Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 124 of 322
Found at i:40593023 original size:305 final size:305
Alignment explanation
Indices: 40592472--40593087 Score: 1207
Period size: 305 Copynumber: 2.0 Consensus size: 305
40592462 AACTAAATAA
40592472 TTTCATTAAATTGAGTTTGAATCAATAATTTGCAAGGCATTTATTAATGAACTACTCATTAGAAA
1 TTTCATTAAATTGAGTTTGAATCAATAATTTGCAAGGCATTTATTAATGAACTACTCATTAGAAA
40592537 AATTAAATTATTGACATGGTCAAACCTTTTTACGCGAACTAGGATGACAACCCAAGCACCCTAGC
66 AATTAAATTATTGACATGGTCAAACCTTTTTACGCGAACTAGGATGACAACCCAAGCACCCTAGC
40592602 CCGGTTACTCAGTTCAAACAGTCTTAAAATTTTATTTATTTATTTTTTTGTGTGAGTGAAGGCTA
131 CCGGTTACTCAGTTCAAACAGTCTTAAAATTTTATTTATTTATTTTTTTGTGTGAGTGAAGGCTA
40592667 AGTTAGCGGAATGTTTATAAGCTACCGACTTGTCACTCGGACTTTTTTACGTGAGATAAGATGAC
196 AGTTAGCGGAATGTTTATAAGCTACCGACTTGTCACTCGGACTTTTTTACGTGAGATAAGATGAC
*
40592732 AACCCAATCACCTTACCCCATTTACTCAATCCGGTCTTTCGAAAC
261 AACCCAAGCACCTTACCCCATTTACTCAATCCGGTCTTTCGAAAC
40592777 TTTCATTAAATTGAGTTTGAATCAATAATTTGCAAGGCATTTATTAATGAACTACTCATTAGAAA
1 TTTCATTAAATTGAGTTTGAATCAATAATTTGCAAGGCATTTATTAATGAACTACTCATTAGAAA
*
40592842 AATTAAATTATTGACATGGTCAAACCTTTTTACGCGAACTAGGATGACAACCCAAGCACCTTAGC
66 AATTAAATTATTGACATGGTCAAACCTTTTTACGCGAACTAGGATGACAACCCAAGCACCCTAGC
40592907 CCGGTTACTCAGTTCAAACAGTCTTAAAATTTTATTTATTTATTTTTTTGTGTGAGTGAAGGCTA
131 CCGGTTACTCAGTTCAAACAGTCTTAAAATTTTATTTATTTATTTTTTTGTGTGAGTGAAGGCTA
40592972 AGTTAGCGGAATGTTTATAAGCTACCGACTTGTCACTCGGACTTTTTTACGTGAGATAAGATGAC
196 AGTTAGCGGAATGTTTATAAGCTACCGACTTGTCACTCGGACTTTTTTACGTGAGATAAGATGAC
40593037 AACCCAAGCACCTTACCCCATTTACTCAATCCGGTCTTTCGAAAC
261 AACCCAAGCACCTTACCCCATTTACTCAATCCGGTCTTTCGAAAC
40593082 -TTCATT
1 TTTCATT
40593088 CATAACTTGA
Statistics
Matches: 309, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
304 6 0.02
305 303 0.98
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (305 bp):
TTTCATTAAATTGAGTTTGAATCAATAATTTGCAAGGCATTTATTAATGAACTACTCATTAGAAA
AATTAAATTATTGACATGGTCAAACCTTTTTACGCGAACTAGGATGACAACCCAAGCACCCTAGC
CCGGTTACTCAGTTCAAACAGTCTTAAAATTTTATTTATTTATTTTTTTGTGTGAGTGAAGGCTA
AGTTAGCGGAATGTTTATAAGCTACCGACTTGTCACTCGGACTTTTTTACGTGAGATAAGATGAC
AACCCAAGCACCTTACCCCATTTACTCAATCCGGTCTTTCGAAAC
Found at i:40602404 original size:38 final size:38
Alignment explanation
Indices: 40602362--40602437 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
40602352 ATTGGAAAGA
40602362 TTTTAGGCGCGAGTACGAATCTCACAATTCTCGACCGG
1 TTTTAGGCGCGAGTACGAATCTCACAATTCTCGACCGG
40602400 TTTTAGGCGCGAGTACGAATCTCACAATTCTCGACCGG
1 TTTTAGGCGCGAGTACGAATCTCACAATTCTCGACCGG
40602438 AAAGAACACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (38 bp):
TTTTAGGCGCGAGTACGAATCTCACAATTCTCGACCGG
Found at i:40602789 original size:23 final size:24
Alignment explanation
Indices: 40602754--40602807 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
40602744 AGCCTAATCG
40602754 TAAATTAATAAAA-TAAAATAAAAA
1 TAAATTAATAAAACT-AAATAAAAA
40602778 TAAA-TAATAAAACTAAATAAAACA
1 TAAATTAATAAAACTAAATAAAA-A
40602802 -AAATTA
1 TAAATTA
40602808 TATCTTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAATTAATAAAACTAAATAAAAA
Found at i:40606982 original size:2 final size:2
Alignment explanation
Indices: 40606975--40607009 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
40606965 TTAGTTGAAA
40606975 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
40607010 AGCCCATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:40613475 original size:15 final size:16
Alignment explanation
Indices: 40613455--40613489 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
40613445 GAAAGTAGAT
*
40613455 TAAAAAATT-TAAAAA
1 TAAAAAATTGAAAAAA
40613470 TAAAAAATTGAAAAAA
1 TAAAAAATTGAAAAAA
40613486 TAAA
1 TAAA
40613490 CTCTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAAAAATTGAAAAAA
Found at i:40617811 original size:24 final size:24
Alignment explanation
Indices: 40617758--40617806 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
40617748 ATTTGTTTTA
*
40617758 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
40617782 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
40617807 AATTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:40620585 original size:5 final size:5
Alignment explanation
Indices: 40620561--40620637 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
40620551 TTTATATAAA
* *
40620561 TATAT TAT-T TA-AT T-TGAT TATAT TATTAT TTTAT TATAT TGTAATT
1 TATAT TATAT TATAT TAT-AT TATAT TA-TAT TATAT TATAT TAT-A-T
40620607 TATAT TA-AT TATAT TATA- -ATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
40620638 AAATAAATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
3 3 0.05
4 9 0.16
5 36 0.62
6 7 0.12
7 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:40620617 original size:21 final size:22
Alignment explanation
Indices: 40620562--40620635 Score: 84
Period size: 21 Copynumber: 3.5 Consensus size: 22
40620552 TTATATAAAT
40620562 ATATTAT-TTAATT-TGATTATA
1 ATATTATATTAATTAT-ATTATA
* * *
40620583 TTATTAT-TTTATTATATTGTA
1 ATATTATATTAATTATATTATA
40620604 AT-TTATATTAATTATATTATA
1 ATATTATATTAATTATATTATA
40620625 ATATTATATTA
1 ATATTATATTA
40620636 TAAAATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 31 0.70
22 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
ATATTATATTAATTATATTATA
Found at i:40621195 original size:8 final size:8
Alignment explanation
Indices: 40621184--40621215 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
40621174 TGTGAAAATG
40621184 TGTGAATT
1 TGTGAATT
40621192 TGTGAATT
1 TGTGAATT
40621200 TGTGAATT
1 TGTGAATT
40621208 TGTGAATT
1 TGTGAATT
40621216 GAATATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (8 bp):
TGTGAATT
Found at i:40627142 original size:23 final size:23
Alignment explanation
Indices: 40627089--40627150 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
40627079 ATTATAGCAA
*
40627089 TGGAAAAATAAATTAAATTTTTC
1 TGGAAATATAAATTAAATTTTTC
** * *
40627112 TAAAAAATATAATTTAAATTTTTG
1 T-GGAAATATAAATTAAATTTTTC
40627136 TGGAAATATTAAATT
1 TGGAAATA-TAAATT
40627151 TTACTTATTC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (23 bp):
TGGAAATATAAATTAAATTTTTC
Found at i:40631466 original size:35 final size:35
Alignment explanation
Indices: 40631427--40631592 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 35
40631417 CATGGCAAAG
40631427 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
40631462 TGTGAAAAGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
40631497 TGTCAAATGTAGGTATGGAATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *
40631537 TAAGAAATGTAGGTATGGCAT-TTCCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
*
40631572 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
40631593 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.01
35 77 0.69
37 2 0.02
38 4 0.04
40 27 0.24
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:40631537 original size:75 final size:74
Alignment explanation
Indices: 40631431--40631597 Score: 202
Period size: 75 Copynumber: 2.3 Consensus size: 74
40631421 GCAAAGTGTG
** *
40631431 AAATGTAGGTATGG--TATC--ATCCATACTGAGTTGTGAAAAGTAGGTATGGTATCAT-CCATA
1 AAATGTAGGTATGGATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCAT-ATCCCATA
*
40631491 CCGAGTTGTC
65 CCGAGTTGTA
* *
40631501 AAATGTAGGTATGGAATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCATA
1 AAATGTAGGTATGG-ATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATATCCCATA
*
40631566 CTGAGTTGTA
65 CCGAGTTGTA
40631576 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGG-ATTATCAA
40631598 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 14 0.17
73 4 0.05
74 5 0.06
75 60 0.72
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (74 bp):
AAATGTAGGTATGGATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATATCCCATAC
CGAGTTGTA
Found at i:40634703 original size:42 final size:43
Alignment explanation
Indices: 40634590--40634718 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
40634580 GGATATATAT
* * * * *
40634590 ATACAATGCCAATGTTCCAGAC-GTGGTCTTACATGTAATAAAAC
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACACGTAA-AACAG
* * *
40634634 AT-TGATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCAG
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACACGTAAAACAG
* * *
40634675 ATACGATGCCAATGTCCTAGGCATGGTCTTACACGTAAAACAG
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACACGTAAAACAG
40634718 A
1 A
40634719 AGTCGATGTC
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.06
42 29 0.43
43 32 0.47
44 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACACGTAAAACAG
Found at i:40636280 original size:15 final size:15
Alignment explanation
Indices: 40636245--40636274 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40636235 TTTAATCCTT
*
40636245 TATAAATTATAAAGA
1 TATAAATTATAAAAA
40636260 TATAAATTATAAAAA
1 TATAAATTATAAAAA
40636275 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:40636812 original size:16 final size:15
Alignment explanation
Indices: 40636793--40636845 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 15
40636783 TGTCTTTAGG
*
40636793 TTTTGTTTTGATTGTT
1 TTTTATTTTG-TTGTT
40636809 TTTTATTTTGTTG-T
1 TTTTATTTTGTTGTT
*
40636823 TTTTATTTT-TTATT
1 TTTTATTTTGTTGTT
40636837 TTTTATTTT
1 TTTTATTTT
40636846 TTATGGGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 2 0.06
14 20 0.59
15 3 0.09
16 9 0.26
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (15 bp):
TTTTATTTTGTTGTT
Found at i:40636817 original size:21 final size:21
Alignment explanation
