Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 11 of 109
Found at i:3563495 original size:34 final size:34
Alignment explanation
Indices: 3563447--3563528 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
3563437 AATTCTCAAA
**
3563447 ATAAAAGAGGAAAGAATTTTTTGAACTTAGGATC
1 ATAAAAGAGGAAAGAATGGTTTGAACTTAGGATC
*
3563481 ATAAAAGAGAAAAGAATGGTTTGAACTTAGGATC
1 ATAAAAGAGGAAAGAATGGTTTGAACTTAGGATC
3563515 ATAAAAGAGGAAAG
1 ATAAAAGAGGAAAG
3563529 CTAACTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.23
Consensus pattern (34 bp):
ATAAAAGAGGAAAGAATGGTTTGAACTTAGGATC
Found at i:3573013 original size:7 final size:7
Alignment explanation
Indices: 3573001--3573025 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3572991 TTCCTTTCAA
3573001 AAAATGT
1 AAAATGT
3573008 AAAATGT
1 AAAATGT
3573015 AAAATGT
1 AAAATGT
3573022 AAAA
1 AAAA
3573026 CTTATATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAATGT
Found at i:3582540 original size:7 final size:7
Alignment explanation
Indices: 3582528--3582552 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3582518 TTCCTTTCAA
3582528 AAAATGT
1 AAAATGT
3582535 AAAATGT
1 AAAATGT
3582542 AAAATGT
1 AAAATGT
3582549 AAAA
1 AAAA
3582553 CTTATATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAATGT
Found at i:3585767 original size:45 final size:45
Alignment explanation
Indices: 3585677--3585851 Score: 212
Period size: 45 Copynumber: 3.9 Consensus size: 45
3585667 AACCGTTACA
* * *
3585677 CGGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTT
* ** *
3585720 CGGTGGAATCAGCACATAACAACCACCTTTATTTTTAATGATTTT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTT
* * **
3585765 CGGTGGAGTCAGCACATAGCAACCACATTTATAATCAATG-TTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATT-TT
*
3585810 CGGTGGAATCAGCACATAGCAACCACCTTTATAACCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGAT
3585852 ACTCAATACA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
43 6 0.05
44 14 0.13
45 89 0.81
46 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATTTT
Found at i:3585800 original size:90 final size:88
Alignment explanation
Indices: 3585677--3585841 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 88
3585667 AACCGTTACA
* **
3585677 CGGTGGATCAGCACATAGCACCACCCTTATAATCAAT-TATATTCGGTGGAATCAGCACATAACA
1 CGGTGGATCAGCACATAGCACCACACTTATAATCAATGT-TACCCGGTGGAATCAGCACATAACA
3585741 ACCACCTTTATTTTTAATGATTTT
65 ACCACCTTTATTTTTAATGATTTT
* *
3585765 CGGTGGAGTCAGCACATAGCAACCACATTTATAATCAATGTTACCCGGTGGAATCAGCACATAGC
1 CGGTGGA-TCAGCACATAGC-ACCACACTTATAATCAATGTTACCCGGTGGAATCAGCACATAAC
3585830 AACCACCTTTAT
64 AACCACCTTTAT
3585842 AACCAATGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
88 7 0.10
89 12 0.17
90 49 0.71
91 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (88 bp):
CGGTGGATCAGCACATAGCACCACACTTATAATCAATGTTACCCGGTGGAATCAGCACATAACAA
CCACCTTTATTTTTAATGATTTT
Found at i:3589104 original size:12 final size:14
Alignment explanation
Indices: 3589082--3589120 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3589072 AGGAAAATTT
*
3589082 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
3589097 TGATAATATATACA
1 TAATAATATATACA
3589111 TAATAATATA
1 TAATAATATA
3589121 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:3590283 original size:15 final size:14
Alignment explanation
Indices: 3590260--3590292 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
3590250 AAGGATGTAT
3590260 TTTTCTTTTTCTTC
1 TTTTCTTTTTCTTC
3590274 TTTTC-TTTT-TTC
1 TTTTCTTTTTCTTC
3590286 TTTTCTT
1 TTTTCTT
3590293 GCTGCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 5 0.28
14 5 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCTTTTTCTTC
Found at i:3594865 original size:29 final size:28
Alignment explanation
Indices: 3594832--3594902 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
3594822 ATTGGCTCTG
*
3594832 AATTTTTAAATTTGAAAATAAAT-AGACTA
1 AATTTTTAAATAT-AAAA-AAATAAGACTA
* *
3594861 AATTTCTAAAAATAAAAAAATGAAGACTA
1 AATTTTTAAATATAAAAAAAT-AAGACTA
3594890 AA-TTTTAAATATA
1 AATTTTTAAATATA
3594903 CAAAGCATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.11
28 13 0.37
29 18 0.51
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (28 bp):
AATTTTTAAATATAAAAAAATAAGACTA
Found at i:3596547 original size:27 final size:27
Alignment explanation
Indices: 3596493--3596558 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
3596483 TTTAAAAAAC
3596493 TATATATATAATAATTAATCCCCATAA
1 TATATATATAATAATTAATCCCCATAA
* * * * *
3596520 TATATATATGATTATTGATTCCCGTAA
1 TATATATATAATAATTAATCCCCATAA
3596547 TATATATATAAT
1 TATATATATAAT
3596559 CATAGACCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (27 bp):
TATATATATAATAATTAATCCCCATAA
Found at i:3612987 original size:19 final size:20
Alignment explanation
Indices: 3612944--3612987 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
3612934 TGTTATTATT
* *
3612944 ATTTATTTTAATTTTTCTGG
1 ATTTATGTTAATTTTTCTGA
*
3612964 GTTTATGTT-ATTTTTCTGA
1 ATTTATGTTAATTTTTCTGA
3612983 ATTTA
1 ATTTA
3612988 GGATTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (20 bp):
ATTTATGTTAATTTTTCTGA
Found at i:3616213 original size:24 final size:25
Alignment explanation
Indices: 3616169--3616215 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
3616159 TATTTAAATT
*
3616169 ATTCAAATTATATGATTTAATTTGA
1 ATTCAAAATATATGATTTAATTTGA
*
3616194 ATTCAAAATAT-TTATTTAATTT
1 ATTCAAAATATATGATTTAATTT
3616216 AACTTGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTCAAAATATATGATTTAATTTGA
Found at i:3617743 original size:125 final size:126
Alignment explanation
Indices: 3617602--3617863 Score: 490
Period size: 125 Copynumber: 2.1 Consensus size: 126
3617592 AAGTATTATG
3617602 TATTAAAAAAACATATAAATTCATGAATAATAAAAACAATAATAAATTACTTCAAAATAATAATA
1 TATT-AAAAAACATATAAATTCATGAATAATAAAAACAATAATAAATTACTTCAAAATAATAATA
*
3617667 AATAAAATACATTCAAGTAAGTATTTGATACATTGATAATATATTTTTTATTTTAAAAATAA
65 AATAAAATACATTCAAGTAAGTATTTGAGACATTGATAATATATTTTTTATTTTAAAAATAA
3617729 TATTAAAAAA-ATATAAATTCATGAATAATAAAAACAATAATAAATTACTTCAAAATAATAATAA
1 TATTAAAAAACATATAAATTCATGAATAATAAAAACAATAATAAATTACTTCAAAATAATAATAA
*
3617793 ATAAAATACATTCAAGTAAGTATTTGAGATATTGATAATATATTTTTTATTTTAAAAATAA
66 ATAAAATACATTCAAGTAAGTATTTGAGACATTGATAATATATTTTTTATTTTAAAAATAA
3617854 TATTAAAAAA
1 TATTAAAAAA
3617864 TTACTTTTAA
Statistics
Matches: 133, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
125 123 0.92
126 6 0.05
127 4 0.03
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.35
Consensus pattern (126 bp):
TATTAAAAAACATATAAATTCATGAATAATAAAAACAATAATAAATTACTTCAAAATAATAATAA
ATAAAATACATTCAAGTAAGTATTTGAGACATTGATAATATATTTTTTATTTTAAAAATAA
Found at i:3617891 original size:7 final size:7
Alignment explanation
Indices: 3617879--3617903 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3617869 TTTAAATAAA
3617879 AAAATAT
1 AAAATAT
3617886 AAAATAT
1 AAAATAT
3617893 AAAATAT
1 AAAATAT
3617900 AAAA
1 AAAA
3617904 GTACTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:3619656 original size:15 final size:15
Alignment explanation
Indices: 3619636--3619683 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
3619626 TGATTTTTAG
3619636 ATTTTTTTAAATTAT
1 ATTTTTTTAAATTAT
* *
3619651 ATTTTTTT-CATTTT
1 ATTTTTTTAAATTAT
* *
3619665 ATTTTTGTAAAATAT
1 ATTTTTTTAAATTAT
3619680 ATTT
1 ATTT
3619684 CGACACACGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
ATTTTTTTAAATTAT
Found at i:3625607 original size:110 final size:111
Alignment explanation
Indices: 3625402--3625624 Score: 439
Period size: 110 Copynumber: 2.0 Consensus size: 111
3625392 CCTTGACACG
3625402 GATTCTCAATGAACAAGTTCTCCACCTTTTCCATGAAACCCCTTAAGGGTTTATCTTCAACAATG
1 GATTCTCAATGAACAAGTTCTCCACCTTTTCCATGAAACCCCTTAAGGGTTTATCTTCAACAATG
3625467 AACACCAACCAAGCCTAAACAATGCTCAAACTTGGTTATAGGAAGT
66 AACACCAACCAAGCCTAAACAATGCTCAAACTTGGTTATAGGAAGT
3625513 GATTCTCAATG-ACAAGTTCTCCACCTTTTCCATGAAACCCCTTAAGGGTTTATCTTCAACAATG
1 GATTCTCAATGAACAAGTTCTCCACCTTTTCCATGAAACCCCTTAAGGGTTTATCTTCAACAATG
3625577 AACACCAACCAAGCCTAAACAATGCTCAAACTTGGTTATAGGAAGT
66 AACACCAACCAAGCCTAAACAATGCTCAAACTTGGTTATAGGAAGT
3625623 GA
1 GA
3625625 CTTAGTCATC
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 101 0.90
111 11 0.10
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (111 bp):
