Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 125 of 444
Found at i:32480225 original size:15 final size:15
Alignment explanation
Indices: 32480205--32480235 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32480195 CTGAGGCTCC
32480205 CTTTAATTGATCAAA
1 CTTTAATTGATCAAA
32480220 CTTTAATTGATCAAA
1 CTTTAATTGATCAAA
32480235 C
1 C
32480236 CAATCGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (15 bp):
CTTTAATTGATCAAA
Found at i:32483639 original size:29 final size:27
Alignment explanation
Indices: 32483605--32483707 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
32483595 TACTCGATCA
*
32483605 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
32483634 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
32483663 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
32483692 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
32483708 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:32485046 original size:16 final size:18
Alignment explanation
Indices: 32485013--32485049 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32485003 TCCACACACA
32485013 TTTTTTTTCATCATTTTCT
1 TTTTTTTTCA-CATTTTCT
32485032 TTTTTTTTC-CA-TTTCT
1 TTTTTTTTCACATTTTCT
32485048 TT
1 TT
32485050 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
19 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTTTCACATTTTCT
Found at i:32485931 original size:18 final size:17
Alignment explanation
Indices: 32485910--32485944 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
32485900 TTTTTTAAAT
32485910 TTTTTTGAATTTTCTTTA
1 TTTTTTGAATTTT-TTTA
32485928 TTTTTTGAATTTTTTTA
1 TTTTTTGAATTTTTTTA
32485945 AAGACATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTTTTGAATTTTTTTA
Found at i:32488775 original size:5 final size:6
Alignment explanation
Indices: 32488741--32488788 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
32488731 AAGAGTCAAA
* * *
32488741 AAAAAG AAAAATT AAAAAT TAAACT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
32488789 GGACTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:32494436 original size:2 final size:2
Alignment explanation
Indices: 32494429--32494485 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
32494419 CCGTTGTTTT
*
32494429 CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32494471 CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA C
32494486 TCTCTCTCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32494492 original size:4 final size:4
Alignment explanation
Indices: 32494485--32494900 Score: 457
Period size: 4 Copynumber: 105.5 Consensus size: 4
32494475 CACACACACA
*
32494485 CTCT CTCT CTCT CTCT CTCT CTC- CTCT CTCT CCCT CTCT CTCT CTC-
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * *
32494531 CTCT CTCT CTCA CTC- CTCT CTCC CTC- CTCT CTCC CTCC CTCT CTCC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * *
32494577 CTCT CTCC CTCT CCCT CCCT CTCT CCCT CCCT CTCT CCCT CTTT CTCC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
32494625 CTCT CTCC CCCT CTCT CCCT CTCT CCCC CTCT CCCC CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * *
32494673 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CCCT CTCT CCCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
32494721 CCCT CCCT CTCT CCCT CTCT CCCT CCCT CTCT CCCT CTCT CCCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * *
32494769 CT-T C-CT CTCT CTCC CTCT CTCC CTCT CTCT CCCT CTCT CCCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* *
32494815 CTCT CTCT CCCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
32494863 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT
32494901 AATTTAATTT
Statistics
Matches: 348, Mismatches: 58, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
3 16 0.05
4 332 0.95
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (4 bp):
CTCT
Found at i:32494548 original size:28 final size:28
Alignment explanation
Indices: 32494485--32494900 Score: 404
Period size: 26 Copynumber: 15.7 Consensus size: 28
32494475 CACACACACA
32494485 CTCTCTCT-CTCTCTCTCTCT-CTC-CT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
32494510 CTCTCTC-CCTCTCTCTCTCTCCTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
*
32494537 CTCTCACTCCTCTCTC-C-CTCCTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
* *
32494563 C-C-CTC-CCTCTCTCCCTCT-CTCCCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
* *
32494587 CTCCCTC-CCTCTCTCCCTC-CCTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
* *
32494613 CCCTCTTTCTCC-CTCTCTC-CCCCTCTCT
1 --CTCTCTCTCCTCTCTCTCTCTCCTCTCT
* * *
32494641 CCCTCTCTCC-CCCTCTC-CCCCTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
32494667 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCT
1 CTCTCTCTC-CTCTCTCTCTCTC-CTCTCT
* *
32494697 CTCTCTCTCC-CTCTCTCCCTCCCTCCCT
1 CTCTCTCTCCTCTCTCTCTCT-CCTCTCT
* *
32494725 CCCTCTCTCC-CTCTCTCCCTCCCTCTCT
1 CTCTCTCTCCTCTCTCTCTCT-CCTCTCT
*
32494753 CCCTCTCTCC-CTCTCTCT-TCCTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
* *
32494779 CTCCCTCT-CTCCCTCTCTCTCC-CTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
*
32494805 CTCCCTCT-CTCTCTCTCTC-CCTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
32494831 CTCTCTCT-CTCTCTCTCTCT-CTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
*
32494857 CCCTCTCT-CTCTCTCTCTCT-CTCTCT
1 CTCTCTCTCCTCTCTCTCTCTCCTCTCT
32494883 CTCTCTCT-CTCTCTCTCT
1 CTCTCTCTCCTCTCTCTCT
32494901 AATTTAATTT
Statistics
Matches: 344, Mismatches: 25, Indels: 43
0.83 0.06 0.10
Matches are distributed among these distances:
23 8 0.02
24 9 0.03
25 26 0.08
26 176 0.51
27 15 0.04
28 89 0.26
29 6 0.02
30 15 0.04
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (28 bp):
CTCTCTCTCCTCTCTCTCTCTCCTCTCT
Found at i:32497761 original size:69 final size:69
Alignment explanation
Indices: 32497602--32497804 Score: 252
Period size: 68 Copynumber: 3.0 Consensus size: 69
32497592 TGTTTGAAAT
* * * *
32497602 TTGACAATTTTATTGTTAAAATGGCTATTG-TCTGATGGTGTGTGAGAGGCATTTAAACT-ACCA
1 TTGACAATTTTATTGTTAAAATGGCTGTTGTTC-GATGGTGTGTGAAAAGCATTTAAACTGTCCA
*
32497665 AATTG
65 AATTA
* * * *
32497670 TTGACAGTTTTATTGTTAAAATGGTTGTTGTTCGGTGGTGTGTGAAACGCATTTAAACTGTCCAA
1 TTGACAATTTTATTGTTAAAATGGCTGTTGTTCGATGGTGTGTGAAAAGCATTTAAACTGTCCAA
*
32497735 TTTA
66 ATTA
* * *
32497739 TTGACAATTTTATTGCTAAAATGACTGATGTTCGAT-G-GTGTGAAAAGCATTTAAACTGTCCAA
1 TTGACAATTTTATTGTTAAAATGGCTGTTGTTCGATGGTGTGTGAAAAGCATTTAAACTGTCCAA
32497802 ATT
66 ATT
32497805 GATAATGAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
67 27 0.23
68 51 0.44
69 38 0.33
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (69 bp):
TTGACAATTTTATTGTTAAAATGGCTGTTGTTCGATGGTGTGTGAAAAGCATTTAAACTGTCCAA
ATTA
Found at i:32503314 original size:16 final size:17
Alignment explanation
Indices: 32503291--32503339 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
32503281 CGGAGCAATA
32503291 GATGATGGCAGGTTGTG
1 GATGATGGCAGGTTGTG
32503308 G-TGATGGCCAGGGTTGTG
1 GATGATGG-CA-GGTTGTG
*
32503326 GATGA-GGCAAGTTG
1 GATGATGGCAGGTTG
32503340 GTTTGGTACG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 10 0.36
17 5 0.18
18 10 0.36
19 3 0.11
ACGTcount: A:0.18, C:0.08, G:0.47, T:0.27
Consensus pattern (17 bp):
GATGATGGCAGGTTGTG
Found at i:32509928 original size:108 final size:108
Alignment explanation
Indices: 32509761--32509973 Score: 345
Period size: 108 Copynumber: 2.0 Consensus size: 108
32509751 ACTAAAATCT
* *
32509761 CACATTCTCCCACTTGACCCAATGAGATAAAATGTAAAATTTAATGAAATAAACATTGAGCGTGA
1 CACATTCTCCCACTTGACCCAATAAGATAAAATGTAAAATTTAATGAAATAAACATTGAGCGCGA
32509826 ATAAAAATAACACTCATCATAATTACAAAATTATAGTGAACTA
66 ATAAAAATAACACTCATCATAATTACAAAATTATAGTGAACTA
* * * *
32509869 CACATTCTCCCACTTGACCCAATAAGGTAAAATGTAAATTTTAATGAAATAAACGTTGAGCGCGC
1 CACATTCTCCCACTTGACCCAATAAGATAAAATGTAAAATTTAATGAAATAAACATTGAGCGCGA
* * *
32509934 ATAAAATTAATACTCATTATAATTACAAAATTATAGTGAA
66 ATAAAAATAACACTCATCATAATTACAAAATTATAGTGAA
32509974 TTGCAAATGT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 96 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (108 bp):
CACATTCTCCCACTTGACCCAATAAGATAAAATGTAAAATTTAATGAAATAAACATTGAGCGCGA
ATAAAAATAACACTCATCATAATTACAAAATTATAGTGAACTA
Found at i:32514311 original size:21 final size:20
Alignment explanation
Indices: 32514264--32514311 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
32514254 GCATTAGGAT
*
32514264 TAATT-AATTATGATTAAAG
1 TAATTAAATTATGATTAAAC
32514283 TAAGTTAAATTATGATTTAAAC
1 TAA-TTAAATTATGA-TTAAAC
32514305 TAATTAA
1 TAATTAA
32514312 TTAGGTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 12 0.48
22 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (20 bp):
TAATTAAATTATGATTAAAC
Found at i:32515926 original size:6 final size:6
Alignment explanation
Indices: 32515907--32515940 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
32515897 GGATTTTAAG
*
32515907 TTTCCA TTTTCA TTTCCA TTTCCA TTTCCA TTTC
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTC
32515941 TATATTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:32522574 original size:12 final size:12
Alignment explanation
Indices: 32522557--32522587 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32522547 CTCCAGTTTC
32522557 CACACGGCCTAG
1 CACACGGCCTAG
*