Indices: 40636793--40636838 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
40636783 TGTCTTTAGG
*
40636793 TTTTGTT-TTGATTGTTTTTTA
1 TTTTGTTGTT-ATTATTTTTTA
*
40636814 TTTTGTTGTTTTTATTTTTTA
1 TTTTGTTGTTATTATTTTTTA
40636835 TTTT
1 TTTT
40636839 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (21 bp):
TTTTGTTGTTATTATTTTTTA
Found at i:40636832 original size:7 final size:7
Alignment explanation
Indices: 40636807--40636849 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
40636797 GTTTTGATTG
40636807 TTTTTTA
1 TTTTTTA
40636814 TTTTGTT-
1 TTTT-TTA
*
40636821 GTTTTTA
1 TTTTTTA
40636828 TTTTTTA
1 TTTTTTA
40636835 TTTTTTA
1 TTTTTTA
40636842 TTTTTTA
1 TTTTTTA
40636849 T
1 T
40636850 GGGTACACCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 2 0.06
7 28 0.88
8 2 0.06
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:40637646 original size:67 final size:67
Alignment explanation
Indices: 40637573--40637702 Score: 260
Period size: 67 Copynumber: 1.9 Consensus size: 67
40637563 TTTCACTTCC
40637573 CAACTTCATAGCTTTTTTTTTTTCTTCGCCACTCCCCATTTCACCTCTCCCACCACCAAACCCCA
1 CAACTTCATAGCTTTTTTTTTTTCTTCGCCACTCCCCATTTCACCTCTCCCACCACCAAACCCCA
40637638 AA
66 AA
40637640 CAACTTCATAGCTTTTTTTTTTTCTTCGCCACTCCCCATTTCACCTCTCCCACCACCAAACCC
1 CAACTTCATAGCTTTTTTTTTTTCTTCGCCACTCCCCATTTCACCTCTCCCACCACCAAACCC
40637703 TCTCTCTCTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.21, C:0.42, G:0.03, T:0.34
Consensus pattern (67 bp):
CAACTTCATAGCTTTTTTTTTTTCTTCGCCACTCCCCATTTCACCTCTCCCACCACCAAACCCCA
AA
Found at i:40637709 original size:2 final size:2
Alignment explanation
Indices: 40637702--40637734 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
40637692 CCACCAAACC
40637702 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
40637735 AGGCAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:40648284 original size:21 final size:22
Alignment explanation
Indices: 40648252--40648301 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
40648242 ACTAACCTAC
*
40648252 TAATTGATATTATTGTG-ATTA
1 TAATTGATATTATTATGAATTA
40648273 TAATT-ATAATTATTATGAATTA
1 TAATTGAT-ATTATTATGAATTA
*
40648295 TGATTGA
1 TAATTGA
40648302 ACTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 8 0.33
23 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (22 bp):
TAATTGATATTATTATGAATTA
Found at i:40650644 original size:16 final size:15
Alignment explanation
Indices: 40650614--40650648 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
40650604 TGCAAGCAAG
*
40650614 GGCTTTAGTTGAAAA
1 GGCTTCAGTTGAAAA
40650629 GGCTTCAGTTGAAAA
1 GGCTTCAGTTGAAAA
*
40650644 AGCTT
1 GGCTT
40650649 TAGGTATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (15 bp):
GGCTTCAGTTGAAAA
Found at i:40657855 original size:19 final size:21
Alignment explanation
Indices: 40657813--40657855 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
40657803 ACTGTAATAA
* *
40657813 TTGTGAATTGATCTTTTGGGT
1 TTGTAAATTGATCTTTTGGAT
40657834 TTGTAAATTG-TC-TTTGGAT
1 TTGTAAATTGATCTTTTGGAT
40657853 TTG
1 TTG
40657856 CCTTGCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (21 bp):
TTGTAAATTGATCTTTTGGAT
Found at i:40664860 original size:20 final size:20
Alignment explanation
Indices: 40664835--40664875 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40664825 CAACTATGTC
*
40664835 TCTTCCATTATTAGCAAAGT
1 TCTTCCATCATTAGCAAAGT
*
40664855 TCTTCCATCATTAGTAAAGT
1 TCTTCCATCATTAGCAAAGT
40664875 T
1 T
40664876 ATGCCAAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTTCCATCATTAGCAAAGT
Found at i:40669873 original size:4 final size:4
Alignment explanation
Indices: 40669864--40669894 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
40669854 AATGATATAT
40669864 AATA AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AAT
40669895 GTTAAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:40670027 original size:3 final size:3
Alignment explanation
Indices: 40670019--40670046 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
40670009 TATATATATG
40670019 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
40670047 ATGAACAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:40671806 original size:54 final size:54
Alignment explanation
Indices: 40671731--40672573 Score: 1643
Period size: 54 Copynumber: 15.6 Consensus size: 54
40671721 GTGACGAAGT
* *
40671731 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40671785 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40671839 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40671893 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40671947 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672001 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672055 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672109 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672163 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672217 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672271 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672325 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672379 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672433 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40672487 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
40672541 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
40672574 GACGCTTCCT
Statistics
Matches: 785, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
53 5 0.01
54 780 0.99
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:40674222 original size:26 final size:26
Alignment explanation
Indices: 40674192--40674299 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
40674182 TGAAATTCCC
40674192 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40674218 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
40674244 ATCATGAAATATTTAACTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40674270 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40674296 ATCA
1 ATCA
40674300 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40679305 original size:54 final size:54
Alignment explanation
Indices: 40679230--40680071 Score: 1596
Period size: 54 Copynumber: 15.6 Consensus size: 54
40679220 GTGACGAAGT
* * *
40679230 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-GAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679284 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679338 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679392 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679446 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679500 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679554 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679608 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679662 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679716 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679770 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679824 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679878 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40679932 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
40679986 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAAAGC
1 CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
40680040 CACTAGATCAGATAATTGTGGCATAGACACCA
1 CACCAGATGAGATAATCGTGGCATAGCCACCA
40680072 AGACGCTTCC
Statistics
Matches: 779, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
53 4 0.01
54 775 0.99
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (54 bp):
CACCAGATGAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:40681724 original size:26 final size:26
Alignment explanation
Indices: 40681694--40681746 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
40681684 AATTACCATT
*
40681694 ATGGAACATTTACCTAACCTATTATC
1 ATGGAACATTTACCTAACCCATTATC
40681720 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
40681746 A
1 A
40681747 ATTTGTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:40686473 original size:40 final size:40
Alignment explanation
Indices: 40686424--40686561 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
40686414 AATATACAAG
* *
40686424 TTTGGCACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGGATAATCCGAAGTAATAA
* * *
40686464 TTTGACACCCAGTGTCTCATCAGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGTCTCATCGGATAATCCGAAGTAATAA
* * * * *
40686502 -TTGACACTCAATGCCTCATCGAATATATCCGAAATAATAA
1 TTTGACACCCAGTGTCTCATCGGATA-ATCCGAAGTAATAA
**
40686542 TTTGACACTTAGTGTCTCAT
1 TTTGACACCCAGTGTCTCAT
40686562 TGACTCGAAG
Statistics
Matches: 78, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 19 0.24
38 9 0.12
39 2 0.03
40 32 0.41
41 16 0.21
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGGATAATCCGAAGTAATAA
Found at i:40687470 original size:17 final size:17
Alignment explanation
Indices: 40687448--40687496 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
40687438 TCCTTCTTTC
*
40687448 TTTCCTTTTTCTTTCTT
1 TTTCCTTTTTCTTTCAT
*
40687465 TTTCCTTTTTGTTTCAT
1 TTTCCTTTTTCTTTCAT
*
40687482 TTTCTTTCTTTCTTT
1 TTTCCTT-TTTCTTT
40687497 TCTATTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTCCTTTTTCTTTCAT
Found at i:40687472 original size:11 final size:10
Alignment explanation
Indices: 40687444--40687492 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
40687434 TTTCTCCTTC
40687444 TTTCTTTCCTT
1 TTTCTTT-CTT
40687455 TTTCTTTCTT
1 TTTCTTTCTT
40687465 TTTC---CTT
1 TTTCTTTCTT
* *
40687472 TTTGTTTCAT
1 TTTCTTTCTT
40687482 TTTCTTTCTT
1 TTTCTTTCTT
40687492 T
1 T