GATTCTCAATGAACAAGTTCTCCACCTTTTCCATGAAACCCCTTAAGGGTTTATCTTCAACAATG
AACACCAACCAAGCCTAAACAATGCTCAAACTTGGTTATAGGAAGT
Found at i:3644848 original size:13 final size:13
Alignment explanation
Indices: 3644830--3644854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3644820 CGACATGTAA
3644830 ATAAATATTAATT
1 ATAAATATTAATT
3644843 ATAAATATTAAT
1 ATAAATATTAAT
3644855 AACTCTCGAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAATATTAATT
Found at i:3646336 original size:15 final size:15
Alignment explanation
Indices: 3646318--3646346 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3646308 AAGCATTTAG
3646318 AAAAAAATTAAAATA
1 AAAAAAATTAAAATA
3646333 AAAAAAATTAAAAT
1 AAAAAAATTAAAAT
3646347 TGATCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAATTAAAATA
Found at i:3649378 original size:17 final size:18
Alignment explanation
Indices: 3649358--3649394 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3649348 GTTTTTAACT
*
3649358 TTTTTAAT-ATTTTTTAA
1 TTTTTAATAATTTTATAA
3649375 TTTTTAATAATTTTATAA
1 TTTTTAATAATTTTATAA
3649393 TT
1 TT
3649395 GGGCCAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATAATTTTATAA
Found at i:3649378 original size:18 final size:19
Alignment explanation
Indices: 3649349--3649394 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
3649339 TTGAACCGGG
3649349 TTTTTAACTTTTTTAAT-AT
1 TTTTTAA-TTTTTTAATAAT
3649368 TTTTTAA-TTTTTAATAAT
1 TTTTTAATTTTTTAATAAT
*
3649386 TTTATAATT
1 TTTTTAATT
3649395 GGGCCAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAATTTTTTAATAAT
Found at i:3654086 original size:50 final size:50
Alignment explanation
Indices: 3653972--3654200 Score: 214
Period size: 50 Copynumber: 4.5 Consensus size: 50
3653962 TGCCAAAGTT
* * *
3653972 ATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGTAC--TGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTGCCAATGCC
* * * *
3654021 ATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATGCC
* ** *
3654071 ATGTCCCAGATATGGTCTTACATAAGAGTTCTTATATCGGTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATGCC
* * * *
3654121 ATGTCCCATACATGGTCTTACATGGGACATT-TCATAATCTCAATGATGTCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCAT-A--TC---GGTGCCAATGCC
3654177 ATGTCCCAGACATGGTCTTACATG
1 ATGTCCCAGACATGGTCTTACATG
3654201 AGATCTCATT
Statistics
Matches: 148, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 6 0.04
49 26 0.18
50 78 0.53
51 3 0.02
53 2 0.01
56 33 0.22
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATGCC
Found at i:3656554 original size:16 final size:17
Alignment explanation
Indices: 3656533--3656565 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3656523 TATACTTATA
*
3656533 TTATTT-TTAATATTTT
1 TTATTTATTAAAATTTT
3656549 TTATTTATTAAAATTTT
1 TTATTTATTAAAATTTT
3656566 ATGTATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTATTAAAATTTT
Found at i:3696778 original size:15 final size:16
Alignment explanation
Indices: 3696758--3696788 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3696748 TAGTAATATT
3696758 TTTATATATT-TTAAA
1 TTTATATATTATTAAA
3696773 TTTATATATTATTAAA
1 TTTATATATTATTAAA
3696789 ACTTACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATATATTATTAAA
Found at i:3696839 original size:21 final size:22
Alignment explanation
Indices: 3696795--3696843 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
3696785 TAAAACTTAC
**
3696795 ATTTTTTATTTAATATTTTTAT
1 ATTTTTTATTTAATATTTGAAT
3696817 ATATTTTT-TTTAA-ATTTGAAT
1 AT-TTTTTATTTAATATTTGAAT
3696838 ATTTTT
1 ATTTTT
3696844 AATGAATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 7 0.29
23 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTTTATTTAATATTTGAAT
Found at i:3704223 original size:47 final size:46
Alignment explanation
Indices: 3704108--3704223 Score: 133
Period size: 47 Copynumber: 2.5 Consensus size: 46
3704098 ACAACTTGGA
* * *
3704108 TTTCACAAAATTACTTCAAGGGATACTATTACGTCAAACAAATTGGC
1 TTTCACAAAATT-CTTCAAGGGATACTATTAAGCCAAACAAATTGAC
* * * *
3704155 TTCCATAAAACTCCTTTAAGGGATACTATTAAGCCAAACAAATTGAC
1 TTTCACAAAA-TTCTTCAAGGGATACTATTAAGCCAAACAAATTGAC
*
3704202 TTTCACAATAATTGTTCAAGGG
1 TTTCACAA-AATTCTTCAAGGG
3704224 CTACAATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
47 52 0.95
48 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (46 bp):
TTTCACAAAATTCTTCAAGGGATACTATTAAGCCAAACAAATTGAC
Found at i:3705187 original size:2 final size:2
Alignment explanation
Indices: 3705180--3705212 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3705170 ATTTCAAAAC
*
3705180 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3705213 CGCAAGTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3723994 original size:21 final size:23
Alignment explanation
Indices: 3723953--3723995 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
3723943 ACAAAGGGTA
3723953 AAACACTTTATAAATATTGTTTT
1 AAACACTTTATAAATATTGTTTT
*
3723976 AAACA-TTTTTAAA-ATTGTTT
1 AAACACTTTATAAATATTGTTT
3723996 ATAATATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (23 bp):
AAACACTTTATAAATATTGTTTT
Found at i:3728802 original size:22 final size:21
Alignment explanation
Indices: 3728748--3728879 Score: 128
Period size: 21 Copynumber: 6.3 Consensus size: 21
3728738 GTGTTTTACT
*
3728748 TTCTGTTTAGCTCTTTCGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* * *
3728769 TTCTATTTAGCTCTTTCGGGGC
1 TTCTGTTCAGCTCTTTC-GAGC
*
3728791 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* * *
3728812 TTCTGTTCAACT-TTTATGAGT
1 TTCTGTTCAGCTCTTT-CGAGC
*
3728833 TTCTATTCAGCTCTTAT-GAGC
1 TTCTGTTCAGCTCTT-TCGAGC
3728854 TTCTGTTCAGCT-TTT-GAGC
1 TTCTGTTCAGCTCTTTCGAGC
3728873 TTCTGTT
1 TTCTGTT
3728880 GGCGTATCTG
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.13
20 4 0.04
21 57 0.61
22 19 0.20
23 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTTCGAGC
Found at i:3733094 original size:22 final size:22
Alignment explanation
Indices: 3733051--3733094 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3733041 ATATATATAT
* *
3733051 TTTAATTTTTTTATGAATTTTA
1 TTTAATATTTATATGAATTTTA
3733073 TTTAATATTTATAT-AATGTTTA
1 TTTAATATTTATATGAAT-TTTA
3733095 ATGATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTAATATTTATATGAATTTTA
Found at i:3733919 original size:29 final size:29
Alignment explanation
Indices: 3733877--3733932 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
3733867 AAAAGCCCAT
3733877 TTTTTTCAATATTTACCGAAATGGGCCGG
1 TTTTTTCAATATTTACCGAAATGGGCCGG
*
3733906 TTTTTT-AACTATTTACCGGAATGGGCC
1 TTTTTTCAA-TATTTACCGAAATGGGCC
3733933 ATTTTCCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTCAATATTTACCGAAATGGGCCGG
Found at i:3737266 original size:26 final size:25
Alignment explanation
Indices: 3737237--3737291 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
3737227 TTAACTATAG
3737237 ACTAATAATGTGGCTTACATGCAAAA
1 ACTAAT-ATGTGGCTTACATGCAAAA
*
3737263 ACTAGTATGTGGCTTACATGCAAAA
1 ACTAATATGTGGCTTACATGCAAAA
3737288 ACTA
1 ACTA
3737292 GTCTTGGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (25 bp):
ACTAATATGTGGCTTACATGCAAAA
Found at i:3737299 original size:24 final size:25
Alignment explanation
Indices: 3737244--3737293 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3737234 TAGACTAATA
3737244 ATGTGGCTTACATGCAAAAACTAGT
1 ATGTGGCTTACATGCAAAAACTAGT
3737269 ATGTGGCTTACATGCAAAAACTAGT
1 ATGTGGCTTACATGCAAAAACTAGT
3737294 CTTGGCCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (25 bp):
ATGTGGCTTACATGCAAAAACTAGT
Found at i:3745505 original size:15 final size:15
Alignment explanation
Indices: 3745485--3745592 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
3745475 TTTATGGAAA
3745485 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
3745500 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
3745514 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
3745530 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
3745544 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
3745560 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
3745574 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
3745590 ATC
1 ATC
3745593 GAAATATTGG
Statistics
Matches: 63, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
14 10 0.16
15 43 0.68
16 10 0.16
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:3745522 original size:30 final size:30
