Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 178 of 292
Found at i:53113814 original size:20 final size:22
Alignment explanation
Indices: 53113765--53113954 Score: 57
Period size: 20 Copynumber: 8.8 Consensus size: 22
53113755 CTTTTATATA
*
53113765 TATATACATTTTATATATAATT
1 TATATATATTTTATATATAATT
*
53113787 TAT-T-TATTTTA-A-ATATTT
1 TATATATATTTTATATATAATT
53113805 TATATATATTATT-TAT-T--TT
1 TATATATATT-TTATATATAATT
* * *
53113824 TATAAATATTATT-TATA-CATG
1 TATATATATT-TTATATATAATT
* *
53113845 TA-AAATTATTATATATAATAATT
1 TATATA-TATTTTATAT-ATAATT
* * * *
53113868 TTTATTTATGTATTATTTATCATGT
1 TATATATAT-T-TTATATATAAT-T
*
53113893 TATTTATATTTTATATAT--TT
1 TATATATATTTTATATATAATT
* *
53113913 TATTTATAGCTTTTAT-TATAAAT
1 TATATATA--TTTTATATATAATT
*
53113936 TATATATTTTATTATATAT
1 TATATATATT-TTATATAT
53113955 TATTCCCTAT
Statistics
Matches: 126, Mismatches: 20, Indels: 43
0.67 0.11 0.23
Matches are distributed among these distances:
18 8 0.06
19 19 0.15
20 23 0.18
21 21 0.17
22 14 0.11
23 23 0.18
24 7 0.06
25 11 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATATATTTTATATATAATT
Found at i:53113819 original size:31 final size:28
Alignment explanation
Indices: 53113772--53113833 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
53113762 ATATATATAC
*
53113772 ATTTTATATATAATTTATTTATTTTAAAT
1 ATTTTATATATAATTTATTT-TTATAAAT
53113801 ATTTTATATATATTATTTATTTTTATAAAT
1 ATTTTATATATA--ATTTATTTTTATAAAT
53113831 ATT
1 ATT
53113834 ATTTATACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.40
30 10 0.33
31 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTTATATATAATTTATTTTTATAAAT
Found at i:53113826 original size:19 final size:19
Alignment explanation
Indices: 53113802--53113839 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
53113792 ATTTTAAATA
*
53113802 TTTTATATATATTATTTAT
1 TTTTATAAATATTATTTAT
53113821 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
53113840 ACATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:53113911 original size:9 final size:10
Alignment explanation
Indices: 53113896--53113958 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 10
53113886 ATCATGTTAT
53113896 TTATATTTTA
1 TTATATTTTA
53113906 -TATATTTTA
1 TTATATTTTA
53113915 TTTATAGCTTTTA
1 -TTATA--TTTTA
**
53113928 TTATAAATTA
1 TTATATTTTA
53113938 -TATATTTTA
1 TTATATTTTA
*
53113947 TTATATATTA
1 TTATATTTTA
53113957 TT
1 TT
53113959 CCCTATATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.37
10 13 0.30
11 4 0.09
12 5 0.12
13 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTATATTTTA
Found at i:53114190 original size:18 final size:18
Alignment explanation
Indices: 53114129--53114193 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
53114119 GTTCTTATTT
53114129 TACATATTATTAT-TTTTA
1 TACATA-TATTATGTTTTA
* *
53114147 TAAATATATTAAGTTATTA
1 TACATATATTATGTT-TTA
*
53114166 TATCATATAGTATGTTTTA
1 TA-CATATATTATGTTTTA
53114185 TACATATAT
1 TACATATAT
53114194 ATATTAATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.13
18 13 0.34
19 10 0.26
20 10 0.26
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (18 bp):
TACATATATTATGTTTTA
Found at i:53118155 original size:29 final size:28
Alignment explanation
Indices: 53118098--53118183 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
53118088 TACCTGTATC
*
53118098 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
* *
53118126 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCC-AATCACATTCATA
*
53118155 TGGCCCGTTAAGCCCAATCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
53118183 T
1 T
53118184 TCATGCTCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 27 0.53
29 24 0.47
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:53118263 original size:17 final size:17
Alignment explanation
Indices: 53118241--53118275 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
53118231 TTACCTGATA
53118241 TGGGCCCAACAGCCCAT
1 TGGGCCCAACAGCCCAT
**
53118258 TGGGCCCATTAGCCCAT
1 TGGGCCCAACAGCCCAT
53118275 T
1 T
53118276 TTAGCCCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (17 bp):
TGGGCCCAACAGCCCAT
Found at i:53118419 original size:24 final size:23
Alignment explanation
Indices: 53118391--53118445 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
53118381 TCGTAGCCCA
53118391 ACTTTTGACTTTTTCGACATTTCG
1 ACTTTTGACTTTTT-GACATTTCG
* *
53118415 ACTTTTCCACTTTTTGGCATTTCG
1 ACTTTT-GACTTTTTGACATTTCG
*
53118439 GCTTTTG
1 ACTTTTG
53118446 CCGATTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.13, C:0.22, G:0.15, T:0.51
Consensus pattern (23 bp):
ACTTTTGACTTTTTGACATTTCG
Found at i:53119572 original size:16 final size:17
Alignment explanation
Indices: 53119540--53119576 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
53119530 ACAAAGAAAG
*
53119540 TTTGGGATTTTGGGATT
1 TTTGGGATTTCGGGATT
53119557 TTTGGG-TTTCGGGATT
1 TTTGGGATTTCGGGATT
53119573 TTTG
1 TTTG
53119577 AGGCGTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.08, C:0.03, G:0.35, T:0.54
Consensus pattern (17 bp):
TTTGGGATTTCGGGATT
Found at i:53122492 original size:57 final size:57
Alignment explanation
Indices: 53122431--53122540 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
53122421 AAATTCACAT
* * * *
53122431 ACCTGTATTTGGCCCATTAAGC-CCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATAGCCCATT-AGCGCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
53122488 ACCTGTATATAGCCCATTGGCGCAAATCACATTTATATGGCCGATTAGGCCCA
1 ACCTGTATATAGCCCATTAGCGCAAATCACATTCATATGGCCCATTAGGCCCA
53122541 GTCACATTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 2 0.04
57 43 0.96
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (57 bp):
ACCTGTATATAGCCCATTAGCGCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:53122524 original size:28 final size:29
Alignment explanation
Indices: 53122442--53122553 Score: 104
Period size: 28 Copynumber: 4.0 Consensus size: 29
53122432 CCTGTATTTG
* * * *
53122442 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATTTATATA
* *
53122470 GCCCATTAGGCCCAAATCACCTGTATATA
1 GCCCATTAGGCCCAAATCACATTTATATA
* *
53122499 GCCCATT-GGCGCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATA
* * *
53122527 GCCGATTAGGCCC-AGTCACATTCATAT
1 GCCCATTAGGCCCAAATCACATTTATAT
53122554 TCATGCTCAT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 47 0.69
29 21 0.31
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTATATA
Found at i:53122785 original size:16 final size:15
Alignment explanation
Indices: 53122763--53122815 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
53122753 CATAGCCCAA
53122763 CTTTTGACTTTTCGG
1 CTTTTGACTTTTCGG
*
53122778 CATTTTGACTTTTCGA
1 C-TTTTGACTTTTCGG
* *
53122794 CTTTTTGGCATTTCGG
1 C-TTTTGACTTTTCGG
53122810 CTTTTG
1 CTTTTG
53122816 TCGATTCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 6 0.19
16 26 0.81
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (15 bp):
CTTTTGACTTTTCGG
Found at i:53122797 original size:24 final size:23
Alignment explanation
Indices: 53122762--53122815 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
53122752 CCATAGCCCA
53122762 ACTTTTGACTTTTCGGCATTTTG
1 ACTTTTGACTTTTCGGCATTTTG
* *
53122785 ACTTTTCGACTTTTTGGCATTTCG
1 ACTTTT-GACTTTTCGGCATTTTG
*
53122809 GCTTTTG
1 ACTTTTG
53122816 TCGATTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (23 bp):
ACTTTTGACTTTTCGGCATTTTG
Found at i:53128811 original size:25 final size:25
Alignment explanation
Indices: 53128783--53128830 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
53128773 TTAATTAGTA
53128783 TAAAATATT-AATAATTC-AATAAATT
1 TAAAA-ATTAAATAA-TCAAATAAATT
53128808 TAAAAATTAAATAATCAAATAAA
1 TAAAAATTAAATAATCAAATAAA
53128831 ATTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAAATTAAATAATCAAATAAATT
Found at i:53139317 original size:21 final size:21
Alignment explanation
Indices: 53139292--53139333 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
53139282 GCATAGGAAG
53139292 AAAAGAAATCCTTTAGGATTC
1 AAAAGAAATCCTTTAGGATTC
53139313 AAAAGAAATCCTTTAGGATTC
1 AAAAGAAATCCTTTAGGATTC
53139334 CTAAGGCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
AAAAGAAATCCTTTAGGATTC
Found at i:53142726 original size:21 final size:21
Alignment explanation
Indices: 53142702--53142748 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
53142692 TATTATTTTA
53142702 TATAATACTTATCATA-TT-GTT
1 TATAATA-TTAT-ATATTTCGTT
*
53142723 TATATTATTATATATTTCGTT
1 TATAATATTATATATTTCGTT
53142744 TATAA
1 TATAA
53142749 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 6 0.27
21 13 0.59
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
TATAATATTATATATTTCGTT
Found at i:53142739 original size:40 final size:43
Alignment explanation
Indices: 53142633--53142739 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 43
53142623 TTTTGTATAT
* * *
53142633 TATT-TATTATATTATTATAAATTATTATATATTATGTTACCTA
1 TATTGTATTATATTATTATATATT-TTATATAATATCTTACCTA
* *
53142676 TATTTTATTATA-TA-TATATTATTTTATATAATA-CTTATC-A
1 TATTGTATTATATTATTATA-TATTTTATATAATATCTTACCTA
53142716 TATTGT-TTATATTATTATATATTT
1 TATTGTATTATATTATTATATATTT
53142740 CGTTTATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
39 5 0.09
40 13 0.24
41 8 0.15
42 13 0.24
43 9 0.16
44 7 0.13
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (43 bp):
TATTGTATTATATTATTATATATTTTATATAATATCTTACCTA
Found at i:53144591 original size:20 final size:20
Alignment explanation
Indices: 53144525--53144591 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
53144515 ATTTTAGTAA
*
53144525 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
53144545 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
53144565 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
53144585 ACGTGAT
1 ACATGAT
53144592 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53144699 original size:24 final size:24
Alignment explanation
