA
Found at i:53064608 original size:28 final size:28
Alignment explanation
Indices: 53064509--53064686 Score: 144
Period size: 28 Copynumber: 6.2 Consensus size: 28
53064499 GTCTCACCAC
* * * *
53064509 AAAGGCATTCTTTTAATAAAGATAACCAT
1 AAAGGC-TTCCTTTAACAGAGATAGCCAT
* *
53064538 AAAGG-TATCCTTTTAATAGAGATAGCCAC
1 AAAGGCT-TCC-TTTAACAGAGATAGCCAT
*
53064567 AAAGGC-TCCATTTAACAGAGTTAGCCAT
1 AAAGGCTTCC-TTTAACAGAGATAGCCAT
* * * * **
53064595 AAATGCTTCCTTTAATAGAAATCGTTAT
1 AAAGGCTTCCTTTAACAGAGATAGCCAT
* * *
53064623 AAAGGCTTTCTTTTAACAGAAACAGCCAT
1 AAAGGC-TTCCTTTAACAGAGATAGCCAT
*
53064652 AAAGGCTTCCTTTAACAGGGATAGCCAT
1 AAAGGCTTCCTTTAACAGAGATAGCCAT
53064680 AAAGGCT
1 AAAGGCT
53064687 CACTTTTAGG
Statistics
Matches: 118, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 67 0.57
29 50 0.42
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (28 bp):
AAAGGCTTCCTTTAACAGAGATAGCCAT
Found at i:53064693 original size:57 final size:56
Alignment explanation
Indices: 53064534--53064694 Score: 162
Period size: 57 Copynumber: 2.8 Consensus size: 56
53064524 ATAAAGATAA
* * ***
53064534 CCATAAAGG-TATCCTTTTAATAGAGATAGCCACAAAGGCTCCATTTAACAGAGTTAG
1 CCATAAAGGCT-TCC-TTTAATAGAGATAGCCATAAAGGCTCCTTTTAACAGAAACAG
* * * ** *
53064591 CCATAAATGCTTCCTTTAATAGAAATCGTTATAAAGGCTTTCTTTTAACAGAAACAG
1 CCATAAAGGCTTCCTTTAATAGAGATAGCCATAAAGGC-TCCTTTTAACAGAAACAG
* *
53064648 CCATAAAGGCTTCCTTTAACAGGGATAGCCATAAAGGCTCACTTTTA
1 CCATAAAGGCTTCCTTTAATAGAGATAGCCATAAAGGCTC-CTTTTA
53064695 GGGGAATTGC
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
56 20 0.24
57 61 0.74
58 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (56 bp):
CCATAAAGGCTTCCTTTAATAGAGATAGCCATAAAGGCTCCTTTTAACAGAAACAG
Found at i:53070276 original size:24 final size:25
Alignment explanation
Indices: 53070199--53070282 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 25
53070189 ATAGCTCAAA
* * *
53070199 AGAGCGTCTCGTTATAA-GCCCTCTC
1 AGAGCTTCCCGTTATAATGCTCT-TC
*
53070224 AG-GCTTCCCGTTATAGTGCTCTTGC
1 AGAGCTTCCCGTTATAATGCTCTT-C
*
53070249 -GAGCTTCCCTTTA-AATGCTCTTC
1 AGAGCTTCCCGTTATAATGCTCTTC
*
53070272 AGAGCATCCCG
1 AGAGCTTCCCG
53070283 ACTGGTTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 29 0.62
25 17 0.36
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (25 bp):
AGAGCTTCCCGTTATAATGCTCTTC
Found at i:53085804 original size:4 final size:4
Alignment explanation
Indices: 53085797--53085826 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
53085787 TGCATGCATG
53085797 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
53085827 GTTTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:53090139 original size:24 final size:24
Alignment explanation
Indices: 53090110--53090162 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
53090100 ATTAGTAAGT
* * *
53090110 TAAATAAACTATGCTAGTAAATGC
1 TAAATAAACTATACTAATAAATAC
* *
53090134 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
53090158 TAAAT
1 TAAAT
53090163 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:53093588 original size:18 final size:18
Alignment explanation
Indices: 53093549--53093590 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
53093539 ATTCCAAATT
*
53093549 TTTTATAATTATTAAGTA
1 TTTTATAATTATTAAGGA
*
53093567 TTTTA-AATTATTTAGGA
1 TTTTATAATTATTAAGGA
53093584 GTTTTAT
1 -TTTTAT
53093591 GTTAACAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTATAATTATTAAGGA
Found at i:53102910 original size:18 final size:18
Alignment explanation
Indices: 53102883--53102922 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