Alignment explanation
Indices: 3745481--3745598 Score: 184
Period size: 30 Copynumber: 3.9 Consensus size: 30
3745471 CATATTTATG
*
3745481 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
3745511 GAAAGTCAAAGATATGGGTATCAAAT-ATT
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
3745540 GAAAAGTCAAAGATATGGGTATCAAATATTA
1 G-AAAGTCAAAGATATGGGTATCAAATAATA
3745571 GAAAGTCAAAGATATGGGTATCGAAATA
1 GAAAGTCAAAGATATGGGTATC-AAATA
3745599 TTGGCATAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
29 3 0.04
30 71 0.88
31 7 0.09
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:3745553 original size:60 final size:60
Alignment explanation
Indices: 3745481--3745601 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
3745471 CATATTTATG
3745481 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATC-AAATATT
1 GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
*
3745540 GAAAAGTCAAAGATATGGGTATCAAATATTAGAAAGTCAAAGATATGGGTATCGAAATATT
1 GAAAA-TCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
3745601 G
1 G
3745602 GCATAAGAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 5 0.08
60 46 0.78
61 8 0.14
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.26
Consensus pattern (60 bp):
GAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATT
Found at i:3751821 original size:26 final size:26
Alignment explanation
Indices: 3751792--3751865 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
3751782 TTTAAAATAA
*
3751792 TAATACATG-ATTAAAAATATTAATGT
1 TAAT-CATGAATTAAAAATAATAATGT
* *
3751818 TAATGATGAATTTAAAATAATAATGT
1 TAATCATGAATTAAAAATAATAATGT
* *
3751844 TGAT-A--AATTATAAATAATAATG
1 TAATCATGAATTAAAAATAATAATG
3751866 CATAATAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
23 15 0.37
25 4 0.10
26 22 0.54
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (26 bp):
TAATCATGAATTAAAAATAATAATGT
Found at i:3751873 original size:24 final size:22
Alignment explanation
Indices: 3751829--3751903 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 22
3751819 AATGATGAAT
* *
3751829 TTAAAATAATAATGTTGATAAA
1 TTAAAATAATAATGATAATAAA
3751851 TTATAAATAATAATGCATAATAAA
1 TTA-AAATAATAATG-ATAATAAA
* *
3751875 TCTAAGATAATAATATATAATAAA
1 T-TAAAATAATAAT-GATAATAAA
3751899 TTAAA
1 TTAAA
3751904 CGATTTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.07
23 14 0.32
24 25 0.57
25 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAAAATAATAATGATAATAAA
Found at i:3755181 original size:19 final size:19
Alignment explanation
Indices: 3755159--3755200 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3755149 AATATTTTTT
3755159 AAAATA-ATAATTATTGATA
1 AAAATATAT-ATTATTGATA
*
3755178 AAAATATATATTATTTATA
1 AAAATATATATTATTGATA
3755197 AAAA
1 AAAA
3755201 AAGGGGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATATATATTATTGATA
Found at i:3756163 original size:21 final size:21
Alignment explanation
Indices: 3756124--3756163 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3756114 CATATTTAAG
3756124 AATTAAAAAGTTTTAAAATTT
1 AATTAAAAAGTTTTAAAATTT
*
3756145 AATTATAAA-TTTTATAAAT
1 AATTAAAAAGTTTTA-AAAT
3756164 GTTAGAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
AATTAAAAAGTTTTAAAATTT
Found at i:3768911 original size:20 final size:20
Alignment explanation
Indices: 3768888--3768952 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
3768878 AATTAAAACA
3768888 AAAATTAAAAAAAGTATTTT
1 AAAATTAAAAAAAGTATTTT
**
3768908 AAAATATTTTAAAAA-TATTTT
1 -AAA-ATTAAAAAAAGTATTTT
3768929 AAAATTAAAAAAAGTATTTT
1 AAAATTAAAAAAAGTATTTT
3768949 AAAA
1 AAAA
3768953 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 8 0.21
20 13 0.34
21 9 0.24
22 8 0.21
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATTAAAAAAAGTATTTT
Found at i:3768911 original size:21 final size:21
Alignment explanation
Indices: 3768887--3768954 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
3768877 AAATTAAAAC
3768887 AAAAATTAAAAAAAGTATTTT
1 AAAAATTAAAAAAAGTATTTT
**
3768908 AAAATATTTTAAAAA-TATTTT
1 AAAA-ATTAAAAAAAGTATTTT
3768929 -AAAATTAAAAAAAGTATTTT
1 AAAAATTAAAAAAAGTATTTT
3768949 AAAAAT
1 AAAAAT
3768955 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 8 0.20
20 9 0.22
21 15 0.38
22 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (21 bp):
AAAAATTAAAAAAAGTATTTT
Found at i:3768922 original size:11 final size:11
Alignment explanation
Indices: 3768896--3768963 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
3768886 CAAAAATTAA
3768896 AAAAAGTATTTT
1 AAAAA-TATTTT
3768908 -AAAATATTTT
1 AAAAATATTTT
3768918 AAAAATATTTT
1 AAAAATATTTT
**
3768929 --AAA-ATTAA
1 AAAAATATTTT
3768937 AAAAAGTATTTT
1 AAAAA-TATTTT
3768949 AAAAATATTTT
1 AAAAATATTTT
3768960 AAAA
1 AAAA
3768964 TTTAAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 9 0.19
11 24 0.51
12 8 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:3768947 original size:31 final size:30
Alignment explanation
Indices: 3768908--3768974 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 30
3768898 AAAGTATTTT
3768908 AAAATATTTTAAAAATATTTTAAAATTAAA
1 AAAATATTTTAAAAATATTTTAAAATTAAA
*
3768938 AAAAGTATTTTAAAAATATTTTAAAATTTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTAAA
3768969 AAAATA
1 AAAATA
3768975 AATATTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAATATTTTAAAAATATTTTAAAATTAAA
Found at i:3772259 original size:21 final size:22
Alignment explanation
Indices: 3772219--3772274 Score: 87
Period size: 21 Copynumber: 2.5 Consensus size: 22
3772209 CCAGCCCATT
*
3772219 TTTTAATAAATATTAAAAAAGTA
1 TTTTAA-AAATATAAAAAAAGTA
3772242 TTTTAAAAAT-TAAAAAAAGTA
1 TTTTAAAAATATAAAAAAAGTA
3772263 TTTTAAAAATAT
1 TTTTAAAAATAT
3772275 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 20 0.65
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTTAAAAATATAAAAAAAGTA
Found at i:3772303 original size:40 final size:40
Alignment explanation
Indices: 3772246--3772374 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
3772236 AAAGTATTTT
3772246 AAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
3772285 AAAAATTTAAAAAAAGTATTTT--AAA-A-TTT---A--A
1 AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
3772316 AAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATT-TAAAAAAAGTATTTTAAAAATATTTTAAAATTA
3772357 AAAAATTTAAAAAAAGTA
1 AAAAATTTAAAAAAAGTA
3772375 AAATAGTGAG
Statistics
Matches: 77, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
31 8 0.10
32 14 0.18
33 1 0.01
34 3 0.04
35 1 0.01
36 6 0.08
37 1 0.01
38 3 0.04
39 6 0.08
40 26 0.34
41 8 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:3772307 original size:61 final size:65
Alignment explanation
Indices: 3772233--3772374 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 65
3772223 AATAAATATT
3772233 AAAAAAGTA-T-TTT-AAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTA
1 AAAAAAGTATTATTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTA
3772294 AAAAAAGTATTTTAAAATTTAAAAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAAAGTA--TT---ATTT-AAAAAATT-AAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
3772359 AAATTTA
59 AAATTTA
3772366 AAAAAAGTA
1 AAAAAAGTA
3772375 AAATAGTGAG
Statistics
Matches: 70, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
61 9 0.13
64 1 0.01
68 3 0.04
70 7 0.10
72 50 0.71
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.34
Consensus pattern (65 bp):
AAAAAAGTATTATTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTA
Found at i:3772312 original size:21 final size:21
Alignment explanation
Indices: 3772233--3772320 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
3772223 AATAAATATT
*
3772233 AAAAAAGTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAATTTA
3772254 AAAAAAGTATTTTAAAAATATT-
1 AAAAAAGTATTTT-AAAAT-TTA
** **
3772276 -TTAAA--ATTAAAAAATTTAA
1 AAAAAAGTATTTTAAAATTT-A
3772295 AAA-AAGTATTTTAAAATTTA
1 AAAAAAGTATTTTAAAATTTA
3772315 AAAAAA
1 AAAAAA
3772321 TTAAAAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
17 2 0.04
18 5 0.10
19 5 0.10
20 4 0.08
21 28 0.56
22 4 0.08
23 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAATTTA
Found at i:3772331 original size:21 final size:21
Alignment explanation
Indices: 3772284--3772331 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
3772274 TTTTAAAATT
**
3772284 AAAAAATTTAAAAAAAGTATT