Indices: 53144640--53144760 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
53144630 GGAGGAAGTG
53144640 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
53144664 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
53144689 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
53144713 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
53144736 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
53144761 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.21
24 40 0.44
25 31 0.34
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:53144712 original size:49 final size:48
Alignment explanation
Indices: 53144640--53144769 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
53144630 GGAGGAAGTG
53144640 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTT-TGCCCCAGTTAT
*
53144689 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
*
53144736 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
53144770 CAGCTATGCT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 23 0.32
48 16 0.22
49 26 0.36
50 4 0.05
51 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
Found at i:53144988 original size:30 final size:30
Alignment explanation
Indices: 53144954--53145012 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
53144944 CGTTTACAGT
53144954 AAAGGCTTCGGCCCAGTAATATGAAATATA
1 AAAGGCTTCGGCCCAGTAATATGAAATATA
**
53144984 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
53145013 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATA
Found at i:53150760 original size:24 final size:24
Alignment explanation
Indices: 53150705--53150893 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
53150695 GCTTTATCAT
*
53150705 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
53150730 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53150754 ATTACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53150777 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53150800 ATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
53150824 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
53150848 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
53150871 ATTACTGGGGCAAAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53150894 TCACTTCCTC
Statistics
Matches: 149, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 63 0.42
24 74 0.50
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53150780 original size:47 final size:47
Alignment explanation
Indices: 53150726--53150893 Score: 257
Period size: 47 Copynumber: 3.6 Consensus size: 47
53150716 CCTAGCCTCT
*
53150726 TTTAATAACTGGGGCAAAAGCCCTTTTAATTACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
53150773 TTTAATAACTAGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * *
53150819 TTTTTATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
53150867 TTTAATTACTGGGGCAAAAGCCCTTTT
1 TTTAATAACTGGGGCAAAAGCCCTTTT
53150894 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
46 22 0.20
47 66 0.60
48 22 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:53150787 original size:23 final size:23
Alignment explanation
Indices: 53150726--53150892 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
53150716 CCTAGCCTCT
*
53150726 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
53150749 TTTTAATTACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
53150773 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
53150796 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
53150819 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
53150843 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
53150867 TTTAATTACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
53150890 TTT
1 TTT
53150893 TTCACTTCCT
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
23 66 0.50
24 66 0.50
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:53150965 original size:9 final size:9
Alignment explanation
Indices: 53150951--53151006 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
53150941 ATCTCATGTG
53150951 CATATCATA
1 CATATCATA
*
53150960 CATATCTGTA
1 CATATC-ATA
53150970 CATATCATA
1 CATATCATA
* *
53150979 CATGTCATGTG
1 CATATCA--TA
53150990 CATATCATA
1 CATATCATA
53150999 CATATCAT
1 CATATCAT
53151007 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 23 0.61
10 8 0.21
11 7 0.18
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (9 bp):
CATATCATA
Found at i:53150995 original size:20 final size:20
Alignment explanation
Indices: 53150939--53151008 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
53150929 GCATTTATGA
*
53150939 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
53150959 ACATATC-TGTACATATCAT
1 ACATATCATGTGCATATCAT
*
53150978 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
53150998 ACATATCATGT
1 ACATATCATGT
53151009 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 17 0.39
20 27 0.61
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:53152840 original size:29 final size:29
Alignment explanation
Indices: 53152807--53152908 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
53152797 GATTAAAGAA
53152807 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
53152836 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
53152864 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
53152893 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
53152909 TCGGTTGGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:53152868 original size:57 final size:57
Alignment explanation
Indices: 53152780--53152937 Score: 217
Period size: 57 Copynumber: 2.8 Consensus size: 57
53152770 CTGACTGATT
* * * *
53152780 TCGCACACATAGCGGTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
53152837 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
53152894 TGGCACACATAGTGCTCGGTTGGAGAACTTGCACACACAGTGCC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCC
53152938 CCATAATTCC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 90 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:53152876 original size:28 final size:27
Alignment explanation
Indices: 53152780--53152936 Score: 125
Period size: 28 Copynumber: 5.6 Consensus size: 27
53152770 CTGACTGATT
* *
53152780 TCGCACACATAGCGGTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* **
53152808 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCGATTAAGAA-C
53152837 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* * * *
53152865 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTA-AGAAC
* * *
53152894 TGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* *
53152922 TTGCACACACAGTGC
1 TCGCACACATAGTGC
53152937 CCCATAATTC
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
28 58 0.57
29 44 0.43
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCGATTAAGAAC
Found at i:53153013 original size:40 final size:40
Alignment explanation
Indices: 53152968--53153142 Score: 298
Period size: 40 Copynumber: 4.4 Consensus size: 40
53152958 CCTTCGAGGT
*
53152968 TTAGCCCGGATATATCACTAGCACGAATGCTTTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
53153008 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* * *
53153048 TTAGCCCGGATATATCACTAGCACGAATACTTTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
53153088 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCAGG-AC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGAAC
53153128 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
53153143 ATAACTCTCA
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 126 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:53154694 original size:46 final size:46
Alignment explanation
Indices: 53154625--53154807 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
53154615 TATATATACA
* * ** *
53154625 CATCTCATACATATCTCAAATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
53154671 CATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
53154717 CATCTCATACACGTTTCGCATTAGCCTTTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
53154763 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
53154808 ATACACTTCC
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:53154850 original size:22 final size:22
Alignment explanation
Indices: 53154824--53154899 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
53154814 TTCCACGTTC
53154824 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
53154846 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
53154870 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
53154893 ATCACAT
1 ATCACAT
53154900 ATATACACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:53154852 original size:47 final size:46
Alignment explanation
Indices: 53154781--53154924 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 46
53154771 ACACATTTCG
* * * *
53154781 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACACTT-CACATTCATCA
* * *
53154828 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACA-CTTCACATTCATCA
53154875 CATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACAC-TTCACATTCATCA
53154922 CAT
1 CAT
53154925 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 83 0.98
48 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (46 bp):
CATTGGCCATTCGGCCTTATCACATATATACACTTCACATTCATCA
Found at i:53158316 original size:39 final size:38
Alignment explanation
Indices: 53158253--53158326 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
53158243 CCTTTTAACA
* * * * *
53158253 AAAAACGCCGCAAATATTATACAATAGCTGCGTTTAAT
1 AAAAACGCCGCAAAAACTAAACAATAACGGCGTTTAAT
53158291 AAAAACGCCGCAAAAAACTAAACAATAACGGCGTTT
1 AAAAACGCCGC-AAAAACTAAACAATAACGGCGTTT
53158327 TTGGCCCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 11 0.37
39 19 0.63
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (38 bp):
AAAAACGCCGCAAAAACTAAACAATAACGGCGTTTAAT
Found at i:53158348 original size:41 final size:41
Alignment explanation
Indices: 53158293--53158625 Score: 330