53102873 GCTCATAAGG
*
53102883 TTATATAATGACATTTAA
1 TTATAGAATGACATTTAA
53102901 TTATAGAATGACATTTAA
1 TTATAGAATGACATTTAA
53102919 TTAT
1 TTAT
53102923 TGAGTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (18 bp):
TTATAGAATGACATTTAA
Found at i:53103433 original size:16 final size:16
Alignment explanation
Indices: 53103412--53103448 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
53103402 AGTTTTGTAA
53103412 AAGAATTTTACGGTTC
1 AAGAATTTTACGGTTC
53103428 AAGAATTTTACGGTTC
1 AAGAATTTTACGGTTC
53103444 AAGAA
1 AAGAA
53103449 AATTTTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (16 bp):
AAGAATTTTACGGTTC
Found at i:53105599 original size:16 final size:16
Alignment explanation
Indices: 53105578--53105609 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53105568 ATTATTGAGA
53105578 GGTGTGTTTTCTTTGT
1 GGTGTGTTTTCTTTGT
53105594 GGTGTGTTTTCTTTGT
1 GGTGTGTTTTCTTTGT
53105610 TCGTAGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.06, G:0.31, T:0.62
Consensus pattern (16 bp):
GGTGTGTTTTCTTTGT
Found at i:53106313 original size:16 final size:16
Alignment explanation
Indices: 53106292--53106324 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53106282 CTTTTAGCGA
*
53106292 CTCTAAGCTAGGTTGT
1 CTCTAAGCTAAGTTGT
53106308 CTCTAAGCTAAGTTGT
1 CTCTAAGCTAAGTTGT
53106324 C
1 C
53106325 CTGGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (16 bp):
CTCTAAGCTAAGTTGT
Found at i:53113118 original size:7 final size:7
Alignment explanation
Indices: 53113106--53113131 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53113096 TCTCTTGATA
53113106 AATTATT
1 AATTATT
53113113 AATTATT
1 AATTATT
53113120 AATTATT
1 AATTATT
53113127 AATTA
1 AATTA
53113132 ATCTATAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTATT
Found at i:53113397 original size:21 final size:21
Alignment explanation
Indices: 53113381--53113460 Score: 58
Period size: 23 Copynumber: 3.7 Consensus size: 21
53113371 AGATAATTTT
53113381 TAAATATAATAATATAATTGA
1 TAAATATAATAATATAATTGA
* *
53113402 TAAA-AGT-AT-AGATAATCATGT
1 TAAATA-TAATAATATAAT--TGA
* *
53113423 TAAGTATAATAATATATATTTA
1 TAAATATAATAATATA-ATTGA
53113445 TAAATATAAATAATAT
1 TAAATAT-AATAATAT
53113461 TACTTAACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
19 6 0.14
20 3 0.07
21 11 0.25
22 10 0.23
23 12 0.27
24 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (21 bp):
TAAATATAATAATATAATTGA
Found at i:53113398 original size:40 final size:41
Alignment explanation
Indices: 53113370--53113460 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
53113360 TATCAAGATT
* *
53113370 TAGATAAT-TTTTAAATATAATAATATAATTGATAAAAGTA
1 TAGATAATATGTTAAATATAATAATATAATTTATAAAAGTA
*
53113410 TAGATAATCATGTTAAGTATAATAATATATATTTAT-AAA-TA
1 TAGATAAT-ATGTTAAATATAATAATATA-ATTTATAAAAGTA
*
53113451 TAAATAATAT
1 TAGATAATAT
53113461 TACTTAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
40 10 0.23
41 9 0.20
42 20 0.45
43 5 0.11
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.41
Consensus pattern (41 bp):
TAGATAATATGTTAAATATAATAATATAATTTATAAAAGTA
Found at i:53114135 original size:16 final size:17
Alignment explanation
Indices: 53114109--53114143 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
53114099 TACGTACTTC
53114109 ATAATTATATTAATAAT
1 ATAATTATATTAATAAT
*
53114126 ATAA-TATATTTATAAT
1 ATAATTATATTAATAAT
53114142 AT
1 AT
53114144 TTCAAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATTATATTAATAAT
Found at i:53116975 original size:47 final size:47
Alignment explanation