1 AAAAAATTTAAAAAAAGTAAA
** *
3772305 TTAAAATTTAAAAAAATTAAA
1 AAAAAATTTAAAAAAAGTAAA
3772326 AAAAAA
1 AAAAAA
3772332 GTATTTTAAA
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATTTAAAAAAAGTAAA
Found at i:3772370 original size:17 final size:17
Alignment explanation
Indices: 3772337--3772369 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3772327 AAAAAGTATT
*
3772337 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
3772354 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
3772370 AAGTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:3773827 original size:31 final size:29
Alignment explanation
Indices: 3773789--3773868 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
3773779 ATACCAAAAC
3773789 TATACATGAACTATTG-TTTAATGTGCAATTG
1 TATACATGAA-TATTGATTT--TGTGCAATTG
* *
3773820 TATACATGAATTTTGATTTTGTGCAATTT
1 TATACATGAATATTGATTTTGTGCAATTG
* *
3773849 TATACAAGAAATTTTGATTT
1 TATACATG-AATATTGATTT
3773869 GATCCAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 16 0.36
30 15 0.34
31 13 0.30
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (29 bp):
TATACATGAATATTGATTTTGTGCAATTG
Found at i:3773852 original size:29 final size:30
Alignment explanation
Indices: 3773810--3773868 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
3773800 TATTGTTTAA
*
3773810 TGTGCAATTGTATACATG-AATTTTGATTT
1 TGTGCAATTGTATACAAGAAATTTTGATTT
*
3773839 TGTGCAATTTTATACAAGAAATTTTGATTT
1 TGTGCAATTGTATACAAGAAATTTTGATTT
3773869 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (30 bp):
TGTGCAATTGTATACAAGAAATTTTGATTT
Found at i:3773877 original size:30 final size:29
Alignment explanation
Indices: 3773814--3773877 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
3773804 GTTTAATGTG
* *
3773814 CAATTGTATACATGAATTTTGATTTTGTG
1 CAATTGTATACAAGAATTTTGATTTTGTC
*
3773843 CAATTTTATACAAGAAATTTTGA-TTTGATC
1 CAATTGTATACAAG-AATTTTGATTTTG-TC
3773873 CAATT
1 CAATT
3773878 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTGTATACAAGAATTTTGATTTTGTC
Found at i:3774749 original size:20 final size:20
Alignment explanation
Indices: 3774712--3774750 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3774702 AATTACAAAA
* *
3774712 AAAAAATCAAATTGATTTTC
1 AAAAAATCAAAATAATTTTC
*
3774732 AAAAATTCAAAATAATTTT
1 AAAAAATCAAAATAATTTT
3774751 TACAATTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTC
Found at i:3774811 original size:12 final size:12
Alignment explanation
Indices: 3774794--3774853 Score: 70
Period size: 12 Copynumber: 5.2 Consensus size: 12
3774784 TTATATTTTT
3774794 AAAAAATTCTAA
1 AAAAAATTCTAA
3774806 AAAAAATTCTAA
1 AAAAAATTCTAA
* * *
3774818 AGAATA-TATAA
1 AAAAAATTCTAA
*
3774829 AGAAAATT-TAA
1 AAAAAATTCTAA
3774840 AAAAAATTCTAA
1 AAAAAATTCTAA
3774852 AA
1 AA
3774854 TAATAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
11 19 0.46
12 22 0.54
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAAAATTCTAA
Found at i:3777977 original size:20 final size:21
Alignment explanation
Indices: 3777943--3777981 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3777933 TACAAAACTT
3777943 CTCAATTTCAGTTCTAAATAA
1 CTCAATTTCAGTTCTAAATAA
*
3777964 CTCATTTTCA-TTCTAAAT
1 CTCAATTTCAGTTCTAAAT
3777982 GTTTGCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (21 bp):
CTCAATTTCAGTTCTAAATAA
Found at i:3786698 original size:19 final size:18
Alignment explanation
Indices: 3786629--3786699 Score: 51
Period size: 18 Copynumber: 3.9 Consensus size: 18
3786619 TAGATTATAT
*
3786629 ATATTAA-ATTTTGAATA
1 ATATTAATATTTTAAATA
*
3786646 A-ATTAAATATTTTCACAAGA
1 ATATT-AATATTTT-A-AATA
*
3786666 AT-TTAAT-CTTTAAATA
1 ATATTAATATTTTAAATA
3786682 TATATTAATATTTTAAAT
1 -ATATTAATATTTTAAAT
3786700 TGATATGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
16 6 0.15
17 6 0.15
18 13 0.32
19 10 0.24
20 6 0.15
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (18 bp):
ATATTAATATTTTAAATA
Found at i:3788523 original size:138 final size:139
Alignment explanation
Indices: 3788262--3788538 Score: 520
Period size: 138 Copynumber: 2.0 Consensus size: 139
3788252 AAGGTGAAGG
3788262 CTATTATTGATCCCAAAGGCATCTATCCTTTCTCTCAAACACTTGAAGGACTTGCATATGTTGAC
1 CTATTATTGAT-CCAAAGGCATCTATCCTTTCTCTCAAACACTTGAAGGACTTGCATATGTTGAC
*
3788327 ACTGGCAGAGTTGCTGGAAAAGTTGTCATACATCCAATCCAACAAGATAATTAATTTAAATGCAA
65 ACTGGCAGAGTTGCTGGAAAAGTTGTCACACATCCAATCCAACAAGATAATTAATTTAAATGCAA
3788392 GTTCTATATT
130 GTTCTATATT
3788402 CTATTATTGAT-CAAAGGCATCTATCCTTTCTCTCAAACACTTGAAGGACTTGCATATGTTGACA
1 CTATTATTGATCCAAAGGCATCTATCCTTTCTCTCAAACACTTGAAGGACTTGCATATGTTGACA
*
3788466 CTGGCAGAGTTGCTGGAAAAGTTGTCACATATCCAATCCAACAAGATAATTAATTTAAATGCAAG
66 CTGGCAGAGTTGCTGGAAAAGTTGTCACACATCCAATCCAACAAGATAATTAATTTAAATGCAAG
3788531 TTCTATAT
131 TTCTATAT
3788539 ATATATATAN
Statistics
Matches: 135, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
138 124 0.92
140 11 0.08
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (139 bp):
CTATTATTGATCCAAAGGCATCTATCCTTTCTCTCAAACACTTGAAGGACTTGCATATGTTGACA
CTGGCAGAGTTGCTGGAAAAGTTGTCACACATCCAATCCAACAAGATAATTAATTTAAATGCAAG
TTCTATATT
Found at i:3790778 original size:19 final size:17
Alignment explanation
Indices: 3790756--3790799 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
3790746 TTATTATTAA
*
3790756 TATTTTATTAAATTACACT
1 TATTTT-TTAAATTA-ACG
3790775 TATTATTTTAAATTAACG
1 TATT-TTTTAAATTAACG
3790793 TATTTTT
1 TATTTTT
3790800 AATCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 6 0.26
19 12 0.52
20 2 0.09
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTTTTTAAATTAACG
Found at i:3793008 original size:7 final size:8
Alignment explanation
Indices: 3792986--3793020 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
3792976 AATTAGTCCG
3792986 ATTAAAAA
1 ATTAAAAA
3792994 ATTAAAAA
1 ATTAAAAA
3793002 ATTAAAAA
1 ATTAAAAA
3793010 AGTTTAAAAA
1 A--TTAAAAA
3793020 A
1 A
3793021 CCCAGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
ATTAAAAA
Found at i:3798447 original size:35 final size:33
Alignment explanation
Indices: 3798388--3798499 Score: 84
Period size: 33 Copynumber: 3.3 Consensus size: 33
3798378 TGAATTGACG
* * * *
3798388 GATAAGACCATGGTTGGACTATGGCAATGTTTAAAT
1 GATAAGACCATAGCTGGGCCATGGC-AT-TTT-AAT
3798424 G-TAAGACCATAGCTGGGCCATGGCATTTTAAT
1 GATAAGACCATAGCTGGGCCATGGCATTTTAAT
* * ** **
3798456 GAAAAGACCATAACTGGGTTATGGCACCTTAAT
1 GATAAGACCATAGCTGGGCCATGGCATTTTAAT
3798489 CG-TAAGACCAT
1 -GATAAGACCAT
3798500 GGTTGGACCA
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
32 4 0.06
33 36 0.57
34 3 0.05
35 19 0.30
36 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
GATAAGACCATAGCTGGGCCATGGCATTTTAAT
Found at i:3798496 original size:33 final size:32
Alignment explanation
Indices: 3798421--3798499 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
3798411 GCAATGTTTA
* **
3798421 AATGTAAGACCATAGCTGGGCCATGGCATTTT
1 AATGTAAGACCATAACTGGGCCATGGCACCTT
* **
3798453 AATGAAAAGACCATAACTGGGTTATGGCACCTT
1 AATG-TAAGACCATAACTGGGCCATGGCACCTT
3798486 AATCGTAAGACCAT
1 AAT-GTAAGACCAT
3798500 GGTTGGACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 4 0.11
33 33 0.87
34 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (32 bp):
AATGTAAGACCATAACTGGGCCATGGCACCTT
Found at i:3807463 original size:24 final size:24
Alignment explanation
Indices: 3807435--3807483 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
3807425 TTCAGATATG
* *
3807435 GCTATGAAA-CAAGTTGCTAATTCT
1 GCTATCAAAGCAA-TTGCCAATTCT
3807459 GCTATCAAAGCAATTGCCAATTCT
1 GCTATCAAAGCAATTGCCAATTCT
3807483 G
1 G
3807484 GGTCATCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (24 bp):
GCTATCAAAGCAATTGCCAATTCT
Found at i:3810558 original size:31 final size:30
Alignment explanation
Indices: 3810484--3810558 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
3810474 TTAATCCTTG
* * * * *
3810484 AAAACTATCAAATTCAAGTTTTAATATGAA
1 AAAATTATCAAGTTTAAGTCTTAATACGAA
3810514 AAAATTATCAAGTTTAAGTCTTAATACGAA
1 AAAATTATCAAGTTTAAGTCTTAATACGAA
*
3810544 AATAATTATGAAGTT
1 AA-AATTATCAAGTT
3810559 GAGGCCCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 27 0.71
31 11 0.29
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (30 bp):
AAAATTATCAAGTTTAAGTCTTAATACGAA
Found at i:3814627 original size:5 final size:6
Alignment explanation