Period size: 41 Copynumber: 8.2 Consensus size: 41
53158283 CGTTTAATAA
* * * * *
53158293 AAACGCCGCAAAAAACTAAACAATAACGGCGTTTTTGGCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
* * *
53158334 AAACGCCACTAAAAACTGATCAATAGCGGCATTTTTAGACC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
** *
53158375 -AACGCCACTAAAAACTGATCAATAGTTGCGTTTTTGG-AC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
* * *
53158414 AAACACCACTAAAAACTTATCAATAGCGGTGTTTTTGGCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
** ****
53158455 AGGCGCCACTAAAAACTGATCAATAGCGGCGTTTTTCTTTC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
* * * *
53158496 AAACACCACTAAAAACTTATGAATAGTGGCGTTTTTGGCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
* ** * ***
53158537 AAACGCCACTAAAAACTAATCAATAATGGCTTTTTTCTTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
* * *
53158578 AAACGCCACTAAAAACTTG-TGAATAACGGCGTTTTTGGTCC
1 AAACGCCACTAAAAAC-TGATCAATAGCGGCGTTTTTGGCCC
53158619 AAACGCC
1 AAACGCC
53158626 GCAAAAAGTT
Statistics
Matches: 237, Mismatches: 52, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.00
40 65 0.27
41 170 0.72
42 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCC
Found at i:53159197 original size:38 final size:39
Alignment explanation
Indices: 53159148--53159227 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
53159138 GTTTAAAGCC
*
53159148 TATGGTGTAGGGTTCAATGG-TAGAATATATTTTAAGTT
1 TATGGTGTAGGGTTCAATGGATAGAATATATGTTAAGTT
* *
53159186 TATGGTTTAGGGTTCAATGGTATAGTATATATGTTAAGTT
1 TATGGTGTAGGGTTCAATGG-ATAGAATATATGTTAAGTT
53159226 TA
1 TA
53159228 CGGTATGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 19 0.51
40 18 0.49
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.44
Consensus pattern (39 bp):
TATGGTGTAGGGTTCAATGGATAGAATATATGTTAAGTT
Found at i:53159610 original size:5 final size:5
Alignment explanation
Indices: 53159600--53159624 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
53159590 ATCAATTTTA
53159600 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
53159625 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:53160129 original size:15 final size:15
Alignment explanation
Indices: 53160097--53160143 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
53160087 TTTACCTAAA
* *
53160097 ATTTAAATATTAAAT
1 ATTTAAATAATAATT
53160112 ATTTAAATAATAATT
1 ATTTAAATAATAATT
*
53160127 A-TTCAAT-ATAATT
1 ATTTAAATAATAATT
53160140 ATTT
1 ATTT
53160144 TTTTTTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.25
14 7 0.25
15 14 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTTAAATAATAATT
Found at i:53164041 original size:15 final size:15
Alignment explanation
Indices: 53164018--53164070 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
53164008 TTTATCCTTA
*
53164018 GATTATTTTTCATGT
1 GATTTTTTTTCATGT
53164033 GATTTTTTTTCCATGT
1 GATTTTTTTT-CATGT
*
53164049 GAATTTTTTTCCATGT
1 G-ATTTTTTTTCATGT
53164065 GATTTT
1 GATTTT
53164071 CCATAACCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 14 0.41
16 12 0.35
17 8 0.24
ACGTcount: A:0.17, C:0.09, G:0.13, T:0.60
Consensus pattern (15 bp):
GATTTTTTTTCATGT
Found at i:53164047 original size:16 final size:16
Alignment explanation
Indices: 53164018--53164070 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
53164008 TTTATCCTTA
*
53164018 GATTATTTTT-CATGT
1 GATTTTTTTTCCATGT
53164033 GATTTTTTTTCCATGT
1 GATTTTTTTTCCATGT
*
53164049 GAATTTTTTTCCATGT
1 GATTTTTTTTCCATGT
53164065 GATTTT
1 GATTTT
53164071 CCATAACCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 9 0.26
16 25 0.74
ACGTcount: A:0.17, C:0.09, G:0.13, T:0.60
Consensus pattern (16 bp):
GATTTTTTTTCCATGT
Found at i:53164352 original size:46 final size:47
Alignment explanation
Indices: 53164275--53164381 Score: 189
Period size: 46 Copynumber: 2.3 Consensus size: 47
53164265 ATCAACGTAG
*
53164275 ATATATATCATATCTTACATAATTTACATAACTTACATTATACATAA
1 ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
*
53164322 ATAT-TATCATATCTTACATAATTTATATAACTTACATAATACATAA
1 ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
53164368 ATATATATCATATC
1 ATATATATCATATC
53164382 ATAACTTACA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
46 44 0.77
47 13 0.23
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (47 bp):
ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
Found at i:53164360 original size:9 final size:9
Alignment explanation
Indices: 53164283--53164398 Score: 62
Period size: 9 Copynumber: 13.0 Consensus size: 9
53164273 AGATATATAT
*
53164283 CATATCTTA
1 CATAACTTA
*
53164292 CATAATTTA
1 CATAACTTA
53164301 CATAACTTA
1 CATAACTTA
*
53164310 CATTA--TA
1 CATAACTTA
*
53164317 CATAAATATTA
1 CAT-AA-CTTA
*
53164328 TCATATCTTA
1 -CATAACTTA
*
53164338 CATAATTTA
1 CATAACTTA
*
53164347 TATAACTTA
1 CATAACTTA
53164356 CATAA--TA
1 CATAACTTA
*
53164363 CATAA-ATA
1 CATAACTTA
* * *
53164371 TATATCATA
1 CATAACTTA
53164380 TCATAACTTA
1 -CATAACTTA
53164390 CATAACTTA
1 CATAACTTA
53164399 ATTATAGTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
7 12 0.15
8 6 0.07
9 49 0.60
10 9 0.11
11 3 0.04
12 3 0.04
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.40
Consensus pattern (9 bp):
CATAACTTA
Found at i:53169456 original size:13 final size:14
Alignment explanation
Indices: 53169440--53169468 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53169430 TTATAAATAT
53169440 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
53169453 TTATAATGGTTTAA
1 TTATAATGGTTTAA
53169467 TT
1 TT
53169469 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:53181447 original size:24 final size:24
Alignment explanation
Indices: 53181415--53181475 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
53181405 AAACTAGCAT
* * *
53181415 ACATAGTGCCAATCGATTTCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
53181439 ACATAGTGCCATTCAAATCCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
53181463 ACTTAGTGCCAAT
1 ACATAGTGCCAAT
53181476 GTTGGCTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCAATCAAATCCGCAC
Found at i:53187229 original size:24 final size:24
Alignment explanation
Indices: 53187197--53187257 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
53187187 AAACCAGCAT
* * *
53187197 ACATAGTGCCAATCGATTTCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
53187221 ACATAGTGCCATTCAAATCCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
53187245 ACTTAGTGCCAAT
1 ACATAGTGCCAAT
53187258 GTTGGCTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCAATCAAATCCGCAC
Found at i:53189303 original size:21 final size:21
Alignment explanation
Indices: 53189277--53189326 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
53189267 TATAAAATCT
53189277 AATAAAAATAAG-CTTAAAGAA
1 AATAAAAAT-AGTCTTAAAGAA
* *
53189298 AATAAAGAGTAGTCTTAAATAA
1 AATAAA-AATAGTCTTAAAGAA
53189320 AATAAAA
1 AATAAAA
53189327 TTAAAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.64, C:0.04, G:0.10, T:0.22
Consensus pattern (21 bp):
AATAAAAATAGTCTTAAAGAA
Found at i:53200733 original size:29 final size:29
Alignment explanation
Indices: 53200700--53200758 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
53200690 TGTTGATGAG
*
53200700 AATGAATAATGTCATGCTATTGACTTGAT
1 AATGAATAATGTCATGCCATTGACTTGAT
53200729 AATGAATAATGTCATGCCATTGACTTGAT
1 AATGAATAATGTCATGCCATTGACTTGAT
53200758 A
1 A
53200759 GAAACAACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (29 bp):
AATGAATAATGTCATGCCATTGACTTGAT
Found at i:53203195 original size:43 final size:43
Alignment explanation
Indices: 53203069--53203196 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
53203059 ATCCTAGAAG
*
53203069 AAAAAGAATTTAAAAAGAGGAGATGATAATCTTAGGA-TGTTGA
1 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTT-GGATTGTTGA
*
53203112 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTGA
1 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTTGA
* * * *
53203155 AAAAAAAATTTAAAAAGAGGAGAAAATAAACATGGATTGTTG
1 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTTG
53203197 GATTTACCTT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 2 0.03
43 75 0.97
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.24
Consensus pattern (43 bp):
AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTTGA
Found at i:53205081 original size:39 final size:39
Alignment explanation
Indices: 53205034--53205216 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
53205024 AATGTTCGAG
53205034 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53205073 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53205112 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
53205151 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
53205191 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53205217 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53212510 original size:39 final size:39
Alignment explanation
Indices: 53212463--53212645 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
53212453 AATGTTCGAG
53212463 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53212502 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53212541 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
53212580 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
53212620 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53212646 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53214421 original size:44 final size:44
Alignment explanation
Indices: 53214358--53214445 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
53214348 ATCTAAATTG
53214358 AATGATATGAGCAAGTACTAGACCAATACTTGCTATAGAATCTA
1 AATGATATGAGCAAGTACTAGACCAATACTTGCTATAGAATCTA
53214402 AATGATATGAGCAAGTACTAGACCAATACTTGCTATAGAATCTA
1 AATGATATGAGCAAGTACTAGACCAATACTTGCTATAGAATCTA
53214446 GACATAGAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (44 bp):
AATGATATGAGCAAGTACTAGACCAATACTTGCTATAGAATCTA