32522569 CACACGGCCTGG
1 CACACGGCCTAG
32522581 CACACGG
1 CACACGG
32522588 GTGTGTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:32525990 original size:40 final size:40
Alignment explanation
Indices: 32525945--32526074 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
32525935 CGGAATACAA
32525945 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
32525985 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
32526025 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
32526065 CCGGATATAA
1 CCGGATATAA
32526075 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:32526089 original size:40 final size:40
Alignment explanation
Indices: 32525945--32526108 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
32525935 CGGAATACAA
* **
32525945 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
32525985 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
32526025 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * * *
32526065 CCGGATATAATTTCCAGCATAATTGTCTTTGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
32526105 CCGG
1 CCGG
32526109 GTATCATTCA
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.98
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:32530090 original size:20 final size:21
Alignment explanation
Indices: 32530052--32530090 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32530042 ACATTCCATT
*
32530052 TGGTTCTAAGTTCAAATTCCG
1 TGGTCCTAAGTTCAAATTCCG
32530073 TGGTCCTAAGTT-AAATTC
1 TGGTCCTAAGTTCAAATTC
32530091 TAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (21 bp):
TGGTCCTAAGTTCAAATTCCG
Found at i:32535584 original size:8 final size:8
Alignment explanation
Indices: 32535571--32535605 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
32535561 TCTCCCCATT
*
32535571 CTTTTTGC
1 CTTTTTCC
32535579 CTTTTTCC
1 CTTTTTCC
32535587 CTTTTTCC
1 CTTTTTCC
32535595 CTTTTTCC
1 CTTTTTCC
32535603 CTT
1 CTT
32535606 GCATAGTCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (8 bp):
CTTTTTCC
Found at i:32538562 original size:40 final size:39
Alignment explanation
Indices: 32538518--32538630 Score: 122
Period size: 39 Copynumber: 2.8 Consensus size: 39
32538508 AAGTGACTAT
*
32538518 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGGCTA-GATCCGAAGGCATTCGTGCGAGTTAATAA
* * * *
32538558 ATCCGGGCT-GAGCCTGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGGCTAGATCC-GAAGGCATTCGTGCGAGTTAATAA
*
32538597 ACCCGGGCTA-AGTCCCGAAGGCATTCGTGCGAGT
1 ATCCGGGCTAGA-T-CCGAAGGCATTCGTGCGAGT
32538631 CACTATAACC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
38 4 0.07
39 30 0.50
40 24 0.40
41 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:32538643 original size:40 final size:40
Alignment explanation
Indices: 32538483--32538671 Score: 152
Period size: 40 Copynumber: 4.8 Consensus size: 40
32538473 ATGATGTTCA
* * * * *
32538483 GGCTAAGTCCCGAAGGC-TTTGTCCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAACCCG
* * * * * *
32538523 GACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAACCCG
* * * *
32538563 GGCTGAG-CCTGAAGGCATTTGTGCAAGTTACTAAACCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAACCCG
*
32538602 GGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AACCCG
** *
32538642 GGCTTCGTCCCGAAGGCATTTGAGCGAGTC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTC
32538672 GTTATATCCG
Statistics
Matches: 119, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
39 32 0.27
40 79 0.66
41 8 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAACCCG
Found at i:32552003 original size:40 final size:40
Alignment explanation
Indices: 32551944--32552085 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
32551934 AAATTGAATG
* * *
32551944 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
32551984 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
32552024 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
32552064 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
32552086 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:32552109 original size:40 final size:40
Alignment explanation
Indices: 32551982--32552111 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
32551972 ATGCTGGAAA
* * *
32551982 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
32552022 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
32552062 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
32552102 TTATATCCGG
1 TTATATCCGG
32552112 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:32555207 original size:53 final size:53
Alignment explanation
Indices: 32555025--32555278 Score: 261
Period size: 53 Copynumber: 4.8 Consensus size: 53
32555015 ATTAGGGTTT
* * * *
32555025 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAAGCTTCTAAGGC
* * *
32555079 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAG-TTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGCTT-C--TAAGGC
* * * *
32555134 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGCTTC-TAAGGC
* *
32555187 AAGGATACCATGCAAGACCATGTCAAGACATGGCAATGGTAAGCTT-TAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGCTTCTAAGGC
* * *
32555236 AAGGATACCATGCAAGACCATGTCAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
32555279 GTACCAATGT
Statistics
Matches: 174, Mismatches: 20, Indels: 17
0.82 0.09 0.08
Matches are distributed among these distances:
49 42 0.24
52 9 0.05
53 48 0.28
54 32 0.18
55 39 0.22
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGCTTCTAAGGC
Found at i:32563515 original size:52 final size:52
Alignment explanation
Indices: 32563437--32563542 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
32563427 TTTTTTAATG
32563437 CAATTTGAGATCCATGATTATAGCTCTCACACTCGTCAAATGGTAATTTATT
1 CAATTTGAGATCCATGATTATAGCTCTCACACTCGTCAAATGGTAATTTATT
*
32563489 CAATTTGAGATCCATGATTATAGCTCTCACGCTCGTCAAATGGTAATTTATT
1 CAATTTGAGATCCATGATTATAGCTCTCACACTCGTCAAATGGTAATTTATT
32563541 CA
1 CA
32563543 TTTATTTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (52 bp):
CAATTTGAGATCCATGATTATAGCTCTCACACTCGTCAAATGGTAATTTATT
Found at i:32563853 original size:21 final size:21
Alignment explanation
Indices: 32563827--32563868 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32563817 TTGAAAAGCA
32563827 AAAGAAAATGATGATAATGAT
1 AAAGAAAATGATGATAATGAT
*
32563848 AAAGAAAATGATGATGATGAT
1 AAAGAAAATGATGATAATGAT
32563869 GATAGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (21 bp):
AAAGAAAATGATGATAATGAT
Found at i:32564599 original size:43 final size:43
Alignment explanation
Indices: 32564551--32564638 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
32564541 TCATACTTTC
32564551 ATATAGATTATATTTATGTTTTATATTTTTATATATTTGAAAT
1 ATATAGATTATATTTATGTTTTATATTTTTATATATTTGAAAT
32564594 ATATAGATTATATTTATGTTTTATATTTTTATATATTTGAAAT
1 ATATAGATTATATTTATGTTTTATATTTTTATATATTTGAAAT
32564637 AT
1 AT
32564639 TTTAGAAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (43 bp):
ATATAGATTATATTTATGTTTTATATTTTTATATATTTGAAAT
Found at i:32572734 original size:2 final size:2
Alignment explanation
Indices: 32572729--32572755 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32572719 TATATATATA
32572729 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
32572756 ATTTTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:32583515 original size:3 final size:3
Alignment explanation
Indices: 32583455--32583497 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
32583445 TATATTAAAC
*
32583455 TAT TAT TAT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
32583498 TAATAGGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:32588718 original size:286 final size:287
Alignment explanation
Indices: 32588150--32588718 Score: 874
Period size: 286 Copynumber: 2.0 Consensus size: 287
32588140 TTTCTATCAA
*
32588150 CCATTTTATTAATAATATCCAAATTTGCATAAAATAATATGAGTAATATATTTTGACAAGCTATT
1 CCATTTTATTAATAATATCCAAAATTGCATAAAATAATATGAGTAATATATTTTGACAAGCTATT
*
32588215 TACAATAAATTCGATGTTGCAAAATGTTCAATTTAGCTGTGAGAAATGTGTCATTCAAACACGGA
66 TACAATAAATTCAATGTTGCAAAATGTTCAATTTAGCTGTGAGAAATGTGTCATTCAAACACGGA
* *
32588280 ACCAAAAAATACATATCTAAACACATTTCTTTGGAAACACAAATACTATATAAAAATGACGATGC
131 ACCAAAAAATACATATCTAAACACATTTCTTTGAAAACACAAATACTACATAAAAATGACGATGC
*
32588345 AACACGTTTTAACAGTGTTTTTGTTTTCCTAATTTTAATATAAAACTTGCGTCAAGTTCGATGTG
196 AACACATTTTAACAGTGTTTTTGTTTTCCTAATTTTAATATAAAACTTGCGTCAAGTTCGATGTG
*** *
32588410 AAAAACTTTGATTTTGGATACTTCGGT
261 AAAAACTCCAATTTCGGATACTTCGGT
* * *
32588437 CCATTTTATTTATAATATCCAAAATTGTATAAAATAATATGAGTAATATATTTTGACAAGTTATT
1 CCATTTTATTAATAATATCCAAAATTGCATAAAATAATATGAGTAATATATTTTGACAAGCTATT
* * * *
32588502 TATAATAAATTCAATGTTGCAAAATTTTCAATTTAGCTTTGAGAAATGTGTCATTCAAACATGGA
66 TACAATAAATTCAATGTTGCAAAATGTTCAATTTAGCTGTGAGAAATGTGTCATTCAAACACGGA
* * *
32588567 A-TAAAAAATATATATCTAAACACA-TTCATTTGAAAACACAAATACTACATAAATATGACGATG
131 ACCAAAAAATACATATCTAAACACATTTC-TTTGAAAACACAAATACTACATAAAAATGACGATG
* * * * *
32588630 CAATACATTTTAACTGTGTTTTTGTTTTCCTCATTTTAATGTAAAGCTTGCGTCAAGTTC-ACTG
195 CAACACATTTTAACAGTGTTTTTGTTTTCCTAATTTTAATATAAAACTTGCGTCAAGTTCGA-TG
*
32588694 TTAAAAACTCCAATTTCGGATACTT
259 TGAAAAACTCCAATTTCGGATACTT
32588719 GTAGGTGAAT
Statistics
Matches: 255, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
285 4 0.02
