Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 15 of 313
Found at i:4839530 original size:26 final size:26
Alignment explanation
Indices: 4839500--4839555 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
4839490 TGAAATGCCC
4839500 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
4839526 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4839552 ATCA
1 ATCA
4839556 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4839562 original size:22 final size:23
Alignment explanation
Indices: 4839510--4839562 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
4839500 ATCATGGAAC
4839510 ATTTACCTAACCCATTATCATGGAAT
1 ATTTACCTAACCCATTATC---GAAT
4839536 ATTTACCTAACCCATTATC-AAT
1 ATTTACCTAACCCATTATCGAAT
*
4839558 TTTTA
1 ATTTA
4839563 TCAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
26 19 0.73
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTACCTAACCCATTATCGAAT
Found at i:4842350 original size:49 final size:49
Alignment explanation
Indices: 4842284--4842399 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 49
4842274 GGAATTGGGA
4842284 TTGTTTCATTCTACCATCCCAAATTACCCGACAATGA-TGACTTTTAGTAT
1 TTGTTT-ATTCTACCATCCCAAATTACCCGACAATGATTG-CTTTTAGTAT
* *** * * *
4842334 TTGTTTATTCTGCCATCCCGGGTTGCCCGGCAATGATTGTTTTTAGTAT
1 TTGTTTATTCTACCATCCCAAATTACCCGACAATGATTGCTTTTAGTAT
4842383 TTGTTTATTCTACCATC
1 TTGTTTATTCTACCATC
4842400 TTGGGTTGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 49 0.86
50 8 0.14
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (49 bp):
TTGTTTATTCTACCATCCCAAATTACCCGACAATGATTGCTTTTAGTAT
Found at i:4842427 original size:49 final size:49
Alignment explanation
Indices: 4842315--4842433 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 49
4842305 AATTACCCGA
* **
4842315 CAATGAT-GACTTTTAGTATTTGTTTATTCTGCCATCCCGGGTTGCCCGG
1 CAATGATCG-CTTTTAGTATTTGTTTATTCTACCATCCCGGGTTGCCAAG
* * **
4842364 CAATGATTGTTTTTAGTATTTGTTTATTCTACCATCTTGGGTTGCCTAAG
1 CAATGATCGCTTTTAGTATTTGTTTATTCTACCATCCCGGGTTGCC-AAG
4842414 -AATGA-CGCCTTTTAGTATTT
1 CAATGATCG-CTTTTAGTATTT
4842434 TATTATCCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.02
49 56 0.95
50 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (49 bp):
CAATGATCGCTTTTAGTATTTGTTTATTCTACCATCCCGGGTTGCCAAG
Found at i:4846883 original size:50 final size:52
Alignment explanation
Indices: 4846826--4846924 Score: 157
Period size: 50 Copynumber: 1.9 Consensus size: 52
4846816 TAAACCGCAA
* *
4846826 AATAATTAACTATTTAAATTTAAAT-ATTTAATAAT-TTTCCTTAACATCAT
1 AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTCCTTAACATCAT
*
4846876 AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTTCTTAACAT
1 AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTCCTTAACAT
4846925 TTCTAATTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 23 0.52
51 10 0.23
52 11 0.25
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (52 bp):
AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTCCTTAACATCAT
Found at i:4847059 original size:28 final size:28
Alignment explanation
Indices: 4847017--4847114 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
4847007 AGAGTTTAGA
* * ** *
4847017 AAAAAATTAAAAATTGGGAATTTAGAAT
1 AAAAAATCAAGAATTGACAATTGAGAAT
*
4847045 AAAAAATCGAGAATTGACAATTGAGAAT
1 AAAAAATCAAGAATTGACAATTGAGAAT
* *** *
4847073 AAAACATCAAGAACAAACAATTGAGAAC
1 AAAAAATCAAGAATTGACAATTGAGAAT
* *
4847101 AAGAAATTAAGAAT
1 AAAAAATCAAGAAT
4847115 CAAATTGTGA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.20
Consensus pattern (28 bp):
AAAAAATCAAGAATTGACAATTGAGAAT
Found at i:4848741 original size:30 final size:30
Alignment explanation
Indices: 4848705--4848770 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
4848695 TTGAAAAGAG
4848705 TTAGAAAGTTTTAAAGCAAACTAACAATTT
1 TTAGAAAGTTTTAAAGCAAACTAACAATTT
4848735 TTAGAAAGTTTTAAAGCAAACTAACAATTT
1 TTAGAAAGTTTTAAAGCAAACTAACAATTT
4848765 TT-GAAA
1 TTAGAAA
4848771 CAGGGGTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (30 bp):
TTAGAAAGTTTTAAAGCAAACTAACAATTT
Found at i:4849995 original size:75 final size:76
Alignment explanation
Indices: 4849900--4850084 Score: 232
Period size: 76 Copynumber: 2.4 Consensus size: 76
4849890 GCGCCCAGCA
* *
4849900 CTAGTCGGATAAATAAAAGGTATCAAATGTGTGC-TAGCACCAGTCGGATAAAC-CAACAATGAG
1 CTAGTCGGATAAATCAAAGGTATCAAATGTGTGCTTAGCACCAATCGGATAAACTCAA-AATGAG
4849963 TTGCACCCAACG
65 TTGCACCCAACG
* * * * * *
4849975 TTAGTCTGATAAATCGAAGGTATCAAATGTGTGCTTAGCACTAATTGGATAAACTGAAAATGAGT
1 CTAGTCGGATAAATCAAAGGTATCAAATGTGTGCTTAGCACCAATCGGATAAACTCAAAATGAGT
4850040 TGCACCCAACG
66 TGCACCCAACG
* * *
4850051 CTAGTCGGATAGA-CTAACGATATCAAATGTGTGC
1 CTAGTCGGATAAATC-AAAGGTATCAAATGTGTGC
4850085 CTATCATTGT
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
75 31 0.33
76 60 0.65
77 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (76 bp):
CTAGTCGGATAAATCAAAGGTATCAAATGTGTGCTTAGCACCAATCGGATAAACTCAAAATGAGT
TGCACCCAACG
Found at i:4856178 original size:19 final size:18
Alignment explanation
Indices: 4856150--4856193 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4856140 ATAGTAGTTT
4856150 AATATAATATATACACATA
1 AATATAATATATA-ACATA
* *
4856169 AATATTATATTTAACATA
1 AATATAATATATAACATA
4856187 ATATATA
1 A-ATATA
4856194 TTACTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAATATATAACATA
Found at i:4864684 original size:17 final size:18
Alignment explanation
Indices: 4864644--4864685 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
4864634 CCATTATGTT
4864644 ATTAAATAGACATTTAAA
1 ATTAAATAGACATTTAAA
* *
4864662 AATAAATATA-ATTTAAA
1 ATTAAATAGACATTTAAA
*
4864679 TTTAAAT
1 ATTAAAT
4864686 TATTAGTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTAAATAGACATTTAAA
Found at i:4870603 original size:68 final size:68
Alignment explanation
Indices: 4870436--4870611 Score: 150
Period size: 68 Copynumber: 2.6 Consensus size: 68
4870426 TAGTACCACT
* * * * *
4870436 CATGCGACCTAGC--CA-ATTTGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
*
4870498 CACG
65 CACA
* * *
4870502 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
4870564 ATCACA
63 ATCACA
*
4870570 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
4870612 ACACATGTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
66 13 0.14
67 1 0.01
68 35 0.39
69 9 0.10
70 6 0.07
71 26 0.29
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:4873905 original size:43 final size:42
Alignment explanation
Indices: 4873801--4873920 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
4873791 AGGGTTACTA
* * *
4873801 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATAGCTAGGATATGGCATCGATACG
* *
4873843 AGACTT-CGTCTAAGACCATAGCTAGGCTATTGGCATCGATACG
1 AGA-TTACGTGTAAGACCATAGCTAGGATA-TGGCATCGATACG
* * * *
4873886 AGATTACATGTAAGTCCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATAGCTAGGATATGGCAT
4873921 TAGTACGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAGCTAGGATATGGCATCGATACG
Found at i:4877110 original size:21 final size:21
Alignment explanation
Indices: 4877084--4877134 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4877074 TCAACACATG
*
4877084 GGCGTGTGGGATGGCCAAACT
1 GGCGTGTGGGATGCCCAAACT
*
4877105 GGCGTGTGGGATGCCCACACT
1 GGCGTGTGGGATGCCCAAACT
4877126 GGCGTGTGG
1 GGCGTGTGG
4877135 ATTAGCCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.22, G:0.45, T:0.20
Consensus pattern (21 bp):
GGCGTGTGGGATGCCCAAACT
Found at i:4882591 original size:14 final size:14
Alignment explanation
Indices: 4882572--4882599 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4882562 AGAATATATT
4882572 TTTAATTAATTAAA
1 TTTAATTAATTAAA
4882586 TTTAATTAATTAAA
1 TTTAATTAATTAAA
4882600 AATTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:4894107 original size:17 final size:17
Alignment explanation
Indices: 4894085--4894118 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4894075 GGTATAAGGC
4894085 GCATCTTGTAGCTAAAG
1 GCATCTTGTAGCTAAAG
4894102 GCATCTTGTAGCTAAAG
1 GCATCTTGTAGCTAAAG
4894119 TATATACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (17 bp):
GCATCTTGTAGCTAAAG
Found at i:4904836 original size:20 final size:20
Alignment explanation
Indices: 4904770--4904853 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
4904760 TCAATGTCTT
**
4904770 TATTTGCACTTCAGTGCCTC
1 TATTTGCACTTTGGTGCCTC
* * * * *
4904790 TGTATACACTTTGATGTCTC
1 TATTTGCACTTTGGTGCCTC
*
4904810 TACTTGCACATTT-GTGCCTC
1 TATTTGCAC-TTTGGTGCCTC
4904830 TATTTGCACTTTGGTGCCTC
1 TATTTGCACTTTGGTGCCTC
4904850 TATT
1 TATT
4904854 ATACATCTAT
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
19 3 0.06
20 42 0.88
21 3 0.06
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.44
Consensus pattern (20 bp):
TATTTGCACTTTGGTGCCTC
Found at i:4918780 original size:26 final size:26
Alignment explanation
Indices: 4918730--4918780 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
4918720 TAAATTAAAC
* * *
4918730 TTTTCAAAAATACTTTTCCATAGCAA
1 TTTTCAAAAACACTTTTCAAAAGCAA
*
4918756 TTTTCAAAAACACTTTTTAAAAGCA
1 TTTTCAAAAACACTTTTCAAAAGCA
4918781 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTTCAAAAACACTTTTCAAAAGCAA
Found at i:4919615 original size:13 final size:13
Alignment explanation
Indices: 4919572--4919615 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
4919562 AGTATATATT
*
4919572 AACCCAAGTACCC
1 AACCCAATTACCC
4919585 AACCC-A--ACCC
1 AACCCAATTACCC
4919595 AACCCAATTACCC
1 AACCCAATTACCC
4919608 AACCCAAT
1 AACCCAAT
4919616 CATAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 1 0.04
13 17 0.61
ACGTcount: A:0.41, C:0.48, G:0.02, T:0.09
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:4919653 original size:5 final size:6
Alignment explanation
Indices: 4919640--4919686 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
4919630 ATAATTTAAT
*
4919640 AAATAA AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
4919687 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:4919688 original size:20 final size:19
Alignment explanation
Indices: 4919640--4919686 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
4919630 ATAATTTAAT
4919640 AAATAAAAA-TAAAAATAA
1 AAATAAAAACTAAAAATAA
*
4919658 AAATCTAAAACTAAAAATAA
1 AAAT-AAAAACTAAAAATAA
4919678 AAATAAAAA
1 AAATAAAAA
4919687 ACATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 13 0.52
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAAACTAAAAATAA
Found at i:4919736 original size:9 final size:9
Alignment explanation
Indices: 4919706--4919764 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
4919696 TTTATACAAA
4919706 TAATTCGGT
1 TAATTCGGT
* *