Found at i:53226565 original size:28 final size:27
Alignment explanation
Indices: 53226533--53226600 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
53226523 GCGTAGATCA
53226533 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGC-AAATTAC
53226561 CGAAATTACCCCTAAAGAGCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAATTAC
*
53226588 CGATA-TACCCCTA
1 CGAAATTACCCCTA
53226601 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 11 0.28
28 20 0.51
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGCAAATTAC
Found at i:53230677 original size:28 final size:28
Alignment explanation
Indices: 53230645--53230713 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
53230635 GCGTAGATCA
53230645 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
53230673 CGAAATTACCCCTAAAGAGCATAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
53230701 CGATA-TACCCCTA
1 CGAAATTACCCCTA
53230714 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:53234967 original size:28 final size:28
Alignment explanation
Indices: 53234935--53235003 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
53234925 GCGTAGATCA
53234935 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
53234963 CGAAATTACCCCTAAAGAGCATAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
53234991 CGATA-TACCCCTA
1 CGAAATTACCCCTA
53235004 GGTTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:53236455 original size:18 final size:18
Alignment explanation
Indices: 53236432--53236468 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
53236422 CCTAGCCAAC
53236432 AATAATACTTGACTAAGG
1 AATAATACTTGACTAAGG
53236450 AATAATACTTGACTAAGG
1 AATAATACTTGACTAAGG
53236468 A
1 A
53236469 TCTTTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AATAATACTTGACTAAGG
Found at i:53247846 original size:177 final size:178
Alignment explanation
Indices: 53247452--53247978 Score: 751
Period size: 177 Copynumber: 3.0 Consensus size: 178
53247442 CGGTGAATTC
* * * * *
53247452 ACAAGTCTTATCTTCTTAAGGTAGC-A--AAGAAGACTAAAAATTACAGATCTTACCT-TCATGT
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCT-ATGT
** * *
53247513 ATCGACTATGGAGTAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGAAAATTT
65 ATCGACTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGATTT
*
53247578 TAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
130 TAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
53247627 ACAAGTCTTATCTTCCTGAGATAGCAAGGGAGCAGACTGAAAATTACAGATCTTATCTCTATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTA
* * * * *
53247692 TCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGCATTGGCTATGGAGTAGA-TTT
66 TCGACTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGATTTT
* * * * *
53247756 AGCTACCCGCATTATCTCTCTAAGGTAGTAAGAAAGCAGGTTGAAGAT
131 AGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAT
* *
53247804 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTA
* * *
53247869 TCAACTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCGATGTATCGGCTATGGAGCAGATTTT
66 TCGACTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGATTTT
53247934 AGCCACCAGCCTTATCTCTCTGAA-GTAGCAAGAGAGCAGGTTGAA
131 AGCCACCAGCCTTATCTCTCT-AAGGTAGCAAGAGAGCAGGTTGAA
53247979 AATTGCATGT
Statistics
Matches: 308, Mismatches: 38, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
175 22 0.07
176 1 0.00
177 160 0.52
178 122 0.40
179 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (178 bp):
ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTA
TCGACTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGATTTT
AGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:53248107 original size:134 final size:134
Alignment explanation
Indices: 53247810--53248112 Score: 396
Period size: 134 Copynumber: 2.3 Consensus size: 134
53247800 AGATACAAGT
* **
53247810 CTTATCT-TCCTGAGGTAGC-AAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTATCAA
1 CTTATCTCT-CTGAGGTAGCAAAAG-AGCAGGTTGAAAATTACAAATCTTATCTCCATGTATCAA
* * * * *
53247873 CTATGGAGTAGATCGAAAATGGTGAGTCTTATCTCGATGTATCGGCTATGGAGCAGATTTTAGCC
64 CTATGGAGCAAATCGAAAATGATGAGTCCTATCTCGATGTATCGACTATGGAGCAGATTTTAGCC
53247938 ACCAGC
129 ACCAGC
* * * ** **
53247944 CTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAAATTGCATGTCTTATCTCCATGTATCGGCT
1 CTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAAATTACAAATCTTATCTCCATGTATCAACT
* * *
53248009 ATGGAGCAAATGGAAAATGATGATTCCTATCTTC-ATGTATTGACTATGGAGCAGATTTTAGCCA
66 ATGGAGCAAATCGAAAATGATGAGTCCTATC-TCGATGTATCGACTATGGAGCAGATTTTAGCCA
53248073 CCAGC
130 CCAGC
53248078 CTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAA
1 CTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAA
53248113 GATAAGAGCC
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
134 141 0.97
135 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (134 bp):
CTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAAATTACAAATCTTATCTCCATGTATCAACT
ATGGAGCAAATCGAAAATGATGAGTCCTATCTCGATGTATCGACTATGGAGCAGATTTTAGCCAC
CAGC
Found at i:53248217 original size:132 final size:132
Alignment explanation
Indices: 53247899--53248328 Score: 512
Period size: 132 Copynumber: 3.2 Consensus size: 132
53247889 AAATGGTGAG
* * * *
53247899 TCTTATCTCGATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
* * * * * * * * * * * * *
53247964 AGAGAGCAGGTTGAAAATTGCATGTCTTATCTCCATGTATCGGCTATGGAGCAA-ATG--GAAAA
66 AAAGAGCAGGTTGAAGA-TACAAGCCTTAACCCCCT-AAGCAG-TA-GG-GTAACAGGCTGAAAA
* *
53248026 TGA-TGA
126 TTACAGA
* * * *
53248032 TTCCTATCTTCATGTAT-TGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG
1 -TCTTATCTCCATGTATCAG-CTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAG
53248096 CAAAAGAGCAGGTTGAAGATA-AGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
64 CAAAAGAGCAGGTTGAAGATACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
53248160 ACAGA
128 ACAGA
*
53248165 TCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
* *
53248230 AGAGAGTAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
66 AAAGAGCAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
53248295 GA
131 GA
53248297 TCTTATCTCCATGTATCAGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCAGCTATGGAGCAGAT
53248329 AAAAAATGGC
Statistics
Matches: 260, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
129 3 0.01
130 4 0.02
131 2 0.01
132 163 0.63
133 15 0.06
134 73 0.28
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
AAAGAGCAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
GA
Found at i:53248368 original size:309 final size:307
Alignment explanation
Indices: 53247544--53248499 Score: 969
Period size: 309 Copynumber: 3.1 Consensus size: 307
53247534 AAATGGCGAG
* * *
53247544 TCTTATCTCCATGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATGGAGAAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
* * * *
53247609 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGATAGCAAGGGAGCAGACTGAAAATTAC
66 AGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCTAAG-TAGCAAGGGAGCAGGCTGAAAATTAC
* * *
53247674 AGATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGCATT
130 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGTGAGTCTTATCTCCATGTATT
* * * *
53247739 GGCTATGGAGTAGA-TTTAGCTACCCGCATTATCTCTCTAAGGTAGTAAGAA-AGCAGGTTGAAG
195 GG-TATGGAGTAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGCAA-AAGAGCAGGTTGAAG
* * ** * * * * *
53247802 ATACAAGTCTTATCTTCCTGAGGTAGCAAGG-AAGCAGACTGAAAATTACAAA
258 ATA-AAGCCTTAACCCCCT-AAGTAGTAGGGTAA-CAGGCTGAAAATTACAGA
* * *** ***** * *
53247854 TCTTATCTCCATGTATCAACTATGGAGTAGATCGAAAATGGTGAGTCTTA--TCTC-GATGTATC
1 TCTTATCTCCATGTATCAGCTATGGAGAAGAT-TTTAACCACCAGCCTTATCTCTCTGAGGTA--
* * ** ** * * * *
53247916 GGCTATG-GAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAA
63 -GC-AAGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCT-AAGTAGCAAGGGAGCAGGCTGAAA
* * * * * * *
53247980 ATTGCATG-TCTTATCTCCATGTATCGGCTATGGAGCAAATGGAAAATGATGATTCCTATCTTCA
125 ATTACA-GATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGTGAGTCTTATCTCCA
* * *
53248044 TGTATTGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGT
189 TGTATTG-GTATGGAGTAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGCAAAAGAGCAGGT
*
53248109 TGAAGATAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
253 TGAAGATAA-AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGA
* *
53248165 TCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATGGAGAAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
* * * * * *
53248230 AGAGAGTAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAG-TAGGGTAACAGGCTGAAAATTAC
66 AGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCTAAGTAGCAAGGG-AGCAGGCTGAAAATTAC
* * *
53248294 AGATCTTATCTCCATGTATCAGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATT
130 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGTGAGTCTTATCTCCATGTATT
** * * *
53248359 AGGTATGGAGTAGATTTTAGCCA-TTGTCTTTATCTCTCTGAGGTAGCAAGAGAACAGGTTGAAG
195 -GGTATGGAGTAGATTTTAGCCACCAG-CATTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAG
* * * *
53248423 ATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATAACGGA
258 AT-AAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGA
* *
53248474 TCTTACCTCCATGTATCGGCTATGGA
1 TCTTATCTCCATGTATCAGCTATGGA
53248500 TTAGATCGGA
Statistics
Matches: 516, Mismatches: 109, Indels: 43
0.77 0.16 0.06
Matches are distributed among these distances:
308 10 0.02
309 199 0.39
310 62 0.12
311 175 0.34
312 65 0.13
313 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (307 bp):
TCTTATCTCCATGTATCAGCTATGGAGAAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCTAAGTAGCAAGGGAGCAGGCTGAAAATTACA
GATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGTGAGTCTTATCTCCATGTATTG
GTATGGAGTAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGATA
AAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:53248461 original size:177 final size:177