Indices: 3814597--3814626 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3814587 TTGAGTTTTC
3814597 AATTTA AATTTA AATTTA AATTT- AATTTA A
1 AATTTA AATTTA AATTTA AATTTA AATTTA A
3814627 TCTTAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:3816288 original size:5 final size:5
Alignment explanation
Indices: 3816278--3816302 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3816268 ATATAGGTTT
3816278 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
3816303 TGTTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:3816766 original size:20 final size:19
Alignment explanation
Indices: 3816698--3816824 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 19
3816688 TATTAAAATT
*
3816698 TTTATAAG-CTTTATAATTA
1 TTTATAAGTTTTTATAA-TA
* *
3816717 TTCATAAG-CTTTATAATA
1 TTTATAAGTTTTTATAATA
3816735 TTTATAAGTTTTTATGAATA
1 TTTATAAGTTTTTAT-AATA
**
3816755 TTTTTATATTTTTTTATAA-A
1 --TTTATAAGTTTTTATAATA
*
3816775 TTTATTGAAAGTTTTAAT-AT-
1 TTTA-T--AAGTTTTTATAATA
* *
3816795 TTTATTAA-ATTTTATAATT
1 TTTA-TAAGTTTTTATAATA
3816814 TTTATAAGTTT
1 TTTATAAGTTT
3816825 ATACAAATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
17 5 0.06
18 20 0.23
19 27 0.31
20 12 0.14
21 9 0.10
22 13 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATA
Found at i:3816814 original size:18 final size:20
Alignment explanation
Indices: 3816766--3816815 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3816756 TTTTATATTT
*
3816766 TTTTATAAATTTATTGAAAG
1 TTTTATAATTTTATTGAAAG
3816786 TTTTA-ATATTTTATT-AAA-
1 TTTTATA-ATTTTATTGAAAG
3816804 TTTTATAATTTT
1 TTTTATAATTTT
3816816 TATAAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 12 0.44
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATAATTTTATTGAAAG
Found at i:3816818 original size:9 final size:9
Alignment explanation
Indices: 3816694--3816851 Score: 54
Period size: 9 Copynumber: 16.7 Consensus size: 9
3816684 CTCTTATTAA
3816694 AATTTTTAT
1 AATTTTTAT
**
3816703 AAGCTTTAT
1 AATTTTTAT
*
3816712 AATTATTCAT
1 AATT-TTTAT
**
3816722 AAGCTTTAT
1 AATTTTTAT
*
3816731 AATATTTAT
1 AATTTTTAT
3816740 AAGTTTTTAT
1 AA-TTTTTAT
3816750 GAATATTTTTAT
1 --A-ATTTTTAT
*
3816762 ATTTTTTTAT
1 A-ATTTTTAT
3816772 AAATTTATTGA-
1 -AATTT-TT-AT
*
3816783 AA-GTTT-T
1 AATTTTTAT
3816790 AATATTTTATT
1 AAT-TTTTA-T
*
3816801 AAATTTTAT
1 AATTTTTAT
3816810 AATTTTTAT
1 AATTTTTAT
* *
3816819 AAGTTTATAC
1 AA-TTTTTAT
*
3816829 AAATTTT-T
1 AATTTTTAT
*
3816837 ACTTTTTAT
1 AATTTTTAT
*
3816846 AGTTTT
1 AATTTT
3816852 AATATGTAAT
Statistics
Matches: 109, Mismatches: 25, Indels: 30
0.66 0.15 0.18
Matches are distributed among these distances:
7 2 0.02
8 7 0.06
9 46 0.42
10 38 0.35
11 6 0.06
12 9 0.08
13 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (9 bp):
AATTTTTAT
Found at i:3828659 original size:21 final size:21
Alignment explanation
Indices: 3828633--3828680 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
3828623 CATAGCAAAG
3828633 TTGTTTGACAAGAATTTCTTT
1 TTGTTTGACAAGAATTTCTTT
3828654 TTGTTTGACAAGAATTTCTTT
1 TTGTTTGACAAGAATTTCTTT
*
3828675 GTGTTT
1 TTGTTT
3828681 TCTATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.08, G:0.17, T:0.54
Consensus pattern (21 bp):
TTGTTTGACAAGAATTTCTTT
Found at i:3831576 original size:41 final size:41
Alignment explanation
Indices: 3831519--3831704 Score: 291
Period size: 41 Copynumber: 4.5 Consensus size: 41
3831509 TTTAACATAT
* * *
3831519 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
3831560 TCACCGGCACTTAGCCTGATAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
3831601 TCATCGGTACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
3831642 TCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
3831683 TCACTGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
3831705 ACTTAAAGTC
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 133 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:3831740 original size:82 final size:82
Alignment explanation
Indices: 3831519--3831758 Score: 283
Period size: 82 Copynumber: 2.9 Consensus size: 82
3831509 TTTAACATAT
* * * *
3831519 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGATAGGT
1 TCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
3831584 TTATAACCTGATTCAGA
66 TTATAACCTGATTCAGA
* * * *
3831601 TCA-TCGGTACTTAGCCTGCTAGGTTTATAA-CCTGATTCAGATCATCGACACTTAGCCTGCTAG
1 TCACT-GGCACTTAGCCTGCTAGGCTTA-AAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
3831664 GTTTATAACCTGATTCAGA
64 GTTTATAACCTGATTCAGA
* * ** *
3831683 TCACTGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-ATTTCACCGGC-CTTAAGCCTGCTAA
1 TCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTCAGATCACCGGCACTT-AGCCTGCTAG
3831746 GTTT-TAAACCTGA
64 GTTTAT-AACCTGA
3831759 ACATTTCAAT
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
81 6 0.04
82 123 0.92
83 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (82 bp):
TCACTGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
TTATAACCTGATTCAGA
Found at i:3837961 original size:5 final size:5
Alignment explanation
Indices: 3837951--3837975 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3837941 ACAAACTATA
3837951 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
3837976 TTATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:3837981 original size:17 final size:16
Alignment explanation
Indices: 3837947--3837995 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
3837937 AAAAACAAAC
*
3837947 TATA-ATATTATATTA
1 TATATATATTATATTT
3837962 TAT-TATATTATATTT
1 TATATATATTATATTT
*
3837977 TATATATACTTGTATTT
1 TATATATA-TTATATTT
3837994 TA
1 TA
3837996 GATCAGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 16 0.55
16 4 0.14
17 9 0.31
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TATATATATTATATTT
Found at i:3858024 original size:27 final size:27
Alignment explanation
Indices: 3857994--3858065 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
3857984 AGCCCCGTGA
* *
3857994 CAAGTGGTATCCGAGCT-AGATTTGAAC
1 CAAGTGGTATCCGAGCTAAG-GTCGAAC
* *
3858021 CAAGTAAGTATCCAAGCTAAGGTCGAAC
1 CAAGT-GGTATCCGAGCTAAGGTCGAAC
3858049 CAAGTGGTATCCGAGCT
1 CAAGTGGTATCCGAGCT
3858066 GTTGGTTCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 15 0.41
28 20 0.54
29 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (27 bp):
CAAGTGGTATCCGAGCTAAGGTCGAAC
Found at i:3858088 original size:29 final size:29
Alignment explanation
Indices: 3857994--3858105 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 29
3857984 AGCCCCGTGA
* * *
3857994 CAAGTGGTATCCGAGCTA--GATTTGAAC
1 CAAGTGATATCCGAGCTATTGGTTCGAAC
* * *
3858021 CAAGTAAGTATCCAAGCTA-AGG-TCGAAC
1 CAAGTGA-TATCCGAGCTATTGGTTCGAAC
* *
3858049 CAAGTGGTATCCGAGCTGTTGGTTCGAAC
1 CAAGTGATATCCGAGCTATTGGTTCGAAC
* * *
3858078 TAAGTGATATCTGAGTTATTGGTTCGAA
1 CAAGTGATATCCGAGCTATTGGTTCGAA
3858106 GGCACCGTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
27 14 0.21
28 22 0.33
29 30 0.45
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (29 bp):
CAAGTGATATCCGAGCTATTGGTTCGAAC
Found at i:3869333 original size:33 final size:35
Alignment explanation
Indices: 3869291--3869359 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
3869281 ACAATTTTTT
* *
3869291 TAAATTAA-TTTTAAAAAAGTTAAAA-TTAAAAAA
1 TAAAATAATTTTTAAAAAACTTAAAATTTAAAAAA
3869324 TAAAATAATTTTTTAAAAAACTTAAAATTTAAAAAA
1 TAAAATAA-TTTTTAAAAAACTTAAAATTTAAAAAA
3869360 ATACTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 7 0.23
35 16 0.52
36 8 0.26
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (35 bp):
TAAAATAATTTTTAAAAAACTTAAAATTTAAAAAA
Found at i:3875784 original size:19 final size:19
Alignment explanation
Indices: 3875741--3875785 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
3875731 TCATGTCAAC
3875741 AAATAAT-TTTAAAAATAT
1 AAATAATATTTAAAAATAT
*
3875759 AAA-AATATTTAAAATTCA-
1 AAATAATATTTAAAAAT-AT
3875777 AAATAATAT
1 AAATAATAT
3875786 AAAAAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 3 0.13
18 14 0.61
19 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAATATTTAAAAATAT
Found at i:3878286 original size:18 final size:17
Alignment explanation
Indices: 3878263--3878302 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
3878253 TTGATAAACT
*
3878263 AAAAAAATTAAGTGCTG
1 AAAAAAAATAAGTGCTG
*
3878280 AAAAAAAATAAGTGTTG
1 AAAAAAAATAAGTGCTG
3878297 AAAAAA
1 AAAAAA