286 129 0.51
287 122 0.48
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (287 bp):
CCATTTTATTAATAATATCCAAAATTGCATAAAATAATATGAGTAATATATTTTGACAAGCTATT
TACAATAAATTCAATGTTGCAAAATGTTCAATTTAGCTGTGAGAAATGTGTCATTCAAACACGGA
ACCAAAAAATACATATCTAAACACATTTCTTTGAAAACACAAATACTACATAAAAATGACGATGC
AACACATTTTAACAGTGTTTTTGTTTTCCTAATTTTAATATAAAACTTGCGTCAAGTTCGATGTG
AAAAACTCCAATTTCGGATACTTCGGT
Found at i:32593432 original size:39 final size:39
Alignment explanation
Indices: 32593387--32593465 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
32593377 ACTAACCATA
32593387 ATAGAATAATGGTTTAATTTCCATTTTAAACCATAGGCT
1 ATAGAATAATGGTTTAATTTCCATTTTAAACCATAGGCT
32593426 ATAGAATAATGGTTTAATTTCCATTTTAAACCATAGGCT
1 ATAGAATAATGGTTTAATTTCCATTTTAAACCATAGGCT
32593465 A
1 A
32593466 ATTGCAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (39 bp):
ATAGAATAATGGTTTAATTTCCATTTTAAACCATAGGCT
Found at i:32596765 original size:27 final size:27
Alignment explanation
Indices: 32596735--32596852 Score: 137
Period size: 27 Copynumber: 4.4 Consensus size: 27
32596725 GATAACTAGT
* *
32596735 ATAGTCTGTCGAGATAGTAAACATGGG
1 ATAGTCCGTCGGGATAGTAAACATGGG
*
32596762 ATAGTCCGTTGGGATAGTAAACATGGG
1 ATAGTCCGTCGGGATAGTAAACATGGG
* * * *
32596789 ATAGTCCGTTGGAATGGTAAACATTGG
1 ATAGTCCGTCGGGATAGTAAACATGGG
* * *
32596816 ATAATCCGTCGGGACAATAAACATGGG
1 ATAGTCCGTCGGGATAGTAAACATGGG
*
32596843 GTAGTCCGTC
1 ATAGTCCGTC
32596853 AGGACAGTGA
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (27 bp):
ATAGTCCGTCGGGATAGTAAACATGGG
Found at i:32596766 original size:14 final size:14
Alignment explanation
Indices: 32596747--32596793 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
32596737 AGTCTGTCGA
32596747 GATAGTAAACATGG
1 GATAGTAAACATGG
* *
32596761 GATAGT--CCGTTGG
1 GATAGTAAAC-ATGG
32596774 GATAGTAAACATGG
1 GATAGTAAACATGG
32596788 GATAGT
1 GATAGT
32596794 CCGTTGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 1 0.04
13 9 0.35
14 15 0.58
15 1 0.04
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (14 bp):
GATAGTAAACATGG
Found at i:32596892 original size:27 final size:27
Alignment explanation
Indices: 32596820--32596893 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
32596810 CATTGGATAA
* **
32596820 TCCGTCGGGACAATAAACATGGGGTAG
1 TCCGCCGGGACAATAAACACAGGGTAG
* * * *
32596847 TCCGTCAGGACAGTGAACACAGGGTAG
1 TCCGCCGGGACAATAAACACAGGGTAG
**
32596874 TTTGCCGGGACAATAAACAC
1 TCCGCCGGGACAATAAACAC
32596894 GAGGTAGCCA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.18
Consensus pattern (27 bp):
TCCGCCGGGACAATAAACACAGGGTAG
Found at i:32617906 original size:17 final size:17
Alignment explanation
Indices: 32617880--32617921 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
32617870 TAGGTAGCAA
*
32617880 AAGAAAAAGAAGAGAAG
1 AAGAAGAAGAAGAGAAG
*
32617897 AAGAAGAAGAAGAGGAG
1 AAGAAGAAGAAGAGAAG
*
32617914 GAGAAGAA
1 AAGAAGAA
32617922 ATGGAGATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAGAGAAG
Found at i:32618575 original size:5 final size:6
Alignment explanation
Indices: 32618545--32618573 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
32618535 GGGGGGGGTT
32618545 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
32618574 GATAAGGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:32622991 original size:3 final size:3
Alignment explanation
Indices: 32622929--32622980 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
32622919 AATATAATGG
32622929 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32622977 TAA T
1 TAA T
32622981 TTGGATAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32631425 original size:63 final size:63
Alignment explanation
Indices: 32631352--32631477 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
32631342 CAACTATTTG
*
32631352 TAAGTATTTAAAATTATGCTAATGTTGAAGGTATAACATTAGTTCAAAATTAAGAATGAAAAT
1 TAAGTATTTAAAATTATGCTAATCTTGAAGGTATAACATTAGTTCAAAATTAAGAATGAAAAT
*
32631415 TAAGTATTTAAAATTATGCTAATCTTGAAGGTATAACATTAGTTCAAAATTAGGAATGAAAAT
1 TAAGTATTTAAAATTATGCTAATCTTGAAGGTATAACATTAGTTCAAAATTAAGAATGAAAAT
32631478 GAACCTTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (63 bp):
TAAGTATTTAAAATTATGCTAATCTTGAAGGTATAACATTAGTTCAAAATTAAGAATGAAAAT
Found at i:32633852 original size:22 final size:22
Alignment explanation
Indices: 32633824--32633898 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
32633814 TTTTAGTATC
* *
32633824 ATTTTTATTTTTTTTAATATTT
1 ATTTTTATGTTTTTAAATATTT
32633846 ATTTTTATGTTTTTAAATATATTT
1 ATTTTTATGTTTTT-AA-ATATTT
* *
32633870 GATTTATTATATTTTTAAATTTTTT
1 -ATTT-TTATGTTTTTAAA-TATTT
32633895 ATTT
1 ATTT
32633899 AATAAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 13 0.30
23 1 0.02
24 11 0.25
25 10 0.23
26 9 0.20
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (22 bp):
ATTTTTATGTTTTTAAATATTT
Found at i:32633886 original size:26 final size:24
Alignment explanation
Indices: 32633824--32633898 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 24
32633814 TTTTAGTATC
**
32633824 ATTTTTAT-TTTTTTTA-ATATTT
1 ATTTTTATATTTTTAAATATATTT
*
32633846 ATTTTTATGTTTTTAAATATATTT
1 ATTTTTATATTTTTAAATATATTT
*
32633870 GATTTATTATATTTTTAAAT-TTTTT
1 -ATTT-TTATATTTTTAAATATATTT
32633895 ATTT
1 ATTT
32633899 AATAAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.18
23 6 0.13
24 10 0.22
25 8 0.18
26 13 0.29
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (24 bp):
ATTTTTATATTTTTAAATATATTT
Found at i:32636827 original size:18 final size:18
Alignment explanation
Indices: 32636804--32636846 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32636794 AAATAAGTTT
32636804 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
32636822 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
32636840 TTAATTA
1 TTAATTA
32636847 CATCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:32637092 original size:18 final size:18
Alignment explanation
Indices: 32637049--32637094 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
32637039 CAAGGTCACG
*
32637049 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
32637067 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
32637085 ATCAATATCG
1 ATCAATATCG
32637095 ATATCATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:32639622 original size:11 final size:12
Alignment explanation
Indices: 32639606--32639635 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
32639596 AATTTTAACC
32639606 TGTTTGAAAA-A
1 TGTTTGAAAATA
32639617 TGTTTGAAAATA
1 TGTTTGAAAATA
32639629 TGTTTGA
1 TGTTTGA
32639636 CTAACTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (12 bp):
TGTTTGAAAATA
Found at i:32650677 original size:103 final size:103
Alignment explanation
Indices: 32650555--32650762 Score: 416
Period size: 103 Copynumber: 2.0 Consensus size: 103
32650545 TCATCTCGTC
32650555 TATCGATGTAAATGTAGCTAGACCGTTAGATTTAGGAGAGCTCAATTATAAATAGAGAGCCTCCC
1 TATCGATGTAAATGTAGCTAGACCGTTAGATTTAGGAGAGCTCAATTATAAATAGAGAGCCTCCC
32650620 TCTTAATTGTAAATCATCCATTGTATTCCATTATTTAG
66 TCTTAATTGTAAATCATCCATTGTATTCCATTATTTAG
32650658 TATCGATGTAAATGTAGCTAGACCGTTAGATTTAGGAGAGCTCAATTATAAATAGAGAGCCTCCC
1 TATCGATGTAAATGTAGCTAGACCGTTAGATTTAGGAGAGCTCAATTATAAATAGAGAGCCTCCC
32650723 TCTTAATTGTAAATCATCCATTGTATTCCATTATTTAG
66 TCTTAATTGTAAATCATCCATTGTATTCCATTATTTAG
32650761 TA
1 TA
32650763 GAGAATAATA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (103 bp):
TATCGATGTAAATGTAGCTAGACCGTTAGATTTAGGAGAGCTCAATTATAAATAGAGAGCCTCCC
TCTTAATTGTAAATCATCCATTGTATTCCATTATTTAG
Found at i:32652031 original size:12 final size:12
Alignment explanation
Indices: 32652014--32652044 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32652004 GTCCGATGAA
32652014 GATAATGACAAT
1 GATAATGACAAT
32652026 GATAATGACAAT
1 GATAATGACAAT
*
32652038 GACAATG
1 GATAATG
32652045 GTGGTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (12 bp):
GATAATGACAAT
Found at i:32657009 original size:19 final size:19
Alignment explanation
Indices: 32656985--32657030 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
32656975 CTTCCTTTAT
*
32656985 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
32657004 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
32657023 TTTGCATT
1 TTTGCATT
32657031 AGACTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:32661481 original size:64 final size:64
Alignment explanation
Indices: 32661380--32661503 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
32661370 GACATTTCTA
* **
32661380 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATCCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* *
32661444 CACATTTAGTTAGGAGCATTTGATCCATTTCAATCATAGCATCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATCCATTTCAATCATAGCATCCTAATTATTTGACATAA
32661504 TCATAGATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATCCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:32661814 original size:43 final size:42
Alignment explanation
Indices: 32661670--32662259 Score: 272
Period size: 43 Copynumber: 13.6 Consensus size: 42
32661660 AAGGGCCTTA
* * *
32661670 AACCCCTAAGTAGTAGGGTAACAGGCTAAATTTATAGATCTT
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
* * * * ** *
32661712 GTATCCCTAAGCAGT-GGTGGAACA-GATCGAGGGTTA-AGAGCCTT
1 -AACCCCTAAGCAGTAGG-GTAACAGGCT-GA-ATTTACAGA-TCTT
*