Indices: 53116924--53117034 Score: 159
Period size: 47 Copynumber: 2.4 Consensus size: 47
53116914 GGTTTAACCA
* * * * *
53116924 CATATCTGTTCTAGTAGTTTGATTGCAATTATGGTGGCTCGACCACT
1 CATATCTATTCTAGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
*
53116971 CATATCTATTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
1 CATATCTATTCTAGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
*
53117018 CATATCTATTCTGGCAG
1 CATATCTATTCTAGCAG
53117035 TTTATTTGCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (47 bp):
CATATCTATTCTAGCAGCTTGACTGCAATTATGGTGGCTCGACCACC
Found at i:53122579 original size:42 final size:41
Alignment explanation
Indices: 53122532--53122670 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 41
53122522 AGGGATATGG
* *
53122532 GCGTGTGCCTAGGCTGTGTGAGCTACACGAGCAAAGTCATGA
1 GCGTGTGCC-AGGCCGTGTGAGCTACACGAGCAAAGACATGA
* * *
53122574 GCGTGTGTCCAGGCCGTGTGAGATACACGAGCAACGACATGG
1 GCGTGTG-CCAGGCCGTGTGAGCTACACGAGCAAAGACATGA
* * * * *
53122616 GTGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAAGGCATGG
1 GCGTGTG-CCAGGCCGTGTGAGCTACACGAGCAAAGACATGA
*
53122658 GTGTGTGTCCAGG
1 GCGTGTG-CCAGG
53122671 ACATGTAACT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 81 0.98
43 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (41 bp):
GCGTGTGCCAGGCCGTGTGAGCTACACGAGCAAAGACATGA
Found at i:53123719 original size:25 final size:25
Alignment explanation
Indices: 53123691--53123738 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
53123681 TCAGCATTGC
* *
53123691 TCTGTTCTGTTCCATTTTGTTCTGT
1 TCTGCTCTATTCCATTTTGTTCTGT
**
53123716 TCTGCTCTATTCGGTTTTGTTCT
1 TCTGCTCTATTCCATTTTGTTCT
53123739 ATTTGAATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.04, C:0.21, G:0.17, T:0.58
Consensus pattern (25 bp):
TCTGCTCTATTCCATTTTGTTCTGT
Found at i:53124560 original size:22 final size:21
Alignment explanation
Indices: 53124521--53124578 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
53124511 CTATTGTATC
* *
53124521 AATAATTTTTTCAATAATTGT
1 AATATTTTTTTAAATAATTGT
53124542 AATATTTTTTTAAAGTAATTGT
1 AATATTTTTTTAAA-TAATTGT
*
53124564 AATATTATTTTAAAT
1 AATATTTTTTTAAAT
53124579 CCAAGACTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
AATATTTTTTTAAATAATTGT
Found at i:53124671 original size:3 final size:3
Alignment explanation
Indices: 53124663--53124711 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
53124653 ATAAACATTT
53124663 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
53124711 A
1 A
53124712 AGAAAATCTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:53127170 original size:4 final size:4
Alignment explanation
Indices: 53127161--53127216 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
53127151 ATCCCGATAC
53127161 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
53127209 ACAT ACAT
1 ACAT ACAT
53127217 GGATGTTTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:53128488 original size:15 final size:15
Alignment explanation
Indices: 53128447--53128489 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
53128437 AAGTATATAT
53128447 TTAAGTGTTGAAAAAA
1 TTAAGTGTT-AAAAAA
* * *
53128463 ATAAATATTAAAAAA
1 TTAAGTGTTAAAAAA
53128478 TTAAGTGTTAAA
1 TTAAGTGTTAAA
53128490 TTTAAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (15 bp):
TTAAGTGTTAAAAAA
Found at i:53131748 original size:20 final size:18
Alignment explanation
Indices: 53131703--53131755 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
53131693 ACTGAAATTA
*
53131703 TGTTTAAATTAGATTAGAT
1 TGTTTAAATTA-ATTAAAT