Alignment explanation
Indices: 53248165--53248660 Score: 590
Period size: 177 Copynumber: 2.8 Consensus size: 177
53248155 AAATTACAGA
* * * *
53248165 TCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATTAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCA
* * * *
53248230 AGAGAGTAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
66 AGAGAGCAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATTACA
53248295 GATCTTATCTCCATGTATCAGCTATGGAGCAGATAAAAAATGGCGAG
131 GATCTTATCTCCATGTATCAGCTATGGAGCAGATAAAAAATGGCGAG
* * **
53248342 TCTTATCTCCATGTATTAGGTATGGAGTAGATTTTAGCCA-TTGTCTTTATCTCTCTGAGGTAGC
1 TCTTATCTCCATGTATTAGCTATGGAGCAGATTTTAGCCACCAGTC-TTATCTCTCTGAGGTAGC
* *
53248406 AAGAGAACAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATAAC
65 AAGAGAGCAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATTAC
* * * ** ***
53248471 GGATCTTACCTCCATGTATCGGCTATGGATTAGATCGGAAATGGCGAG
130 AGATCTTATCTCCATGTATCAGCTATGGAGCAGATAAAAAATGGCGAG
* * * * *
53248519 TCTTATATCCATGTATT-GTCTACGGAGCAGATTTTAGCCACCAATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCATGTATTAG-CTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAG--GTA
* * * ** * *
53248583 G--TG-GAGCAGATCGAAGATGGTGAGCCTTAACTCCCTAAGTAGTAGAGTAACAGGCTGAAATT
63 GCAAGAGAGCAGGTTGAAGAT-GCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAAT
53248645 TACA-AGTCTTATCTCC
127 TACAGA-TCTTATCTCC
53248661 CTAAATAGTA
Statistics
Matches: 270, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
176 16 0.06
177 248 0.92
178 2 0.01
179 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCATGTATTAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATTACA
GATCTTATCTCCATGTATCAGCTATGGAGCAGATAAAAAATGGCGAG
Found at i:53266238 original size:22 final size:22
Alignment explanation
Indices: 53266210--53266253 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53266200 TATACTCTTC
53266210 TAAGTATAAAACATGAAATTAA
1 TAAGTATAAAACATGAAATTAA
53266232 TAAGTATAAAACATGAAATTAA
1 TAAGTATAAAACATGAAATTAA
53266254 GGCATTAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAGTATAAAACATGAAATTAA
Found at i:53267907 original size:27 final size:28
Alignment explanation
Indices: 53267851--53267920 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
53267841 AAATTTGTAC
53267851 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53267879 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53267906 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53267921 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53275824 original size:27 final size:28
Alignment explanation
Indices: 53275768--53275837 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
53275758 AAATTTGTAC
53275768 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53275796 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53275823 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53275838 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53277750 original size:2 final size:2
Alignment explanation
Indices: 53277743--53277780 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
53277733 AGTCATACTC
*
53277743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53277781 CATGTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:53278913 original size:50 final size:50
Alignment explanation
Indices: 53278859--53278960 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
53278849 TAACACCACG
* * * *
53278859 TAAATACTTACCTATATAACCGAATATACAAGGTCCAATATATCATCTCA
1 TAAATAATTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
* ** * *
53278909 TAAATAATTACATGTATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TAAATAATTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
53278959 TA
1 TA
53278961 TGGCCGAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (50 bp):
TAAATAATTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
Found at i:53279010 original size:35 final size:35
Alignment explanation
Indices: 53278947--53279066 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 35
53278937 CAAGGTTCAT
* *
53278947 TATATCATCACATATGGCCGAATATACAAGTTAGA
1 TATAACATCACATATAGCCGAATATACAAGTTAGA
* * * * * *
53278982 TAGACCATCACATGTAGCCAAATTTACAAATTCA-A
1 TATAACATCACATATAGCCGAATATACAAGTT-AGA
* *
53279017 TATATCATCACATATAGCCGAATATACAAGTTTGA
1 TATAACATCACATATAGCCGAATATACAAGTTAGA
53279052 TATAACATCACATAT
1 TATAACATCACATAT
53279067 GTACATACCT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
35 67 0.99
36 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (35 bp):
TATAACATCACATATAGCCGAATATACAAGTTAGA
Found at i:53280648 original size:35 final size:35
Alignment explanation
Indices: 53280587--53280731 Score: 132
Period size: 35 Copynumber: 4.1 Consensus size: 35
53280577 TAGATATGTA
* *
53280587 CATATGTGATGTTACATCTAACTTGTATATTCGGC
1 CATATGTGATGATATATCTAACTTGTATATTCGGC
* * *
53280622 CATATGTGATGATATAT-TGAATTTGTAAATTTGGC
1 CATATGTGATGATATATCT-AACTTGTATATTCGGC
* * * * *
53280657 TACATGTGATGTTCTATCTAACTTGTATATTTGGC
1 CATATGTGATGATATATCTAACTTGTATATTCGGC
* * *
53280692 CATTTGTGATGATATAAT-GAACCTTGTGTATTCGGC
1 CATATGTGATGATAT-ATCTAA-CTTGTATATTCGGC
53280728 CATA
1 CATA
53280732 CATGTAAGTA
Statistics
Matches: 86, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
34 1 0.01
35 67 0.78
36 18 0.21
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (35 bp):
CATATGTGATGATATATCTAACTTGTATATTCGGC
Found at i:53280774 original size:50 final size:50
Alignment explanation
Indices: 53280699--53280795 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
53280689 GGCCATTTGT
* *
53280699 GATGATATAATGAACCTTGTGTATTCGGCCATACATGTAAGTATTTATGA
1 GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTATGA
* * ** *
53280749 GATGATATATTGGACCTTGTATATTCGGTTATATAGGTAAGTATTTA
1 GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTA
53280796 CGTATTGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (50 bp):
GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTATGA
Found at i:53282403 original size:40 final size:40
Alignment explanation
Indices: 53282348--53282535 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
53282338 ATAACCACAA
* *
53282348 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
53282388 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
53282428 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
53282468 GCACAAATGCCTTCGGGTCTTAACCTGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
53282508 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
53282536 GTATCATTCA
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 132 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:53287968 original size:45 final size:45
Alignment explanation
Indices: 53287904--53287997 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
53287894 ATCTAGAACC
* *
53287904 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACGAAATT
1 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
53287949 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
1 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
53287994 TAAA
1 TAAA
53287998 TGAAAGCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (45 bp):
TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
Found at i:53293370 original size:57 final size:57
Alignment explanation
Indices: 53293301--53293415 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
53293291 TGCTGACGCA
53293301 TCGAATCCTTAGGCTCCCACGTAGCCTCATCAGTACTATGATTTCACCATAGCACCT
1 TCGAATCCTTAGGCTCCCACGTAGCCTCATCAGTACTATGATTTCACCATAGCACCT
* *
53293358 TCGAATCCTTAGGCTCCCACGTGGCCTCATCAGTACTATGATTTCACCATATCACCT
1 TCGAATCCTTAGGCTCCCACGTAGCCTCATCAGTACTATGATTTCACCATAGCACCT
53293415 T
1 T
53293416 GATAGATTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (57 bp):
TCGAATCCTTAGGCTCCCACGTAGCCTCATCAGTACTATGATTTCACCATAGCACCT
Found at i:53301147 original size:24 final size:23
Alignment explanation
Indices: 53301083--53301162 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
53301073 AAGCTCCTCC
*
53301083 TGAGCTGATGAATAGTAAGCTCTAT
1 TGAGCTGA--AATAGTAAGCTCTAA
*
53301108 TGAGCTGAAATGGTAAGCTCTAA
1 TGAGCTGAAATAGTAAGCTCTAA
* * *
53301131 TGAGTTGAAAATAGTAAACTCTTA
1 TGAGCTG-AAATAGTAAGCTCTAA
*
53301155 CGAGCTGA
1 TGAGCTGA
53301163 TATATCGGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.43
24 18 0.39
25 8 0.17
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (23 bp):
TGAGCTGAAATAGTAAGCTCTAA
Found at i:53306902 original size:20 final size:20
Alignment explanation
Indices: 53306874--53306926 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
53306864 ATTCATTTCT
* *
53306874 ATTCGTATAAACTGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
53306894 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
53306914 ATCCATATAAACA
1 ATTCATATAAACA
53306927 CCTATCTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (20 bp):
ATTCATATAAACAGTAGTTC
Found at i:53310894 original size:16 final size:17
Alignment explanation
Indices: 53310873--53310907 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
53310863 TAATGTCTAG
53310873 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
53310889 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
53310907 G
1 G
53310908 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:53312066 original size:31 final size:31
Alignment explanation
Indices: 53312019--53312077 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
53312009 ATGATAAGTA
*
53312019 AAAAGTGGTAGATTCGGCTACCTAATCAGTG
1 AAAAGTGATAGATTCGGCTACCTAATCAGTG
*
53312050 AAAAGTGATAGCTTCGGCTACCTAATCA
1 AAAAGTGATAGATTCGGCTACCTAATCA
53312078 TCTGCTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAAGTGATAGATTCGGCTACCTAATCAGTG
Found at i:53312122 original size:31 final size:31
Alignment explanation
Indices: 53312081--53312147 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
53312071 CTAATCATCT