32661756 AAACCCCTAAGCAGTAAGGTAACAGGCTGAATTTACAGATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
* * * *
32661799 AACCCCTTAAGCAGTAGGGAAACA-GATCGAAGATGA-AGATCTT
1 AACCCC-TAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTT
* * * * * * **
32661842 AACCCCCTAAGCAATAGGGAAACA-GATCGAAGATGA-TGGGCTTT
1 AA-CCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATC-TT
* * * *
32661886 AACCCCCTAAGTAGTAGGGTAACAAG-TCAAATTTACA-AGCCTT
1 AA-CCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAGA-TCTT
*
32661929 AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATTTT
1 AACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTT
* ** * * * * *
32661973 AACCCCTTAAGCAGTAGGGAAACAGATTAAAGATGATAG-GCTTT
1 AACCCC-TAAGCAGTAGGGTAACAGGCTGAA-TTTACAGATC-TT
* * * * *
32662017 AAACCCCTAAACAGTAGGGTAACAAGCCGAATTTACAAACCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
* *
32662060 AAACCCCTAAGCAGTAGGGTAACAGGCTAAAGATTTACAAATCTT
1 -AACCCCTAAGCAGTAGGGTAACAGGCT-GA-ATTTACAGATCTT
*
32662105 AACCCCCTAA-CTAGTAGGGTAACAGGTTGAATTTACAGATCTT
1 AA-CCCCTAAGC-AGTAGGGTAACAGGCTGAATTTACAGATCTT
* * ** * ** **
32662148 ATCACCCTAAGCAGTAGTGG-AGCA-AATCAA-AGACGAAGGGCCTT
1 AAC-CCCTAAGCAGTAG-GGTAACAGGCTGAATTTAC--A-GATCTT
*
32662192 AACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATCTT
1 AA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
* *
32662235 AACCCCCTAAGTAGTAGGGAAACAG
1 AA-CCCCTAAGCAGTAGGGTAACAG
32662260 ATCGAAGATG
Statistics
Matches: 418, Mismatches: 91, Indels: 76
0.71 0.16 0.13
Matches are distributed among these distances:
41 2 0.00
42 37 0.09
43 179 0.43
44 132 0.32
45 67 0.16
46 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (42 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT
Found at i:32662307 original size:87 final size:87
Alignment explanation
Indices: 32661577--32662307 Score: 576
Period size: 87 Copynumber: 8.4 Consensus size: 87
32661567 TGAATTCAAA
* * * * ** *
32661577 GCCTTATCTCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAGATCTTGTCTCCCTAAGCAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* * * *
32661642 TGG-AGCAAATCGAAGACGAAGG
66 -GGAAACAGATCGAAGATGAAAG
* * * * * *
32661664 GCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTAAATTTATAGATCTTGTA-TCCCTAAGCAGT-
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT-AACCCCCTAAGCAGTA
* * * *
32661727 GGTGGAACAGATCGAGGGT-TAAG
65 GG-GAAACAGATCGAAGATGAAAG
* * *
32661750 AGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTGAATTTACAGATCTTAACCCCTTAAGCAGTA
1 -GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
32661815 GGGAAACAGATCGAAGATG-AAG
65 GGGAAACAGATCGAAGATGAAAG
** * * * * * * ** *
32661837 ATCTTAACCCCCTAAGCAATAGGGAAACA-GATCGAAGATGA-TGGGCTTTAACCCCCTAAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATC-TTAACCCCCTAAGCAG
* *
32661900 TAGGGTAACA-AGTC-AA-ATTTACAA-
63 TAGGGAAACAGA-TCGAAGA-TGA-AAG
* *
32661924 GCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATTTTAACCCCTTAAGCAGT
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAACCCCCTAAGCAGT
** *
32661988 AGGGAAACAGATTAAAGATGATAG
64 AGGGAAACAGATCGAAGATGAAAG
* * * * * * * *
32662012 GCTTTAAACCCCTAAACAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* * * *
32662077 GGTAACAG-GCTAAAGATTTACAA-
66 GGAAACAGATC-GAAGA-TGA-AAG
** * * *
32662100 ATCTTAACCCCCTAA-CTAGTAGGGTAACAGGTTGAATTTACAGATCTTATCACCCTAAGCAGTA
1 GCCTTAACCCCCTAAGC-AGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
* * * * *
32662164 GTGG-AGCAAATCAAAGACGAAGG
65 G-GGAAACAGATCGAAGATGAAAG
* *
32662187 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATCTTAACCCCCTAAGTAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
**
32662252 GGAAACAGATCGAAGATGATGG
66 GGAAACAGATCGAAGATGAAAG
*
32662274 GCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
32662308 GAAATCAAAT
Statistics
Matches: 511, Mismatches: 101, Indels: 64
0.76 0.15 0.09
Matches are distributed among these distances:
85 4 0.01
86 60 0.12
87 339 0.66
88 80 0.16
89 28 0.05
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (87 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGATGAAAG
Found at i:32667698 original size:28 final size:28
Alignment explanation
Indices: 32667666--32667724 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
32667656 TATTCTTATG
32667666 TTTGAATTGTGTGTTTATACTTAAGAAT
1 TTTGAATTGTGTGTTTATACTTAAGAAT
32667694 TTTGAATTGTGTGTTTATACTTAAGAAT
1 TTTGAATTGTGTGTTTATACTTAAGAAT
32667722 TTT
1 TTT
32667725 AAATATATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (28 bp):
TTTGAATTGTGTGTTTATACTTAAGAAT
Found at i:32694305 original size:40 final size:40
Alignment explanation
Indices: 32694246--32694414 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
32694236 CGGGACTTTA
* * *
32694246 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
32694286 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
32694326 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
32694366 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
32694406 CCCGGATAT
1 CCCGGATAT
32694415 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:32697786 original size:20 final size:20
Alignment explanation
Indices: 32697758--32697795 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32697748 ATACAAATAC
32697758 TTTTATTATATTTTAGTTAT
1 TTTTATTATATTTTAGTTAT
*
32697778 TTTTTTTATATTTTAGTT
1 TTTTATTATATTTTAGTT
32697796 TAAATCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTATTATATTTTAGTTAT
Found at i:32699936 original size:21 final size:21
Alignment explanation
Indices: 32699912--32699979 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
32699902 ACATAAGTAC
*
32699912 TAAACAGAAACCCGTAAGGGT
1 TAAACAGAAACCCATAAGGGT
* * * *
32699933 TAAACAAAAACTCATAAGAGC
1 TAAACAGAAACCCATAAGGGT
* * *
32699954 TGAACGGAAACCCATAAAGGT
1 TAAACAGAAACCCATAAGGGT
32699975 TAAAC
1 TAAAC
32699980 TGAAGTTCAA
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.15
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGGGT
Found at i:32700022 original size:21 final size:21
Alignment explanation
Indices: 32699960--32700027 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
32699950 GAGCTGAACG
32699960 GAAACCCATAAAG-GTTAAACT
1 GAAACCCA-AAAGAGTTAAACT
*** * *
32699981 GAAGTTCAAAAGAGCTGAACT
1 GAAACCCAAAAGAGTTAAACT
*
32700002 AAAACCCAAAAGAGTTAAACT
1 GAAACCCAAAAGAGTTAAACT
32700023 GAAAC
1 GAAAC
32700028 TCATACGAGT
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (21 bp):
GAAACCCAAAAGAGTTAAACT
Found at i:32700037 original size:21 final size:20
Alignment explanation
Indices: 32700013--32700051 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32700003 AAACCCAAAA
32700013 GAGTTAAACTGAAACTCATAC
1 GAGTT-AACTGAAACTCATAC
* *
32700034 GAGTTGACTGAAGCTCAT
1 GAGTTAACTGAAACTCAT
32700052 GAGAGCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
GAGTTAACTGAAACTCATAC
Found at i:32713493 original size:21 final size:19
Alignment explanation
Indices: 32713463--32713501 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
32713453 TGTTTTTATT
*
32713463 ATTTTTTTTATGTTATATTAC
1 ATTTTATTTA-GTT-TATTAC
32713484 ATTTTATTTAGTTTATTA
1 ATTTTATTTAGTTTATTA
32713502 TCGTGATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTATTTAGTTTATTAC
Found at i:32713795 original size:7 final size:7
Alignment explanation
Indices: 32713776--32713806 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
32713766 TAATATTTTT
32713776 TTAAATAA
1 TTAAAT-A
32713784 TTAAATA
1 TTAAATA
32713791 TTAAATA
1 TTAAATA
32713798 TTAAATA
1 TTAAATA
32713805 TT
1 TT
32713807 TATTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.74
8 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTAAATA
Found at i:32716238 original size:4 final size:4
Alignment explanation
Indices: 32716229--32716283 Score: 83
Period size: 4 Copynumber: 13.8 Consensus size: 4
32716219 GTTTAGGCTT
* * *
32716229 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TTTA TCTA CCTG
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32716277 TCTA TCT
1 TCTA TCT
32716284 GTAACGCCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.22, C:0.25, G:0.02, T:0.51
Consensus pattern (4 bp):
TCTA
Found at i:32725775 original size:45 final size:45
Alignment explanation
Indices: 32725675--32725966 Score: 423
Period size: 45 Copynumber: 6.6 Consensus size: 45
32725665 TTTTCTCTAA
* * * *
32725675 TCACCGGCAT-TTCGCCTGCTAGGCTC-GAGGCCTG-ATA-TCATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATT
* * *
32725717 TCACCGGCATTATAGCCTGCTAAGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATT
* * *
32725762 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
32725807 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
32725852 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
**
32725897 TCACCGGCATCATAGCCTGCTAGGCTCAAAGTTCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
32725942 TCACCGGCATCATAGCCTGCTAGGC
1 TCACCGGCATCATAGCCTGCTAGGC
32725967 CCGAAACTCG
Statistics
Matches: 231, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
42 10 0.04
43 13 0.06
44 7 0.03
45 200 0.87
46 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:32736325 original size:13 final size:13
Alignment explanation