4919715 TAATTTGGG
1 TAATTCGGT
*
4919724 TAATTCAGT
1 TAATTCGGT
*
4919733 TAATTCGAT
1 TAATTCGGT
4919742 TAATTCGGT
1 TAATTCGGT
4919751 TAATTCGGT
1 TAATTCGGT
4919760 TAATT
1 TAATT
4919765 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:4922182 original size:16 final size:17
Alignment explanation
Indices: 4922152--4922184 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4922142 AAATTATCTA
4922152 TTTACTTTAAGTATTTT
1 TTTACTTTAAGTATTTT
*
4922169 TTTA-TTTAATTATTTT
1 TTTACTTTAAGTATTTT
4922185 ATAACATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTACTTTAAGTATTTT
Found at i:4922427 original size:9 final size:9
Alignment explanation
Indices: 4922413--4922468 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
4922403 GTGAAAAAAT
4922413 TTAAATTAA
1 TTAAATTAA
4922422 TTAAATTAA
1 TTAAATTAA
*
4922431 -T-AAGTAA
1 TTAAATTAA
*
4922438 --AAA-AAA
1 TTAAATTAA
4922444 TTAAATTAA
1 TTAAATTAA
4922453 TTAAATTAA
1 TTAAATTAA
4922462 -TAAATTA
1 TTAAATTA
4922469 TATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
6 2 0.05
7 7 0.17
8 11 0.28
9 20 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TTAAATTAA
Found at i:4922448 original size:31 final size:31
Alignment explanation
Indices: 4922397--4922464 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
4922387 AATTCGATCG
* *
4922397 AATAGAGTGAAAAAATTTAAATTAATTAAATT
1 AATA-AGTAAAAAAAATTAAATTAATTAAATT
4922429 AATAAGTAAAAAAAATTAAATTAATTAAATT
1 AATAAGTAAAAAAAATTAAATTAATTAAATT
4922460 AATAA
1 AATAA
4922465 ATTATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (31 bp):
AATAAGTAAAAAAAATTAAATTAATTAAATT
Found at i:4922466 original size:22 final size:22
Alignment explanation
Indices: 4922413--4922477 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
4922403 GTGAAAAAAT
4922413 TTAAATTAATTAAATT-AA-TAA
1 TTAAATTAA-TAAATTAAATTAA
*
4922434 GTAAA--AA-AAATTAAATTAA
1 TTAAATTAATAAATTAAATTAA
* *
4922453 TTAAATTAATAAATTATATTTA
1 TTAAATTAATAAATTAAATTAA
4922475 TTA
1 TTA
4922478 TCTTAACTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 9 0.26
21 6 0.17
22 13 0.37
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAATTAATAAATTAAATTAA
Found at i:4923571 original size:43 final size:43
Alignment explanation
Indices: 4923516--4923629 Score: 183
Period size: 43 Copynumber: 2.7 Consensus size: 43
4923506 AAAAATGCCG
* * *
4923516 CTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCA
1 CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCA
*
4923559 CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCG
1 CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCA
*
4923602 CTAAAGGTCAAGGCTTTTAGCGGAGCTT
1 CTAAAGGTCAAGGCTTTTAGCGGCGCTT
4923630 TTTTTACAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGAAAAAGCACCA
Found at i:4923646 original size:43 final size:43
Alignment explanation
Indices: 4923512--4923649 Score: 165
Period size: 43 Copynumber: 3.2 Consensus size: 43
4923502 GGAAAAAAAT
*
4923512 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TTGGAAAAGC
* *
4923555 GCCACTAAAGGTCAAGGCTTTTAGCGGCGC-TTGTGGAAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTGG-AAAAGC
* * **
4923598 ACCGCTAAAGGTCAAGGCTTTTAGCGGAGCTTTTTTTACAAA-C
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTGGA-AAAGC
4923641 GCCGCTAAA
1 GCCGCTAAA
4923650 TTTGGCAGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.02
43 73 0.90
44 6 0.07
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTGGAAAAGC
Found at i:4923734 original size:31 final size:31
Alignment explanation
Indices: 4923699--4923781 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
4923689 CTTCCTGCAT
* *
4923699 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
4923730 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
4923761 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
4923782 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:4941933 original size:45 final size:45
Alignment explanation
Indices: 4941867--4942081 Score: 253
Period size: 45 Copynumber: 4.9 Consensus size: 45
4941857 TGTACAGTAC
*
4941867 TATTCGGGCCTTTGAGTCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* * *
4941912 TATTCAGGCCTTTGACCCTAGCAGGCTATAATGCCAGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* * *
4941957 TATTCGGGCCTTTAAGCCTAGCAGGCTATAATACTGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
4942002 TATTCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA-
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-AT
** * * *
4942044 -ATTCGGGTTTTTAAACCTAGCAGGCT-GAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
4942082 TTTGATAAAA
Statistics
Matches: 146, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
41 7 0.05
42 25 0.17
43 10 0.07
44 14 0.10
45 90 0.62
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:4946189 original size:18 final size:19
Alignment explanation
Indices: 4946166--4946205 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
4946156 TAAGTGTTTA
4946166 AAGTGTTT-TGTGTTTAAT
1 AAGTGTTTATGTGTTTAAT
4946184 AAGTGTTTAAATGTGTTTAAT
1 AAGTGTTT--ATGTGTTTAAT
4946205 A
1 A
4946206 TGTTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
21 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (19 bp):
AAGTGTTTATGTGTTTAAT
Found at i:4946200 original size:21 final size:22
Alignment explanation
Indices: 4946174--4946227 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
4946164 TAAAGTGTTT
4946174 TGTGTTTAATAAG-TGTTTAAA
1 TGTGTTTAATAAGTTGTTTAAA
* *
4946195 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTAAA
4946218 TGTGTTTAAT
1 TGTGTTTAAT
4946228 TGCAGGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTAAA
Found at i:4946225 original size:9 final size:9
Alignment explanation
Indices: 4946159--4946227 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
4946149 TTTAAGATAA
*
4946159 GTGTTTAAA
1 GTGTTTAAT
4946168 GTGTTT--T
1 GTGTTTAAT
4946175 GTGTTTAAT
1 GTGTTTAAT
4946184 AAGTGTTTAAAT
1 --GTGTTT-AAT
4946196 GTGTTTAAT
1 GTGTTTAAT
*
4946205 ATG-TT--T
1 GTGTTTAAT
4946211 GT-TTTAAT
1 GTGTTTAAT
4946219 GTGTTTAAT
1 GTGTTTAAT
4946228 TGCAGGTGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
6 4 0.08
7 6 0.12
8 5 0.10
9 18 0.38
10 6 0.12
11 6 0.12
12 3 0.06
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (9 bp):
GTGTTTAAT
Found at i:4951539 original size:33 final size:35
Alignment explanation
Indices: 4951502--4951569 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
4951492 GCATTTTTCA
* * *
4951502 CACTG-TACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGATACTGAAAAGGGCTAAGCCCCAAGACTGT
*
4951535 CACTGATACTGAAAAGGGCTTAGCCCCAAGACTGT
1 CACTGATACTGAAAAGGGCTAAGCCCCAAGACTGT
4951570 TCAACTGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (35 bp):
CACTGATACTGAAAAGGGCTAAGCCCCAAGACTGT
Found at i:4960203 original size:46 final size:47
Alignment explanation
Indices: 4960127--4960221 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 47
4960117 ATTTTCACAT
** * *
4960127 ATCACACACCGAAGCCATAGCCCTACTATGGTCTTTTATGG-ATCAC
1 ATCACACACCGAAGCCATAGCCAGACTATGGTCTTATACGGAATCAC
*
4960173 ATCACACACCGATGCCATATGCCAGA-TATGGTCTTATACGGAATCAC
1 ATCACACACCGAAGCCATA-GCCAGACTATGGTCTTATACGGAATCAC
4960220 AT
1 AT
4960222 TATCATGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
46 31 0.74
47 11 0.26
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
ATCACACACCGAAGCCATAGCCAGACTATGGTCTTATACGGAATCAC
Found at i:4960272 original size:51 final size:50
Alignment explanation
Indices: 4960168--4960317 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
4960158 TCTTTTATGG
*
4960168 ATCACATCACACACCGATGCCATATGCCAGATATGGTCTTATAC-GGAATCACATT
1 ATCACAT--CACACCGATGCCATA-GCCAG--CTGGTCTTATACGGGAATCACA-T
**
4960223 ATCATGTCACACCGATGCCATAGCACAGCTGGTCTTATACGGGAA-CACAT
1 ATCACATCACACCGATGCCATAGC-CAGCTGGTCTTATACGGGAATCACAT
** * *
4960273 ATCACATTGCACTGATGCCATAGCCCAGCTATGGTCTTAAACGGG
1 ATCACATCACACCGATGCCATAG-CCAGC--TGGTCTTATACGGG
4960318 CGCACATATC
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
50 23 0.28
51 16 0.20
52 19 0.23
53 18 0.22
55 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (50 bp):
ATCACATCACACCGATGCCATAGCCAGCTGGTCTTATACGGGAATCACAT
Found at i:4960302 original size:50 final size:51
Alignment explanation
Indices: 4960168--4960328 Score: 148
Period size: 52 Copynumber: 3.1 Consensus size: 51
4960158 TCTTTTATGG
*
4960168 ATCACATCACACACCGATGCCATATGC-CAGATATGGTCTTATAC-GGAATCACATT
1 ATCACAT--CACACCGATGCCATA-GCACAG-CATGGTCTTATACGGGAA-CACA-T
**
4960223 ATCATGTCACACCGATGCCATAGCACAGC-TGGTCTTATACGGGAACACAT
1 ATCACATCACACCGATGCCATAGCACAGCATGGTCTTATACGGGAACACAT
** * * * **
4960273 ATCACATTGCACTGATGCCATAGCCCAGCTATGGTCTTAAACGGGCGCACAT
1 ATCACATCACACCGATGCCATAGCACAGC-ATGGTCTTATACGGGAACACAT
4960325 ATCA
1 ATCA
4960329 TATCTTTTCC
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
50 24 0.27
51 15 0.17
52 28 0.31
53 18 0.20
55 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
ATCACATCACACCGATGCCATAGCACAGCATGGTCTTATACGGGAACACAT
Found at i:4969809 original size:30 final size:30
Alignment explanation
Indices: 4969768--4969827 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
4969758 TGGCCGAATC
4969768 TGGCAATGCCACATTGAAGTGTTTTCCATA
1 TGGCAATGCCACATTGAAGTGTTTTCCATA
*
4969798 TGGCGATGCCACATTGAAGTGTTTTCCATA
1 TGGCAATGCCACATTGAAGTGTTTTCCATA
4969828 AGACATGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (30 bp):
TGGCAATGCCACATTGAAGTGTTTTCCATA
Found at i:4970717 original size:23 final size:23
Alignment explanation
Indices: 4970691--4970740 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
4970681 ACCCCATGCA
4970691 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
4970714 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
4970737 ATGC
1 ATGC
4970741 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:4970823 original size:27 final size:27
Alignment explanation
Indices: 4970776--4970891 Score: 76
Period size: 27 Copynumber: 4.3 Consensus size: 27
4970766 AACAAATCTA
* * *
4970776 TCATTTTACCTTACCA-AGGTATTACAG
1 TCATTTTACCCTA-CAGGGGTATTTCAG
**
4970803 TCATTTTACCCTACAGGGGTATTTTGG
1 TCATTTTACCCTACAGGGGTATTTCAG
* * *
4970830 TCATTCTACCCTA-TGAGGGTATTTCAA
1 TCATTTTACCCTACAG-GGGTATTTCAG
* * *
4970857 TCATTTTACTCTA-TGAGGATATTTCAG
1 TCATTTTACCCTACAG-GGGTATTTCAG
*
4970884 TCTTTTTA
1 TCATTTTA
4970892 TCACATAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 69 0.96
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTCAG
Found at i:4970917 original size:27 final size:27
Alignment explanation
Indices: 4970887--4971145 Score: 338