53131722 TGATTTAAATTAATTGAAAT
1 TG-TTTAAATTAATT-AAAT
53131742 CTGTTTAAGATTAA
1 -TGTTTAA-ATTAA
53131756 AATTAGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 5 0.17
20 17 0.59
21 7 0.24
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (18 bp):
TGTTTAAATTAATTAAAT
Found at i:53132683 original size:13 final size:13
Alignment explanation
Indices: 53132665--53132701 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
53132655 AGAACGAAAC
53132665 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
53132678 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
53132692 -GAGAA-AAAAA
1 AGAGAAGAAAAA
53132702 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:53132688 original size:14 final size:14
Alignment explanation
Indices: 53132665--53132701 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
53132655 AGAACGAAAC
53132665 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
53132678 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
53132692 -GAGAAA-AAAA
1 AGAGAAAGAAAA
53132702 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:53138170 original size:25 final size:25
Alignment explanation
Indices: 53138136--53138186 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
53138126 TATGGTAGAC
53138136 TAAGCTTTGAACCAACTATTCCATT
1 TAAGCTTTGAACCAACTATTCCATT
53138161 TAAGCTTTGAACCAACTATTCCATT
1 TAAGCTTTGAACCAACTATTCCATT
53138186 T
1 T
53138187 GATTAACTGA
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:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (25 bp):
TAAGCTTTGAACCAACTATTCCATT
Found at i:53150157 original size:30 final size:30
Alignment explanation
Indices: 53150123--53150185 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
53150113 ACTTAACAAG
*
53150123 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATCAA
* *
53150153 CAAATGCCTTTAAAATAATAATAAAATCAA
1 CAAATGCCTCTAAAATAATAACAAAATCAA
53150183 CAA
1 CAA
53150186 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATCAA
Found at i:53150966 original size:24 final size:24
Alignment explanation
Indices: 53150916--53150967 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
53150906 AATCAAAGTC
* **
53150916 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
53150940 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
53150964 AAAT
1 AAAT
53150968 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:53155126 original size:24 final size:24
Alignment explanation
Indices: 53155084--53155135 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
53155074 AATCAAAGTC
* *
53155084 AAATATATTATGCAAATAAATGCT
1 AAATATATTATACAAATAAATACT
**
53155108 AAATATATTATACTCATAAATACT
1 AAATATATTATACAAATAAATACT
53155132 AAAT
1 AAAT
53155136 CTTTTCGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACAAATAAATACT
Found at i:53159854 original size:7 final size:7
Alignment explanation
Indices: 53159834--53159879 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
53159824 TATATTATAA
53159834 CTCTCTC
1 CTCTCTC
53159841 C-CTCTC
1 CTCTCTC
53159847 CTCTCTC
1 CTCTCTC
53159854 CTCTCTC
1 CTCTCTC
53159861 CTCTCTC
1 CTCTCTC
53159868 CATCTCTTC
1 C-TCTC-TC
53159877 CTC
1 CTC
53159880 AATCCAACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.17
7 21 0.58
8 6 0.17
9 3 0.08
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.41
Consensus pattern (7 bp):
CTCTCTC
Found at i:53160126 original size:2 final size:2
Alignment explanation
Indices: 53160119--53160149 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53160109 CATACGGTGT