3878303 TAAGTACTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.20
Consensus pattern (17 bp):
AAAAAAAATAAGTGCTG
Found at i:3880650 original size:2 final size:2
Alignment explanation
Indices: 3880643--3880672 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3880633 TGTGAAATGG
3880643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3880673 TACTTAGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3888569 original size:12 final size:12
Alignment explanation
Indices: 3888552--3888577 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3888542 GTGAAGGGCT
3888552 TGAAGATGATGA
1 TGAAGATGATGA
3888564 TGAAGATGATGA
1 TGAAGATGATGA
3888576 TG
1 TG
3888578 GAGGAAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (12 bp):
TGAAGATGATGA
Found at i:3891149 original size:24 final size:25
Alignment explanation
Indices: 3891122--3891168 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3891112 AAATAAAAAA
3891122 TTCT-AAAAACATT-AAAATAAATGT
1 TTCTCAAAAA-ATTGAAAATAAATGT
*
3891146 TTCTCAACAAATTGAAAATAAAT
1 TTCTCAAAAAATTGAAAATAAAT
3891169 TTAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (25 bp):
TTCTCAAAAAATTGAAAATAAATGT
Found at i:3891206 original size:11 final size:11
Alignment explanation
Indices: 3891190--3891216 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3891180 ATGTATACTT
3891190 AAATAACTCTA
1 AAATAACTCTA
3891201 AAATAACTCTA
1 AAATAACTCTA
3891212 AAATA
1 AAATA
3891217 GTAACAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATAACTCTA
Found at i:3904506 original size:19 final size:19
Alignment explanation
Indices: 3904478--3904525 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
3904468 TTATATTTAA
*
3904478 TATTTATTTAA-ATTAAGAT
1 TATTTGTTTAATATT-AGAT
*
3904497 TATTTGTTTAATATTAGTT
1 TATTTGTTTAATATTAGAT
*
3904516 TTTTTGTTTA
1 TATTTGTTTA
3904526 CTAAACTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TATTTGTTTAATATTAGAT
Found at i:3908529 original size:2 final size:2
Alignment explanation
Indices: 3908522--3908551 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3908512 ACGTGAACTA
*
3908522 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3908552 CAAAGTGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3913132 original size:6 final size:6
Alignment explanation
Indices: 3913121--3913148 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3913111 GGGTCACAAC
3913121 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
3913149 TGATAATACT
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:0.00, G:0.36, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:3920449 original size:96 final size:99
Alignment explanation
Indices: 3920331--3920521 Score: 219
Period size: 102 Copynumber: 1.9 Consensus size: 99
3920321 AGAGAGGAAC
* * ** * *
3920331 TGATCTACCTGATGCTAACCAAGACGTTGAT-C-T-TGAAACTGAACCAACTAATGATTACCTGA
1 TGATCAACCTGATACTAACCAAGACGTCAATCCTTCTGAAACCGAACCAACCAATGATTACCTGA
3920393 AAATGGGAGGTGGATTTTACATGGAAGGAGACAT
66 AAATGGGAGGTGGATTTTACATGGAAGGAGACAT
* * * *
3920427 TGATCAACCTGATAC-AAGCCAAGATGTCAATCCCTTTTCTGAAACCGGATCAGCCAATGATTAC
1 TGATCAACCTGATACTAA-CCAAGACGTCAAT-CC--TTCTGAAACCGAACCAACCAATGATTAC
*
3920491 CTGAAAATGGGAGGTGGATTTTGCATGGAAG
62 CTGAAAATGGGAGGTGGATTTTACATGGAAG
3920522 AAAGTGAGAC
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
95 2 0.03
96 23 0.30
98 1 0.01
101 1 0.01
102 50 0.65
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (99 bp):
TGATCAACCTGATACTAACCAAGACGTCAATCCTTCTGAAACCGAACCAACCAATGATTACCTGA
AAATGGGAGGTGGATTTTACATGGAAGGAGACAT
Found at i:3933090 original size:33 final size:32
Alignment explanation
Indices: 3933041--3933108 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
3933031 ACCCTTTTGA
*
3933041 TTCAAAGCAATTTAAGTGGATTATTGGAGGCCT
1 TTCAAAGCAATCTAAGTGGATTATTGGAGG-CT
*
3933074 TTCAGAGCAATCTAAGTGGATTATTGGAGGCT
1 TTCAAAGCAATCTAAGTGGATTATTGGAGGCT
3933106 TTC
1 TTC
3933109 TTCTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (32 bp):
TTCAAAGCAATCTAAGTGGATTATTGGAGGCT
Found at i:3934749 original size:6 final size:6
Alignment explanation
Indices: 3934738--3934766 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3934728 TAGTTTCCAA
3934738 GTCGGG GTCGGG GTCGGG GTCGGG GTCGG
1 GTCGGG GTCGGG GTCGGG GTCGGG GTCGG
3934767 TGTTGGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.66, T:0.17
Consensus pattern (6 bp):
GTCGGG
Found at i:3936460 original size:25 final size:25
Alignment explanation
Indices: 3936432--3936481 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3936422 CAGGTAAGGC
*
3936432 TCCTTCTCCTTCTTTCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
3936457 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
3936482 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.34, G:0.04, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:3940165 original size:21 final size:21
Alignment explanation
Indices: 3940141--3940190 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
3940131 CGCTGTTTCT
*
3940141 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
*
3940162 AATCTCACTGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
3940183 AATCTCAC
1 AATCTCAC
3940191 CGCCACCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:3940517 original size:30 final size:30
Alignment explanation
Indices: 3940483--3940547 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
3940473 TTAGTTAAAC
*
3940483 ATTTTCTAGTAATTGTTTATTTTGGTATGG
1 ATTTTCTAGTAATTGTTTATTATGGTATGG
*
3940513 ATTTTTTAGTAATTGTTTATTATGGTATGG
1 ATTTTCTAGTAATTGTTTATTATGGTATGG
3940543 ATTTT
1 ATTTT
3940548 AGTTTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.02, G:0.18, T:0.58
Consensus pattern (30 bp):
ATTTTCTAGTAATTGTTTATTATGGTATGG
Found at i:3940603 original size:115 final size:115
Alignment explanation
Indices: 3940401--3940661 Score: 504
Period size: 115 Copynumber: 2.3 Consensus size: 115
3940391 TTTTGGACTC
3940401 TTTTAGTAATTGTTTATTATGGTATGGATTTTAGTTTTAGTTTTTCATTTTCTGAAACTTCGTAA
1 TTTTAGTAATTGTTTATTATGGTATGGATTTTAGTTTTAGTTTTTCATTTTCTGAAACTTCGTAA
3940466 GTATGTGTTAGTTAAACATTTTCTAGTAATTGTTTATTTTGGTATGGATT
66 GTATGTGTTAGTTAAACATTTTCTAGTAATTGTTTATTTTGGTATGGATT
3940516 TTTTAGTAATTGTTTATTATGGTATGGATTTTAGTTTTAGTTTTTCATTTTCTGAAACTTCGTAA
1 TTTTAGTAATTGTTTATTATGGTATGGATTTTAGTTTTAGTTTTTCATTTTCTGAAACTTCGTAA
3940581 GTATGTGTTAGTTAAACATTTTCTAGTAATTGTTTATTTTGGTATGGATT
66 GTATGTGTTAGTTAAACATTTTCTAGTAATTGTTTATTTTGGTATGGATT
* *
3940631 TTTTAGTAATTGTTTATTATGATATGTATTT
1 TTTTAGTAATTGTTTATTATGGTATGGATTT
3940662 ATAAGGTAAC
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 144 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.55
Consensus pattern (115 bp):
TTTTAGTAATTGTTTATTATGGTATGGATTTTAGTTTTAGTTTTTCATTTTCTGAAACTTCGTAA
GTATGTGTTAGTTAAACATTTTCTAGTAATTGTTTATTTTGGTATGGATT
Found at i:3951270 original size:41 final size:41
Alignment explanation
Indices: 3951217--3951302 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
3951207 AAAAAATATA
3951217 ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
1 ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
* *
3951258 ATAATGAGCAAAACAAGAAGATTATTATATTTGTGTAAAAT
1 ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
3951299 ATAA
1 ATAA
3951303 CCCCATGTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (41 bp):
ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
Found at i:3955939 original size:13 final size:13
Alignment explanation
Indices: 3955921--3955951 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3955911 GTGGCCCACG
3955921 ATAAAAAATAAAA
1 ATAAAAAATAAAA
3955934 ATAAAAAATAAAA
1 ATAAAAAATAAAA
*
3955947 GTAAA
1 ATAAA
3955952 TTTCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:3957430 original size:103 final size:102
Alignment explanation
Indices: 3957251--3957570 Score: 433
Period size: 103 Copynumber: 3.1 Consensus size: 102
3957241 NNNNNNNNNN
*
3957251 ATTGGTGGTTGTTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGA
1 ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT-AAAGGGGGTTGCTAAGTGCTGA
* * * *
3957316 TTCCCCCGAGGGGTTGCTAAGTGTTGATTCCCCTACCT
65 TTCCCCCGAGGGGTTGCTAAGTGCTAATTCCCCGACCC
*
3957354 ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTAAAAGGGGGTTGCTAAGTGATGA
1 ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGT-AAAGGGGGTTGCTAAGTGCTGA
*