Period size: 27 Copynumber: 9.6 Consensus size: 27
4970877 ATTTCAGTCT
* **
4970887 TTTTATCACATAAGGGAAAAATTATCA
1 TTTTATCACATAAGGGCAAAATCGTCA
*
4970914 TTTTATCACATAAGGGCAAAATTGTCA
1 TTTTATCACATAAGGGCAAAATCGTCA
* * *
4970941 TTTTATCACCTAAAGGCAAAATCATCA
1 TTTTATCACATAAGGGCAAAATCGTCA
* *
4970968 TTTTATCACATGAGGGTAAAATCGTCA
1 TTTTATCACATAAGGGCAAAATCGTCA
**
4970995 TTTTATCACATAAGGGCAAAATTTTCA
1 TTTTATCACATAAGGGCAAAATCGTCA
* *
4971022 TTTTATCACCTAAGGGCAAAATTGTCA
1 TTTTATCACATAAGGGCAAAATCGTCA
*
4971049 TTTTATCACATGAGGGCAAAATCGTCA
1 TTTTATCACATAAGGGCAAAATCGTCA
* * *
4971076 GTTTATCACATGAGGGAAAAATCGTCA
1 TTTTATCACATAAGGGCAAAATCGTCA
* *
4971103 TTTTATCACATGAGGGCAAAATCATCA
1 TTTTATCACATAAGGGCAAAATCGTCA
*
4971130 TTTTATCACATGAGGG
1 TTTTATCACATAAGGG
4971146 TTCAGGTACG
Statistics
Matches: 207, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 207 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (27 bp):
TTTTATCACATAAGGGCAAAATCGTCA
Found at i:4973682 original size:21 final size:20
Alignment explanation
Indices: 4973641--4973680 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4973631 TAGGGACTAA
* *
4973641 AATGAAAAGTTGTAAAATTT
1 AATGAAAAATTCTAAAATTT
4973661 AATGAAAAATTCTAAAATTT
1 AATGAAAAATTCTAAAATTT
4973681 TATAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35
Consensus pattern (20 bp):
AATGAAAAATTCTAAAATTT
Found at i:4982336 original size:22 final size:23
Alignment explanation
Indices: 4982308--4982350 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4982298 TATATAAAAC
4982308 AATATGAT-TATCTAA-TATATTA
1 AATATGATATATC-AATTATATTA
4982330 AATATGATATATCAATTATAT
1 AATATGATATATCAATTATAT
4982351 GTTATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
AATATGATATATCAATTATATTA
Found at i:4984851 original size:18 final size:20
Alignment explanation
Indices: 4984809--4984851 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
4984799 TTTTCATACT
*
4984809 ATATTTGTTTGAATAAAAAC
1 ATATTTGTTTGAATAAAAAA
4984829 A-ATTT-TTTGAA-AAAAAA
1 ATATTTGTTTGAATAAAAAA
4984846 ATATTT
1 ATATTT
4984852 CCGGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 4 0.19
20 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (20 bp):
ATATTTGTTTGAATAAAAAA
Found at i:4991915 original size:19 final size:19
Alignment explanation
Indices: 4991891--4991931 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4991881 GCATGCACAT
4991891 ATAATAGGGTTACCACCCA
1 ATAATAGGGTTACCACCCA
4991910 ATAATAGGGTTACCACCCA
1 ATAATAGGGTTACCACCCA
4991929 ATA
1 ATA
4991932 TTCAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (19 bp):
ATAATAGGGTTACCACCCA
Found at i:4993236 original size:42 final size:41
Alignment explanation
Indices: 4993177--4993334 Score: 145
Period size: 42 Copynumber: 3.6 Consensus size: 41
4993167 GAGTGCCAAA
* * * *
4993177 GCCATGTCCCAGATATGGTCTTACATGGGCCCGTATATCGAT
1 GCCATATCCCAGACATGGTCTTATACGGGCCC-TATATCGAT
* * *
4993219 GCCATATCCCAGATATGGTCTTATACGAAGTCTCATATCAGTGCCGAT
1 GCCATATCCCAGACATGGTCTTATACG--GGC-CCTAT-A-T--CGAT
* *
4993267 GCCATATCCCAGACATGGTCTTATACGGGACCTCATATTGAT
1 GCCATATCCCAGACATGGTCTTATACGGGCCCT-ATATCGAT
*
4993309 GCCATGTCCCAGACATGGTCTTATAC
1 GCCATATCCCAGACATGGTCTTATAC
4993335 AAAATCACTT
Statistics
Matches: 97, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
42 52 0.54
44 6 0.06
45 5 0.05
46 4 0.04
48 30 0.31
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (41 bp):
GCCATATCCCAGACATGGTCTTATACGGGCCCTATATCGAT
Found at i:4993286 original size:48 final size:48
Alignment explanation
Indices: 4993215--4993475 Score: 193
Period size: 48 Copynumber: 5.6 Consensus size: 48
4993205 GCCCGTATAT
*
4993215 CGATGCCATATCCCAGATATGGTCTTATACGAAG-TCTCATATCAGTGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGATCACATATC-GTGC
* * * *
4993263 CGATGCCATATCCCAGACATGGTCTTATACG-GGACCTCATAT--T--
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGATCACATATCGTGC
* * * * *
4993306 -GATGCCATGTCCCAGACATGGTCTTATAC-AAAATCACTTAACGATGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGATCACATATCG-TGC
* ** * * *
4993353 CGAAGCCATATCCTTGATATGGTCTTATAC-AGGATGACATATTGGTGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGATCACATA-TCGTGC
* * * **
4993401 CGATGCCATGTCCCAGATATGGTCTTACAC-TAGCA-CACATATCAACGC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAG-ATCACATATC-GTGC
* *
4993449 CGATGCCATGTCCCAAATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
4993476 CACCGGCTCT
Statistics
Matches: 169, Mismatches: 33, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
42 33 0.20
45 2 0.01
47 2 0.01
48 130 0.77
49 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGATCACATATCGTGC
Found at i:4993352 original size:42 final size:42
Alignment explanation
Indices: 4993263--4993353 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
4993253 ATATCAGTGC
*** * *
4993263 CGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATAT
1 CGATGCCATATCCCAGACATGGTCTTATACAAAACCACATAA
* * * *
4993305 TGATGCCATGTCCCAGACATGGTCTTATACAAAATCACTTAA
1 CGATGCCATATCCCAGACATGGTCTTATACAAAACCACATAA
4993347 CGATGCC
1 CGATGCC
4993354 GAAGCCATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (42 bp):
CGATGCCATATCCCAGACATGGTCTTATACAAAACCACATAA
Found at i:4993354 original size:90 final size:90
Alignment explanation
Indices: 4993168--4993382 Score: 245
Period size: 90 Copynumber: 2.4 Consensus size: 90
4993158 CACCAAATAG
* * * * * *
4993168 AGTGCCAAAGCCATGTCCCAGATATGGTCTTACATGGGCCCGTATATCGATGCCATATCCCAGAT
1 AGTGCCGAAGCCATATCCCAGATATGGTCTTATACGGGACCGTATATCGATGCCATATCCCAGAC
* * * *
4993233 ATGGTCTTATACGAAGTCTCATATC
66 ATGGTCTTATACAAAATCACATAAC
* * * *
4993258 AGTGCCGATGCCATATCCCAGACATGGTCTTATACGGGACC-TCATATTGATGCCATGTCCCAGA
1 AGTGCCGAAGCCATATCCCAGATATGGTCTTATACGGGACCGT-ATATCGATGCCATATCCCAGA
*
4993322 CATGGTCTTATACAAAATCACTTAAC
65 CATGGTCTTATACAAAATCACATAAC
**
4993348 -GATGCCGAAGCCATATCCTTGATATGGTCTTATAC
1 AG-TGCCGAAGCCATATCCCAGATATGGTCTTATAC
4993383 AGGATGACAT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
89 2 0.02
90 102 0.98
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (90 bp):
AGTGCCGAAGCCATATCCCAGATATGGTCTTATACGGGACCGTATATCGATGCCATATCCCAGAC
ATGGTCTTATACAAAATCACATAAC
Found at i:4993451 original size:96 final size:97
Alignment explanation
Indices: 4993306--4993526 Score: 221
Period size: 96 Copynumber: 2.3 Consensus size: 97
4993296 ACCTCATATT
* * * * * ***
4993306 GATGCCATGTCCCAGACATGGTCTTATACAAAATCACTTAACGATGCCGAAGCCATATCCTTGAT
1 GATGCCATGTCCCAGATATGGTCTTACACAAAATCACATAACAACGCCGAAGCCATATCCCAAAT
* * *
4993371 ATGGTCTTATACAGGATGACATATTGG-TGCC
66 ATGGTCTTACACAGGATCACATATCGGATGCC
** * * *
4993402 GATGCCATGTCCCAGATATGGTCTTACACTAGCA-CACATATCAACGCCGATGCCATGTCCCAAA
1 GATGCCATGTCCCAGATATGGTCTTACAC-AAAATCACATAACAACGCCGAAGCCATATCCCAAA
* * * * *
4993466 TATGGTCTTACACCGGCTCTCATCTCGGATGTC
65 TATGGTCTTACACAGGATCACATATCGGATGCC
*
4993499 AATGCCATGTCCCAGATATGGTCTTACA
1 GATGCCATGTCCCAGATATGGTCTTACA
4993527 TGGGATCTCA
Statistics
Matches: 101, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
96 69 0.68
97 32 0.32
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (97 bp):
GATGCCATGTCCCAGATATGGTCTTACACAAAATCACATAACAACGCCGAAGCCATATCCCAAAT
ATGGTCTTACACAGGATCACATATCGGATGCC
Found at i:4993518 original size:49 final size:49
Alignment explanation
Indices: 4993398--4993586 Score: 220
Period size: 49 Copynumber: 3.9 Consensus size: 49
4993388 GACATATTGG
* * * *
4993398 TGCCGATGCCATGTCCCAGATATGGTCTTACACTAGCA-CACATATC-AA
1 TGCCGATGCCATGTCCCAGATATGGTCTTACAC-GGGATCTCATCTCGAA
* * * * *
4993446 CGCCGATGCCATGTCCCAAATATGGTCTTACACCGGCTCTCATCTCGGA
1 TGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCATCTCGAA
* * *
4993495 TGTCAATGCCATGTCCCAGATATGGTCTTACATGGGATCTCATCTCGAA
1 TGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCATCTCGAA
* **
4993544 TGCCGATGCCATGTCCCAGACATAATCTTACACGGGATCTCAT
1 TGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCAT
4993587 TAACTATGAT
Statistics
Matches: 117, Mismatches: 22, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 37 0.32
49 79 0.68
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCATCTCGAA
Found at i:4993585 original size:98 final size:97
Alignment explanation
Indices: 4993403--4993586 Score: 244
Period size: 98 Copynumber: 1.9 Consensus size: 97
4993393 ATTGGTGCCG
*
4993403 ATGCCATGTCCCAGATATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAAATA
1 ATGCCATGTCCCAGATATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAAACA
** *
4993468 TGGTCTTACACCGGCTCTCATCTCGGATGTCA
66 TAATCTTACACCGGATCTCATCTCGGATGTCA
* * * * * *
4993500 ATGCCATGTCCCAGATATGGTCTTACA-TGGGATCTCATCTCGAATGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGATATGGTCTTACACTAGCA-CACATATC-AACGCCGATGCCATGTCCCAAA
*
4993564 CATAATCTTACACGGGATCTCAT
64 CATAATCTTACACCGGATCTCAT
4993587 TAACTATGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
96 3 0.04
97 33 0.45
98 38 0.51
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
ATGCCATGTCCCAGATATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAAACA
TAATCTTACACCGGATCTCATCTCGGATGTCA
Found at i:4998878 original size:22 final size:22
Alignment explanation
Indices: 4998853--4998896 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4998843 AATTATTAAC
4998853 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
4998875 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
4998897 GATTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:4998906 original size:10 final size:10
Alignment explanation
Indices: 4998859--4998907 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
4998849 TAACATAATG
*
4998859 AATTTTAATT
1 AATTTTGATT
*
4998869 AATTTTATAATT
1 AA-TTT-TGATT
4998881 AATTTTGATT
1 AATTTTGATT
4998891 AATTTTGATT
1 AATTTTGATT
*
4998901 ATTTTTG
1 AATTTTG
4998908 GCAGATTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 22 0.63
11 6 0.17
12 7 0.20
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
AATTTTGATT
Found at i:5010966 original size:39 final size:40
Alignment explanation
Indices: 5010871--5011132 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
5010861 TTGAATGATG
*
5010871 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
5010909 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
5010950 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
5010989 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
5011028 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
5011067 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
5011106 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