53160119 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
53160150 ATATTAGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53170608 original size:21 final size:20
Alignment explanation
Indices: 53170583--53170622 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
53170573 GATGTCTTCA
53170583 ATTCTATCATTGGTTGGCTTG
1 ATTCTATCA-TGGTTGGCTTG
* *
53170604 ATTCTTTCATGTTTGGCTT
1 ATTCTATCATGGTTGGCTT
53170623 CAGTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.12, C:0.15, G:0.20, T:0.53
Consensus pattern (20 bp):
ATTCTATCATGGTTGGCTTG
Found at i:53170648 original size:30 final size:30
Alignment explanation
Indices: 53170612--53170673 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
53170602 TGATTCTTTC
*
53170612 ATGTTTGGCTTCAGTAATAATCTGTTAACA
1 ATGTTTGGCTTCAGTAATAATCTGCTAACA
*
53170642 ATGTTTGGCTTTAGTAATAATCTGCTAACA
1 ATGTTTGGCTTCAGTAATAATCTGCTAACA
53170672 AT
1 AT
53170674 CTTCACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (30 bp):
ATGTTTGGCTTCAGTAATAATCTGCTAACA
Found at i:53171243 original size:18 final size:18
Alignment explanation
Indices: 53171220--53171257 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
53171210 AAAAATTGTA
*
53171220 GTAATATAATCGAAAAAT
1 GTAATATAATAGAAAAAT
53171238 GTAATATAATAGAAAAAT
1 GTAATATAATAGAAAAAT
53171256 GT
1 GT
53171258 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (18 bp):
GTAATATAATAGAAAAAT
Found at i:53172205 original size:34 final size:34
Alignment explanation
Indices: 53172167--53172236 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
53172157 ATGATGATTG
53172167 AATCATGAAAATTGAGAAGAAGATACAATGATCC
1 AATCATGAAAATTGAGAAGAAGATACAATGATCC
53172201 AATCATGAAAATTGAGAAGAAGATACAATGATCC
1 AATCATGAAAATTGAGAAGAAGATACAATGATCC
53172235 AA
1 AA
53172237 AGCTACTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (34 bp):
AATCATGAAAATTGAGAAGAAGATACAATGATCC
Found at i:53183235 original size:29 final size:29
Alignment explanation
Indices: 53183103--53183223 Score: 190
Period size: 29 Copynumber: 4.2 Consensus size: 29
53183093 ACCGTGTATC
* *
53183103 ACACATGGTCTGTCACAC-GACTGTGTGTA
1 ACACATGGTCTGTCACACGGTC-GTGTGTG
* *
53183132 ACACATGGTTTGTCACACAGTCGTGTGTG
1 ACACATGGTCTGTCACACGGTCGTGTGTG
53183161 ACACATGGTCTGTCACACGGTCGTGTGTG
1 ACACATGGTCTGTCACACGGTCGTGTGTG
53183190 ACACATGGTCTGTCACACGGTCGTGTGTG
1 ACACATGGTCTGTCACACGGTCGTGTGTG
53183219 ACACA
1 ACACA
53183224 CGGCCTACCA
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
29 84 0.98
30 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (29 bp):
ACACATGGTCTGTCACACGGTCGTGTGTG
Found at i:53186731 original size:11 final size:11
Alignment explanation
Indices: 53186711--53186753 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
53186701 GAACGAACGA
53186711 AAAG-AAAAAG
1 AAAGAAAAAAG
*
53186721 AACGAAAAAAG
1 AAAGAAAAAAG
*
53186732 AAGGAAAAAGAG
1 AAAGAAAAA-AG
53186744 AAAGAAAAAA
1 AAAGAAAAAA
53186754 ACAAATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 15 0.54
12 10 0.36
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:53186870 original size:15 final size:15
Alignment explanation
Indices: 53186850--53186902 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
53186840 GCAATTTTTT
53186850 TAATAA-AACAAAAAA
1 TAATAATAA-AAAAAA
*
53186865 TAATAATAAAAGAAA
1 TAATAATAAAAAAAA
* *
53186880 TAATAATAATAATAA
1 TAATAATAAAAAAAA
*
53186895 TAACAATA
1 TAATAATA
53186903 TTATCCCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 30 0.94
16 2 0.06
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (15 bp):
TAATAATAAAAAAAA