Indices: 32736307--32736333 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32736297 TGTTTCCACG
32736307 AAGTTCAATATCT
1 AAGTTCAATATCT
32736320 AAGTTCAATATCT
1 AAGTTCAATATCT
32736333 A
1 A
32736334 CATGGTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AAGTTCAATATCT
Found at i:32740480 original size:42 final size:44
Alignment explanation
Indices: 32740404--32740545 Score: 193
Period size: 43 Copynumber: 3.3 Consensus size: 44
32740394 CCCAGATATA
* * *
32740404 GTCTTACATGTTATCACATAT-CGATGCCACTGTCCCAAACATG
1 GTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACATG
*
32740447 GTCTTACACG-AATCA-ATATACGATGCCAATGTCCCATACATG
1 GTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACATG
* *
32740489 GTCTTACACGTAATCACA-ATACAATGCCAATGTTCCAAACATG
1 GTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACATG
*
32740532 GTCTTACATGTAAT
1 GTCTTACACGTAAT
32740546 TACAACTCGA
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
41 4 0.05
42 34 0.39
43 49 0.56
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (44 bp):
GTCTTACACGTAATCACATATACGATGCCAATGTCCCAAACATG
Found at i:32745120 original size:46 final size:46
Alignment explanation
Indices: 32745053--32745145 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
32745043 GAATAAGTTG
*
32745053 ATCCTAGATCTATCAATGCAATAACTTTAATATCATAGAGAGTAAA
1 ATCCTAGATCTATCAACGCAATAACTTTAATATCATAGAGAGTAAA
*
32745099 ATCCTGGATCTATCAACGCAATAACTTTAATATCATAGAGAGTAAA
1 ATCCTAGATCTATCAACGCAATAACTTTAATATCATAGAGAGTAAA
32745145 A
1 A
32745146 GTACCGGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (46 bp):
ATCCTAGATCTATCAACGCAATAACTTTAATATCATAGAGAGTAAA
Found at i:32747201 original size:13 final size:13
Alignment explanation
Indices: 32747183--32747207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32747173 CCCATGGGAC
32747183 ACATGACCGTGTA
1 ACATGACCGTGTA
32747196 ACATGACCGTGT
1 ACATGACCGTGT
32747208 GTCCACACGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGACCGTGTA
Found at i:32754039 original size:443 final size:441
Alignment explanation
Indices: 32753210--32754068 Score: 1362
Period size: 443 Copynumber: 1.9 Consensus size: 441
32753200 GACAGATCCG
*
32753210 GCCGTTCCTACAGTACTTGGAGTAACGTTGGTCGAAAGTCTCCCAGGATACAACAACTGCAGTGA
1 GCCGCTCCTACAGTACTTGGAGTAACGTTGGTCGAAAGTCTCCCAGGATACAACAACTGCAGTGA
* * *
32753275 TTGAAGTAGTAGCACCTCTACCACGATCAATTGAACGAACAATGCTTTTTTCTATCACCAGAATA
66 TCGAAGTAGTAGCACCTCTACCACGATCAATCGAACAAACAATGCTTTTTTCTATCACCAGAATA
32753340 TTTATAAAACACAAAAGATGAAAAAAGAGATTTTGAGAACAACAGAATTTCAGCAGAGAAATTCT
131 TTTATAAAACACAAAAGATGAAAAAAGAGATTTTGAGAACAACAGAATTTCAGCAGAGAAATTCT
*
32753405 TAGAGAGTATGAGAGTATCCAAAAAACCCTTCAGAATCAAGGCCTTTTATAGGCATGGAGAGTGT
196 TAGAGAGTATGAGAGTATCCAAAAAACCCTTCAAAATCAAGGCCTTTTATAGGCATGGAGAGTGT
*
32753470 TGTAATTATGAAAAAATATCCCCAAAATCTACCATTAAATTAAAATTTTAAACATATTTATTGGA
261 TATAATTATGAAAAAATATCCCCAAAATCTACCATTAAATTAAAATTTTAAACATATTTATTGGA
* * *
32753535 ATCAAATCACTAAGATAAGTTTTCATATATAAGTTCGTGTTGGGCTAAAAAATCCGCAGGCCTAT
326 ATCAAATCACTAAGATAAGTTTTCATATATAAGTTCATGTTAGGCTAAAAAATCCGCAGGCCCAT
* * *
32753600 TTTGGGCTCGATCAGTCTGGACATTTAGCGTCGTCCACGTCGTACGGATGC
391 TTTGGGCCCAATCAGTCCGGACATTTAGCGTCGTCCACGTCGTACGGATGC
* * *
32753651 GCCGCTCCTACAGTACTTGGAGTAACGTTGGTCGAAAGTTTCCCAGGATACAATAACTGTAGTGA
1 GCCGCTCCTACAGTACTTGGAGTAACGTTGGTCGAAAGTCTCCCAGGATACAACAACTGCAGTGA
* * *
32753716 TCGAAGTAGTAGCACCTCTACTACGATCAATCGATCAAACAATG-TCTTTTTCTATCACCAGAGT
66 TCGAAGTAGTAGCACCTCTACCACGATCAATCGAACAAACAATGCT-TTTTTCTATCACCAGAAT
* * * * *
32753780 ATTTATAAAACACGAAAGATTAAAAAAGAGATTTTTGAGAATAATAGAATTTCGGCAAGAGAAAT
130 ATTTATAAAACACAAAAGATGAAAAAAGAGA-TTTTGAGAACAACAGAATTTCAGC-AGAGAAAT
* * *
32753845 TCTTAGAGAGTATGAGAGTGTGCAAAAAACCCTTCAAAATCATGGCCTTTTATAGGCATGGAGAG
193 TCTTAGAGAGTATGAGAGTATCCAAAAAACCCTTCAAAATCAAGGCCTTTTATAGGCATGGAGAG
* * *
32753910 TGTTATAATTATGGAAAAATATCTCCAAAATCTACTATTAAATTGAAAA-TTTAAACATATTTAT
258 TGTTATAATTATGAAAAAATATCCCCAAAATCTACCATTAAATT-AAAATTTTAAACATATTTAT
* * * *
32753974 TGGAATCAAATCAGTAAGATAAGTTTTTATATATAAGTTCATGTTAGGCTAAAATATTCGCAGGC
322 TGGAATCAAATCACTAAGATAAGTTTTCATATATAAGTTCATGTTAGGCTAAAAAATCCGCAGGC
*
32754039 CCATTTTGGGCCCAATCGGTCCGGACATTT
387 CCATTTTGGGCCCAATCAGTCCGGACATTT
32754069 CGCCTCGCCC
Statistics
Matches: 380, Mismatches: 34, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
440 1 0.00
441 146 0.38
442 21 0.06
443 208 0.55
444 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (441 bp):
GCCGCTCCTACAGTACTTGGAGTAACGTTGGTCGAAAGTCTCCCAGGATACAACAACTGCAGTGA
TCGAAGTAGTAGCACCTCTACCACGATCAATCGAACAAACAATGCTTTTTTCTATCACCAGAATA
TTTATAAAACACAAAAGATGAAAAAAGAGATTTTGAGAACAACAGAATTTCAGCAGAGAAATTCT
TAGAGAGTATGAGAGTATCCAAAAAACCCTTCAAAATCAAGGCCTTTTATAGGCATGGAGAGTGT
TATAATTATGAAAAAATATCCCCAAAATCTACCATTAAATTAAAATTTTAAACATATTTATTGGA
ATCAAATCACTAAGATAAGTTTTCATATATAAGTTCATGTTAGGCTAAAAAATCCGCAGGCCCAT
TTTGGGCCCAATCAGTCCGGACATTTAGCGTCGTCCACGTCGTACGGATGC
Found at i:32756015 original size:21 final size:21
Alignment explanation
Indices: 32755976--32756015 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32755966 GCATAGGTTC
*
32755976 GGGTTTAGGGTTCTAGATTTT
1 GGGTTTAGGGTTCGAGATTTT
*
32755997 GGGTTTAGGGTTCGGGATT
1 GGGTTTAGGGTTCGAGATT
32756016 CTATATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (21 bp):
GGGTTTAGGGTTCGAGATTTT
Found at i:32758217 original size:6 final size:6
Alignment explanation
Indices: 32758206--32758233 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32758196 ATGAATTTTA
32758206 AAATAT AAATAT AAATAT AAATAT AAAT
1 AAATAT AAATAT AAATAT AAATAT AAAT
32758234 GATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:32758643 original size:43 final size:43
Alignment explanation
Indices: 32758583--32758875 Score: 464
Period size: 43 Copynumber: 6.8 Consensus size: 43
32758573 GTTTATTGGA
*
32758583 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
32758626 AAAAGCGCCGCTAAAGGTCTAGCCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
32758669 ACAAGCGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
**
32758713 AAAAGCGCCGCTAAAGGTCAAGAATTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
32758756 -AAAGCGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
* * *
32758799 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
32758842 -AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
32758876 CTTTTTTTAC
Statistics
Matches: 229, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
42 53 0.23
43 114 0.50
44 62 0.27
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:32758745 original size:130 final size:129
Alignment explanation
Indices: 32758583--32758875 Score: 464
Period size: 130 Copynumber: 2.3 Consensus size: 129
32758573 GTTTATTGGA
* *
32758583 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTA-
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCAAG
* * *
32758647 GCCTTTTAGCGGCGTTTGTGGGACAAGCGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGG
65 GCCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGC-TTTTAGCAGCGTTTGTGG
32758712 G
129 G
**
32758713 AAAAGCGCCGCTAAAGGTCAAGAATTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCAAGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCAAGG
* * *
32758778 CTTTTTAGCGGCGTTTGTTGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGTG
66 CCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGG
32758842 -AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
32758876 CTTTTTTTAC
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
128 32 0.21
129 36 0.24
130 82 0.55
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (129 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCAAGG
CCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGTGGG
Found at i:32758984 original size:31 final size:31
Alignment explanation
Indices: 32758949--32759015 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
32758939 TTTCCTGCAT
* *
32758949 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
32758980 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
32759011 TAAAA
1 TAAAA
32759016 AATACAACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:32759299 original size:21 final size:21
Alignment explanation
Indices: 32759275--32759320 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
32759265 GCTCGTGCCT
*
32759275 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
32759296 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
32759317 CTGC
1 CTGC
32759321 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:32763559 original size:24 final size:24
Alignment explanation
Indices: 32763527--32763594 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
32763517 ACTTAAACGG
32763527 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
32763551 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
32763575 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
32763595 CAATAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:32768297 original size:3 final size:3
Alignment explanation
Indices: 32768291--32768319 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32768281 TTTTTCTCTT
32768291 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32768320 TCCTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32768412 original size:28 final size:27