3957419 TTCCCCCGAGGGGTTGCTAAGTGCTAATTCTCCGACCC
65 TTCCCCCGAGGGGTTGCTAAGTGCTAATTCCCCGACCC
* * * *
3957457 ATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGGTTGCTAAGTGCTGA
1 A-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTAAAGGGGGTTGCTAAGTGCTGA
* * * ** * **
3957522 TTCCCCCAATGGGTTGTTGTGTGCTGATTCCCCGATTC
65 TTCCCCCGAGGGGTTGCTAAGTGCTAATTCCCCGACCC
*
3957560 ATTAGTGGTTG
1 ATTGGTGGTTG
3957571 TTAACTGCGG
Statistics
Matches: 193, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
102 9 0.05
103 146 0.76
104 38 0.20
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTAAAGGGGGTTGCTAAGTGCTGAT
TCCCCCGAGGGGTTGCTAAGTGCTAATTCCCCGACCC
Found at i:3961365 original size:103 final size:103
Alignment explanation
Indices: 3961186--3961447 Score: 418
Period size: 103 Copynumber: 2.5 Consensus size: 103
3961176 NNNNNNNNNN
* * * * * * * *
3961186 AGCAACCCCC-TTCACATTTCAGATGCGGTGAAATCAGCACTTAGCAATCACAAAATGGGTCGGG
1 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC-CAATAGGTAGGG
*
3961250 GAATCAGTACTTAGCAACCCCTCGGGGGAATCAGCACTT
65 GAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTT
*
3961289 AGCAACCCCCTTTTACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGGG
1 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGGG
3961354 AATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTT
66 AATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTT
3961392 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAAT
1 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAAT
3961448 NNNNNNNNNN
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
103 112 0.76
104 35 0.24
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (103 bp):
AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGGG
AATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTT
Found at i:3970515 original size:103 final size:103
Alignment explanation
Indices: 3970305--3970608 Score: 479
Period size: 103 Copynumber: 3.0 Consensus size: 103
3970295 CCAATGAATC
* * *
3970305 GGGGAATCAGCA-TACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCA
1 GGGGAATCAGCACT-TAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAA
* * * *
3970368 GATGA-GGTGGAATCAGCACTTAGCAACCACTAAATGGGTC
65 AAT-ACGGTGGAATCAGCACTTAGCAACCAC-CAATAGGTA
*
3970408 GGGGAATCAGCACTTAGCAACCCCTCAGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
1 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
3970473 ATACGGTGGAATCAGCACTTAGCAACCACCAATAGGTA
66 ATACGGTGGAATCAGCACTTAGCAACCACCAATAGGTA
*
3970511 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTTTCACATTTAAA
1 GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
3970576 ATACGGTGGAATCAGCACTTAGCAACCACCAAT
66 ATACGGTGGAATCAGCACTTAGCAACCACCAAT
3970609 NNNNNNNNNN
Statistics
Matches: 188, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
103 150 0.80
104 38 0.20
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAA
ATACGGTGGAATCAGCACTTAGCAACCACCAATAGGTA
Found at i:3970545 original size:27 final size:27
Alignment explanation
Indices: 3970511--3970562 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
3970501 CCAATAGGTA
3970511 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
3970538 GGGGAATCAGCACTTAGCAACCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
3970563 TTTCACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:3988843 original size:14 final size:15
Alignment explanation
Indices: 3988816--3988850 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
3988806 AATATTGTAT
3988816 AAAA-AAATTATTTA
1 AAAATAAATTATTTA
3988830 AAAATAAATT-TTTA
1 AAAATAAATTATTTA
3988844 AAAATAA
1 AAAATAA
3988851 GAGTATAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATAAATTATTTA
Found at i:3989355 original size:30 final size:30
Alignment explanation
Indices: 3989302--3989358 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
3989292 CTGCAGAAGA
* * **
3989302 AGAAGAAACAGCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
3989332 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
3989359 GTCTGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:3990701 original size:23 final size:24
Alignment explanation
Indices: 3990675--3990727 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
3990665 CTCTTCATGT
3990675 ATTCATTATGA-GA-CCCATGGTTC
1 ATTCATT-TGACGATCCCATGGTTC
*
3990698 ATTC-TTTTACGATCCCATGGTTC
1 ATTCATTTGACGATCCCATGGTTC
3990721 ATTCATT
1 ATTCATT
3990728 GAGTTTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 4 0.15
23 18 0.69
24 2 0.08
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (24 bp):
ATTCATTTGACGATCCCATGGTTC
Found at i:3996205 original size:25 final size:25
Alignment explanation
Indices: 3996157--3996205 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3996147 CATAATTGAA
* *
3996157 ATGAAATGAATTGATTTTGTATATT
1 ATGAAATGAATTGATTATGAATATT
3996182 ATGAAAT-ATATTGATTATGAATAT
1 ATGAAATGA-ATTGATTATGAATAT
3996206 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATGAATTGATTATGAATATT
Found at i:3996649 original size:43 final size:43
Alignment explanation
Indices: 3996601--3996686 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
3996591 TATGTGATTG
* *
3996601 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAAAGGAAAAGATGAGAAATGAATATGAGACGAGAAA
* * *
3996644 ATATTGAAAAGGCAAATATGAGAAATGATTATGAGACGAGAAA
1 ATATTGAAAAGGAAAAGATGAGAAATGAATATGAGACGAGAAA
3996687 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.21
Consensus pattern (43 bp):
ATATTGAAAAGGAAAAGATGAGAAATGAATATGAGACGAGAAA
Found at i:3998034 original size:49 final size:49
Alignment explanation
Indices: 3997962--3998058 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
3997952 TCAAGAAGGG
* * *
3997962 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATGT
3998011 ATAAATA-TAGATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGT-GATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATG
3998059 CATAGCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:3998425 original size:28 final size:27
Alignment explanation
Indices: 3998394--3998494 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
3998384 TCTAAACCTG
*
3998394 AAATACTAAACCTTAAACTCTAAATATA
1 AAAT-CTAAACCTTAAACCCTAAATATA
** *
3998422 AAATCTTAAAAATTAAACCCTAAATCTA
1 AAATC-TAAACCTTAAACCCTAAATATA
* *
3998450 AAATCTCAAACCTTAAACCCCAAATATT
1 AAATCT-AAACCTTAAACCCTAAATATA
* * *
3998478 AAACCCAAACCCTAAAC
1 AAATCTAAACCTTAAAC
3998495 TCGAACCCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
27 12 0.20
28 47 0.80
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (27 bp):
AAATCTAAACCTTAAACCCTAAATATA
Found at i:4003021 original size:76 final size:77
Alignment explanation
Indices: 4002816--4003039 Score: 222
Period size: 76 Copynumber: 2.9 Consensus size: 77
4002806 GTTTAGTTAT
* *
4002816 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAATTAATATTATTAATATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGT-AAAAA--AATATTATT-AT-T-GTTAGTTAT
** *
4002881 TAGGATTAGTAAAAACCG
60 TATTATTAGTAAAAACCC
* **** * *
4002899 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACAT-TATATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATAT-TATTATTGTTAGTTATTATTA
4002962 TTAGT-AAAACCC
65 TTAGTAAAAACCC
* * *
4002974 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTATTATTA-TTATTATTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTATTGTTAGTTATTATTAT
4003038 TA
66 TA
4003040 TTATTATTAT
Statistics
Matches: 116, Mismatches: 22, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
75 28 0.24
76 47 0.41
77 2 0.02
78 3 0.03
79 6 0.05
81 1 0.01
82 19 0.16
83 10 0.09
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTATTGTTAGTTATTATTAT
TAGTAAAAACCC
Found at i:4003022 original size:3 final size:3
Alignment explanation
Indices: 4003014--4003065 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
4003004 AGTAAAAAAC
4003014 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4003062 TAT T
1 TAT T
4003066 GTGTTAGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4006110 original size:40 final size:40
Alignment explanation
Indices: 4006055--4006192 Score: 267
Period size: 40 Copynumber: 3.4 Consensus size: 40
4006045 AATATAATGA
4006055 AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
1 AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