5011133 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:5017844 original size:39 final size:40
Alignment explanation
Indices: 5017749--5018010 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
5017739 TTGAATGATG
*
5017749 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
5017787 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
5017828 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
5017867 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
5017906 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
5017945 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
5017984 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
5018011 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:5024012 original size:42 final size:40
Alignment explanation
Indices: 5023925--5024027 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 40
5023915 AGCTTGGTCT
* * *
5023925 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGC-AATAACCGAACTTAATTC
*
5023966 CGAAGGGCTTTTTAGAGCCAGTG-ACATAACCGGACTTAATTC
1 CGAAGGGC-TTTT-GAGCCAGTGCA-ATAACCGAACTTAATTC
* *
5024008 CGAAGGGCCTTCGAGCCAGT
1 CGAAGGGCTTTTGAGCCAGT
5024028 AGTCTAATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 8 0.15
41 11 0.21
42 25 0.47
43 9 0.17
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CGAAGGGCTTTTGAGCCAGTGCAATAACCGAACTTAATTC
Found at i:5032464 original size:34 final size:34
Alignment explanation
Indices: 5032416--5032496 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
5032406 GCATGACTGC
* * *
5032416 TACTAATACTGTGATGGGTTAAGGCCCTAATGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATACA
* *
5032450 TACTGATACTGTGATGGGCTAAGTCCCTACTACA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATACA
*
5032484 TATTTGATACTGT
1 TA-CTGATACTGT
5032497 ACTGAGATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 31 0.77
35 9 0.22
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (34 bp):
TACTGATACTGTGATGGGCTAAGGCCCTAATACA
Found at i:5035253 original size:22 final size:22
Alignment explanation
Indices: 5035221--5035264 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5035211 TACTTTAGCC
5035221 ATTTTTATTTTTATTGTAATTT
1 ATTTTTATTTTTATTGTAATTT
* *
5035243 ATTTTTCTTTTTATTTTAATTT
1 ATTTTTATTTTTATTGTAATTT
5035265 GCTAGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
ATTTTTATTTTTATTGTAATTT
Found at i:5037101 original size:64 final size:64
Alignment explanation
Indices: 5037020--5037203 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
5037010 AGACATTATG
* *
5037020 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGCGATAA
** * * * * *
5037084 ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGCGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGCGAT
5037149 AA
63 AA
* * * *
5037151 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
5037204 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGCGATAA
Found at i:5044653 original size:13 final size:13
Alignment explanation
Indices: 5044635--5044663 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5044625 TTTAGTTTAA
5044635 TTAGTTAATTAGT
1 TTAGTTAATTAGT
5044648 TTAGTTAATTAGT
1 TTAGTTAATTAGT
5044661 TTA
1 TTA
5044664 ATAAACAACC
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:5045093 original size:78 final size:78
Alignment explanation
Indices: 5045000--5045155 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
5044990 TTGGCGGGGT
5045000 TTTATAGTTTATGACTAGAAGAAACCCGTCAGGACCATTATTTTTTGATGAAGAAATCGATCGTA
1 TTTATAGTTTATGACTAGAAGAAACCCGTCAGGACCATTATTTTTTGATGAAGAAATCGATCGTA
5045065 CAGTTCGTAGAAA
66 CAGTTCGTAGAAA
5045078 TTTATAGTTTATGACTAGAAGAAACCCGTCAGGACCATTATTTTTTGATGAAGAAATCGATCGTA
1 TTTATAGTTTATGACTAGAAGAAACCCGTCAGGACCATTATTTTTTGATGAAGAAATCGATCGTA
5045143 CAGTTCGTAGAAA
66 CAGTTCGTAGAAA
5045156 CCTAAGAGAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (78 bp):
TTTATAGTTTATGACTAGAAGAAACCCGTCAGGACCATTATTTTTTGATGAAGAAATCGATCGTA
CAGTTCGTAGAAA
Found at i:5047742 original size:61 final size:61
Alignment explanation
Indices: 5047667--5047787 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
5047657 AGCAGGAATG
**
5047667 AGGAGTATAAACTCCTCAAACCACCATGATTATTCAACGA-AGAGGTAAGTCGAGCTTAGAT
1 AGGAGTATAAACTCCTCAAACCACCATGACCATTC-ACGAGAGAGGTAAGTCGAGCTTAGAT
* * *
5047728 AGGAGTATAAACTCCTCGAACCACCCTGACCATTCACTAGAGAGGTAAGTCGAGCTTAGA
1 AGGAGTATAAACTCCTCAAACCACCATGACCATTCACGAGAGAGGTAAGTCGAGCTTAGA
5047788 CTATACATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 3 0.06
61 51 0.94
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (61 bp):
AGGAGTATAAACTCCTCAAACCACCATGACCATTCACGAGAGAGGTAAGTCGAGCTTAGAT
Found at i:5049291 original size:29 final size:29
Alignment explanation
Indices: 5049228--5049295 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
5049218 TAATCAACCA
*
5049228 CGCACACTTATTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
5049257 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
5049286 CGCACACTTA
1 CGCACACTTA
5049296 CCTTTTTCCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:5049439 original size:29 final size:30
Alignment explanation
Indices: 5049400--5049478 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
5049390 CTTAATAATC
5049400 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
5049430 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
5049459 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
5049479 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:5050886 original size:77 final size:77
Alignment explanation
Indices: 5050743--5050886 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 77
5050733 AATTTTCGGT
*
5050743 CAAAAGAGGATGAAAAAGGATGAACAAAATTTTTCTTTTCCTTTCTTTAGCTCACGGCAATGGGG
1 CAAAAGAGGATGAAAAAGGATGAACAAAATTTTTCCTTTCCTTTCTTTAGCTCACGGCAATGGGG
5050808 GGGGGGAACAAC
66 GGGGGGAACAAC
*
5050820 CAAAAGAGGATGAAAAAGGATGAACAAAATTTTCTCCTTTCTTTTCTTTAGCTCACGGCAATGGG
1 CAAAAGAGGATGAAAAAGGATGAACAAAATTTT-TCCTTTCCTTTCTTTAGCTCACGGCAATGGG
5050885 GG
65 GG
5050887 AACAACCACG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 33 0.52
78 31 0.48
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (77 bp):
CAAAAGAGGATGAAAAAGGATGAACAAAATTTTTCCTTTCCTTTCTTTAGCTCACGGCAATGGGG
GGGGGGAACAAC
Found at i:5054469 original size:227 final size:227
Alignment explanation
Indices: 5054072--5054525 Score: 872
Period size: 227 Copynumber: 2.0 Consensus size: 227
5054062 TCGAGCGAAA
5054072 CCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTGGTGCCATACGATA
1 CCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTGGTGCCATACGATA
5054137 CGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAG
66 CGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAG
* *
5054202 GTGGTAAACCCGGTAATTCTTCAGGAAAAACATTCGGGTATTCACAAACCATCGGCACAGATTCG
131 GTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCG
5054267 GGTTTCTTTTCTAATTCTTTGTCATCAAGTAC
196 GGTTTCTTTTCTAATTCTTTGTCATCAAGTAC
5054299 CCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTGGTGCCATACGATA
1 CCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTGGTGCCATACGATA
5054364 CGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAG
66 CGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAG
* *
5054429 GTGGTAAACCCGGTAGTTCTTCCGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCG
131 GTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCG
5054494 GGTTTCTTTTCTAATTCTTTGTCATCAAGTAC
196 GGTTTCTTTTCTAATTCTTTGTCATCAAGTAC
5054526 ATACGCAAGG
Statistics
Matches: 223, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 223 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (227 bp):
CCTCTATCCGTCAGTTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTGGTGCCATACGATA
CGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAG
GTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTCG
GGTTTCTTTTCTAATTCTTTGTCATCAAGTAC
Found at i:5057879 original size:40 final size:39
Alignment explanation
Indices: 5057781--5057963 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
5057771 TCCTCGTTCA
* * *
5057781 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
5057820 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
5057859 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
5057899 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
5057940 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
5057964 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:5057972 original size:41 final size:41
Alignment explanation
Indices: 5057895--5057972 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
5057885 TTAGTATCTC
* * *
5057895 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
5057936 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
5057973 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:5059114 original size:83 final size:83
Alignment explanation
Indices: 5058975--5059135 Score: 322
Period size: 83 Copynumber: 1.9 Consensus size: 83
5058965 TTTCTTTCTA
5058975 ATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCA
1 ATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCA
5059040 CGGCAATGGGGGGGGGGG
66 CGGCAATGGGGGGGGGGG
5059058 ATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCA
1 ATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCA
5059123 CGGCAATGGGGGG
66 CGGCAATGGGGGG
5059136 AAAAGAATCA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (83 bp):
ATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATCTTCTCCTCTCTTTTCTTTAGCTCA
CGGCAATGGGGGGGGGGG
Found at i:5059441 original size:95 final size:96
Alignment explanation
Indices: 5059283--5059472 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 96
5059273 AACTTGGTCT
5059283 ACCATGCTTGTCATGGCCGGCCACTACTAGTAGGGGGGGAATTTGACATGCAAGTCCCCCCTTTG
1 ACCATGCTTGTCATGGCCGGCCACTACTAGTAGGGGGGGAATTTGACATGCAAGTCCCCCCTTTG
5059348 TCCACATGCACTAATAGGTCCTCACACATTG
66 TCCACATGCACTAATAGGTCCTCACACATTG
5059379 ACCATGCTTGTCATGGCCGGCCACTACTAGTA-GGGGGGAATTTGACATGCAAGTCCCCCCTTTG
1 ACCATGCTTGTCATGGCCGGCCACTACTAGTAGGGGGGGAATTTGACATGCAAGTCCCCCCTTTG
5059443 TCCACATGCACTAATAGGTCCTCACACATT
66 TCCACATGCACTAATAGGTCCTCACACATT
5059473 AACCTATCAC
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 62 0.66
96 32 0.34
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (96 bp):
ACCATGCTTGTCATGGCCGGCCACTACTAGTAGGGGGGGAATTTGACATGCAAGTCCCCCCTTTG
TCCACATGCACTAATAGGTCCTCACACATTG
Found at i:5080496 original size:5 final size:5
Alignment explanation
Indices: 5080486--5080519 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
5080476 TGGCCAAAAG
5080486 AATAA AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