40687493 CTTTTCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
7 6 0.19
10 18 0.58
11 7 0.23
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:40688079 original size:23 final size:20
Alignment explanation
Indices: 40688023--40688068 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
40688013 TGTAAGTTGA
40688023 TTATATAAACATAATATTAT
1 TTATATAAACATAATATTAT
40688043 TTATATAAACATAATATTAT
1 TTATATAAACATAATATTAT
*
40688063 TCATAT
1 TTATAT
40688069 TATTTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATAAACATAATATTAT
Found at i:40689555 original size:13 final size:13
Alignment explanation
Indices: 40689537--40689562 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40689527 ATTCTATGGC
40689537 TTTATTTTATTAT
1 TTTATTTTATTAT
40689550 TTTATTTTATTAT
1 TTTATTTTATTAT
40689563 GCCGCCTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:40689757 original size:21 final size:21
Alignment explanation
Indices: 40689705--40689750 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
40689695 AATTATCTAT
40689705 TGAAACGTTAAAATTTTTCAA
1 TGAAACGTTAAAATTTTTCAA
40689726 TGAAACGTTAAAATTTTTCAA
1 TGAAACGTTAAAATTTTTCAA
40689747 TGAA
1 TGAA
40689751 GCTTTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (21 bp):
TGAAACGTTAAAATTTTTCAA
Found at i:40709924 original size:284 final size:284
Alignment explanation
Indices: 40709414--40709976 Score: 1029
Period size: 284 Copynumber: 2.0 Consensus size: 284
40709404 AGTTTATTAG
40709414 TCGAAGTCTCCCATGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGAATTGGATATCTC
1 TCGAAGTCTCCCATGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGAATTGGATATCTC
40709479 ACTGCACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTG
66 ACTGCACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTG
*
40709544 TACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTGTAATGAATTTCCAAAGTCGGAGCA
131 TACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCA
* *
40709609 GGGAATCCAGAAACCGTTCTGGCCCTGTCCCACGAGAACCTGAATATCTCTTAACATACTG-TCC
196 GGGAATCCAGAAACCGTTCTGGCCCTGTCCCACAAAAACCTGAATATCTCTTAACATACTGCT-C
40709673 ATATGATCATTTCGTTACTTTCCTA
260 ATATGATCATTTCGTTACTTTCCTA
40709698 TCGAAGTCTCCCATGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGAATTGGATATCTC
1 TCGAAGTCTCCCATGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGAATTGGATATCTC
40709763 ACTGCACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTG
66 ACTGCACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTG
* *
40709828 TACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTATTATGAATTTCCAAAGTCGGATCA
131 TACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCA
* * *
40709893 GGGAATCCAGAAACCGTTCTGGCCCTGTCCCACAAAAATCTGATTATCTCTTAATATACTGCTCA
196 GGGAATCCAGAAACCGTTCTGGCCCTGTCCCACAAAAACCTGAATATCTCTTAACATACTGCTCA
*
40709958 TATGATCTTTTCGTTACTT
261 TATGATCATTTCGTTACTT
40709977 CCTCATGAAA
Statistics
Matches: 269, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
284 268 1.00
285 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (284 bp):
TCGAAGTCTCCCATGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGAATTGGATATCTC
ACTGCACGGGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTG
TACATATATGGTACGACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAGCA
GGGAATCCAGAAACCGTTCTGGCCCTGTCCCACAAAAACCTGAATATCTCTTAACATACTGCTCA
TATGATCATTTCGTTACTTTCCTA
Found at i:40716622 original size:18 final size:18
Alignment explanation
Indices: 40716601--40716660 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
40716591 AATCGGTTAA
*
40716601 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
* *
40716619 TCAG-CATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* *
40716637 TCTGTAACAGTCATTTAT
1 TCAGTAATAGTCATTTAT
40716655 TCAGTA
1 TCAGTA
40716661 GCAGACAGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.91
19 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:40716801 original size:6 final size:6
Alignment explanation
Indices: 40716792--40716819 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
40716782 CACCGTAAGG
40716792 GTAACA GTAACA GTAACA GTAACA GTAA
1 GTAACA GTAACA GTAACA GTAACA GTAA
40716820 GGTACGGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:40717853 original size:13 final size:13
Alignment explanation
Indices: 40717837--40717861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40717827 CTTTTTCCTT
40717837 TTTCTTTATTTCA
1 TTTCTTTATTTCA
40717850 TTTCTTTATTTC
1 TTTCTTTATTTC
40717862 TTTTATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:40725382 original size:38 final size:38
Alignment explanation
Indices: 40725331--40725410 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
40725321 AAGAAAACAC
*
40725331 TTGATTTGTATTTAGATATGAAAACAAATCCACAAAGT
1 TTGATTTGTATTTAGATATGAAAAAAAATCCACAAAGT
40725369 TTGATTTGTATTTAGATATGAAAAAAAATCCACAAAGT
1 TTGATTTGTATTTAGATATGAAAAAAAATCCACAAAGT
40725407 TTGA
1 TTGA
40725411 CAATCTCTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (38 bp):
TTGATTTGTATTTAGATATGAAAAAAAATCCACAAAGT
Found at i:40727102 original size:81 final size:81
Alignment explanation
Indices: 40726893--40727094 Score: 341
Period size: 81 Copynumber: 2.5 Consensus size: 81
40726883 ATTACCAAAG
* *
40726893 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
*
40726958 TATAGAATTACTATTT
66 TATAGAATTACCATTT
*
40726974 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
*
40727039 TATAGAATTACCGTTT
66 TATAGAATTACCATTT
* *
40727055 TACCCTCGATTTACAGAATTATTGTTTTATCCTCGATTTA
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
40727095 AAAAATTATT
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 114 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
TATAGAATTACCATTT
Found at i:40727105 original size:27 final size:27
Alignment explanation
Indices: 40726893--40727094 Score: 305
Period size: 27 Copynumber: 7.5 Consensus size: 27
40726883 ATTACCAAAG
*
40726893 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
40726920 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
40726947 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
40726974 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
40727001 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
40727028 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
40727055 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
40727082 TATCCTCGATTTA
1 TACCCTCGATTTA
40727095 AAAAATTATT
Statistics
Matches: 158, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:40727129 original size:81 final size:80
Alignment explanation
Indices: 40726893--40727132 Score: 284
Period size: 81 Copynumber: 3.0 Consensus size: 80
40726883 ATTACCAAAG
* * * *
40726893 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTA-CGATTTACCCTTAGTT
*
40726958 TATAGAATTACTATTT
65 TATAGAATTACCATTT
* *
40726974 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCC-TCGAT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACGA-TTTACCCTTAG-T
*
40727038 TTATAGAATTACCGTTT
64 TTATAGAATTACCATTT
* * * * * **
40727055 TACCCTCGATTTACAGAATTATTGTTTTATCCTCGATTTAAAAAATTATTGAAATACCCTTAGTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTA-CGATTTACCCTTAGTT
* *
40727120 TACAAAATTACCA
65 TATAGAATTACCA
40727133 AAATACCNTA
Statistics
Matches: 135, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 131 0.97
82 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (80 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACGATTTACCCTTAGTTT
ATAGAATTACCATTT
Found at i:40727427 original size:26 final size:26
Alignment explanation
Indices: 40727398--40727447 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
40727388 AAAGACACTT
*
40727398 ATATAAAATTA-AAAAATTATAAAAAA
1 ATAT-AAATTATAAAAATTACAAAAAA
*
40727424 ATATAAATTATATAAATTACAAAA
1 ATATAAATTATAAAAATTACAAAA
40727448 TATAAGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (26 bp):
ATATAAATTATAAAAATTACAAAAAA
Found at i:40732122 original size:43 final size:43
Alignment explanation
Indices: 40732048--40732151 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
40732038 GGTTTATACT
* *
40732048 TTTGGTTTAGTC-GATGATGCATTATGAGTGCTAGTAT-ATTTGC
1 TTTGGTTTA-TCTGATGATACACTATGAGTGCTAGTATGA-TTGC
40732091 TTTGGTTTATCTGATGATACACTAT-ATGTGCTAGTATGATTGC
1 TTTGGTTTATCTGATGATACACTATGA-GTGCTAGTATGATTGC
*
40732134 TTTGATTTATCTGATGAT
1 TTTGGTTTATCTGATGAT
40732152 GCATTATGTG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
42 3 0.05
43 51 0.93
44 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (43 bp):
TTTGGTTTATCTGATGATACACTATGAGTGCTAGTATGATTGC
Found at i:40732164 original size:43 final size:43
Alignment explanation
Indices: 40732060--40732412 Score: 227
Period size: 43 Copynumber: 8.2 Consensus size: 43
40732050 TGGTTTAGTC
* * * *
40732060 GATGATGCATTATGAGTGCTAGTATATTTGCTTTGGTTTATCT
1 GATGATGCATTATGTGTGCTAGTATAATTGCTTCGATTTATCT
* * * * *
40732103 GATGATACACTATATGTGCTAGTATGATTGCTTTGATTTATCT
1 GATGATGCATTATGTGTGCTAGTATAATTGCTTCGATTTATCT
* * * *
40732146 GATGATGCATTATGTGTGCCAATATAATTACTTCGGTCTGT-TC-
1 GATGATGCATTATGTGTGCTAGTATAATTGCTTCGAT-T-TATCT
* ** * * *
40732189 GATGATGCA-CACCATGTGCTAGTATAATTACTTCAACTT-TCT
1 GATGATGCATTA-TGTGTGCTAGTATAATTGCTTCGATTTATCT
* * *
40732231 CGATGATGCACTATGTGTGCTAGTATGATTGCTTCGATTTATCC
1 -GATGATGCATTATGTGTGCTAGTATAATTGCTTCGATTTATCT
* * ** *
40732275 GATGATGCATTATGTGTGCCAATATAATTAATTC-AGTCTAT-T
1 GATGATGCATTATGTGTGCTAGTATAATTGCTTCGA-TTTATCT
* * * *
40732317 CGATGATGCACTT-CGTGTGCTAGTATAATTACTTCAACTT-TCT
1 -GATGATGCA-TTATGTGTGCTAGTATAATTGCTTCGATTTATCT
* * * * * * *