Found at i:53186873 original size:18 final size:18
Alignment explanation
Indices: 53186850--53186891 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
53186840 GCAATTTTTT
53186850 TAATAAAACAAAAAATAA
1 TAATAAAACAAAAAATAA
* *
53186868 TAATAAAAGAAATAATAA
1 TAATAAAACAAAAAATAA
53186886 TAATAA
1 TAATAA
53186892 TAATAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
TAATAAAACAAAAAATAA
Found at i:53186875 original size:12 final size:12
Alignment explanation
Indices: 53186860--53186902 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
53186850 TAATAAAACA
53186860 AAAAATAATAAT
1 AAAAATAATAAT
53186872 AAAAGA-AATAAT
1 AAAA-ATAATAAT
*
53186884 AATAATAATAAT
1 AAAAATAATAAT
*
53186896 AACAATA
1 AAAAATA
53186903 TTATCCCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:53190767 original size:75 final size:75
Alignment explanation
Indices: 53190644--53190794 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 75
53190634 TAATTAATAG
53190644 TTTAGGTACTGGAATTCTTGTCGTAGTGTTCGCTTCAGAAATCAATAAGGTGTGTGACTCGATTA
1 TTTAGGTACTGGAATTCTTGTCGTAGTGTTCGCTTCAGAAATCAATAAGGTGTGTGACTCGATTA
53190709 TGTGAAAACA
66 TGTGAAAACA
53190719 TTTAGGTACTGGAATTCTTG-CTGTAGTGTTCGCTTCAGAAATCAATAAGGTGTGTGACTCGATT
1 TTTAGGTACTGGAATTCTTGTC-GTAGTGTTCGCTTCAGAAATCAATAAGGTGTGTGACTCGATT
53190783 ATGTGAAAACA
65 ATGTGAAAACA
53190794 T
1 T
53190795 CAAATGAGAT
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
74 1 0.01
75 74 0.99
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (75 bp):
TTTAGGTACTGGAATTCTTGTCGTAGTGTTCGCTTCAGAAATCAATAAGGTGTGTGACTCGATTA
TGTGAAAACA
Found at i:53191442 original size:23 final size:24
Alignment explanation
Indices: 53191416--53191462 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
53191406 TGGGAGTAGG
*
53191416 ATCTGTGACTGCATCTG-ATCTGA
1 ATCTATGACTGCATCTGTATCTGA
* *
53191439 ATCTATGCCTGCATTTGTATCTGA
1 ATCTATGACTGCATCTGTATCTGA
53191463 TTATGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (24 bp):
ATCTATGACTGCATCTGTATCTGA
Found at i:53195146 original size:27 final size:27
Alignment explanation
Indices: 53195104--53195159 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
53195094 GAGCTCAATC
53195104 ACAATACTATAATGGAATGACTTCGTG
1 ACAATACTATAATGGAATGACTTCGTG
* *
53195131 ACAATACTATAGTGGAATGACTTTGTG
1 ACAATACTATAATGGAATGACTTCGTG
53195158 AC
1 AC
53195160 TAAGTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (27 bp):
ACAATACTATAATGGAATGACTTCGTG
Found at i:53195395 original size:27 final size:27
Alignment explanation
Indices: 53195357--53195412 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
53195347 GAGCTCAATC
**
53195357 ACAATACTATAGTAGAATGGTTTCGTG
1 ACAATACTATAGTAGAATGACTTCGTG
*
53195384 ACAATACTATAGTGGAATGACTTCGTG
1 ACAATACTATAGTAGAATGACTTCGTG
53195411 AC
1 AC
53195413 TAAGTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (27 bp):
ACAATACTATAGTAGAATGACTTCGTG
Found at i:53195464 original size:253 final size:252
Alignment explanation
Indices: 53195017--53195525 Score: 910
Period size: 253 Copynumber: 2.0 Consensus size: 252
53195007 AGGACATCCT
53195017 ATGAGGGTAACACATTTATGACAAGGCCATTGACGAGCACTTACTGAGTAAATTTCACAATGGTA
1 ATGAGGGTAACACATTTATGACAAGGCCATTGACGAGCACTTACTGAGTAAATTTCACAATGGTA
*
53195082 GATTATTAGGGAGAGCTCAATCACAATACTATAATGGAATGACTTCGTGACAATACTATAGTGGA
66 GATTATTAGGGAGAGCTCAATCACAATACTATAATAGAATGACTTCGTGACAATACTATAGTGGA
*
53195147 ATGACTTTGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTAT
131 ATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTAT
* **