5080520 GTTTAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:5081967 original size:46 final size:46
Alignment explanation
Indices: 5081914--5082003 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
5081904 TACTCTGTAA
*
5081914 ATAATCTGTAACTAGGATCCGATACCCACTTCTTACAGAGTATTAG
1 ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATTAG
5081960 ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATT
1 ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATT
5082004 CCCCAGAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (46 bp):
ATAATCTGTAACTAGGACCCGATACCCACTTCTTACAGAGTATTAG
Found at i:5086572 original size:38 final size:38
Alignment explanation
Indices: 5086521--5086595 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
5086511 TGGCCATTCC
5086521 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAACG
1 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAACG
5086559 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAAC
1 AATGGCTAATCATTTACAAACCCTTTTCTTACCAAAC
5086596 CATAGTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.32
Consensus pattern (38 bp):
AATGGCTAATCATTTACAAACCCTTTTCTTACCAAACG
Found at i:5087759 original size:30 final size:30
Alignment explanation
Indices: 5087701--5087760 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
5087691 ATCTAATACG
* **
5087701 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTCACCCCTA
* *
5087731 AACTTTTGCATAATTACACTTTCACCCCTA
1 AACTTTGGCAAAATTACACTTTCACCCCTA
5087761 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTCACCCCTA
Found at i:5088648 original size:432 final size:432
Alignment explanation
Indices: 5087845--5088705 Score: 1225
Period size: 432 Copynumber: 2.0 Consensus size: 432
5087835 ATCAAATTCT
* * *
5087845 CACTCTAACATGTACTTATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTGCTCGTTTTCAC
1 CACTCTAACATGTACTTATGACTATTAGGTATTTTTACCAATTAAGCCATTTTACTCGTTTTCAC
* *
5087910 TTAAAATCAAGTAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACACCA
66 TTAAAACCAAGTAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACACAA
* *
5087975 AAATACACAAATTTCACCTATGGGTATTTTTCTAAATATAAATCCTAGGTTAAATTATTGCTAGC
131 AAATACACAAATTTCACCTATGGGTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGC
*
5088040 ATAAGCTAAATCGAGCTACCGGGACTCCAAAAATGTAAAAATCATTAAAAACGAGGCTAGAACGG
196 ATAAGCTAAATCGAGCTACCGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAAC-G
* * *** **
5088105 ACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTGCTATATTCGGCCA
260 ACTTACAATCGAGCTTGGAAGATTGAAAAACCCTAACCATGGGAACTCCTTGAAATATTCGGCCA
** ** * **
5088170 TGGGGTTGAAGATGAGCAAAATTGGCTTTTAATTTTATATTTTAATTC-ATTTTACCCCTAAATG
325 TAAGGAAGAAGATGAGCAAAATTGGCTTTTAATTTTATATTTTAATTCAATTTAACAACTAAATG
5088234 ACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCCAATCA
390 ACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCCAATCA
* *
5088277 CACTCTAACATGTACTTATGACTATTAGGTATTTTTACTAATTAAGCCATTTTACTCGTTTTCGC
1 CACTCTAACATGTACTTATGACTATTAGGTATTTTTACCAATTAAGCCATTTTACTCGTTTTCAC
* *
5088342 TTAAAACCGAGTAGTACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACACAA
66 TTAAAACCAAGTAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACACAA
* *
5088407 AAATACACAAATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAGGTTGAATTATTGCTAGC
131 AAATACACAAATTTCACCTATGGGTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGC
* * * * * *
5088472 ATAAGCTTAATCGAGTTATCGGGATTCCAAAAACGTAAAGAAT-ATTAAAAACGGGGCTTGGAAT
196 ATAAGCTAAATCGAGCTACCGGGACTCCAAAAACGTAAA-AATCATTAAAAACGAGGC-TAGAA-
* * *
5088536 C-ACTTACTATGGAGCTTGGAAGATTGAAACAAACCCTAACTATGGAGAAC-CCTTGAAAT-TTC
258 CGACTTACAATCGAGCTTGGAAGATTG-AA-AAACCCTAACCATGG-GAACTCCTTGAAATATTC
* * *
5088598 GGCC-TAATGAAGAAGATG-GACAAAAATTGGCTTTTAATTTTGT-TTTTAATTCAATTTAATAA
320 GGCCATAAGGAAGAAGATGAG-C-AAAATTGGCTTTTAATTTTATATTTTAATTCAATTTAACAA
5088660 CTAAATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCCA
383 CTAAATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCCA
5088706 TCCATGTCCA
Statistics
Matches: 380, Mismatches: 40, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
431 1 0.00
432 270 0.71
433 87 0.23
434 21 0.06
435 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (432 bp):
CACTCTAACATGTACTTATGACTATTAGGTATTTTTACCAATTAAGCCATTTTACTCGTTTTCAC
TTAAAACCAAGTAGCACAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACACAA
AAATACACAAATTTCACCTATGGGTATTTTTCCAAATATAAACCCTAGGTTAAATTATTGCTAGC
ATAAGCTAAATCGAGCTACCGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGA
CTTACAATCGAGCTTGGAAGATTGAAAAACCCTAACCATGGGAACTCCTTGAAATATTCGGCCAT
AAGGAAGAAGATGAGCAAAATTGGCTTTTAATTTTATATTTTAATTCAATTTAACAACTAAATGA
CCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCCAATCA
Found at i:5090318 original size:17 final size:17
Alignment explanation
Indices: 5090296--5090331 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5090286 AACATAGCCT
5090296 TAGCACAAATAGCCATA
1 TAGCACAAATAGCCATA
5090313 TAGCACAAATAGCCATA
1 TAGCACAAATAGCCATA
5090330 TA
1 TA
5090332 TGCCAACTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.19
Consensus pattern (17 bp):
TAGCACAAATAGCCATA
Found at i:5090987 original size:39 final size:39
Alignment explanation
Indices: 5090870--5091054 Score: 160
Period size: 39 Copynumber: 4.7 Consensus size: 39
5090860 GGACATGTAA
**
5090870 GTGCAAATCAAGGGTATTGAAGTACAACAGGGGCACGTAT
1 GTGC-AATCAAGGGTACCGAAGTACAACAGGGGCACGTAT
* * * * *
5090910 GTGCATTCAA-GGTACCAAAGTACAATAGGGGAAAGTAT
1 GTGCAATCAAGGGTACCGAAGTACAACAGGGGCACGTAT
* * *
5090948 GTGCAATCAAGGGTACCGAGGTACAAAAAGGGCACGTAT
1 GTGCAATCAAGGGTACCGAAGTACAACAGGGGCACGTAT
* ** * *
5090987 GTAC-ATTTAGGGATACCGAAGTACAACAGGGGTATGTAT
1 GTGCAATCAAGGG-TACCGAAGTACAACAGGGGCACGTAT
* * *
5091026 GTGCAAT-TAGGGCCAACGAAGTACAACAG
1 GTGCAATCAAGGG-TACCGAAGTACAACAG
5091055 TGCATGTGTG
Statistics
Matches: 116, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
38 37 0.32
39 73 0.63
40 6 0.05
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (39 bp):
GTGCAATCAAGGGTACCGAAGTACAACAGGGGCACGTAT
Found at i:5091086 original size:38 final size:39
Alignment explanation
Indices: 5090888--5091089 Score: 149
Period size: 39 Copynumber: 5.2 Consensus size: 39
5090878 CAAGGGTATT
* * * *
5090888 GAAGTACAACAGGGGCACGTATGTGCATTCAAGG-TACC
1 GAAGTACAACAGGGGCATGTATGTACATTTAGGGATACC
* * * * * **
5090926 AAAGTACAATAGGGGAAAGTATGTGCAATCAAGGG-TACC
1 GAAGTACAACAGGGGCATGTATGTAC-ATTTAGGGATACC
* * * *
5090965 GAGGTACAAAAAGGGCACGTATGTACATTTAGGGATACC
1 GAAGTACAACAGGGGCATGTATGTACATTTAGGGATACC
* * * ** *
5091004 GAAGTACAACAGGGGTATGTATGTGCAATTAGGGCCAAC
1 GAAGTACAACAGGGGCATGTATGTACATTTAGGGATACC
* * *
5091043 GAAGTACAACA-GTGCATGTGTGTACATTTAGGGGTACC
1 GAAGTACAACAGGGGCATGTATGTACATTTAGGGATACC
*
5091081 AAAGTACAA
1 GAAGTACAA
5091090 AAATTAACTA
Statistics
Matches: 127, Mismatches: 35, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
38 55 0.43
39 72 0.57
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (39 bp):
GAAGTACAACAGGGGCATGTATGTACATTTAGGGATACC
Found at i:5122971 original size:12 final size:12
Alignment explanation
Indices: 5122956--5123000 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
5122946 GTAGGATATG
* *
5122956 ATTATGTATCTG
1 ATTATGCATCTA
5122968 ATTATGCATCTA
1 ATTATGCATCTA
*
5122980 ATTTTGCATCTA
1 ATTATGCATCTA
5122992 ATTATGCAT
1 ATTATGCAT
5123001 TTGGAGATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (12 bp):
ATTATGCATCTA
Found at i:5127304 original size:77 final size:79
Alignment explanation
Indices: 5127205--5127354 Score: 225
Period size: 77 Copynumber: 1.9 Consensus size: 79
5127195 TATACCCTAT
*
5127205 AGGGGCATTACGAACATTTTACCTATAAGGGCATTACGGTCA-TTTACCCTAC-AGGGCATTAC-
1 AGGGGCATTACGAACATTTTACCTACAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
5127267 GATCATTTTGACTAC
66 G-TCATTTTGACTAC
* ** *
5127282 AGGGGCATTATGATTATTTTACCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
1 AGGGGCATTACGAACATTTTACCTACAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
5127347 GTCATTTT
66 GTCATTTT
5127355 ACCTATTTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 37 0.57
78 10 0.15
79 17 0.26
80 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (79 bp):
AGGGGCATTACGAACATTTTACCTACAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTACA
GTCATTTTGACTAC
Found at i:5127354 original size:27 final size:27
Alignment explanation
Indices: 5127153--5127357 Score: 179
Period size: 26 Copynumber: 7.8 Consensus size: 27
5127143 TTGCCCTTTG
* ** * * *
5127153 GGGCATAACGGTCATTTCGCCTTATAG
1 GGGCATTACGGTCATTTTACCCTACAA
* * * *
5127180 GGGCATTATGGTCATTATACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAA
** *
5127207 GGGCATTACGAACATTTTA-CCTATAA
1 GGGCATTACGGTCATTTTACCCTACAA
5127233 GGGCATTACGGTCA-TTTACCCTAC-A
1 GGGCATTACGGTCATTTTACCCTACAA
* *
5127258 GGGCATTACGATCATTTTGA--CTACAG
1 GGGCATTACGGTCATTTT-ACCCTACAA
* * * *
5127284 GGGCATTATGATTATTTTA-CCTACAG
1 GGGCATTACGGTCATTTTACCCTACAA
5127310 GGGCATTACGGTCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTACAA
*
5127337 GGGCATTACAGTCATTTTACC
1 GGGCATTACGGTCATTTTACC
5127358 TATTTTAGGG
Statistics
Matches: 149, Mismatches: 23, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
25 23 0.15
26 63 0.42
27 63 0.42
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCCTACAA
Found at i:5139704 original size:122 final size:122
Alignment explanation
Indices: 5139487--5139729 Score: 477
Period size: 122 Copynumber: 2.0 Consensus size: 122
5139477 GTTCTTGATC
5139487 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
1 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
5139552 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTATA
66 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTATA
*
5139609 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAGCACATAAA
1 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
5139674 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTAT
66 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTAT
5139730 TGCACAAAAC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (122 bp):
TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTATA
Found at i:5143858 original size:40 final size:39
Alignment explanation
Indices: 5143821--5143912 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
5143811 GCTACTCGTT
*
5143821 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
5143861 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
5143900 CAAATGCCTTCGG
1 CAAATGCCTTCGG
5143913 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:5143892 original size:39 final size:40