Alignment explanation
Indices: 32768360--32768412 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
32768350 GGTCTCTCTA
*
32768360 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
32768387 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
32768413 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:32768594 original size:12 final size:12
Alignment explanation
Indices: 32768577--32768609 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
32768567 CATTAATATC
32768577 TATATATATCAA
1 TATATATATCAA
*
32768589 TATATATATCCA
1 TATATATATCAA
32768601 TATATATAT
1 TATATATAT
32768610 ATATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATCAA
Found at i:32769211 original size:41 final size:40
Alignment explanation
Indices: 32769100--32769212 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 40
32769090 ATTTAATCTT
*
32769100 TTAGTGGCGTTTTTTAAAAAA-CGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTTTAAAAAAGCGCCGCTAAAGATCGAGCA
* * *
32769140 TTAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGGT-GTA-CT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGATCG-AGCA
32769179 TATAGCGGCGTTTCTTAAAAAAGCGCCGCTAAAG
1 T-TAGCGGCGTTT-TTAAAAAAGCGCCGCTAAAG
32769213 CCACTAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 13 0.20
40 32 0.50
41 19 0.30
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGATCGAGCA
Found at i:32769610 original size:12 final size:12
Alignment explanation
Indices: 32769593--32769621 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32769583 GTTTTTAATT
32769593 AAAACGCCGCTA
1 AAAACGCCGCTA
32769605 AAAACGCCGCTA
1 AAAACGCCGCTA
32769617 AAAAC
1 AAAAC
32769622 CAATTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.31, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:32770691 original size:3 final size:3
Alignment explanation
Indices: 32770683--32770734 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
32770673 TAAGTTAAGG
* *
32770683 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32770731 TAA T
1 TAA T
32770735 TATTATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32770739 original size:3 final size:3
Alignment explanation
Indices: 32770733--32770776 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
32770723 AATAATAGTA
* *
32770733 ATT ATT ATT ATT ACT ATT ATT ATT ATC ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
32770777 CACTACTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:32776778 original size:25 final size:25
Alignment explanation
Indices: 32776735--32776783 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
32776725 ATGTAGTAAA
* * *
32776735 ACTAAACCCTACAACTATGGAGAAG
1 ACTAAACCCTAAAAATATGAAGAAG
32776760 ACTAAACCCTAAAAATATGAAGAA
1 ACTAAACCCTAAAAATATGAAGAA
32776784 AAAAACTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.16
Consensus pattern (25 bp):
ACTAAACCCTAAAAATATGAAGAAG
Found at i:32785210 original size:14 final size:13
Alignment explanation
Indices: 32785191--32785221 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
32785181 CAACTGTTGC
32785191 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
32785204 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
32785217 AAAAA
1 AAAAA
32785222 GAAACTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:32785263 original size:20 final size:20
Alignment explanation
Indices: 32785234--32785273 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32785224 AACTACGAGC
*
32785234 TTGAACTCAAATACATATAA
1 TTGAACTCAAATAAATATAA
*
32785254 TTGAATTCAAATAAATATAA
1 TTGAACTCAAATAAATATAA
32785274 GAAAGTTAAC
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:0.10, G:0.05, T:0.33
Consensus pattern (20 bp):
TTGAACTCAAATAAATATAA
Found at i:32788698 original size:2 final size:2
Alignment explanation
Indices: 32788691--32788715 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32788681 TTGTAGCTCT
32788691 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32788716 GAAACTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32793164 original size:36 final size:36
Alignment explanation
Indices: 32793118--32793190 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
32793108 GTAGCAATTT
32793118 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
1 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
*
32793154 AACTATTGGTTGCCAAGTATCGATACTAGACATTCA
1 AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
32793190 A
1 A
32793191 GTATCGATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (36 bp):
AACTACTGGTTGCCAAGTATCGATACTAGACATTCA
Found at i:32796025 original size:46 final size:48
Alignment explanation
Indices: 32795883--32796192 Score: 234
Period size: 46 Copynumber: 6.6 Consensus size: 48
32795873 CATTTGTGCT
* * * * *
32795883 CTAGTGTACGA-CATGTTTGGGACCTGCATCGGCCAC-ATTATG-AGAG
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAG
* * * * *
32795929 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAAATG-AGAG
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAG
32795977 CTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTA-AG
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAG
* *
32796023 CTAGTGTAAGA-CATGTCTGGGACATGCATC-GACTACGAGATGT-G-T
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAG
* * *
32796068 C-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGAGATTTGAGAG
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-AGAG
* * * * * * *
32796117 CCAGTGTAAGACCATGCCTGGGACATGACGTCAGCCTCGA-TTTTGATAG
1 CTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGATGT-AGAG
*
32796166 -TCAGTGTAATACCATGTCTGGGACATG
1 CT-AGTGTAAGACCATGTCTGGGACATG
32796193 GTATCGACTT
Statistics
Matches: 219, Mismatches: 28, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.04
45 18 0.08
46 74 0.34
47 26 0.12
48 27 0.12
49 34 0.16
50 31 0.14
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGAG
Found at i:32796226 original size:145 final size:138
Alignment explanation
Indices: 32795928--32796239 Score: 328
Period size: 138 Copynumber: 2.2 Consensus size: 138
32795918 CATTATGAGA
* * * ** * *
32795928 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAAATGAGAGCTAGTGTAAGACATGT
1 GCCAGAGTAAGACCATGTCTGGGACATGGCATCAGCACGGAAATGAGAGCCAGTGTAAGACATGC
*
32795993 CTGGGACATGCATCGGCCTCGAGATGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGACTA
66 CTGGGACATGCATCAGCCTCGAGATGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGACTA
32796058 CGAGATGT
131 CGAGATGT
* * *
32796066 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGAGATTTGAGAGCCAGTGTAAGACCA
1 GCCAGAGTAAGACCATGTCTGGGACATGGCATCAGCACGGA-A-ATGAGAGCCAGTGTAAGA-CA
* * * *
32796131 TGCCTGGGACATGACGTCAGCCTCGA-TTTTGATAG-TCAGTGTAATACCATGTCTGGGACATGG
63 TGCCTGGGACATG-CATCAGCCTCGAGATGT-A-AGCT-AGTGTAAGA-CATGTCTGGGACAT-G
* *
32796194 TATCGACTTGA-TAGATGAT
122 CATCGAC-T-ACGAGATG-T
32796213 -CCA-AGTAAGACCATGTCTGGGACATGG
1 GCCAGAGTAAGACCATGTCTGGGACATGG
32796240 TATCGGTATT
Statistics
Matches: 145, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
138 36 0.25
139 1 0.01
140 16 0.11
141 16 0.11
142 12 0.08
143 10 0.07
144 14 0.10
145 30 0.21
146 8 0.06
147 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (138 bp):
GCCAGAGTAAGACCATGTCTGGGACATGGCATCAGCACGGAAATGAGAGCCAGTGTAAGACATGC
CTGGGACATGCATCAGCCTCGAGATGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGACTA
CGAGATGT
Found at i:32800610 original size:46 final size:44
Alignment explanation
Indices: 32800544--32800630 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 44
32800534 CCTGGACATG
* *
32800544 GTCTTACATTGACACATCTCGTA-GCCGATACATGTCCCAGATAT
1 GTCTTACACTGACACATCTCG-AGGCCAATACATGTCCCAGATAT
* *
32800588 GTCTTACACTGACTTACGTCTCGAGGCCAATGCATGTCCCAGA
1 GTCTTACACTGAC--ACATCTCGAGGCCAATACATGTCCCAGA
32800631 CACTAATACT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.33
45 1 0.03
46 23 0.64
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
GTCTTACACTGACACATCTCGAGGCCAATACATGTCCCAGATAT
Found at i:32806576 original size:46 final size:48
Alignment explanation
Indices: 32806422--32806782 Score: 313
Period size: 46 Copynumber: 7.7 Consensus size: 48
32806412 TCATTTGTGC
* * * *
32806422 GCTAGTGTACGA-CATGTCTAGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGAGA
* * * * * *
32806468 GCTAGTGTAAGACCATGTCTAGGACATGGCATTGACATTGAAATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
32806516 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AGA
*
32806562 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAGA
* * *
32806607 TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGA--TGAGA
* * * ** *
32806656 GCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GAGA
* * *
32806705 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATA-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA-GA
*
32806752 TCTAGTGTAAGACCATGTCT-GGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
32806783 TAGCATTTTA
Statistics
Matches: 262, Mismatches: 34, Indels: 38
0.78 0.10 0.11
Matches are distributed among these distances:
44 9 0.03
45 17 0.06
46 87 0.33
47 46 0.18
48 36 0.14
49 35 0.13
50 32 0.12
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
Found at i:32806719 original size:99 final size:98
Alignment explanation
Indices: 32806463--32806783 Score: 332