40732360 CGATGATGCACTATGTGTGCCATTATATTTTCTTCGGTTTATCC
1 -GATGATGCATTATGTGTGCTAGTATAATTGCTTCGATTTATCT
*
40732404 AATGATGCA
1 GATGATGCA
40732413 GTAATATACT
Statistics
Matches: 239, Mismatches: 57, Indels: 28
0.74 0.18 0.09
Matches are distributed among these distances:
41 3 0.01
42 5 0.02
43 219 0.92
44 11 0.05
45 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (43 bp):
GATGATGCATTATGTGTGCTAGTATAATTGCTTCGATTTATCT
Found at i:40732288 original size:129 final size:129
Alignment explanation
Indices: 40732103--40732412 Score: 469
Period size: 129 Copynumber: 2.4 Consensus size: 129
40732093 TGGTTTATCT
* * * *
40732103 GATGATACACTATATGTGCTAGTATGATTGCTTTGATTTATCTGATGATGCATTATGTGTGCCAA
1 GATGATGCACTATGTGTGCTAGTATGATTGCTTCGATTTATCCGATGATGCATTATGTGTGCCAA
* * *
40732168 TATAATTACTTCGGTCTGTTCGATGATGCACACCATGTGCTAGTATAATTACTTCAACTTTCTC
66 TATAATTAATTCAGTCTATTCGATGATGCACACCATGTGCTAGTATAATTACTTCAACTTTCTC
40732232 GATGATGCACTATGTGTGCTAGTATGATTGCTTCGATTTATCCGATGATGCATTATGTGTGCCAA
1 GATGATGCACTATGTGTGCTAGTATGATTGCTTCGATTTATCCGATGATGCATTATGTGTGCCAA
** *
40732297 TATAATTAATTCAGTCTATTCGATGATGCACTTCGTGTGCTAGTATAATTACTTCAACTTTCTC
66 TATAATTAATTCAGTCTATTCGATGATGCACACCATGTGCTAGTATAATTACTTCAACTTTCTC
* * * * *
40732361 GATGATGCACTATGTGTGCCATTAT-ATTTTCTTCGGTTTATCCAATGATGCA
1 GATGATGCACTATGTGTGCTAGTATGA-TTGCTTCGATTTATCCGATGATGCA
40732413 GTAATATACT
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
128 1 0.01
129 164 0.99
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (129 bp):
GATGATGCACTATGTGTGCTAGTATGATTGCTTCGATTTATCCGATGATGCATTATGTGTGCCAA
TATAATTAATTCAGTCTATTCGATGATGCACACCATGTGCTAGTATAATTACTTCAACTTTCTC
Found at i:40734827 original size:13 final size:13
Alignment explanation
Indices: 40734811--40734838 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40734801 GATAATATAA
40734811 ATTAGTAGGTAAT
1 ATTAGTAGGTAAT
40734824 ATTAGTAGGTAAT
1 ATTAGTAGGTAAT
40734837 AT
1 AT
40734839 AAATTGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
ATTAGTAGGTAAT
Found at i:40735900 original size:14 final size:14
Alignment explanation
Indices: 40735878--40735909 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
40735868 TAATTATATA
40735878 TAAAGAAATAAATT
1 TAAAGAAATAAATT
*
40735892 TAAATAAATAAATT
1 TAAAGAAATAAATT
40735906 TAAA
1 TAAA
40735910 AAGCATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAAGAAATAAATT
Found at i:40738868 original size:27 final size:27
Alignment explanation
Indices: 40738806--40738947 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
40738796 AGCATGGCTG
* * * *
40738806 CCAGAACAGATA-ATGTGACAAAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
**
40738832 CCAGATACAGA-ATATCATGGCAGAGCCA
1 CCAGA-ACAGATAT-TTGTGGCAGAGCCA
*
40738860 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
40738887 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* *
40738914 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
40738941 CCAGAAC
1 CCAGAAC
40738948 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.06
27 78 0.79
28 15 0.15
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:40739382 original size:16 final size:15
Alignment explanation
Indices: 40739361--40739390 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
40739351 AAAATACTGA
40739361 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
40739377 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
40739391 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:40740666 original size:26 final size:26
Alignment explanation
Indices: 40740630--40740739 Score: 179
Period size: 26 Copynumber: 4.2 Consensus size: 26
40740620 CATGAAATTC
*
40740630 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
40740656 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
40740682 TTATCAT-AGAACATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCTA
40740708 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
40740734 TTATCA
1 TTATCA
40740740 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
25 1 0.01
26 78 0.98
27 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:40744448 original size:26 final size:26
Alignment explanation
Indices: 40744414--40744523 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
40744404 CATGAAATTC
*
40744414 TTATCATGAAACATTTACCTAACCAA
1 TTATCATGAAACATTTACCTAACCTA
*
40744440 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
40744466 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
40744492 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
40744518 TTATCA
1 TTATCA
40744524 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:40758080 original size:12 final size:13
Alignment explanation
Indices: 40758044--40758090 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 13
40758034 TAATGATTAT
*
40758044 AATAATATAATAGTT
1 AATAATATAATA--A
40758059 AATAATATAATAA
1 AATAATATAATAA
40758072 AATAA-ATAATAA
1 AATAATATAATAA
*
40758084 AAGAATA
1 AATAATA
40758091 AAAGAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
15 12 0.41
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (13 bp):
AATAATATAATAA
Found at i:40758164 original size:16 final size:17
Alignment explanation
Indices: 40758136--40758179 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
40758126 CACGATTAGC
40758136 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
40758156 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
40758173 AGGGAAA
1 AGGGAAA
40758180 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:40770812 original size:23 final size:22
Alignment explanation
Indices: 40770776--40770818 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
40770766 CAGAAAATTT
*
40770776 TGCCAATAATAATGCAGATAAGC
1 TGCCAATAAAAATGC-GATAAGC
*
40770799 TGCCAGTAAAAATGCGATAA
1 TGCCAATAAAAATGCGATAA
40770819 ATCACCGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (22 bp):
TGCCAATAAAAATGCGATAAGC
Found at i:40775038 original size:93 final size:93
Alignment explanation
Indices: 40774879--40775050 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
40774869 CGCCCATAAG
* * * *
40774879 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40774944 ACAAGTTCGGATGCCTAGTTACATTTCA
66 ACAAGTTCGGATGCCTAGTTACATTTCA
* *
40774972 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40775037 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
40775051 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATTTCA
Found at i:40775044 original size:46 final size:46
Alignment explanation
Indices: 40774872--40775047 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
40774862 TGTAACCCGC
* * * *
40774872 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
* * * *
40774918 CCATAGGTGAACTTGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGA---C-A-TTCGCAT
* * **
40774968 --TTCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
*
40775011 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGA
40775048 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.58
47 26 0.26
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
Found at i:40775066 original size:46 final size:45
Alignment explanation
Indices: 40774924--40775066 Score: 105
Period size: 46 Copynumber: 3.1 Consensus size: 45
40774914 GCATCCATAG
* *
40774924 GTGAACTTGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATTTCA
1 GTGAACTCGGACTCAACTCAACAAGTTCGGATGCTC-A---ACCATCT-A
* ** * * * *
40774972 -CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACAAGTTCGG--ATGCTCAACCATCTA
40775017 GTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCAT-CTA
40775063 GTGA
1 GTGA
40775067 CATGTCACTT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 31 0.42
47 28 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
GTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCTA
Found at i:40778896 original size:15 final size:15
Alignment explanation
Indices: 40778876--40778936 Score: 97
Period size: 15 Copynumber: 4.1 Consensus size: 15
40778866 TATGCGATGA
40778876 ATTGATTGAATTTAT
1 ATTGATTGAATTTAT
*
40778891 ATTGATTGAAATTAT
1 ATTGATTGAATTTAT
*
40778906 TTTGATTGAATTTAT
1 ATTGATTGAATTTAT
40778921 ATTGATTGAA-TTAT
1 ATTGATTGAATTTAT
40778935 AT
1 AT
40778937 AATATATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
14 6 0.14
15 36 0.86
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
ATTGATTGAATTTAT
Found at i:40778913 original size:30 final size:29
Alignment explanation
Indices: 40778877--40778934 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
40778867 ATGCGATGAA
40778877 TTGATTGAATTTATATTGATTGAAATTATT
1 TTGATTGAATTTATATTGATTG-AATTATT
40778907 TTGATTGAATTTATATTGATTGAATTAT
1 TTGATTGAATTTATATTGATTGAATTAT
40778935 ATAATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (29 bp):
TTGATTGAATTTATATTGATTGAATTATT
Found at i:40779367 original size:21 final size:23
Alignment explanation
Indices: 40779308--40779373 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
40779298 GCTTTATCAA
40779308 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* ** *
40779331 TCAGGCACCTCGTGTGTTGT-TT
1 TCAGGCACTTTATGTGTCGTATT
40779353 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
40779374 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
21 14 0.41
22 4 0.12
23 16 0.47
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:40780939 original size:73 final size:73
Alignment explanation
Indices: 40780857--40781005 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 73
40780847 GGTATTTTGG
*
40780857 ATTTCAAAATGTTACACTAATAAACTTCATTAAAAAAATTTAATGATTTTACCAATTGAATCTAA