Alignment explanation
Indices: 5143802--5143965 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
5143792 CGGAATTTAA
** *
5143802 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
5143842 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5143881 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
5143921 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
5143961 CCGGA
1 CCGGA
5143966 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:5151595 original size:40 final size:39
Alignment explanation
Indices: 5151558--5151649 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
5151548 GCTACTCGTT
*
5151558 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
5151598 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
5151637 CAAATGCCTTCGG
1 CAAATGCCTTCGG
5151650 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:5151629 original size:39 final size:40
Alignment explanation
Indices: 5151539--5151702 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
5151529 CGGAATTTAA
** *
5151539 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
5151579 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5151618 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
5151658 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
5151698 CCGGA
1 CCGGA
5151703 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:5157511 original size:39 final size:39
Alignment explanation
Indices: 5157466--5157586 Score: 181
Period size: 39 Copynumber: 3.1 Consensus size: 39
5157456 AATTATGTTA
5157466 CCAGCAC-AAGGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAA-GCCTGCGGGACTTTAGCCCGGATACATTT
* *
5157505 CCAGCACGAAACCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
** *
5157544 CCAGCACGAAGCCTGTAGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
5157583 CCAG
1 CCAG
5157587 TGTCTTGCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 72 0.97
40 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:5158612 original size:469 final size:469
Alignment explanation
Indices: 5157734--5158620 Score: 1738
Period size: 469 Copynumber: 1.9 Consensus size: 469
5157724 ACAAATGTCG
*
5157734 GAATCCTGTGTCATGACATATGTATCCTAACTATTCCTAAGATTCATACAGGGCTTTCGAACGTC
1 GAATCCTGTGTCATGACATATGTATCCTAACTATTCCTAAGATTCATACAGGGCTTTCGAACATC
5157799 GTAACTCGGTCGAATCGAAAGCTCGAACATAGTTTTCAAACTCATACACATTCGGCATTTACAAG
66 GTAACTCGGTCGAATCGAAAGCTCGAACATAGTTTTCAAACTCATACACATTCGGCATTTACAAG
5157864 TATAAATTCATATATTATATACCAGCATATATACTTAACATTTAACTACATTTAGGCATGTGTAT
131 TATAAATTCATATATTATATACCAGCATATATACTTAACATTTAACTACATTTAGGCATGTGTAT
5157929 TTGCTTATAAACTTACCTCAGACGTCGTAAAACGGGACGGAGCTGTTAGTCGACAACTTTCGTTT
196 TTGCTTATAAACTTACCTCAGACGTCGTAAAACGGGACGGAGCTGTTAGTCGACAACTTTCGTTT
5157994 TTCCCTAGTCCAAATCCGATTTCTTTGGTTCTTGATATAAAAATATTCAAATTAAGCTCATTCAA
261 TTCCCTAGTCCAAATCCGATTTCTTTGGTTCTTGATATAAAAATATTCAAATTAAGCTCATTCAA
*
5158059 ACATATTTTCATTCAATTTAGTTCAAAAGCACATAAATGGGCAAATTACCATTTTACTCCTGACA
326 ACATATTTTCATTCAATTTAGTTCAAAAACACATAAATGGGCAAATTACCATTTTACTCCTGACA
5158124 TTTACAATTTTTACAATTTAATCCCTATTGCACAAAACACAAAATATACAAAATTTCAATATACC
391 TTTACAATTTTTACAATTTAATCCCTATTGCACAAAACACAAAATATACAAAATTTCAATATACC
5158189 CATGTTGGGCCGAA
456 CATGTTGGGCCGAA
*
5158203 GAATCCTGTGTCATGACATATGTATCCTAACTATTCCTAAGATTCATACAGGGCTTTCGAACATT
1 GAATCCTGTGTCATGACATATGTATCCTAACTATTCCTAAGATTCATACAGGGCTTTCGAACATC
5158268 GTAACTCGGTCGAATCGAAAGCTCGAACATAGTTTTCAAACTCATACACATTCGGCATTTACAAG
66 GTAACTCGGTCGAATCGAAAGCTCGAACATAGTTTTCAAACTCATACACATTCGGCATTTACAAG
5158333 TATAAATTCATATATTATATACCAGCATATATACTTAACATTTAACTACATTTAGGCATGTGTAT
131 TATAAATTCATATATTATATACCAGCATATATACTTAACATTTAACTACATTTAGGCATGTGTAT
5158398 TTGCTTATAAACTTACCTCAGACGTCGTAAAACGGGACGGAGCTGTTAGTCGACAACTTTCGTTT
196 TTGCTTATAAACTTACCTCAGACGTCGTAAAACGGGACGGAGCTGTTAGTCGACAACTTTCGTTT
*
5158463 TTCCCTAGTCCAAATCCGATTTCTTTGGTTCTTGATCTAAAAATATTCAAATTAAGCTCATTCAA
261 TTCCCTAGTCCAAATCCGATTTCTTTGGTTCTTGATATAAAAATATTCAAATTAAGCTCATTCAA
5158528 ACATATTTTCATTCAATTTAGTTCAAAAACACATAAATGGGCAAATTACCATTTTACTCCTGACA
326 ACATATTTTCATTCAATTTAGTTCAAAAACACATAAATGGGCAAATTACCATTTTACTCCTGACA
5158593 TTTACAATTTTTACAATTTAATCCCTAT
391 TTTACAATTTTTACAATTTAATCCCTAT
5158621 ATAAAAATAT
Statistics
Matches: 414, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
469 414 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (469 bp):
GAATCCTGTGTCATGACATATGTATCCTAACTATTCCTAAGATTCATACAGGGCTTTCGAACATC
GTAACTCGGTCGAATCGAAAGCTCGAACATAGTTTTCAAACTCATACACATTCGGCATTTACAAG
TATAAATTCATATATTATATACCAGCATATATACTTAACATTTAACTACATTTAGGCATGTGTAT
TTGCTTATAAACTTACCTCAGACGTCGTAAAACGGGACGGAGCTGTTAGTCGACAACTTTCGTTT
TTCCCTAGTCCAAATCCGATTTCTTTGGTTCTTGATATAAAAATATTCAAATTAAGCTCATTCAA
ACATATTTTCATTCAATTTAGTTCAAAAACACATAAATGGGCAAATTACCATTTTACTCCTGACA
TTTACAATTTTTACAATTTAATCCCTATTGCACAAAACACAAAATATACAAAATTTCAATATACC
CATGTTGGGCCGAA
Found at i:5158717 original size:122 final size:122
Alignment explanation
Indices: 5158500--5158742 Score: 477
Period size: 122 Copynumber: 2.0 Consensus size: 122
5158490 GTTCTTGATC
5158500 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
1 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
5158565 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTATA
66 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTATA
*
5158622 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAGCACATAAA
1 TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
5158687 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTAT
66 TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTAT
5158743 TGCACAAAAC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (122 bp):
TAAAAATATTCAAATTAAGCTCATTCAAACATATTTTCATTCAATTTAGTTCAAAAACACATAAA
TGGGCAAATTACCATTTTACTCCTGACATTTACAATTTTTACAATTTAATCCCTATA
Found at i:5170565 original size:25 final size:26
Alignment explanation
Indices: 5170529--5170580 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
5170519 ATTTGATTCG
*
5170529 AAATTTGCATATTTAAA-TAATATCC
1 AAATTTGCATATTAAAATTAATATCC
*
5170554 AAATTT-CAATATTAAAATTATTATCC
1 AAATTTGC-ATATTAAAATTAATATCC
5170580 A
1 A
5170581 CTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 14 0.61
26 8 0.35
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATTTGCATATTAAAATTAATATCC
Found at i:5171029 original size:15 final size:15
Alignment explanation
Indices: 5171011--5171079 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
5171001 AATAAAAAGT
5171011 TAATTAATATTTATA
1 TAATTAATATTTATA
*
5171026 TAATTAACTA-TTAAA
1 TAATTAA-TATTTATA
5171041 TAATT-ATATTTAGTA
1 TAATTAATATTTA-TA
5171056 TATATT-ATA-TTATA
1 TA-ATTAATATTTATA
* *
5171070 AAAATAATAT
1 TAATTAATAT
5171080 ACATACACGT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.09
14 10 0.23
15 22 0.50
16 8 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
TAATTAATATTTATA
Found at i:5175966 original size:46 final size:46
Alignment explanation
Indices: 5175899--5176893 Score: 1114
Period size: 46 Copynumber: 20.6 Consensus size: 46
5175889 TAAGTGTAGC
5175899 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
5175945 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
5175991 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176037 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
5176083 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176135 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
5176181 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176233 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
5176279 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176331 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
5176377 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176429 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
5176475 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176527 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* *** * * *
5176573 CACTTATCACTTT-TCACTTG-TCACTTGATCTTCTTGATCAGAT-AAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCA---GA--TAAGTG-T-AGCTAAAG-CTA-T
5176625 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176671 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
5176717 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * **
5176769 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
5176815 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
*
5176867 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCTCTTGATCAGA
5176894 AGTACTCAAA
Statistics
Matches: 824, Mismatches: 71, Indels: 108
0.82 0.07 0.11
Matches are distributed among these distances:
44 3 0.00
45 6 0.01
46 465 0.56
47 7 0.01
48 5 0.01
49 17 0.02
50 5 0.01
51 6 0.01
52 301 0.37
53 6 0.01
54 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:5176128 original size:98 final size:98
Alignment explanation
Indices: 5175899--5176887 Score: 1392
Period size: 98 Copynumber: 10.1 Consensus size: 98
5175889 TAAGTGTAGC
* *
5175899 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
* **
5175964 TGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5175998 CAC---T---TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
5176057 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
5176090 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
5176155 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
5176188 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
5176253 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
5176286 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
5176351 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
5176384 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
5176449 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
5176482 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
5176547 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
*** * * *
5176580 CACTTTTCACTTGTCACTTGATC---TTCTTGATCAGAT-AAGTGTAGCCACTTATCACTTTGTC
1 CACTTTTCACTTGTCACTTGATCAGATAAGTG-T-AGCTAAAG-CTA-TCACTTATCACTTTGTC
* **
5176641 TCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
62 TCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * **
5176678 CAC---T---TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC---T---TTG
* *
5176737 TCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
60 TCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* ** *
5176776 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TTG
* * ** *
5176835 TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
60 TCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