Period size: 96 Copynumber: 3.4 Consensus size: 98
32806453 GGCCACATTA
* * * * *
32806463 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGACATTGAAATGAGAG-CTAGTGTAAG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAAATGATAGTC-AGTGTAAG
*
32806527 A-CATGTCTGGGACAT-GCATCGGCCTCGAGATG
65 ACCATGTCTGGGACATGGCATCAGCCTCGAGATG
* *
32806559 T-A-AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATG-T-GTCAGTGTAAG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCT-CGAAATGATAGTCAGTGTAAG
*
32806617 ACCATGTCTGGGACATGGCATCAGCAC-GGAGATG
65 ACCATGTCTGGGACATGGCATCAGC-CTCGAGATG
* * **
32806651 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGATAGTCAGTGTAAG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAAAT-GATAGTCAGTGTAAG
* *
32806716 ACCATGTCTGGGACATGGCATC-GACT--TGAT-
65 ACCATGTCTGGGACATGGCATCAGCCTCGAGATG
* *
32806746 AGATGATCTAGTGTAAGACCATGTCT-GGACATGGCATT
1 TGA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATT
32806784 AGCATTTTAC
Statistics
Matches: 190, Mismatches: 20, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
90 10 0.05
91 16 0.08
92 24 0.13
93 15 0.08
94 25 0.13
95 28 0.15
96 33 0.17
97 4 0.02
98 2 0.01
99 33 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (98 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAAATGATAGTCAGTGTAAGA
CCATGTCTGGGACATGGCATCAGCCTCGAGATG
Found at i:32812239 original size:46 final size:46
Alignment explanation
Indices: 32812186--32812276 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
32812176 TATATATACA
* *
32812186 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
*
32812232 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
32812277 ATACACTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:32812319 original size:22 final size:22
Alignment explanation
Indices: 32812293--32812414 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
32812283 TTCCACGTTC
32812293 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
32812315 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
32812340 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
32812362 ATCACATATGTG-CATGT-T-CACATT
1 ATCACAT-TG-GCCAT-TCTGC-C-TT
*
32812386 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
32812409 ATCACA
1 ATCACA
32812415 CATATGCATG
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 24 0.31
23 18 0.23
24 17 0.22
25 18 0.23
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:32812321 original size:47 final size:47
Alignment explanation
Indices: 32812247--32812489 Score: 362
Period size: 47 Copynumber: 5.2 Consensus size: 47
32812237 CATACACATT
* * * * * *
32812247 TCACATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCA
* *
32812294 TCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
32812341 TCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
32812388 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
32812435 TCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
32812482 TCACATTG
1 TCACATTG
32812490 CCTTGGCTGA
Statistics
Matches: 178, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.01
47 177 0.99
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:32812460 original size:22 final size:22
Alignment explanation
Indices: 32812338--32812462 Score: 80
Period size: 22 Copynumber: 5.4 Consensus size: 22
32812328 ATGTTCACAT
32812338 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
* *
32812360 TTATCACATATGTG-CATGTTC-ACA
1 TTATCACAT-TG-GCCA--TTCGGCC
32812384 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
* *
32812407 TTATCACACATAT-G-CATGTTC-ACAT
1 TTAT--CACAT-TGGCCA--TTCGGC-C
32812432 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
32812454 TTATCACAT
1 TTATCACAT
32812463 ATGTGCATGT
Statistics
Matches: 79, Mismatches: 8, Indels: 32
0.66 0.07 0.27
Matches are distributed among these distances:
22 27 0.34
23 17 0.22
24 17 0.22
25 18 0.23
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGGCC
Found at i:32816419 original size:57 final size:57
Alignment explanation
Indices: 32816343--32816453 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
32816333 GTGCCCATTG
* * * *
32816343 ACTGATTTCGCACATATAGTGCTCGATTAAAGAACTCGCATACATAGTGCCTCAACT
1 ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCGCACACACAGTGCCTCAACT
* * * *
32816400 ACTGATCTGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCGCACACACAGTGCCTCA
32816454 TGATTCCAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (57 bp):
ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCGCACACACAGTGCCTCAACT
Found at i:32816538 original size:40 final size:40
Alignment explanation
Indices: 32816461--32816772 Score: 484
Period size: 40 Copynumber: 7.8 Consensus size: 40
32816451 TCATGATTCC
* * *
32816461 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGAGATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATACATCACT
*
32816500 AGCACGAATGCTCTTTGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* * *
32816540 AGCACAAATGCTCTTCGGAACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
32816580 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
32816620 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
32816660 AGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
32816700 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
32816740 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
32816773 TCATTCGAAT
Statistics
Matches: 254, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.05
40 241 0.95
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
Found at i:32825505 original size:54 final size:55
Alignment explanation
Indices: 32825315--32825517 Score: 209
Period size: 54 Copynumber: 3.7 Consensus size: 55
32825305 AACTTACGAT
* * * * * *
32825315 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTCACCAG
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAAACTCATCAA
* ** *
32825368 TGCCATGCCCT-AGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTCATCAA
1 TGCCATGCCTTGA-CATGGTCTTACATGATATCC-TTACCTTATAGAAACTCATCAA
* * *
32825423 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA-AAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAAACTCATCAA
* * *
32825477 TGCCATGCCTTGGCATGGTCTTATATGATATCCTTATCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTA
32825518 CCAAATGCCA
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 3 0.02
53 32 0.26
54 46 0.37
55 41 0.33
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAGAAACTCATCAA
Found at i:32825556 original size:47 final size:47
Alignment explanation
Indices: 32825494--32825612 Score: 184
Period size: 47 Copynumber: 2.5 Consensus size: 47
32825484 CCTTGGCATG
* *
32825494 GTCTTATATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATA
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATA
* * * *
32825541 GTCTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAATATG
1 GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATA
32825588 GTCTTACATGGTATCCTTATCTTAC
1 GTCTTACATGGTATCCTTATCTTAC
32825613 TGCCAATGCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATA
Found at i:32825817 original size:44 final size:44
Alignment explanation
Indices: 32825750--32825834 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
32825740 ATCCTTAACT
* *
32825750 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTTC
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTTC
* * *
32825794 GTCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
32825835 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.39
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTTC
Found at i:32828443 original size:21 final size:22
Alignment explanation
Indices: 32828409--32828469 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
32828399 ATAATAAATC
*
32828409 AAATATAT-TTAAAA-AATTAA
1 AAATAAATATTAAAACAATTAA
*
32828429 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAATTAA
*
32828451 AAAT-AATACTAAAACAATT
1 AAATAAATATTAAAACAATT
32828470 CTTAAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.20
21 19 0.54
22 9 0.26
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATATTAAAACAATTAA
Found at i:32831519 original size:42 final size:42
Alignment explanation
Indices: 32831438--32831580 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 42
32831428 TCCCAGACGT
* *
32831438 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAAAG
1 GGTCTTACACGAAATCAAATA-CGATGCCACTGTCCCAGAAAG
* *
32831481 GGTCTTACACGAAATCAAATACGATGCCGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCC-ACTGTCCCAGAAAG
* * *
32831523 GGTCTTACACGTAAATCATAAGT-CGATGCCAGTGTTCCAG-ACG
1 GGTCTTACACG-AAATCA-AA-TACGATGCCACTGTCCCAGAAAG
32831566 TGGTCTTACACGAAA
1 -GGTCTTACACGAAA
32831581 AGACATATCG
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
42 28 0.33
43 30 0.35
44 27 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCACTGTCCCAGAAAG
Found at i:32831563 original size:44 final size:42
Alignment explanation
Indices: 32831427--32831577 Score: 164
Period size: 42 Copynumber: 3.5 Consensus size: 42
32831417 CAATGCCAAC
* * *
32831427 GTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATC-AA-ATCGATGCCAGT
* *
32831470 GTCCCAGAAAGGGTCTTACACG-AAATCAAATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAAT-CGATGCCAG-T