53195212 TTGAACTCTAATTATATATGTTCAATTGGTCCTTCCGTTAGCTGATTGATACCATAA
196 TTGAACTCTAATTATATATGTCCAATCAGTCCTTCCGTTAGCTGATTGATACCATAA
*
53195269 ATGAGGGTAACACATTTATGACAAGGCCATTGGACGAGCACTTACTGAGTAACTTTCACAATGGT
1 ATGAGGGTAACACATTTATGACAAGGCCATT-GACGAGCACTTACTGAGTAAATTTCACAATGGT
* **
53195334 AGATTATTAGGGAGAGCTCAATCACAATACTATAGTAGAATGGTTTCGTGACAATACTATAGTGG
65 AGATTATTAGGGAGAGCTCAATCACAATACTATAATAGAATGACTTCGTGACAATACTATAGTGG
*
53195399 AATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTGGAACTTAATTATAAATTA
130 AATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTA
*
53195464 TTTGAACTCTAATTATATATGTCCAATCAGTCCTTTCGTTAGCTGATTGATACCATAA
195 TTTGAACTCTAATTATATATGTCCAATCAGTCCTTCCGTTAGCTGATTGATACCATAA
53195522 ATGA
1 ATGA
53195526 ATTATAAATG
Statistics
Matches: 245, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
252 31 0.13
253 214 0.87
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (252 bp):
ATGAGGGTAACACATTTATGACAAGGCCATTGACGAGCACTTACTGAGTAAATTTCACAATGGTA
GATTATTAGGGAGAGCTCAATCACAATACTATAATAGAATGACTTCGTGACAATACTATAGTGGA
ATGACTTCGTGACTAAGTAAGTTTATAATTAATAGGTGAAAAGCTAGAACTTAATTATAAATTAT
TTGAACTCTAATTATATATGTCCAATCAGTCCTTCCGTTAGCTGATTGATACCATAA
Found at i:53197256 original size:19 final size:20
Alignment explanation
Indices: 53197216--53197258 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
53197206 TCATTAAATA
*
53197216 AAAAGTATCTAAAAATTACT
1 AAAAGTAGCTAAAAATTACT
*
53197236 AAAAGTAGCTTAAAA-TACT
1 AAAAGTAGCTAAAAATTACT
53197255 AAAA
1 AAAA
53197259 TATGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAGTAGCTAAAAATTACT
Found at i:53202693 original size:10 final size:12
Alignment explanation
Indices: 53202668--53202701 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
53202658 CTTGTTTTCG
53202668 ATTTTTAAATAT
1 ATTTTTAAATAT
53202680 ATTTTTAAATAT
1 ATTTTTAAATAT
*
53202692 TTTATTTAAA
1 ATT-TTTAAA
53202702 GATTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTTAAATAT
Found at i:53210013 original size:18 final size:18
Alignment explanation
Indices: 53209990--53210029 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
53209980 ACTAGTATAG
53209990 TATTCTTTGCAACATTTT
1 TATTCTTTGCAACATTTT
53210008 TATTCTTTGCAACATTTT
1 TATTCTTTGCAACATTTT
53210026 TATT
1 TATT
53210030 TACTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTCTTTGCAACATTTT
Found at i:53211264 original size:20 final size:20
Alignment explanation
Indices: 53211239--53211278 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
53211229 GGTTTTCACC
53211239 TTTGTTGGATT-AATTATTTA
1 TTTGTT-GATTAAATTATTTA
53211259 TTTGTTGATTAAATTATTTA
1 TTTGTTGATTAAATTATTTA
53211279 AAAGTTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTGTTGATTAAATTATTTA
Found at i:53219254 original size:7 final size:7
Alignment explanation
Indices: 53219242--53219268 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
53219232 AGAATCAGAA
53219242 TTCATAT
1 TTCATAT
53219249 TTCATAT
1 TTCATAT
53219256 TTCATAT
1 TTCATAT
53219263 TTCATA
1 TTCATA
53219269 GTTTATGAAA
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:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
TTCATAT
Found at i:53220620 original size:21 final size:21
Alignment explanation
Indices: 53220576--53220617 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53220566 GTGGAAAGTA
**
53220576 AAAAATAAAAATTAAATTCTT
1 AAAAATAAAAATTAAAAACTT
53220597 AAAAATAAAAATATAAAAACT
1 AAAAATAAAAAT-TAAAAACT
53220618 AAATTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATAAAAATTAAAAACTT
Found at i:53226150 original size:3 final size:3