5176874 CACTTTGTCACTTG
1 CACTTT-TCACTTG
5176888 ATCAGAAGTA
Statistics
Matches: 832, Mismatches: 30, Indels: 50
0.91 0.03 0.05
Matches are distributed among these distances:
92 110 0.13
93 4 0.00
94 4 0.00
95 8 0.01
96 5 0.01
97 8 0.01
98 686 0.82
99 3 0.00
102 1 0.00
105 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:5176744 original size:52 final size:52
Alignment explanation
Indices: 5176668--5176887 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
5176658 TAGCTAAAGC
* *
5176668 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
5176721 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
5176773 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
5176819 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
5176871 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
5176888 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:5181222 original size:67 final size:67
Alignment explanation
Indices: 5181146--5181279 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
5181136 GCACAAGCCT
5181146 AAGCACCAACAACAACACATGTTAGCATAATTGAATATAATTCATGTGAACTTAACATAGATAAC
1 AAGCACCAACAACAACACATGTTAGCATAATTGAATATAATTCATGTGAACTTAACATAGATAAC
5181211 CA
66 CA
*
5181213 AAGCACCAACAACAACACGTGTTAGCATAATTGAATATAATTCATGTGAACTTAACATAGATAAC
1 AAGCACCAACAACAACACATGTTAGCATAATTGAATATAATTCATGTGAACTTAACATAGATAAC
5181278 CA
66 CA
5181280 TTATACTAGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (67 bp):
AAGCACCAACAACAACACATGTTAGCATAATTGAATATAATTCATGTGAACTTAACATAGATAAC
CA
Found at i:5181816 original size:33 final size:33
Alignment explanation
Indices: 5181774--5181848 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
5181764 CGGCCTTGCC
* * *
5181774 ATGGTCTTATGC-TCATAGTGCCATAACCCGGTT
1 ATGGTCTTAT-CATCAGAATGCCATAACCCAGTT
* *
5181807 ATGGTCTTATCATTAGAATGCCATAGCCCAGTT
1 ATGGTCTTATCATCAGAATGCCATAACCCAGTT
5181840 ATGGTCTTA
1 ATGGTCTTA
5181849 CACACACACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.03
33 35 0.97
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (33 bp):
ATGGTCTTATCATCAGAATGCCATAACCCAGTT
Found at i:5182543 original size:15 final size:15
Alignment explanation
Indices: 5182523--5182552 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5182513 TTTAACATAA
5182523 AAAAATCACTAGATT
1 AAAAATCACTAGATT
5182538 AAAAATCACTAGATT
1 AAAAATCACTAGATT
5182553 CATCAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
AAAAATCACTAGATT
Found at i:5182785 original size:16 final size:17
Alignment explanation
Indices: 5182764--5182828 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
5182754 GAATATTCAC
5182764 TTATGTTTTATTTT-TA
1 TTATGTTTTATTTTATA
5182780 TTATGTTTTCATTATTATA
1 TTATGTTTT-ATT-TTATA
** *
5182799 TTAACCTTTTATTTTATT
1 TT-ATGTTTTATTTTATA
5182817 TTATGTTTTATT
1 TTATGTTTTATT
5182829 AATTAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.22
17 11 0.28
18 8 0.20
19 7 0.17
20 5 0.12
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.69
Consensus pattern (17 bp):
TTATGTTTTATTTTATA
Found at i:5198419 original size:42 final size:42
Alignment explanation
Indices: 5198360--5198444 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
5198350 AGTCAACCTA
* *
5198360 CAATGGTCATGCAATCACTAATATCTTCTCCATCAATGGAAT
1 CAATGGCCATGCAATCACTAATACCTTCTCCATCAATGGAAT
* * * *
5198402 CAATGGCCATGCCATCACTGATGCCTTCTGCATCAATGGAAT
1 CAATGGCCATGCAATCACTAATACCTTCTCCATCAATGGAAT
5198444 C
1 C
5198445 CATTAGTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
CAATGGCCATGCAATCACTAATACCTTCTCCATCAATGGAAT
Found at i:5199540 original size:104 final size:103
Alignment explanation
Indices: 5199404--5199592 Score: 317
Period size: 104 Copynumber: 1.8 Consensus size: 103
5199394 TGGCAAATGC
*
5199404 AAATGCCATTTTCTTTTACCCCTTCAAATTTATATGTTATCAAATATAAAAGCGAGAAGATAAGT
1 AAATGCCATTTTCTTTTACCCCTTCAAATTTATATGTTATCAAATAAAAAAGCGAGAAGATAAGT
5199469 TATCATTTTCTTTAAAGTGCTCGCCTTCACTTTAAAGA
66 TATCATTTTCTTTAAAGTGCTCGCCTTCACTTTAAAGA
**
5199507 AAATGCCATTTTCTTTTTACCCCCTT-AAATTTATATGTTATCAAATAAAAAAGCGAGAAGATGG
1 AAATGCCATTTTC-TTTTA-CCCCTTCAAATTTATATGTTATCAAATAAAAAAGCGAGAAGATAA
*
5199571 GTTATCATTTTCTTTAATGTGC
64 GTTATCATTTTCTTTAAAGTGC
5199593 CCTGTAAAGG
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
103 13 0.16
104 61 0.76
105 6 0.08
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (103 bp):
AAATGCCATTTTCTTTTACCCCTTCAAATTTATATGTTATCAAATAAAAAAGCGAGAAGATAAGT
TATCATTTTCTTTAAAGTGCTCGCCTTCACTTTAAAGA
Found at i:5202571 original size:20 final size:20
Alignment explanation
Indices: 5202546--5202584 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5202536 TTTTATTTAA
5202546 TTAATATAATTATTAAATTG
1 TTAATATAATTATTAAATTG
* *
5202566 TTAATATTATTTTTAAATT
1 TTAATATAATTATTAAATT
5202585 TTTATATGTT
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:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTAATATAATTATTAAATTG
Found at i:5204663 original size:29 final size:30
Alignment explanation
Indices: 5204616--5204683 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
5204606 TAGCCCAAGA
* *
5204616 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
5204646 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
5204676 GCAAATAT
1 GTAAATAT
5204684 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:5207153 original size:38 final size:38
Alignment explanation
Indices: 5207104--5208066 Score: 1755
Period size: 38 Copynumber: 24.9 Consensus size: 38
5207094 TGATATGAAA
5207104 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207142 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207180 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207218 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207256 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207294 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207332 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207370 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207408 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207446 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207484 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207522 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207560 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207598 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207636 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207674 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207712 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207750 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207788 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207826 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207864 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207902 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
5207940 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
5207978 ATATGAGATATGTAAGACTATGGTTGAAAGATACCATGGCAACGTG
1 ---T--G---TGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
5208024 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ---TG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
5208067 ATGACAGAAA
Statistics
Matches: 909, Mismatches: 6, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
38 836 0.92
41 1 0.00
43 1 0.00
44 4 0.00
46 67 0.07
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:5208946 original size:6 final size:6
Alignment explanation
Indices: 5208937--5208961 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5208927 AAGATGGGGG
5208937 TGGAGA TGGAGA TGGAGA TGGAGA T
1 TGGAGA TGGAGA TGGAGA TGGAGA T
5208962 AAAAATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.48, T:0.20
Consensus pattern (6 bp):
TGGAGA
Found at i:5209453 original size:51 final size:51
Alignment explanation
Indices: 5209377--5209480 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
5209367 AAGAATATTT
5209377 TTTTAATTCCATCAGCACCTCAATGTTGCCCCAAAATGTGGACATGTTGTC
1 TTTTAATTCCATCAGCACCTCAATGTTGCCCCAAAATGTGGACATGTTGTC
*
5209428 TTTTAATTCCATCATCACCTCAATGTTGCCCCAAAATGTGGACATGTTGTC
1 TTTTAATTCCATCAGCACCTCAATGTTGCCCCAAAATGTGGACATGTTGTC
5209479 TT
1 TT
5209481 ACTATGTCCC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (51 bp):
TTTTAATTCCATCAGCACCTCAATGTTGCCCCAAAATGTGGACATGTTGTC
Found at i:5212327 original size:48 final size:46
Alignment explanation
Indices: 5212222--5212489 Score: 197
Period size: 48 Copynumber: 5.7 Consensus size: 46
5212212 GGTAACATGT
* * * *
5212222 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTTCGTA
1 GAGCCAGTGTAAGACCATGT-TTGGACATGGCATCGG-CACGTTACG-A
* *
5212271 -TGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATGTTACGA
1 GAGCCAGTGTAAGACCATGTTTGG-ACATGGCATCGGC-ACGTTACGA
* * *
5212318 GAGCTAGTGTAAGACCAT-CTTGGACATGGCATC-G-ACGTTGACTGT
1 GAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCACGTT-AC-GA
** **
5212363 GAGCCAGTGTAAGACCATG-TTGGACATGGCATCGGCCACCATATAA
1 GAGCCAGTGTAAGACCATGTTTGGACATGGCATCGG-CACGTTACGA
* * * * ** *
5212409 GAGCCAGTATAAGAACATG-TTGGACATGGCCTCGGCATTGAGATGA
1 GAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCA-CGTTACGA
* * *
5212455 AAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 GAGCCAGTGTAAGACCATGT-TTGGACATGGCATC
5212490 AGCAATTCAC
Statistics
Matches: 177, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.02
44 2 0.01
45 35 0.20
46 62 0.35
47 10 0.06
48 64 0.36
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTTTGGACATGGCATCGGCACGTTACGA
Found at i:5212380 original size:45 final size:45
Alignment explanation
Indices: 5212272--5212396 Score: 146
Period size: 45 Copynumber: 2.7 Consensus size: 45
5212262 CATTTCGTAT
* *
5212272 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATGTTACGAGA
1 GCCAGTGTAAGACCAT-CTTGG-ACATGGCATCGACTATG-TACGAGA
* *
5212320 GCTAGTGTAAGACCATCTTGGACATGGCATCGACGT-TG-ACTGTGA
1 GCCAGTGTAAGACCATCTTGGACATGGCATCGAC-TATGTAC-GAGA
*
5212365 GCCAGTGTAAGACCATGTTGGACATGGCATCG
1 GCCAGTGTAAGACCATCTTGGACATGGCATCG
5212397 GCCACCATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 2 0.03
45 33 0.48
46 14 0.20
47 5 0.07
48 15 0.22
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (45 bp):
GCCAGTGTAAGACCATCTTGGACATGGCATCGACTATGTACGAGA
Found at i:5212422 original size:91 final size:92
Alignment explanation
Indices: 5212272--5212489 Score: 240
Period size: 91 Copynumber: 2.3 Consensus size: 92
5212262 CATTTCGTAT
* *** * * * *
5212272 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATGTTACGAGAGCTAGTGTAAGACCATC
1 GCCAGTGTAAGACCATG-TTGG-ACATGGCATCGGCCACCATACAAGAGCCAGTATAAGAACATC