*
53312081 GCTACTTGATCAGTGAAAAATGGTAACTCCG
1 GCTACCTGATCAGTGAAAAATGGTAACTCCG
* * * *
53312112 GCTACCTGATCAGTGAATAGTGGTAGCTTCG
1 GCTACCTGATCAGTGAAAAATGGTAACTCCG
53312143 GCTAC
1 GCTAC
53312148 AAGTGACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (31 bp):
GCTACCTGATCAGTGAAAAATGGTAACTCCG
Found at i:53313587 original size:26 final size:26
Alignment explanation
Indices: 53313558--53313639 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
53313548 TGATACAAAT
*
53313558 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53313584 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53313610 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53313636 TGAT
1 TGAT
53313640 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53315663 original size:137 final size:136
Alignment explanation
Indices: 53315417--53315690 Score: 512
Period size: 137 Copynumber: 2.0 Consensus size: 136
53315407 TTGAGTAGTC
53315417 TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
1 TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
53315482 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA
66 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTA
53315547 CCACTGT
130 CCACTGT
*
53315554 TCCCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
1 TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
* *
53315619 ACTGTTATCTGAATAAGGGGCTAAGGCTCAGTTTATTGTAATCTGAAAAGGGCTTGGGCCAGTAC
66 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCAGTAC
53315684 CACTGT
131 CACTGT
53315690 T
1 T
53315691 ACTGAATGGG
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 17 0.13
137 117 0.87
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTGGCCCAGTAC
CACTGT
Found at i:53320788 original size:26 final size:26
Alignment explanation
Indices: 53320759--53320866 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
53320749 TGATACAAAT
53320759 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53320785 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53320811 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53320837 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53320863 TGAT
1 TGAT
53320867 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53322894 original size:137 final size:137
Alignment explanation
Indices: 53322648--53322936 Score: 506
Period size: 137 Copynumber: 2.1 Consensus size: 137
53322638 TTGAGTAGTC
*
53322648 TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGACATGGGCCTATGGGCCAT
1 TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
*
53322713 ACTATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA
66 ACTATTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA
53322778 CCACTGT
131 CCACTGT
*
53322785 TCCCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
1 TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
* *
53322850 ACTGTTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGGCCAGTA
66 ACTATTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA
53322915 CCACTGT
131 CCACTGT
* **
53322922 TACCTGAATGGGCTT
1 TCCCCAAATGGGCTT
53322937 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
TCCCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
ACTATTATCTGAATAAGGGGCTAAAGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA
CCACTGT
Found at i:53325905 original size:46 final size:46
Alignment explanation
Indices: 53325852--53326027 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53325842 TATTTGGGCA
53325852 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53325898 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53325945 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53325991 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53326028 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53326007 original size:93 final size:93
Alignment explanation
Indices: 53325848--53326019 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53325838 GGGATATTTG
* *
53325848 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53325913 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53325941 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53326006 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53326020 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53328996 original size:15 final size:15
Alignment explanation
Indices: 53328976--53329044 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
53328966 GTATCTTGGG
53328976 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
53328991 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
53329006 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
53329021 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
53329036 TTTCTTTAT
1 TTTCTTTAT
53329045 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:53329045 original size:30 final size:30
Alignment explanation
Indices: 53328967--53329054 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
53328957 CATAGTATCG
* * * *
53328967 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
53328997 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
53329027 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
53329055 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:53331488 original size:46 final size:46
Alignment explanation
Indices: 53331438--53331613 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53331428 TATTTGGGCA
53331438 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53331484 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53331531 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53331577 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53331614 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53331593 original size:93 final size:93
Alignment explanation
Indices: 53331434--53331605 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53331424 TGGATATTTG
* *
53331434 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53331499 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53331527 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53331592 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53331606 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53334583 original size:15 final size:15
Alignment explanation
Indices: 53334563--53334631 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
53334553 GTATCTTGGG
53334563 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
53334578 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
53334593 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
53334608 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
53334623 TTTCTTTAT
1 TTTCTTTAT
53334632 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:53334632 original size:30 final size:30
Alignment explanation
Indices: 53334554--53334641 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
53334544 CATAGTATCG
* * * *
53334554 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
53334584 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
53334614 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
53334642 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:53337073 original size:46 final size:46
Alignment explanation
Indices: 53337020--53337195 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53337010 TATTTGGGCA
53337020 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53337066 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53337113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53337159 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53337196 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53337175 original size:93 final size:93
Alignment explanation
Indices: 53337016--53337187 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53337006 GGGATATTTG
* *
53337016 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53337081 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53337109 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53337174 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53337188 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53339618 original size:19 final size:20
Alignment explanation
Indices: 53339591--53339632 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
53339581 TTTTTTTGCA
* *
53339591 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
53339611 TTCA-TCATGTGCATTAAAT
1 TTCATTCATGTGCATTAAAT
53339630 TTC
1 TTC
53339633 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:53347762 original size:86 final size:86
Alignment explanation
Indices: 53347614--53347921 Score: 420
Period size: 86 Copynumber: 3.6 Consensus size: 86
53347604 AGAATGGTGT
* *
53347614 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
53347679 TATCTCCCTAAGCAGTAGTGG-
66 TATCTCCCTAAGCAGTAG-GGA
*
53347700 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
53347765 TATCTCCCTAAGCAGTAGGGA
66 TATCTCCCTAAGCAGTAGGGA
* ** * * *
53347786 AACAGATCGAAGACAAAGGGCCTTAACCCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 AACAGATCGAAGACGAAGAACCTTAA-ACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGAT
* *
53347851 CTTAACCCCCTAAGCAGTAGGGA
64 CTTATCTCCCTAAGCAGTAGGGA
* * ** * * *
53347874 AACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACA
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACA
53347922 AGCTAAATTT
Statistics
Matches: 202, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
85 2 0.01
86 102 0.50
87 47 0.23
88 51 0.25
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
TATCTCCCTAAGCAGTAGGGA
Found at i:53347865 original size:130 final size:128
Alignment explanation
Indices: 53347720--53348027 Score: 300
Period size: 130 Copynumber: 2.4 Consensus size: 128
53347710 AGACGAAGAA
* * *
53347720 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGGG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTAACCCCCTAAGCAGTAGGG
* * *
53347785 AAACAGATCGAAGA-CAAAGGGCCTTAACCCCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC-A
66 AAACA-AGCGAA-ATCAAAGAGCCTTAA-CCCCCTAAGCAGTAGGGTAACAAGCTAAATTTACGA
53347848 G
128 G
* * * * * * *
53347849 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GA-TGATGGGCTTTAACCCCCTAAGTAG
1 -CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGAT---C-TTAACCCCCTAAGCAG
* * ** * *
53347912 TAGGGTAACAAGCTAAATTTACGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAATTTAC
61 TAGGGAAACAAGCGAAATCAAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAATTTAC
53347977 GAG
126 GAG
* * *
53347980 CCTTAACTCCCTAAGCCGTAGGGTAATAGGTTGAAAATTACAGATCTT
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTG--AATTACAGATCTT
53348028 GCCTCCCTGA
Statistics
Matches: 140, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
128 3 0.02
129 1 0.01
130 92 0.66
131 16 0.11
132 24 0.17
133 1 0.01
134 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (128 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAAGCGAAATCAAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAATTTACGAG
Found at i:53347878 original size:43 final size:42
Alignment explanation
Indices: 53347642--53348027 Score: 217
Period size: 43 Copynumber: 8.9 Consensus size: 42
53347632 AACCTTAAAT
* * * * *
53347642 CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCTTAACC
* * * ** * *
53347684 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACCTTAAAC
1 CCCTAAGCAGTAG-GGTAACAG-GCTAA-ATTACAG-ATCTTAACC
* * * *
53347728 CCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCTTAACC
* * * * * **
53347770 CCCTAAGCAGTAGGGAAACAGATCGAAGA-CAAAGGGCCTTAACCC
1 CCCTAAGCAGTAGGGTAACAG-GCTAA-ATTACA-GATCTTAA-CC
53347815 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGATCTTAACC
* * * * * **
53347858 CCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGGCTTTAACC
1 CCCTAAGCAGTAGGGTAACAG-GCTAA-ATTACAGATC-TTAACC
* * *
53347902 CCCTAAGTAGTAGGGTAACAAGCTAAATTTAC-GAGCTTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGATC-TTAACC
* * *
53347945 CCCTAAGCAGTAGGGTAACAAGCTAAATTTAC-GAGCCTTAACT
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGA-TCTTAACC
* * *
53347988 CCCTAAGCCGTAGGGTAATAGGTTGAAAATTACAGATCTT
1 CCCTAAGCAGTAGGGTAACAGGCT--AAATTACAGATCTT
53348028 GCCTCCCTGA
Statistics
Matches: 260, Mismatches: 63, Indels: 40
0.72 0.17 0.11
Matches are distributed among these distances:
42 45 0.17
43 111 0.43
44 75 0.29
45 29 0.11
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCTTAACC
Found at i:53347908 original size:87 final size:86
Alignment explanation
Indices: 53347614--53347964 Score: 418
Period size: 86 Copynumber: 4.0 Consensus size: 86
53347604 AGAATGGTGT
** ** * * *
53347614 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCT
* *
53347679 TATCTCCCTAAGCAGTAGTGG-
66 TAACCCCCTAAGCAGTAG-GGA
* ** * * *
53347700 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTACAGATCT
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCT
* *
53347765 TATCTCCCTAAGCAGTAGGGA
66 TAACCCCCTAAGCAGTAGGGA
*
53347786 AACAGATCGAAGACAAAGGGCCTTAACCCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 AACAGATCGAAGACGAAGGGCCTTAA-CCCCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGAT
53347851 CTTAACCCCCTAAGCAGTAGGGA
64 CTTAACCCCCTAAGCAGTAGGGA
* * * * * *
53347874 AACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTAAATTTAC-GAGC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGATC
*
53347938 TTTAACCCCCTAAGCAGTAGGGT
65 -TTAACCCCCTAAGCAGTAGGGA
53347961 AACA
1 AACA
53347965 AGCTAAATTT
Statistics
Matches: 241, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
85 2 0.01
86 105 0.44
87 83 0.34
88 51 0.21
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (86 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCT
TAACCCCCTAAGCAGTAGGGA
Found at i:53348218 original size:134 final size:134
Alignment explanation
Indices: 53347978--53348323 Score: 568
Period size: 134 Copynumber: 2.6 Consensus size: 134
53347968 TAAATTTACG
* *
53347978 AGCCTTAACTCCC-TAAGCCGTAGGGTAATAGGTTGAAAATTACAGATCTTGCCTCCCTGAAGTT
1 AGCCTTAAC-CCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTT
* * *
53348042 GCAGTGGAGCAGATCAGAGATGACGAATCTCACTTTTCTGAAGTAGTAGTGAAGCAGATTCAAGC
65 GCAGTGGAGCAGATCAGAGATGACGAATCTCACTTTCCTGAAGTAGCAGTGAAACAGATTCAAGC
53348107 CACCA
130 CACCA
53348112 AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
1 AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
* *
53348177 CAGTGAAGCAGATCAGAGATGACGAATCTCACTTTCCTGAAGTTGCAGTGAAACAGATTCAAGCC
66 CAGTGGAGCAGATCAGAGATGACGAATCTCACTTTCCTGAAGTAGCAGTGAAACAGATTCAAGCC
53348242 ACCA
131 ACCA
* * ** *
53348246 AGCCTTAACCCCTTAAGCAGAAGGGTAATAGGCTGAAGATTACAGATCTTGCCTCTTTGGAGTTG
1 AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
53348311 CAGTGGAGCAGAT
66 CAGTGGAGCAGAT
53348324 TGAATAGCGA
Statistics
Matches: 198, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 3 0.02
134 195 0.98
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (134 bp):
AGCCTTAACCCCTTAAGCAGTAGGGTAATAGGCTGAAAATTACAGATCTTGCCTCCCTGAAGTTG
CAGTGGAGCAGATCAGAGATGACGAATCTCACTTTCCTGAAGTAGCAGTGAAACAGATTCAAGCC
ACCA
Found at i:53348400 original size:44 final size:46
Alignment explanation
Indices: 53348333--53348467 Score: 150
Period size: 51 Copynumber: 2.9 Consensus size: 46
53348323 TTGAATAGCG
* *
53348333 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC-T-ATA
1 AATCGTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATCACA
* *
53348377 AATCGTATAC-CTCTGAAGTTGCAGTAGGGTCAGATCAAATCTGCCATCACA
1 AATCGTAT-CTCTCTGAAGTTGCAGTAGAG-CAGATTAAA---G-CATCACA
*
53348428 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
1 AATCGTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
53348468 CATTACCATC
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
44 25 0.33
45 9 0.12
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 10 0.13
51 27 0.36
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (46 bp):
AATCGTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATCACA
Found at i:53351652 original size:21 final size:23
Alignment explanation
Indices: 53351610--53351652 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
53351600 ATATTAGAGA
53351610 AATTATAACTACAATGATTTAGC
1 AATTATAACTACAATGATTTAGC
*
53351633 AATTATAA-TTCAAT-ATTTAG
1 AATTATAACTACAATGATTTAG
53351653 AGAAGTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (23 bp):
AATTATAACTACAATGATTTAGC
Found at i:53354038 original size:35 final size:34
Alignment explanation
Indices: 53353947--53354079 Score: 146
Period size: 34 Copynumber: 3.9 Consensus size: 34
53353937 CTCACTAATT
* * *
53353947 ATTCATCAGCTTATCTGACTAGTGTTGGGCACAC
1 ATTCGTCAGTTTATCTGACTAGTGCTGGGCACAC
* *
53353981 ATTCGTCTGTTTATTTGACTAGTGCTGGGCACGAC
1 ATTCGTCAGTTTATCTGACTAGTGCTGGGCAC-AC
53354016 -TTCCGTCAGTTTATCT-AGCTAGTGCTGGGCACAC
1 ATT-CGTCAGTTTATCTGA-CTAGTGCTGGGCACAC
* *
53354050 ATTTGTC-GATTTATCCGACTAGTGCTGGGC
1 ATTCGTCAG-TTTATCTGACTAGTGCTGGGC
53354080 GCAAATTCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
33 1 0.01
34 53 0.63
35 30 0.36
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (34 bp):
ATTCGTCAGTTTATCTGACTAGTGCTGGGCACAC
Found at i:53367412 original size:17 final size:16
Alignment explanation
Indices: 53367379--53367409 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53367369 GTTTATGATA
53367379 AATTTGAGTTAAATTG
1 AATTTGAGTTAAATTG
*
53367395 AATTTGAGTTTAATT
1 AATTTGAGTTAAATT
53367410 TGATCCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
AATTTGAGTTAAATTG
Found at i:53370270 original size:39 final size:39
Alignment explanation
Indices: 53370163--53370382 Score: 314
Period size: 39 Copynumber: 5.6 Consensus size: 39
53370153 ACAAAGCATG
*
53370163 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTG
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
53370204 CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
53370244 CGGGACTTAGCCCGAATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
53370283 CGGGACTTAGCCCGGATATAATACCAGTACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * * *
53370322 CGGGACTTAGCCCGGATATAACACCAGTACAAATACCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
53370361 CGGGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
53370383 TCTCCATTAT
Statistics
Matches: 165, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 120 0.73
40 36 0.22
41 9 0.05
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:53372756 original size:21 final size:21
Alignment explanation
Indices: 53372691--53372756 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
53372681 TGCACGGGCA
*
53372691 TGTGTGGCCTTCACATGGGCG
1 TGTGTGGCCTTCACATAGGCG
** *
53372712 TGTGTGGCCTTCTTACAGGCG
1 TGTGTGGCCTTCACATAGGCG
*
53372733 TGTGTGGCCTTCACATAGGTG
1 TGTGTGGCCTTCACATAGGCG
53372754 TGT
1 TGT
53372757 AGACCCCCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.11, C:0.21, G:0.35, T:0.33
Consensus pattern (21 bp):
TGTGTGGCCTTCACATAGGCG
Found at i:53374797 original size:40 final size:40
Alignment explanation
Indices: 53374735--53374912 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
53374725 AAGCCAAGTA
* * *
53374735 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCTCAAATG
*
53374774 CCTTCGGGACATAGCCCGGATATAGTAACTCG-TACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCT-CAAATG
* *
53374814 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
* * *
53374854 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCTCAAATG
*
53374894 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53374913 TTATCATCCA
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
39 14 0.11
40 108 0.89
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
Found at i:53374892 original size:80 final size:80
Alignment explanation
Indices: 53374735--53374912 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 80