1 ATTTCAAAATGTTACACTAATAAACTTCATTAAAAAAATTTAATGATTTTAACAATTGAATCTAA
40780922 AATTTTAA
66 AATTTTAA
*
40780930 ATTTCAAAATGTTACACTAATAAACTTCATTAAAAAAATTTAATGATTTTAATAATTGAATCTAA
1 ATTTCAAAATGTTACACTAATAAACTTCATTAAAAAAATTTAATGATTTTAACAATTGAATCTAA
40780995 AATTTTAA
66 AATTTTAA
40781003 ATT
1 ATT
40781006 AAAAAAACTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (73 bp):
ATTTCAAAATGTTACACTAATAAACTTCATTAAAAAAATTTAATGATTTTAACAATTGAATCTAA
AATTTTAA
Found at i:40783386 original size:106 final size:106
Alignment explanation
Indices: 40783201--40783402 Score: 404
Period size: 106 Copynumber: 1.9 Consensus size: 106
40783191 GTACATTCCT
40783201 TCGAAACTCTATACTCAATGTAGTCCCTTTTTATATTTTTGTTTGACGAGGGGAGAGAATTGGGT
1 TCGAAACTCTATACTCAATGTAGTCCCTTTTTATATTTTTGTTTGACGAGGGGAGAGAATTGGGT
40783266 TGGGTTCTTCATCTTTGAACTCTGAACCTAATGTCATCCAA
66 TGGGTTCTTCATCTTTGAACTCTGAACCTAATGTCATCCAA
40783307 TCGAAACTCTATACTCAATGTAGTCCCTTTTTATATTTTTGTTTGACGAGGGGAGAGAATTGGGT
1 TCGAAACTCTATACTCAATGTAGTCCCTTTTTATATTTTTGTTTGACGAGGGGAGAGAATTGGGT
40783372 TGGGTTCTTCATCTTTGAACTCTGAACCTAA
66 TGGGTTCTTCATCTTTGAACTCTGAACCTAA
40783403 AATTTTTTCC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (106 bp):
TCGAAACTCTATACTCAATGTAGTCCCTTTTTATATTTTTGTTTGACGAGGGGAGAGAATTGGGT
TGGGTTCTTCATCTTTGAACTCTGAACCTAATGTCATCCAA
Found at i:40789399 original size:121 final size:121
Alignment explanation
Indices: 40789256--40789484 Score: 345
Period size: 121 Copynumber: 1.9 Consensus size: 121
40789246 AGGACTTTGA
* * *
40789256 TTTTTGGGGGTAAATAGGGAGAAATAAAATATTTTTG-GGGATTTTGATTTTTGGGAGTAAAA-G
1 TTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTGGATTTTGGGGAGTAAAAGG
40789319 GGGGAGAGAAAGTAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGTGGGGGGAT
66 GGGGAGAGAAA-TAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGTGGGGGGAT
40789376 TTTTTGGGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTGGATTTTGGGGAGTAAAAT
1 TTTTT-GGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTGGATTTTGGGGAGTAAAA-
* * * * *
40789441 GGGGGGGGGGGAATAAAAATTTTTGGAGGTAAGGGGGATAAAAA
64 GGGGGGAGAGAAATAAAAAATTTTGAAGGTAAGGGGGATAAAAA
40789485 GTTTGCGAGG
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
120 5 0.05
121 31 0.32
122 23 0.24
123 29 0.30
124 9 0.09
ACGTcount: A:0.35, C:0.00, G:0.36, T:0.28
Consensus pattern (121 bp):
TTTTTGGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTGGATTTTGGGGAGTAAAAGG
GGGGAGAGAAATAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGTGGGGGGAT
Found at i:40789497 original size:123 final size:122
Alignment explanation
Indices: 40789256--40789527 Score: 345
Period size: 123 Copynumber: 2.2 Consensus size: 122
40789246 AGGACTTTGA
* * *
40789256 TTTTT-GGGGGTAAATAGGGAGAAATAAAATATTTTTGGGGATTTTGATTTTTGGGAGTAAAAGG
1 TTTTTGGGGGGTAAAGAGGGAGAAATAAAATATTTTTGGGGATTTGGATTTTGGGGAGTAAAAGG
* *
40789320 GGGAGAGAAAGTAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGTGGGGGGA-T
66 GGGAGAGAAAGTAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGCGAGGGGATT
40789376 TTTTTGGGGGGTAAAGAGGGAGAAATAAAATATTTTTGAGGGATTTGGATTTTGGGGAGTAAAAT
1 TTTTTGGGGGGTAAAGAGGGAGAAATAAAATATTTTTG-GGGATTTGGATTTTGGGGAGTAAAA-
* * * * * * *
40789441 GGGGGGGGGGGAA-TAAAAATTTTTGGAGGTAAGGGGGATAAAAAGTTTGCGAGGGGATT
64 -GGGGGAGAGAAAGTAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGCGAGGGGATT
*
40789500 TGGTTTTGGGGGATAAAG-GGTGAGAAAT
1 T--TTTTGGGGGGTAAAGAGG-GAGAAAT
40789528 TCCAAATTTC
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
120 5 0.04
121 31 0.24
122 23 0.18
123 38 0.29
124 11 0.08
125 2 0.02
126 21 0.16
ACGTcount: A:0.33, C:0.01, G:0.38, T:0.29
Consensus pattern (122 bp):
TTTTTGGGGGGTAAAGAGGGAGAAATAAAATATTTTTGGGGATTTGGATTTTGGGGAGTAAAAGG
GGGAGAGAAAGTAAAAAATTTTGAAGGTAAGGGGGATAAAAAATTCGCGAGGGGATT
Found at i:40791546 original size:57 final size:59
Alignment explanation
Indices: 40791446--40791583 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 59
40791436 CATTACAGAA
*
40791446 AGGATTTAG-CTCGGATGAGTAATCCTAATATAAGCCCTCTTGAGCATATGTT-TCA-ATT
1 AGGATTTAGCCT-GGATGAGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAT-AGACT
* * * * *
40791504 AGGATTTAGCCTGGATTAGTTATCTTAAT-TAAGCTCTTTTGAGCATATGTTATAGACT
1 AGGATTTAGCCTGGATGAGTAATCCTAATATAAGCCCTCTTGAGCATATGTTATAGACT
40791562 -GGATTTAGCCTGGACTG-GTAAT
1 AGGATTTAGCCTGGA-TGAGTAAT
40791584 TCAGATTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
57 39 0.57
58 27 0.40
59 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (59 bp):
AGGATTTAGCCTGGATGAGTAATCCTAATATAAGCCCTCTTGAGCATATGTTATAGACT
Found at i:40791592 original size:57 final size:57
Alignment explanation
Indices: 40791504--40791698 Score: 148
Period size: 57 Copynumber: 3.4 Consensus size: 57
40791494 TGTTTCAATT
* * * * * ** * * *
40791504 AGGATTTAGCCTGGATTAGTTATCTTAATTAAGCTCTTTTGAGCATATGTTATAGAC
1 AGGATTTAGCCTGGACTGGTAATCTCAATTAAACTCTTAAGAGCATATGTCACAGAA
*
40791561 TGGATTTAGCCTGGACTGGTAAT-TCAGATTAAACTCTTAAGAGCATATGTCACAGAA
1 AGGATTTAGCCTGGACTGGTAATCTCA-ATTAAACTCTTAAGAGCATATGTCACAGAA
* * * * * * * *
40791618 AGAATTTAGTCTGGACTGGTAATCCTGACA--AAGCTCTT-AGAGAACACGTTACAGATA
1 AGGATTTAGCCTGGACTGGTAAT-CTCA-ATTAAACTCTTAAGAGCATATGTCACAGA-A
40791675 A-GATTTAGCCTGGACTGGTAATCT
1 AGGATTTAGCCTGGACTGGTAATCT
40791699 TGTTGTATGA
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
55 2 0.02
56 34 0.31
57 72 0.65
59 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (57 bp):
AGGATTTAGCCTGGACTGGTAATCTCAATTAAACTCTTAAGAGCATATGTCACAGAA
Found at i:40791691 original size:56 final size:56
Alignment explanation
Indices: 40791563--40791697 Score: 157
Period size: 56 Copynumber: 2.4 Consensus size: 56
40791553 TTATAGACTG
* * * * *
40791563 GATTTAGCCTGGACTGGTAATTCAGATTAAACTCTTAAGAGCATATGTCACAGAAA
1 GATTTAGCCTGGACTGGTAATCCAGATCAAACTCTTAAGAGAACACGTCACAGAAA
* * *
40791619 GAATTTAGTCTGGACTGGTAATCCTGA-CAAAGCTCTT-AGAGAACACGTTACAGATAA
1 G-ATTTAGCCTGGACTGGTAATCCAGATCAAA-CTCTTAAGAGAACACGTCACAGA-AA
40791676 GATTTAGCCTGGACTGGTAATC
1 GATTTAGCCTGGACTGGTAATC
40791698 TTGTTGTATG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
56 37 0.55
57 30 0.45
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (56 bp):
GATTTAGCCTGGACTGGTAATCCAGATCAAACTCTTAAGAGAACACGTCACAGAAA
Found at i:40801485 original size:55 final size:53
Alignment explanation
Indices: 40801397--40801651 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
40801387 ATTAGGGTTT
* **
40801397 AAGGATACCGTGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * *
40801452 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
40801507 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
40801560 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * ** *
40801609 AAGGATACCACGTTAGACCATGACAATTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
40801652 GTACCCGTGT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 37 0.22
52 7 0.04
53 41 0.25
54 11 0.07
55 65 0.39
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:40801603 original size:108 final size:110
Alignment explanation
Indices: 40801407--40801604 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
40801397 AAGGATACCG
* * *
40801407 TGTAAGACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
* *
40801472 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCCCA
* *
40801517 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
40801579 ATGTCAAGACATGGAAATGGTAAGTT
65 ATGTCAAGACATGGAAATGATAAGTT
40801605 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 22 0.28
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:40801869 original size:16 final size:16
Alignment explanation
Indices: 40801848--40801878 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40801838 ATAAATTTGA
40801848 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40801864 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40801879 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40804963 original size:48 final size:48
Alignment explanation
Indices: 40804892--40805172 Score: 287
Period size: 48 Copynumber: 5.9 Consensus size: 48
40804882 AGGGAAACTT
* * * * *
40804892 GCCGATGCCTTGTCCCAAACATGGTCTTACATTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
* * *
40804940 GCCGATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATGTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
* * * *
40804988 ACCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACGTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
* * * * * *
40805036 GCCGATGCCATGTCCCAGACATGGTCATACACTAGCTCTCGTCTAAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
** * * * * **
40805084 GATGATGCCATGTCCCAAACATGATCTTACACTGGCTCTCATGAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATG-TCAAG
* *
40805132 GCCGATGCCATGTCCC-GACATGGTCTTACATTAGCACACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
40805173 ATGACCCAAA
Statistics
Matches: 188, Mismatches: 44, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
47 19 0.10
48 168 0.89
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCAAG
Found at i:40805059 original size:96 final size:97
Alignment explanation
Indices: 40804893--40805166 Score: 367
Period size: 96 Copynumber: 2.9 Consensus size: 97
40804883 GGGAAACTTG
* *
40804893 CCGATGCCTTGTCCCAAACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
* * *
40804958 GCATGGTCTTACACTAGCTCTCATGTCAAT-A
66 ACATGGTCTTACACTAGCTCTCATCTAAATGA
* * * *
40804989 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACGTCAAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
* *