4006095 AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
1 AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
4006135 AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
1 AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
4006175 AAAAAGTATAATTCATTT
1 AAAAAGTATAATT-ATTT
4006193 GAAATAATTC
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
40 93 0.96
41 4 0.04
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (40 bp):
AAAAAGTATAATTATTTATATGGTTTCCAAATTAAGTTGT
Found at i:4008567 original size:160 final size:159
Alignment explanation
Indices: 4008298--4008719 Score: 649
Period size: 160 Copynumber: 2.7 Consensus size: 159
4008288 ACTTCAAAAC
* * * *
4008298 AAATATAGT-AAAAAACCCTTATTTTGACCCTTTGTTCGTATTTTTCATTTTTTCCCGGATTTTA
1 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTC-TTTTTTCCTGAATTTTA
* *
4008362 TTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATTATGTTT
65 TTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATCTTACTACATTATGTTT
*
4008427 GAAATTTATTAATTTAGTGTGTTTTTTATAT
130 GAAATGTATTAATTTAGTGTGTTTTTT-TAT
* *
4008458 AAATTTAGTAAAAAAAACCTTATTTTGGCCCTTTGTTCCTATTTTTCTTTTTTCCTGAATTTTAT
1 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCTGAATTTTAT
*
4008523 TACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATCTTACTACATTATGTTTG
66 TACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATCTTACTACATTATGTTTG
*
4008588 AAATGTATTAATTTAGTGTGTTTTTTTTT
131 AAATGTATTAATTTAGTGTGTTTTTTTAT
4008617 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTT--TGAATTTTA
1 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTT-TTTTCCTGAATTTTA
* **
4008680 TTTCTTTCAGTAAATATACTATTTTTGT-TTTT-TT-TTTTAT
65 TTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTAT
4008720 TTTCGTATTT
Statistics
Matches: 243, Mismatches: 17, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
155 6 0.02
156 2 0.01
157 4 0.02
158 33 0.14
159 49 0.20
160 115 0.47
161 34 0.14
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (159 bp):
AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCTGAATTTTAT
TACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATCTTACTACATTATGTTTG
AAATGTATTAATTTAGTGTGTTTTTTTAT
Found at i:4008722 original size:18 final size:20
Alignment explanation
Indices: 4008699--4008737 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
4008689 GTAAATATAC
*
4008699 TATTTTTGT-TTTT-TTTTT
1 TATTTTCGTATTTTATTTTT
4008717 TATTTTCGTATTTTATTTTT
1 TATTTTCGTATTTTATTTTT
4008737 T
1 T
4008738 CAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (20 bp):
TATTTTCGTATTTTATTTTT
Found at i:4008737 original size:15 final size:16
Alignment explanation
Indices: 4008719--4008752 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4008709 TTTTTTTTTA
4008719 TTTTC-GTATTTTATT
1 TTTTCAGTATTTTATT
4008734 TTTTCAGTATTTTATT
1 TTTTCAGTATTTTATT
4008750 TTT
1 TTT
4008753 AATGCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTCAGTATTTTATT
Found at i:4008905 original size:26 final size:27
Alignment explanation
Indices: 4008853--4008905 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4008843 AATTTTTTAC
* *
4008853 ATGCTAAATAAATTTCATAAAAAATAT
1 ATGCTAAATAAATATAATAAAAAATAT
*
4008880 ATGCTAAATAAA-ATAATAAAACATAT
1 ATGCTAAATAAATATAATAAAAAATAT
4008906 CATGTACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAAAATAT
Found at i:4009075 original size:43 final size:43
Alignment explanation
Indices: 4008979--4009075 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 43
4008969 TTACCTTCCC
* * * * *
4008979 CTTTTTTTTTTCTTTCTTTTTCTTTCCTTCCCTCCATCTTCTT
1 CTTTTTCTTCTCTTTCTCTTTCTTTCCTGCCCTCCATCTCCTT
* * **
4009022 CTTCTCCTTCTCTTTCTCTTT-TTTCCTGCGCCTCTTTCTCCTT
1 CTTTTTCTTCTCTTTCTCTTTCTTTCCTGC-CCTCCATCTCCTT
4009065 CTTTTTCTTCT
1 CTTTTTCTTCT
4009076 TCTCATTTCC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.01, C:0.34, G:0.02, T:0.63
Consensus pattern (43 bp):
CTTTTTCTTCTCTTTCTCTTTCTTTCCTGCCCTCCATCTCCTT
Found at i:4009098 original size:20 final size:20
Alignment explanation
Indices: 4009075--4009113 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4009065 CTTTTTCTTC
4009075 TTCTCATTTCCTTTCCTTTA
1 TTCTCATTTCCTTTCCTTTA
* *
4009095 TTCTCCTTTCCTTTTCTTT
1 TTCTCATTTCCTTTCCTTT
4009114 CTTTTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTCATTTCCTTTCCTTTA
Found at i:4009103 original size:15 final size:15
Alignment explanation
Indices: 4009083--4009138 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
4009073 TCTTCTCATT
4009083 TCCTTTCCTTTATTC
1 TCCTTTCCTTTATTC
*
4009098 TCCTTTCCTTT-TCTT
1 TCCTTTCCTTTAT-TC
* *
4009113 TCTTTTTCTTTATTC
1 TCCTTTCCTTTATTC
4009128 TCCTTTCCTTT
1 TCCTTTCCTTT
4009139 TCTTTCTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 1 0.03
15 31 0.94
16 1 0.03
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (15 bp):
TCCTTTCCTTTATTC
Found at i:4009113 original size:10 final size:10
Alignment explanation
Indices: 4009100--4009155 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
4009090 CTTTATTCTC
4009100 CTTTCCTTTT
1 CTTTCCTTTT
*
4009110 CTTTCTTTTT
1 CTTTCCTTTT
* *
4009120 CTTT-ATTCTC
1 CTTTCCTT-TT
4009130 CTTTCCTTTT
1 CTTTCCTTTT
*
4009140 CTTTCTTTTTT
1 CTTTC-CTTTT
4009151 CTTTC
1 CTTTC
4009156 TTCTCCTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 2 0.05
10 24 0.65
11 11 0.30
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:4009124 original size:30 final size:30
Alignment explanation
Indices: 4009081--4009163 Score: 130
Period size: 30 Copynumber: 2.7 Consensus size: 30
4009071 CTTCTTCTCA
* *
4009081 TTTCCTTTCCTTTATTCTCCTTTCCTTTTC
1 TTTCTTTTTCTTTATTCTCCTTTCCTTTTC
4009111 TTTCTTTTTCTTTATTCTCCTTTCCTTTTC
1 TTTCTTTTTCTTTATTCTCCTTTCCTTTTC
*
4009141 TTTCTTTTTTCTTTCTTCTCCTT
1 TTTC-TTTTTCTTTATTCTCCTT
4009164 CTTTCTTCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 32 0.65
31 17 0.35
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTCTTTTTCTTTATTCTCCTTTCCTTTTC
Found at i:4009134 original size:24 final size:23
Alignment explanation
Indices: 4009107--4009176 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 23
4009097 CTCCTTTCCT
*
4009107 TTTCTTTCTTTTTCTTTATTCTCC
1 TTTCTTTCTCTTTCTTT-TTCTCC
* *
4009131 TTTCCTTTTCTTTCTTTTT-T-C
1 TTTCTTTCTCTTTCTTTTTCTCC
*
4009152 TTTC-TTCTCCTTCTTTCTTCTCC
1 TTTCTTTCTCTTTCTTT-TTCTCC
4009175 TT
1 TT
4009177 CAGCCGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 10 0.26
21 7 0.18
22 2 0.05
23 5 0.13
24 14 0.37
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTCTTTCTCTTTCTTTTTCTCC
Found at i:4009167 original size:13 final size:13
Alignment explanation
Indices: 4009149--4009177 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4009139 TCTTTCTTTT
4009149 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
4009162 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
4009175 TTC
1 TTC
4009178 AGCCGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTTCTTCTCC
Found at i:4009167 original size:20 final size:20
Alignment explanation
Indices: 4009057--4009172 Score: 57
Period size: 20 Copynumber: 5.8 Consensus size: 20
4009047 CTGCGCCTCT
4009057 TTCTCCTTC-TTTTTC-TTC
1 TTCTCCTTCTTTTTTCTTTC
* * * *
4009075 TTCTCATT-TCCTTTCCTTTA
1 TTCTCCTTCT-TTTTTCTTTC
*
4009095 TTCTCCTT-TCCTTTTCTTTC
1 TTCTCCTTCT-TTTTTCTTTC
4009115 TT-T--TTCTTTATTCTCCTTTCC
1 TTCTCCTTCTTT-TT-T-CTTT-C
* *
4009136 TTTTCTTTCTTTTTTCTTTC
1 TTCTCCTTCTTTTTTCTTTC
*
4009156 TTCTCCTTCTTTCTTCT
1 TTCTCCTTCTTTTTTCT
4009173 CCTTCAGCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
17 3 0.04
18 10 0.13
19 6 0.08
20 40 0.53
21 7 0.09
22 2 0.03
23 2 0.03
24 6 0.08
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCTCCTTCTTTTTTCTTTC
Found at i:4020782 original size:34 final size:34
Alignment explanation
Indices: 4020739--4020858 Score: 204
Period size: 34 Copynumber: 3.5 Consensus size: 34
4020729 CATATAACAA
* *
4020739 ATAATCCATGTAAATCATGTATTTCATGTAGCTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
*
4020773 ATAAACCATGTAAATCATGTATTTCATATAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
*
4020807 ATAAACCATGTAAATCATGTATTTTATGTAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
4020841 ATAAACCATGTAAATCAT
1 ATAAACCATGTAAATCAT
4020859 ATAACTTTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
ATAAACCATGTAAATCATGTATTTCATGTAACTT
Done.