* * **
5212337 TTGGACATGGCATCGACGTTGA-CTGTGA
64 TTGGACATGGCATCGACATTGAGATGAAA
* *
5212365 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCACCATATAAGAGCCAGTATAAGAACATGTT
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCACCATACAAGAGCCAGTATAAGAACATCTT
* *
5212430 GGACATGGCCTCGGCATTGAGATGAAA
66 GGACATGGCATCGACATTGAGATGAAA
*
5212457 GCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 GCCAGTGTAAGACCATGT-T-GGACATGGCATC
5212490 AGCAATTCAC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
91 51 0.49
92 24 0.23
93 18 0.17
94 12 0.11
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCCACCATACAAGAGCCAGTATAAGAACATCTT
GGACATGGCATCGACATTGAGATGAAA
Found at i:5212468 original size:46 final size:46
Alignment explanation
Indices: 5212223--5212489 Score: 197
Period size: 46 Copynumber: 5.7 Consensus size: 46
5212213 GTAACATGTG
* * * *
5212223 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCA--CATTTCGTA
1 AGCCAGTGTAAGACCATGT-T-GGACATGGCATCGG-CATTGATAT-GAA
* * * *
5212271 TGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC-TATGTTACGAG
1 AGCCAGTGTAAGACCATG-TTGG-ACATGGCATCGGCAT-TGATATGAA
* * * * *
5212319 AGCTAGTGTAAGACCATCTTGGACATGGCATCGACGTTGACTGTG--
1 AGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGA-TATGAA
**
5212364 AGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCA-CCATAT-AA
1 AGCCAGTGTAAGACCATGTTGGACATGGCATCGG-CATTGATATGAA
* * * *
5212409 GAGCCAGTATAAGAACATGTTGGACATGGCCTCGGCATTGAGATGAA
1 -AGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATATGAA
*
5212456 AGCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGT-T-GGACATGGCATC
5212490 AGCAATTCAC
Statistics
Matches: 172, Mismatches: 32, Indels: 30
0.74 0.14 0.13
Matches are distributed among these distances:
44 2 0.01
45 34 0.20
46 65 0.38
47 13 0.08
48 56 0.33
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGATATGAA
Found at i:5212482 original size:139 final size:141
Alignment explanation
Indices: 5212219--5212489 Score: 349
Period size: 139 Copynumber: 1.9 Consensus size: 141
5212209 TAGGGTAACA
* ** *
5212219 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTTCGTATGCCAGTGTAAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGTATGCCAGTATAAGA
* ** * *
5212284 CCATGTTTGGAACATGGCATCGGCTATGTTACGAGAGCTAGTGTAAGACCATCTTGGACATGGCA
66 ACATGTTTGGAACATGGCATCGGCTATGAGACGAAAGCTAGTGTAAGACCATCTAGGACATGGCA
5212349 TCGACGTTGAC
131 TCGACGTTGAC
5212360 TGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCACCATATAAG-A-GCCAGTATAA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CAT-TAAGTATGCCAGTATAA
* *
5212421 GAACATG-TTGG-ACATGGCCTCGGC-ATTGAGATGAAAGCTAGTGTAAGACCATGTCTAGGACA
64 GAACATGTTTGGAACATGGCATCGGCTA-TGAGACGAAAGCTAGTGTAAGACCA--TCTAGGACA
5212483 TGGCATC
126 TGGCATC
5212490 AGCAATTCAC
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
136 1 0.01
137 33 0.29
138 4 0.04
139 46 0.40
140 5 0.04
141 25 0.22
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (141 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTAAGTATGCCAGTATAAGA
ACATGTTTGGAACATGGCATCGGCTATGAGACGAAAGCTAGTGTAAGACCATCTAGGACATGGCA
TCGACGTTGAC
Found at i:5215007 original size:67 final size:67
Alignment explanation
Indices: 5214935--5215065 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
5214925 TGCTAGAATG
* * *
5214935 ATTAAATAGCTTAAGAGTCTAATGAGCAAGGATTTAAAAGGAAATTAGACCCAAAATTTATTTGG
1 ATTAAATAGCTTAAGAGTCTAATAAGAAAGGATTTAAAAGGAAATTAAACCCAAAATTTATTTGG
5215000 GC
66 GC
* * *
5215002 ATTAAATAGCTTGAGTGTCTAATAAGAAAGGATTTAAAAGGCAATTAAACCCAAAATTTATTTG
1 ATTAAATAGCTTAAGAGTCTAATAAGAAAGGATTTAAAAGGAAATTAAACCCAAAATTTATTTG
5215066 CGCTGGACGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.30
Consensus pattern (67 bp):
ATTAAATAGCTTAAGAGTCTAATAAGAAAGGATTTAAAAGGAAATTAAACCCAAAATTTATTTGG
GC
Found at i:5216931 original size:85 final size:85
Alignment explanation
Indices: 5216776--5216940 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
5216766 TCACTTTCAT
* * * * * * *
5216776 CATAAGTAATACAATGTCAGAGATAATGTTAGAATCCAATTTCGGATAATCCCGTGACATACCTG
1 CATAAGTAAGACAATATCAGAGATAAAGTCAAAATCCAATTCCGGATAATCCCATGACATACCTG
* *
5216841 CAACAATACAAGTATTTTAC
66 AAACAACACAAGTATTTTAC
* * * * *
5216861 CATATGTAAGACAATATTAGAGATAAAGTCAAAATTCAATTCCGGATGATCCTATGACATACCTG
1 CATAAGTAAGACAATATCAGAGATAAAGTCAAAATCCAATTCCGGATAATCCCATGACATACCTG
5216926 AAACAACACAAGTAT
66 AAACAACACAAGTAT
5216941 GTAGAGCATC
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (85 bp):
CATAAGTAAGACAATATCAGAGATAAAGTCAAAATCCAATTCCGGATAATCCCATGACATACCTG
AAACAACACAAGTATTTTAC
Found at i:5219118 original size:20 final size:21
Alignment explanation
Indices: 5219089--5219127 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5219079 AGGGCGGAGA
5219089 TTTTTGTTTTTGT-TTTTGTT
1 TTTTTGTTTTTGTATTTTGTT
*
5219109 TTTTTTTTTTTGTATTTTG
1 TTTTTGTTTTTGTATTTTG
5219128 ATATTCTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.85
Consensus pattern (21 bp):
TTTTTGTTTTTGTATTTTGTT
Found at i:5240758 original size:40 final size:40
Alignment explanation
Indices: 5240714--5240827 Score: 185
Period size: 40 Copynumber: 2.9 Consensus size: 40
5240704 GACCATATCT
5240714 GGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
*
5240754 GGACTAAGATCCAAAGGCATTTGTGCGAGATACTAATTCC
1 GGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
* * *
5240794 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA
1 GGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
5240828 TAACCGGGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 23 0.33
40 46 0.67
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (40 bp):
GGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCC
Found at i:5240821 original size:39 final size:40
Alignment explanation
Indices: 5240717--5240855 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
5240707 CATATCTGGA
* *
5240717 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGA
1 CTAAGACCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* *
5240757 CTAAGATCCAAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* *
5240797 CTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGG
* *
5240836 CTATGTCCCGAAGGCATTTG
1 CTAAGACCCGAAGGCATTTG
5240856 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.02
39 31 0.34
40 57 0.63
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
Found at i:5242788 original size:48 final size:47
Alignment explanation
Indices: 5242707--5242890 Score: 208
Period size: 48 Copynumber: 3.9 Consensus size: 47
5242697 ATTTGGGTGG
* * *
5242707 TATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAAA
1 TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAGA
* ** *
5242754 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGA
1 -TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-TAGA
* * * *
5242803 TATGTGCGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTAGA
* *
5242851 CATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATC
1 TATGTGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATC
5242891 AGCAATTCAC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
47 3 0.03
48 109 0.95
49 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (47 bp):
TATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAGA
Found at i:5242871 original size:96 final size:96
Alignment explanation
Indices: 5242707--5242894 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
5242697 ATTTGGGTGG
* * *
5242707 TATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAAATTATGAGAGCTAGTGTAA
1 TATGTGCGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCTAAATCATGAGAGCTAGTGTAA
*
5242772 GACCATGTCTAGG-ACATGGCATTAGCATTGA
66 GACCATGT-TAGGAACATGGCATCAGCATTGA
* * ** *
5242803 TATGTGCGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGA-CATGTGAGCTAGTGTA
1 TATGTGCGCCAGTGTAAGACCATATCTAGGACATGGCATCGG-CTAAATCATGAGAGCTAGTGTA
*
5242867 AGACCATGTTTGGAACATGGCATCAGCA
65 AGACCATGTTAGGAACATGGCATCAGCA
5242895 ATTCACCCTC
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 3 0.04
96 74 0.93
97 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
TATGTGCGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCTAAATCATGAGAGCTAGTGTAA
GACCATGTTAGGAACATGGCATCAGCATTGA
Found at i:5244128 original size:21 final size:21
Alignment explanation
Indices: 5244074--5244128 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
5244064 GTTAAGAAGA
* *
5244074 CACACGGGCGTATCGACCTTT
1 CACACGGGCGTGTCGACCTTC
* *
5244095 CACACGGGTGTGTCGCCCTTC
1 CACACGGGCGTGTCGACCTTC
*
5244116 CACAAGGGCGTGT
1 CACACGGGCGTGT
5244129 GCTCCTGTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.33, G:0.29, T:0.22
Consensus pattern (21 bp):
CACACGGGCGTGTCGACCTTC
Found at i:5244879 original size:196 final size:197
Alignment explanation
Indices: 5244562--5244946 Score: 718
Period size: 196 Copynumber: 2.0 Consensus size: 197
5244552 CCTCAAAACC
* *
5244562 CTTTAATTGATTGTGGAGTTTGCCAAAAAATCACACTTTTCACTTTAGATTTGTCCATGGCCATA
1 CTTTAACTGATTGTGGAGTTTGCCAAAAAATCACACTTTTCACTTTAGATTGGTCCATGGCCATA
5244627 GTTCCTTGGGAAATTACATGACCAAGGTACTTAGTTCGAGGGGAACCAAATTGGCATTTACTCTG
66 GTTCCTTGGGAAATTACATGACCAAGGTACTTAGTTCGAGGGGAACCAAATTGGCATTTACTCTG
5244692 AGATGCAGCAAATGATCGAACCAAGACATGGAGTAAACAAAAATGTCATCAAA-AAAATTCAAAG
131 AGATGCAGCAAATGATCGAACCAAGACATGGAGTAAACAAAAATGTCATCAAAGAAAATTCAAAG
5244756 CT
196 CT
5244758 CTTTAACTGATTGTGGAGTTTGCCAAAAAATCACACTTTTCACTTTAGATTGGTCCATGGCCATA
1 CTTTAACTGATTGTGGAGTTTGCCAAAAAATCACACTTTTCACTTTAGATTGGTCCATGGCCATA
5244823 GTTCCTTGGGAAATTACATGACCAAGGTACTTAGTTCGAGGGGAACCAAATTGGCATTTACTCTG
66 GTTCCTTGGGAAATTACATGACCAAGGTACTTAGTTCGAGGGGAACCAAATTGGCATTTACTCTG
* * *
5244888 AGATGCAGCAAATGATCTAACCAATACATGGAGTGAACAAAAATGTCATCAAAGAAAAT
131 AGATGCAGCAAATGATCGAACCAAGACATGGAGTAAACAAAAATGTCATCAAAGAAAAT
5244947 CGGCACAGAC
Statistics
Matches: 183, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
196 178 0.97
197 5 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (197 bp):
CTTTAACTGATTGTGGAGTTTGCCAAAAAATCACACTTTTCACTTTAGATTGGTCCATGGCCATA
GTTCCTTGGGAAATTACATGACCAAGGTACTTAGTTCGAGGGGAACCAAATTGGCATTTACTCTG
AGATGCAGCAAATGATCGAACCAAGACATGGAGTAAACAAAAATGTCATCAAAGAAAATTCAAAG
CT
Found at i:5247515 original size:19 final size:18
Alignment explanation
Indices: 5247491--5247534 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
5247481 AATATGAATA
5247491 AAATTTATCTACCAAAAT
1 AAATTTATCTACCAAAAT
*
5247509 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCAAAAT
5247528 AAATTTA
1 AAATTTA
5247535 ATATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATTTATCTACCAAAAT
Done.