40805054 ACATGGTCATACACTAGCTCTCGTCTAAATGA
66 ACATGGTCTTACACTAGCTCTCATCTAAATGA
* * * *
40805086 -TGATGCCATGTCCCAAACATGATCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCC-
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATG-TCGAGGCCGATGCCATGTCCCA
*
40805148 GACATGGTCTTACATTAGC
65 GACATGGTCTTACACTAGC
40805167 ACACATATGA
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
95 17 0.11
96 136 0.88
97 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (97 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCATCTAAATGA
Found at i:40809008 original size:40 final size:40
Alignment explanation
Indices: 40808964--40809041 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
40808954 ATTTTTAAAA
*
40808964 AAAAAACGCCGCAAT-AGATCGAGCTTTAGCGGCGTTTTTG
1 AAAAAACGCCGCAATAAG-TCGACCTTTAGCGGCGTTTTTG
* * *
40809004 AAAAAGCGCCGCTATAAGTCGACCTTTAGTGGCGTTTT
1 AAAAAACGCCGCAATAAGTCGACCTTTAGCGGCGTTTT
40809042 ACCAAAACGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
AAAAAACGCCGCAATAAGTCGACCTTTAGCGGCGTTTTTG
Found at i:40809181 original size:74 final size:74
Alignment explanation
Indices: 40809029--40809199 Score: 191
Period size: 74 Copynumber: 2.3 Consensus size: 74
40809019 AAGTCGACCT
* * ***
40809029 TTAGTGGCGTTTTACC-AAAACGCCGCTAAAAGGTTAAGAAAAATGGCGTCGTTTTACATGAGCT
1 TTAGCGGCGTTTTCCCAAAAACGCCGCTAAAAGGTTAAGAAAAACAACGTCGTTTTACATGAGCT
* *
40809093 TCATTGGCA
66 TCAGTGACA
* * * * *
40809102 GTAGCGGCGTTTTCCCAAAAACGTCGCTAAAATGTTAAGCAAAACAACGTCGTTTTATATGAGCT
1 TTAGCGGCGTTTTCCCAAAAACGCCGCTAAAAGGTTAAGAAAAACAACGTCGTTTTACATGAGCT
*
40809167 TCAGTGATA
66 TCAGTGACA
* * *
40809176 TTAGCGGTGCTTTCCTAAAAACGC
1 TTAGCGGCGTTTTCCCAAAAACGC
40809200 TGTAATAGCT
Statistics
Matches: 79, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
73 13 0.16
74 66 0.84
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
TTAGCGGCGTTTTCCCAAAAACGCCGCTAAAAGGTTAAGAAAAACAACGTCGTTTTACATGAGCT
TCAGTGACA
Found at i:40810039 original size:15 final size:14
Alignment explanation
Indices: 40810021--40810063 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
40810011 TTTAATATTT
40810021 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
40810036 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
40810051 TTATGATTTAGGG
1 TTATGGTTTAGGG
40810064 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:40810070 original size:14 final size:13
Alignment explanation
Indices: 40810028--40810093 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 13
40810018 TTTTTATAGG
*
40810028 TTTAGGGGTTATGGG
1 TTTA-GGGTTAT-GA
40810043 TTTAAGGGTTATGA
1 TTT-AGGGTTATGA
40810057 TTTAGGGTTGATGA
1 TTTAGGGTT-ATGA
**
40810071 TTTATGTTTTATGA
1 TTTA-GGGTTATGA
40810085 TTTAGGGTT
1 TTTAGGGTT
40810094 TGAGGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.21
14 20 0.47
15 13 0.30
16 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTATGA
Found at i:40810109 original size:28 final size:28
Alignment explanation
Indices: 40810051--40810109 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
40810041 GGTTTAAGGG
**
40810051 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGATGATTTATAAT
*
40810079 TTATGATTTAGGGTTTGA-GGTTTATAAT
1 TTATGATTTAGGG-TTGATGATTTATAAT
40810107 TTA
1 TTA
40810110 GAATGTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATGATTTATAAT
Found at i:40810486 original size:14 final size:14
Alignment explanation
Indices: 40810469--40810508 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
40810459 AAGGTCTAGT
40810469 GTTTGGGGTTTAAG
1 GTTTGGGGTTTAAG
* *
40810483 GTTTGGAGTTTATG
1 GTTTGGGGTTTAAG
*
40810497 GTTTAGGGTTTA
1 GTTTGGGGTTTA
40810509 TGGAATAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (14 bp):
GTTTGGGGTTTAAG
Found at i:40810493 original size:21 final size:21
Alignment explanation
Indices: 40810450--40810508 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
40810440 TAGGGGTTAA
* *
40810450 TTAGGGTTTAAGGTCTAGTGT
1 TTAGGGTTTAAGGTTTAGAGT
* *
40810471 TTGGGGTTTAAGGTTTGGAGT
1 TTAGGGTTTAAGGTTTAGAGT
* *
40810492 TTATGGTTTAGGGTTTA
1 TTAGGGTTTAAGGTTTA
40810509 TGGAATAGGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTAAGGTTTAGAGT
Found at i:40810655 original size:14 final size:14
Alignment explanation
Indices: 40810621--40810655 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
40810611 TTTTAGGGTG
*
40810621 TTAGGGTTTAATGT
1 TTAGGGTTTAAAGT
40810635 TTA-GGTTTAAAGT
1 TTAGGGTTTAAAGT
40810648 TTAGGGTT
1 TTAGGGTT
40810656 ATATTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:40810750 original size:7 final size:7
Alignment explanation
Indices: 40810740--40810841 Score: 50
Period size: 7 Copynumber: 14.6 Consensus size: 7
40810730 GATTTAGGAT
40810740 TTTAGGG
1 TTTAGGG
*
40810747 TTTAGAG
1 TTTAGGG
40810754 TTT-GTGG
1 TTTAG-GG
*
40810761 ATT-GGG
1 TTTAGGG
*
40810767 TTTTGTGG
1 TTTAG-GG
**
40810775 TTTATAG
1 TTTAGGG
*
40810782 TTTGGGG
1 TTTAGGG
40810789 TTTAGGG
1 TTTAGGG
40810796 TTT-GGTG
1 TTTAGG-G
*
40810803 TTTGGGG
1 TTTAGGG
*
40810810 TTTAGAG
1 TTTAGGG
40810817 TTT-GGAG
1 TTTAGG-G
*
40810824 TTTAGAG
1 TTTAGGG
*
40810831 TTTGGGG
1 TTTAGGG
40810838 TTTA
1 TTTA
40810842 ATTTTGGAAT
Statistics
Matches: 70, Mismatches: 18, Indels: 14
0.69 0.18 0.14
Matches are distributed among these distances:
6 8 0.11
7 54 0.77
8 8 0.11
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:40810797 original size:21 final size:21
Alignment explanation
Indices: 40810764--40810820 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
40810754 TTTGTGGATT
*
40810764 GGGTTTTGTGGTTT-ATAGTTTG
1 GGGTTTAG-GGTTTGAT-GTTTG
*
40810786 GGGTTTAGGGTTTGGTGTTTG
1 GGGTTTAGGGTTTGATGTTTG
*
40810807 GGGTTTAGAGTTTG
1 GGGTTTAGGGTTTG
40810821 GAGTTTAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (21 bp):
GGGTTTAGGGTTTGATGTTTG
Found at i:40810798 original size:14 final size:14
Alignment explanation
Indices: 40810788--40810841 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
40810778 ATAGTTTGGG
* * *
40810788 GTTTAGGGTTTGGT
1 GTTTGGGGTTTAGA
40810802 GTTTGGGGTTTAGA
1 GTTTGGGGTTTAGA
*
40810816 GTTTGGAGTTTAGA
1 GTTTGGGGTTTAGA
40810830 GTTTGGGGTTTA
1 GTTTGGGGTTTA
40810842 ATTTTGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (14 bp):
GTTTGGGGTTTAGA
Found at i:40810821 original size:21 final size:21
Alignment explanation
Indices: 40810780--40810826 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
40810770 TGTGGTTTAT
*
40810780 AGTTTGGGGTTTAGGGTTTGG
1 AGTTTGGGGTTTAGAGTTTGG
*
40810801 TGTTTGGGGTTTAGAGTTTGG
1 AGTTTGGGGTTTAGAGTTTGG
40810822 AGTTT
1 AGTTT
40810827 AGAGTTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.47
Consensus pattern (21 bp):
AGTTTGGGGTTTAGAGTTTGG
Found at i:40810840 original size:21 final size:21
Alignment explanation
Indices: 40810788--40810840 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
40810778 ATAGTTTGGG
* * *
40810788 GTTTAGGGTTTGGTGTTTGGG
1 GTTTAGGGTTTGGAGTTTAGA
*
40810809 GTTTAGAGTTTGGAGTTTAGA
1 GTTTAGGGTTTGGAGTTTAGA
*
40810830 GTTTGGGGTTT
1 GTTTAGGGTTT
40810841 AATTTTGGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTGGAGTTTAGA
Found at i:40811839 original size:24 final size:24
Alignment explanation
Indices: 40811809--40811854 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
40811799 GTCAGGTAAC
40811809 TTTAATTTCTAAGTCTCTGTTTCT
1 TTTAATTTCTAAGTCTCTGTTTCT
40811833 TTTAATTTCTAAGTCTCTGTTT
1 TTTAATTTCTAAGTCTCTGTTT
40811855 ACAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTAATTTCTAAGTCTCTGTTTCT
Found at i:40811982 original size:11 final size:11
Alignment explanation
Indices: 40811966--40811990 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40811956 ACAACTTACT
40811966 TTTTACTGATG
1 TTTTACTGATG
40811977 TTTTACTGATG
1 TTTTACTGATG
40811988 TTT
1 TTT
40811991 CATGGCCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTACTGATG
Found at i:40812955 original size:25 final size:25
Alignment explanation
Indices: 40812927--40812993 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
40812917 CTAATTCAAA
40812927 ACTCACCATTTCAATTGTTCCCACC
1 ACTCACCATTTCAATTGTTCCCACC
*
40812952 ACTCACCATTTCAATTGTTTCCACC
1 ACTCACCATTTCAATTGTTCCCACC
* * *
40812977 ACGCATCGTTTCAATTG
1 ACTCACCATTTCAATTG
40812994 ATTTCACAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.34
Consensus pattern (25 bp):
ACTCACCATTTCAATTGTTCCCACC
Found at i:40814676 original size:39 final size:39
Alignment explanation
Indices: 40814633--40814802 Score: 223
Period size: 39 Copynumber: 4.3 Consensus size: 39
40814623 GGTCTTTAAC
** * *
40814633 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
* * * *
40814672 CCGGATATATTTCTAGCATATAGCTTGCAGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
* *
40814711 CCGGAAATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
* *
40814750 CCGGATATATTTCTAGCATATAGCCTGCAGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
40814789 CCGGATATATTTTC
1 CCGGATAT-TTTTC
40814803 AATCTCATAC
Statistics
Matches: 111, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
39 107 0.96
40 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
Found at i:40814762 original size:78 final size:78
Alignment explanation
Indices: 40814633--40814802 Score: 277
Period size: 78 Copynumber: 2.2 Consensus size: 78
40814623 GGTCTTTAAC
* *
40814633 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCTT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
*
40814698 GCAGATCTCATGT
66 GCAGACCTCATGT
* * *
40814711 CCGGAAATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
40814776 GCAGACCTCATGT
66 GCAGACCTCATGT