Alignment explanation
Indices: 53226142--53226167 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
53226132 GTCGGCGGTG
53226142 GCA GCA GCA GCA GCA GCA GCA GCA GC
1 GCA GCA GCA GCA GCA GCA GCA GCA GC
53226168 GACCAGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.35, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:53228996 original size:2 final size:2
Alignment explanation
Indices: 53228991--53229026 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
53228981 ATATATATAT
53228991 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
53229027 TGTGTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53241081 original size:28 final size:28
Alignment explanation
Indices: 53241046--53241109 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
53241036 AAAAAATAAC
*
53241046 CAAAATATTATAACTTTTTTTTATTTAT
1 CAAAATATTATAAATTTTTTTTATTTAT
53241074 CAAAATATTATAAATTTTTTTTATTTAT
1 CAAAATATTATAAATTTTTTTTATTTAT
53241102 CAAAATAT
1 CAAAATAT
53241110 ACAAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (28 bp):
CAAAATATTATAAATTTTTTTTATTTAT
Found at i:53241142 original size:16 final size:17
Alignment explanation
Indices: 53241116--53241147 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
53241106 ATATACAAAA
53241116 AAAAAACAAAAACCTGC
1 AAAAAACAAAAACCTGC
53241133 AAAAAA-AAAAACCTG
1 AAAAAACAAAAACCTG
53241148 TGGCGGCGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.69, C:0.19, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAACAAAAACCTGC
Found at i:53241796 original size:23 final size:23
Alignment explanation
Indices: 53241770--53241841 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
53241760 ACTCTATTTT
53241770 AATTTAATAAACTATTCTCATCA
1 AATTTAATAAACTATTCTCATCA
* **
53241793 AATTACTTAAT-AACT-TTAT--TTT
1 AA-T--TTAATAAACTATTCTCATCA
53241815 AATTTAATAAACTATTCTCATCA
1 AATTTAATAAACTATTCTCATCA
53241838 AATT
1 AATT
53241842 ACCAAAATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 4 0.11
22 3 0.08
23 7 0.19
24 4 0.11
25 4 0.11
26 5 0.14
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTTAATAAACTATTCTCATCA
Found at i:53241804 original size:45 final size:45
Alignment explanation
Indices: 53241755--53241843 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
53241745 TCTAATTAAG
53241755 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
*
53241800 TAATAACTTTATTTTAATTTAATAAACTATTCTCATCAAATTAC
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTAC
53241844 CAAAATAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (45 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATCAAATTACT
Found at i:53241869 original size:15 final size:15
Alignment explanation
Indices: 53241849--53241898 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
53241839 ATTACCAAAA
53241849 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
53241864 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
*
53241879 GAGAATAGTTTATTAAAT
1 TAG---AGTTTATTAAAT
53241897 TA
1 TA
53241899 AAATAGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 17 0.57
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (15 bp):
TAGAGTTTATTAAAT
Found at i:53241903 original size:18 final size:18
Alignment explanation
Indices: 53241867--53241904 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53241857 ATTAAATTAG
*
53241867 AGTTTATTAAATGAGAAT
1 AGTTTATTAAATGAAAAT
*
53241885 AGTTTATTAAATTAAAAT
1 AGTTTATTAAATGAAAAT
53241903 AG
1 AG
53241905 AGTTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AGTTTATTAAATGAAAAT
Done.