53374725 AAGCCAAGTA
* * *
53374735 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACGAATGCCTTCGGGACATAGCCCGGATATAG
* *
53374799 TAACTCGTACAAATG
66 TAACTAGCACAAATG
*
53374814 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGCCCGGA-ACT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGATA-T
* *
53374877 AGTCACTAGCGCAAATG
64 AGTAACTAGCACAAATG
*
53374894 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53374913 TTATCATCCA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 14 0.16
80 73 0.84
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACGAATGCCTTCGGGACATAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:53376189 original size:6 final size:6
Alignment explanation
Indices: 53376171--53376207 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
53376161 CATGAGAGCC
*
53376171 TTTCTT TTT-TT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
53376208 TTCATCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.33
6 18 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:53376193 original size:17 final size:17
Alignment explanation
Indices: 53376171--53376207 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
53376161 CATGAGAGCC
* *
53376171 TTTCTTTTTTTTTTCTT
1 TTTCTTTCTCTTTTCTT
53376188 TTTCTTTCTCTTTTCTT
1 TTTCTTTCTCTTTTCTT
53376205 TTT
1 TTT
53376208 TTCATCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTCTCTTTTCTT
Found at i:53383408 original size:2 final size:2
Alignment explanation
Indices: 53383401--53383459 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
53383391 CTAAATTTCG
53383401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
53383442 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
53383460 TCTCTTGTGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:53383605 original size:27 final size:27
Alignment explanation
Indices: 53383550--53383606 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
53383540 ATTTTAAAAG
* *
53383550 TTAAAATTTTAATCATCTTTTTTTAAT
1 TTAAAATTTTAATCATCTATTATTAAT
53383577 TTAAAATTTTAATTCAAT-TATTATT-AT
1 TTAAAATTTTAA-TC-ATCTATTATTAAT
53383604 TTA
1 TTA
53383607 CAGCTTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 17 0.65
28 7 0.27
29 2 0.08
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAAAATTTTAATCATCTATTATTAAT
Found at i:53389974 original size:11 final size:11
Alignment explanation
Indices: 53389958--53389984 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
53389948 ATGAATTGAA
53389958 ATTTTTATTTT
1 ATTTTTATTTT
53389969 ATTTTTATTTT
1 ATTTTTATTTT
53389980 ATTTT
1 ATTTT
53389985 ACTTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:53393532 original size:30 final size:30
Alignment explanation
Indices: 53393498--53393555 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
53393488 CCGAGCCTAG
53393498 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * *
53393528 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
53393556 GAGTTAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:53394172 original size:64 final size:65
Alignment explanation
Indices: 53394017--53394331 Score: 271
Period size: 64 Copynumber: 4.8 Consensus size: 65
53394007 ATACAGATGG
* * * * * * * *
53394017 TATGTAGCTAGGTCATATGTGTAATACGA-GATGTATACCATGTGTACAAGAGAGCTATGAGACA
1 TATGTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTATACAAGAGAGCTA-CAGAGA
53394081 TTA
64 -TA
* *
53394084 TGAGGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTATACAAGAGAGCTACAG-GAT
1 T-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTATACAAGAGAGCTACAGAGAT
53394148 A
65 A
* *
53394149 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTA-TGAGATA
1 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTATACAAGAGAGCTACAGAGATA
* ** * * * * * * *
53394213 AATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTAC-GAG
1 TATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTATACAAGAGAGCTACAGAG
53394277 ATA
63 ATA
* * * * * * *
53394280 -AAGTGGCTAGGTCACATAGGTGGTACTAAGTGTTCACCATGTGTACAAGAGA
1 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTATACAAGAGA
53394332 ACCAAAATTA
Statistics
Matches: 202, Mismatches: 39, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
63 18 0.09
64 76 0.38
65 11 0.05
66 18 0.09
67 32 0.16
68 46 0.23
69 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTATACAAGAGAGCTACAGAGATA
Found at i:53398314 original size:42 final size:41
Alignment explanation
Indices: 53398265--53398379 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 41
53398255 CTTCGTTTTC
* * *
53398265 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAGCTATGGTCTTACACATATTCACAT-A
*
53398308 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAG-CCAGCTATGGTCTTACACATATTCACATA
53398349 TCGATGCCATAGCCTAGCTATGGTCTTACAC
1 TCGATGCCATAGCC-AGCTATGGTCTTACAC
53398380 GAATCACATA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 4 0.06
42 60 0.92
43 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (41 bp):
TCGATGCCATAGCCAGCTATGGTCTTACACATATTCACATA
Found at i:53398533 original size:31 final size:31
Alignment explanation
Indices: 53398498--53398677 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
53398488 CTTGTCACTT
* *
53398498 GTAGCCGAAGCTACCAGTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
53398529 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
53398560 GTAGCCGGAGCTACCACTTTTTACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
53398591 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCGAAGCTACCACTTTTCACTGATCAG
*
53398622 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
53398653 GTAGCTAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
53398678 TGTCATTTGT
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.03
31 129 0.95
32 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:53398763 original size:49 final size:51
Alignment explanation
Indices: 53398660--53398780 Score: 185
Period size: 49 Copynumber: 2.4 Consensus size: 51
53398650 CAGGTAGCTA
* *
53398660 AAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
*
53398711 AAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCA-ATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCG
53398760 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
53398781 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
49 32 0.49
50 13 0.20
51 20 0.31
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
Found at i:53401627 original size:14 final size:15
Alignment explanation
Indices: 53401603--53401631 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53401593 CATATTACTA
53401603 AATTAATAATTAAAT
1 AATTAATAATTAAAT
53401618 AATT-ATAATTAAAT
1 AATTAATAATTAAAT
53401632 TTATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTAATAATTAAAT
Found at i:53402331 original size:9 final size:9
Alignment explanation
Indices: 53402319--53402344 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
53402309 TCATCATCTT
53402319 ATTATTATA
1 ATTATTATA
53402328 ATTATTATA
1 ATTATTATA
53402337 ATTATTAT
1 ATTATTAT
53402345 TTACATGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATA
Found at i:53404372 original size:46 final size:47
Alignment explanation
Indices: 53404312--53404539 Score: 322
Period size: 46 Copynumber: 5.0 Consensus size: 47
53404302 TTTGACATGA
* * * * * *
53404312 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** **
53404358 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
53404404 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
53404450 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
53404496 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
53404540 AGAGCACACT
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.02
46 160 0.96
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:53406677 original size:11 final size:11
Alignment explanation
Indices: 53406661--53406712 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
53406651 TATACTAAAT
53406661 AAATAATAATA
1 AAATAATAATA
*
53406672 AAATAAT-ATT
1 AAATAATAATA
* *
53406682 AAATATCTCATA
1 AAATA-ATAATA
*
53406694 AAATATTAATA
1 AAATAATAATA
53406705 AAATAATA
1 AAATAATA
53406713 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:53407781 original size:62 final size:62
Alignment explanation
Indices: 53407644--53407781 Score: 163
Period size: 62 Copynumber: 2.2 Consensus size: 62
53407634 CACGGGCAAC
* * * *
53407644 GGACACGAGTGTGTGTCTAAGCCGTGTAACTTATTGTTTATGGTATAAAACCACACGGCTAG
1 GGACACGAGCGTGTGCCTAAGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCTAG
* ** * *
53407706 GGACACG-GACGTGTGCCTAGGTTGTGTAACTCACTGTTTGTGGTATAAAACTACACGG-TCAG
1 GGACACGAG-CGTGTGCCTAAGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCT-AG
53407768 GGACACGAGCGTGT
1 GGACACGAGCGTGT
53407782 ACCCAGGCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 2 0.03
62 61 0.95
63 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (62 bp):
GGACACGAGCGTGTGCCTAAGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCTAG
Found at i:53410235 original size:43 final size:43
Alignment explanation
Indices: 53410080--53410236 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 43
53410070 TGTGTTCTCG
* *
53410080 TGTAATACCACGTCTGAGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGAGACGTTGGCATCGA-TATTTGA-TTACA
* * * * ** * *
53410124 TATAAGACCATGGT-TGGGACATCAGCATCG-TATTTGATTTCG
1 TGTAAGACCA-CGTCTGAGACGTTGGCATCGATATTTGATTACA
*
53410166 TGTAAGACC-CTATCTG-GAACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGAG-AC-GTTGGCATCGATATTTGATTACA
53410209 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGAGACGTTGGCAT
53410237 TTTATGAGTT
Statistics
Matches: 84, Mismatches: 19, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
41 2 0.02
42 23 0.27
43 35 0.42
44 22 0.26
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGACGTTGGCATCGATATTTGATTACA
Done.