40814789 CCGGATATATTTTC
1 CCGGATAT-TTTTC
40814803 AATCTCATAC
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 79 0.94
79 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (78 bp):
CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
GCAGACCTCATGT
Found at i:40815820 original size:14 final size:14
Alignment explanation
Indices: 40815801--40815829 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
40815791 TAACTAACAT
40815801 AGTCTCTTAGATTC
1 AGTCTCTTAGATTC
40815815 AGTCTCTTAGATTC
1 AGTCTCTTAGATTC
40815829 A
1 A
40815830 ATATAATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (14 bp):
AGTCTCTTAGATTC
Found at i:40817274 original size:9 final size:9
Alignment explanation
Indices: 40817251--40817378 Score: 96
Period size: 9 Copynumber: 13.6 Consensus size: 9
40817241 ATTGATCATT
*
40817251 ACTTAAATA
1 ACTTACATA
*
40817260 AATTACATA
1 ACTTACATA
40817269 ACTTACATA
1 ACTTACATA
* *
40817278 ACTCATATA
1 ACTTACATA
*
40817287 ACTTGA-ACA
1 ACTT-ACATA
*
40817296 ATTTACATAACA
1 ACTTACAT---A
40817308 ACTTACATA
1 ACTTACATA
*
40817317 ACTCACATA
1 ACTTACATA
40817326 ACTTACATA
1 ACTTACATA
*
40817335 ATTTACATA
1 ACTTACATA
*
40817344 ACTCACATA
1 ACTTACATA
*
40817353 ACGTACATAACA
1 ACTTACAT---A
40817365 ACTTACATA
1 ACTTACATA
40817374 ACTTA
1 ACTTA
40817379 ACTAATACAT
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
8 1 0.01
9 75 0.81
10 1 0.01
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
ACTTACATA
Found at i:40817315 original size:39 final size:39
Alignment explanation
Indices: 40817268--40817345 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
40817258 TAAATTACAT
*
40817268 AACTTACATAACTCATATAACTTGA-ACAATTTACATAAC
1 AACTTACATAACTCACATAACTT-ACACAATTTACATAAC
*
40817307 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACACAATTTACATAAC
40817346 TCACATAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACACAATTTACATAAC
Found at i:40817345 original size:57 final size:57
Alignment explanation
Indices: 40817264--40817376 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
40817254 TAAATAAATT
* * **
40817264 ACATAACTTACATAACTCATATAACTTGA-ACAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAAC-TCACACAACGTACATAACAACTTACATAACTC
* * *
40817321 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACACAACGTACATAACAACTTACATAACT
40817377 TAACTAATAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 2 0.04
57 46 0.96
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACACAACGTACATAACAACTTACATAACTC
Found at i:40821973 original size:39 final size:39
Alignment explanation
Indices: 40821916--40822034 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
40821906 TTATATTACT
* * *
40821916 AGCACAAAGCCTGTGGGACTTTAGCTCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
40821955 AGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
40821994 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
40822033 AG
1 AG
40822035 TGTCTTGCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:40827627 original size:21 final size:21
Alignment explanation
Indices: 40827597--40827661 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
40827587 CTTAGAGCGA
40827597 AGGCAGCAGCGCGGGAGGCGG
1 AGGCAGCAGCGCGGGAGGCGG
*
40827618 AGGCAACAGCGCGGGAGGCGG
1 AGGCAGCAGCGCGGGAGGCGG
* *
40827639 AGGCCGCAGCGAGGGAGGCGG
1 AGGCAGCAGCGCGGGAGGCGG
40827660 AG
1 AG
40827662 CAGAACAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.22, C:0.23, G:0.55, T:0.00
Consensus pattern (21 bp):
AGGCAGCAGCGCGGGAGGCGG
Found at i:40828078 original size:43 final size:44
Alignment explanation
Indices: 40827992--40828081 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 44
40827982 TTTAGTGGCA
* *
40827992 TTTTTATAAAAAGTGCCGCTAAAAGTCTCAATCTTTAGTGGCGT
1 TTTTTATAAAAAGCGCCGCTAAAAGTCTCAATCTTTAGCGGCGT
**
40828036 TTTTTAT-AAAAGCGCCGCTAAAAGTC-CTGGTCTTTAGCGGCGT
1 TTTTTATAAAAAGCGCCGCTAAAAGTCTC-AATCTTTAGCGGCGT
40828079 TTT
1 TTT
40828082 CTTTTAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 33 0.80
44 7 0.17
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (44 bp):
TTTTTATAAAAAGCGCCGCTAAAAGTCTCAATCTTTAGCGGCGT
Found at i:40841076 original size:43 final size:43
Alignment explanation
Indices: 40841000--40841133 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
40840990 ATCACCAGCA
* * * *
40841000 CGAAGCCTAATATTAAGTCACTGGTATTATAGCCTGCTAGGCT
1 CGAAGCCCAATATTAACTCACCGGCATTATAGCCTGCTAGGCT
* *
40841043 CGAAGCCCAATATTAACTCACCAGCATTGTAGCCTGCT-GGACT
1 CGAAGCCCAATATTAACTCACCGGCATTATAGCCTGCTAGG-CT
* *
40841086 CGAAGCCCGATATTAACTCACCGGCATTATAGCCTGTTAGGCT
1 CGAAGCCCAATATTAACTCACCGGCATTATAGCCTGCTAGGCT
40841129 CGAAG
1 CGAAG
40841134 GCTCGAATAG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.03
43 75 0.95
44 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (43 bp):
CGAAGCCCAATATTAACTCACCGGCATTATAGCCTGCTAGGCT
Found at i:40846942 original size:79 final size:79
Alignment explanation
Indices: 40846842--40847182 Score: 455
Period size: 79 Copynumber: 4.3 Consensus size: 79
40846832 GCTCCTCGTT
* * *
40846842 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCC
*
40846905 GGATTTAGTATCTCGCA
63 GGAATTAGTATCTCGCA
* *
40846922 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATATCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
40846986 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
* *
40847000 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
40847065 ATTAGTATATCGCA
66 ATTAGTATCTCGCA
* *
40847079 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCGG
*
40847143 ATATT-GTCA-CTTAGCA
65 A-ATTAGT-ATC-TCGCA
40847159 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40847183 CATCATTCAA
Statistics
Matches: 237, Mismatches: 16, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
78 83 0.35
79 131 0.55
80 23 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTATCTCGCA
Found at i:40846960 original size:39 final size:39
Alignment explanation
Indices: 40846842--40847182 Score: 442
Period size: 39 Copynumber: 8.6 Consensus size: 39
40846832 GCTCCTCGTT
* *
40846842 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* *
40846882 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
* *
40846922 CAAATGCCTTTGGGCTTAGCCCGGAATTAGTATATCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
40846961 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* *
40847000 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
40847040 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATATCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
40847079 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
40847118 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
40847159 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
40847183 CATCATTCAA
Statistics
Matches: 274, Mismatches: 19, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
39 166 0.61
40 97 0.35
41 11 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:40847182 original size:118 final size:118
Alignment explanation
Indices: 40846842--40847130 Score: 510
Period size: 118 Copynumber: 2.4 Consensus size: 118
40846832 GCTCCTCGTT
* *
40846842 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
*
40846905 GGATTTAGTATCTCGCACAAATGCCTTTGGGCTTAGCCCGGAATTAGTATATCGCA
63 GGATTTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATATCGCA
40846961 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
40847026 TTTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATATCGCA
66 TTTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATATCGCA
40847079 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
40847131 ATCTTAGTCC
Statistics
Matches: 165, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
117 2 0.01
118 148 0.90
119 15 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATATCGCA
Found at i:40848481 original size:158 final size:158
Alignment explanation
Indices: 40848166--40848481 Score: 605
Period size: 158 Copynumber: 2.0 Consensus size: 158
40848156 TCAAACATAC
*
40848166 CTTAGCCTAGCTACATGCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTT
1 CTTAGCCTAGCTACATGCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCATAAAATTT
40848231 TTGGCCAAGGATGAACCAAAGGATGAGCATTTTTTTCTTTGTTTTTTCTTTCTAGTTTCGGCTAA
66 TTGGCCAAGGATGAACCAAAGGATGAGCATTTTTTTCTTTGTTTTTTCTTTCTAGTTTCGGCTAA
40848296 ATGAAGATGAGAAAGGATGAACAAAAAA
131 ATGAAGATGAGAAAGGATGAACAAAAAA
*
40848324 CTTAGCCTAGCTACATGCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTTCATAAAATTT
1 CTTAGCCTAGCTACATGCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCATAAAATTT
40848389 TTGGCCAAGGATGAACCAAAGGATGAGCATTTTTTTTCTTTGTTTTTTCTTTCTAGTTTCGGCTA
66 TTGGCCAAGGATGAACCAAAGGATGAGCA-TTTTTTTCTTTGTTTTTTCTTTCTAGTTTCGGCTA
40848454 AATGAAGATGAGAAAGGATGAACAAAAA
130 AATGAAGATGAGAAAGGATGAACAAAAA
40848482 TTTTCTCCTT
Statistics
Matches: 155, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
158 92 0.59
159 63 0.41
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (158 bp):
CTTAGCCTAGCTACATGCATGGCCGAACCTCTTCAACCTTTCTTCTTCCTTCCTCCATAAAATTT
TTGGCCAAGGATGAACCAAAGGATGAGCATTTTTTTCTTTGTTTTTTCTTTCTAGTTTCGGCTAA
ATGAAGATGAGAAAGGATGAACAAAAAA
Found at i:40851340 original size:16 final size:18
Alignment explanation
Indices: 40851321--40851353 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
40851311 CATACGAATT
40851321 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
40851337 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
40851354 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:40853325 original size:74 final size:74
Alignment explanation
Indices: 40853204--40853346 Score: 268
Period size: 74 Copynumber: 1.9 Consensus size: 74
40853194 TTGAATCATG
40853204 CTAAGCAAATGACCGAATGTGCTTGAGCGTTTTCCTCTCTTTTTCTCTTAATTTCGGCTATGAAG
1 CTAAGCAAATGACCGAATGTGCTTGAGCGTTTTCCTCTCTTTTTCTCTTAATTTCGGCTATGAAG
40853269 AACACAGAT
66 AACACAGAT
* *
40853278 CTAAGTAAATGACTGAATGTGCTTGAGCGTTTTCCTCTCTTTTTCTCTTAATTTCGGCTATGAAG
1 CTAAGCAAATGACCGAATGTGCTTGAGCGTTTTCCTCTCTTTTTCTCTTAATTTCGGCTATGAAG
40853343 AACA
66 AACA
40853347 AAAATGAACA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (74 bp):
CTAAGCAAATGACCGAATGTGCTTGAGCGTTTTCCTCTCTTTTTCTCTTAATTTCGGCTATGAAG
AACACAGAT
Found at i:40860888 original size:43 final size:43
Alignment explanation
Indices: 40860839--40860920 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
40860829 GATATACATG
* *
40860839 GCATCCGAGCTCATTGAGTGCTCCGAGTTTATTATGGATGAGA
1 GCATCCGAGCTCATTGAGTGCTCCGAGTTCATAATGGATGAGA
* *
40860882 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGAT
1 GCATCCGAGCTCATTGAGTGCTCCGAGTTCATAATGGAT
40860921 ACGATACAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGTGCTCCGAGTTCATAATGGATGAGA
Found at i:40864456 original size:15 final size:15
Alignment explanation
Indices: 40864432--40864475 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
40864422 TATACGGCAA
* *
40864432 TGTATATTGGGTTTC
1 TGTATTTTGGATTTC
40864447 TGTATTTTGGATTTC
1 TGTATTTTGGATTTC
* *
40864462 TTTATTATGGATTT
1 TGTATTTTGGATTT
40864476 TTCAGTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.59
Consensus pattern (15 bp):
TGTATTTTGGATTTC
Found at i:40867577 original size:44 final size:43
Alignment explanation
Indices: 40867512--40867599 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 43
40867502 TGATATCTAT
* *
40867512 AGCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCG
1 AGCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCG
40867555 AGCATCCGGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCG
1 AGCATCC-GAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCG
40867599 A
1 A
40867600 TACATGTAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 7 0.17
44 35 0.83
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
AGCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCG
Found at i:40867636 original size:51 final size:52
Alignment explanation
Indices: 40867557--40867657 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 52
40867547 TGGATGCGAG
**
40867557 CATCCGGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
1 CATCCGGAGCTCATTGAGAAGTCCGAGTTCATAATGGATGCGATACATGTAA
* * * * *
40867609 CATCC-GAGCTCGTTGAGAAGTCTGAGTTCATTATGGATGTGTTACATGT
1 CATCCGGAGCTCATTGAGAAGTCCGAGTTCATAATGGATGCGATACATGT
40867658 TATGATGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 37 0.88
52 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (52 bp):
CATCCGGAGCTCATTGAGAAGTCCGAGTTCATAATGGATGCGATACATGTAA
Found at i:40876973 original size:26 final size:27
Alignment explanation
Indices: 40876937--40877009 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
40876927 ATTCTGTTAA
* *
40876937 GTGGCTTTGCCACATTATCTAT-TCTG
1 GTGGCTCTGCCACAATATCTATATCTG
*
40876963 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTATATCTG
* *
40876990 GTGACTCTGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
40877010 GATAACTGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTATATCTG
Found at i:40877192 original size:31 final size:31
Alignment explanation
Indices: 40877147--40877282 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
40877137 TTGCATTCAC
* *
40877147 ATTCTGATTTTTGATCCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
40877179 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
40877210 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
40877241 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
40877271 TTTCTTATTCTG
1 ATTCTGATTCTG
40877283 TAATGGGTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
30 16 0.18
31 66 0.73
32 8 0.09
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:40877210 original size:6 final size:6
Alignment explanation
Indices: 40877170--40877266 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
40877160 ATCCTGTTAC
* * * *
40877170 CTGATA CTGATT TTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
40877219 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
40877267 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:40879381 original size:18 final size:18
Alignment explanation
Indices: 40879360--40879412 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
40879350 TTTAACAGTC
*
40879360 AATTATTCAGTAACGATA
1 AATTATTCAGTAACAATA
* * *
40879378 AATTATTTAGTAATAATC
1 AATTATTCAGTAACAATA
40879396 AATTATTCAGTAACAAT
1 AATTATTCAGTAACAAT
40879413 TTTTTTTACG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTATTCAGTAACAATA
Found at i:40879463 original size:18 final size:17
Alignment explanation
Indices: 40879423--40879463 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
40879413 TTTTTTTACG
*
40879423 CAGTAGCAGTCAGTTAT
1 CAGTAACAGTCAGTTAT
40879440 CTAGTAACAGTCAGTTATT
1 C-AGTAACAGTCAGTTA-T
40879459 CAGTA
1 CAGTA
40879464 GCAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.86
19 2 0.10
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (17 bp):
CAGTAACAGTCAGTTAT
Found at i:40880298 original size:11 final size:11
Alignment explanation
Indices: 40880275--40880315 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
40880265 TTAATATTTA
40880275 AATTTCGTATTC
1 AATTTC-TATTC
40880287 AATTTCTATTC
1 AATTTCTATTC
*
40880298 AATTTCTACTC
1 AATTTCTATTC
40880309 TAATTTC
1 -AATTTC
40880316 AATTTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:40880958 original size:16 final size:17
Alignment explanation
Indices: 40880920--40881012 Score: 63
Period size: 16 Copynumber: 5.7 Consensus size: 17
40880910 TACACTTGTC
*
40880920 ATAAT-TAAATTTATTT
1 ATAATATAAATATATTT
*
40880936 ATTATATAAATAT-TTT
1 ATAATATAAATATATTT
*
40880952 ATAATAT-AAT-TACTT
1 ATAATATAAATATATTT
* *
40880967 A-ATTAATAAATATCTTT
1 ATAAT-ATAAATATATTT
* *
40880984 AATAATAAAAATATATTA
1 -ATAATATAAATATATTT
40881002 ATAAT-TAAATA
1 ATAATATAAATA
40881013 CATGTATTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
14 3 0.05
15 8 0.14
16 21 0.36
17 14 0.24
18 10 0.17
19 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATAAATATATTT
Found at i:40880989 original size:20 final size:18
Alignment explanation
Indices: 40880966--40881010 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
40880956 TATAATTACT
*
40880966 TAATTAATAAATATCTTTAA
1 TAATTAA-AAATAT-ATTAA
40880986 TAA-TAAAAATATATTAA
1 TAATTAAAAATATATTAA
40881003 TAATTAAA
1 TAATTAAA
40881011 TACATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 3 0.13
20 3 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAAAATATATTAA
Found at i:40881979 original size:19 final size:19
Alignment explanation
Indices: 40881944--40881982 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
40881934 TCCGTCCATC
*
40881944 TTAGAAAAACCCTTTTGTT
1 TTAGAAAAACCCGTTTGTT
40881963 TTAGAGAAAA-CCGTTTGTT
1 TTAGA-AAAACCCGTTTGTT
40881982 T
1 T
40881983 GTTGAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (19 bp):
TTAGAAAAACCCGTTTGTT
Found at i:40882760 original size:351 final size:351
Alignment explanation
Indices: 40882117--40882819 Score: 1352
Period size: 351 Copynumber: 2.0 Consensus size: 351
40882107 ATTAAAACGG
40882117 TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
1 TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
*
40882182 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCACAGAAAACAA
66 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCACAGAAAACAA
*
40882247 ACAACAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTGCCAGTAA
131 ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTGCCAGTAA
40882312 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
196 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
*
40882377 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCA
261 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
40882442 ACCCTACACTCCATATGGGGATTAAA
326 ACCCTACACTCCATATGGGGATTAAA
*
40882468 TTTAATAATATGTATGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
1 TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
*
40882533 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCATAGAAAACAA
66 CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCACAGAAAACAA
40882598 ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTGCCAGTAA
131 ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTGCCAGTAA
40882663 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
196 CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
40882728 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
261 TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
*
40882793 ACCCTACACTCCATGTGGGGATTAAA
326 ACCCTACACTCCATATGGGGATTAAA
40882819 T
1 T
40882820 CAACCACCCA
Statistics
Matches: 346, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
351 346 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (351 bp):
TTTAATAATATGTACGGCCACCGTCGAGTCCTCCGCTGTACCGATCTATCAAGTCTGGGGATTAC
CTGTGCACATTAAATAGAGAGGGGTGAGTTTACATAAACTCAGTGTGTAATCCCACAGAAAACAA
ACAAAAGTAAACACAGTGCATAATCAAATACAGTTTCGGGCCTAAGCCTCTTTCGGTGCCAGTAA
CAGTTTGGGCCTTAGCCTATCTCGGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAA
TATCAGTATGCATTATTCAGTAACAAGGTCCTACCCAACCAGCCTCTACACACCATCTCCATCCA
ACCCTACACTCCATATGGGGATTAAA
Done.