32831512 GTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGTAAATCA-AA-TCGATGCCAGT
* *
32831556 GTTCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
32831578 AAAAGACATA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.33
43 28 0.30
44 30 0.33
45 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATCGATGCCAGT
Found at i:32838455 original size:33 final size:33
Alignment explanation
Indices: 32838413--32838488 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
32838403 ACATATGATT
32838413 CATAATCTTAATTTAATTCATTCAATCACATGC
1 CATAATCTTAATTTAATTCATTCAATCACATGC
32838446 CATAATCTTAATTTAATTCATTCAATCACATGC
1 CATAATCTTAATTTAATTCATTCAATCACATGC
32838479 CATAATCTTA
1 CATAATCTTA
32838489 CCAATTTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (33 bp):
CATAATCTTAATTTAATTCATTCAATCACATGC
Found at i:32839258 original size:43 final size:44
Alignment explanation
Indices: 32839184--32839286 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 44
32839174 AGCTCGTACA
** **
32839184 ATGCCAACGTCCCAGACGGGGTCTTAAATGT-AATCA-AATATCG
1 ATGCCAATATCCCAGAAAGGGTCTTAAATGTAAATCATAA-ATCG
* * * *
32839227 ATGCCACTATCCCAGAAAGGGTTTTACATGTAAATCATAAGTCG
1 ATGCCAATATCCCAGAAAGGGTCTTAAATGTAAATCATAAATCG
*
32839271 ATGCCAATGTCCCAGA
1 ATGCCAATATCCCAGA
32839287 TGTGGTCTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 24 0.50
44 22 0.46
45 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAATATCCCAGAAAGGGTCTTAAATGTAAATCATAAATCG
Found at i:32839298 original size:44 final size:42
Alignment explanation
Indices: 32839184--32839298 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 42
32839174 AGCTCGTACA
* * *
32839184 ATGCCAACGTCCCAGACGGGGTCTTAAATGTAATCAAATATCG
1 ATGCCAATGTCCCAGA-AGGGTCTTACATGTAATCAAATATCG
* * * *
32839227 ATGCCACTATCCCAGAAAGGGTTTTACATGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAG-AAGGGTCTTACATGT-AATCA-AATATCG
*
32839271 ATGCCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGAAG-GGTCTTACA
32839299 CTAAAACACA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
43 25 0.44
44 30 0.53
45 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGAAGGGTCTTACATGTAATCAAATATCG
Found at i:32852578 original size:5 final size:5
Alignment explanation
Indices: 32852568--32852596 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
32852558 CTGTGTGTTC
32852568 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
32852597 CATATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:32852961 original size:2 final size:2
Alignment explanation
Indices: 32852956--32852981 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32852946 CCTAATCAAC
32852956 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
32852982 GCCCTAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32854310 original size:43 final size:43
Alignment explanation
Indices: 32854224--32854307 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
32854214 ATGTATCGTA
**
32854224 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACAAGGTCTTACATGTAATCACATAT
*
32854267 CAATGCC-ACTGTCCCAGACAAGGTCTTACTTGT-A-CACATAT
1 CAATGCCAAC-GTCCCAGACAAGGTCTTACATGTAATCACATAT
32854308 ATCGGAATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 7 0.19
42 3 0.08
43 27 0.73
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACAAGGTCTTACATGTAATCACATAT
Found at i:32855378 original size:15 final size:15
Alignment explanation
Indices: 32855358--32855390 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
32855348 TAAATCACGA
32855358 AAATTT-CACAAATAT
1 AAATTTACACAAA-AT
32855373 AAATTTACACAAAAT
1 AAATTTACACAAAAT
32855388 AAA
1 AAA
32855391 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTTACACAAAAT
Found at i:32856572 original size:41 final size:40
Alignment explanation
Indices: 32856483--32856560 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
32856473 CTCGGCCCAT
**
32856483 AAACAGAATTTTCTTATAACATACACAAATGTAAATACCA
1 AAACAGAATTTTCTTATAACATACACAAATAAAAATACCA
** *
32856523 AAACAGAATTTTACTTATAATGTACACATATAAAAATA
1 AAACAGAATTTT-CTTATAACATACACAAATAAAAATA
32856561 TCATATCAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 12 0.38
41 20 0.62
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.29
Consensus pattern (40 bp):
AAACAGAATTTTCTTATAACATACACAAATAAAAATACCA
Found at i:32857237 original size:18 final size:19
Alignment explanation
Indices: 32857214--32857249 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
32857204 ACCTGACCTA
32857214 CCCGTGTGAT-CACACATG
1 CCCGTGTGATCCACACATG
32857232 CCCGTGTGATCCACACAT
1 CCCGTGTGATCCACACAT
32857250 CCTACCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (19 bp):
CCCGTGTGATCCACACATG
Found at i:32859922 original size:13 final size:14
Alignment explanation
Indices: 32859894--32859926 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32859884 TGCATAATCT
*
32859894 AAATTTATTTAGTA
1 AAATTTAATTAGTA
32859908 AAATTTAATTA-TA
1 AAATTTAATTAGTA
32859921 AAATTT
1 AAATTT
32859927 TCACTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAGTA
Found at i:32861263 original size:63 final size:63
Alignment explanation
Indices: 32861164--32861422 Score: 259
Period size: 63 Copynumber: 4.0 Consensus size: 63
32861154 GAAAGGTCAA
*
32861164 TCTGTTATGTATGTGTATTATGTATGTTATGTATATTACCT-TTTATGTATGTATGTTAGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTA-CTGTTTATGTATGTATGTTAGTATG
* * ** * * * *
32861227 TCTGTTATGTATGTATATTTTGCATGTTACATATATTATTGTTTATGGATGTCTATTAGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGTTAGTATG
* *
32861290 TCTGTTATATATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGTATTGTATG
1 TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGT-TAGTATG
* * * * * *
32861354 TTTATTACTGTTTGTTATATATATGTATATCATGTATGTATATTACAGTTTATATTATGTATGTG
1 TCTGTTA-TGTATG-TATAT-TATG--TAT-GT-TATGTATATTACTGTTTAT-GTATGTATGT-
32861419 TAGT
57 TAGT
32861423 GTTTTATCAT
Statistics
Matches: 158, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
62 1 0.01
63 99 0.63
64 11 0.07
65 4 0.03
66 5 0.03
67 4 0.03
69 3 0.02
70 1 0.01
71 18 0.11
72 12 0.08
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.54
Consensus pattern (63 bp):
TCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATGTATGTTAGTATG
Found at i:32861313 original size:9 final size:9
Alignment explanation
Indices: 32861295--32861343 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
32861285 GTATGTCTGT
32861295 TATA-TATG
1 TATATTATG
32861303 TATATTATG
1 TATATTATG
*
32861312 TATGTTATG
1 TATATTATG
32861321 TATATTACTG
1 TATATTA-TG
*
32861331 TTTATGTATG
1 TATAT-TATG
32861341 TAT
1 TAT
32861344 GTATTGTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 4 0.12
9 18 0.53
10 10 0.29
11 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (9 bp):
TATATTATG
Found at i:32861341 original size:38 final size:35
Alignment explanation
Indices: 32861294--32861415 Score: 97
Period size: 38 Copynumber: 3.3 Consensus size: 35
32861284 AGTATGTCTG
32861294 TTATATATGTATATTATGTATGTTATGTATATTACTGT
1 TTAT-TATGTATATTAT-TATG-TATGTATATTACTGT
* *
32861332 TTATGTATGTAT-GTA-T-TGTATGTTTATTACTGT
1 TTAT-TATGTATATTATTATGTATGTATATTACTGT
* * *
32861365 TTGTTATATATATGTATATCATGTATGTATATTACAGTT
1 TTATTATGTATAT-TAT-T-ATGTATGTATATTACTG-T
32861404 TATATTATGTAT
1 T-TATTATGTAT
32861416 GTGTAGTGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
32 6 0.09
33 17 0.26
34 4 0.06
35 1 0.02
36 1 0.02
37 2 0.03
38 25 0.38
39 2 0.03
40 8 0.12
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (35 bp):
TTATTATGTATATTATTATGTATGTATATTACTGT
Found at i:32861360 original size:76 final size:72
Alignment explanation
Indices: 32861275--32861417 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 72
32861265 TTGTTTATGG
* * *
32861275 ATGTCTATTAGTATGTCTGTTATATATGTATATTATGTATGTTATGTATATTACTGTTTAT-GTA
1 ATGTCTATTA--ATGTCTGTTATATATATATA-TAT-CATG-TATGTATATTACAGTTTATAGTA
32861339 TGTATGTATTGT
61 TGTATGTATTGT
* * * * *
32861351 ATGTTTATTACTGTTTGTTATATATATGTATATCATGTATGTATATTACAGTTTATATTATGTAT
1 ATGTCTATTAATGTCTGTTATATATATATATATCATGTATGTATATTACAGTTTATAGTATGTAT
32861416 GT
66 GT
32861418 GTAGTGTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
71 18 0.31
72 12 0.21
73 3 0.05
74 16 0.28
76 9 0.16
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (72 bp):
ATGTCTATTAATGTCTGTTATATATATATATATCATGTATGTATATTACAGTTTATAGTATGTAT
GTATTGT
Found at i:32861417 original size:38 final size:34
Alignment explanation
Indices: 32861317--32861417 Score: 105
Period size: 38 Copynumber: 2.9 Consensus size: 34
32861307 TTATGTATGT
*
32861317 TATGTATATTACTGTTTATGTATGTATG-TATTG
1 TATGTATATTACTGTTTATTTATGTATGTTATTG
* * *
32861350 TATGTTTATTACTGTTTGTTATATATATGTATATCATG
1 TATGTATATTACTGTTTATT-TATGTATGT-TAT--TG
*
32861388 TATGTATATTACAGTTTATATTATGTATGT
1 TATGTATATTACTGTTTAT-TTATGTATGT
32861418 GTAGTGTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
33 17 0.31
34 7 0.13
36 3 0.06
38 26 0.48
39 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (34 bp):
TATGTATATTACTGTTTATTTATGTATGTTATTG
Found at i:32862464 original size:21 final size:21
Alignment explanation
Indices: 32862429--32862485 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
32862419 AAACAGGGGT
*
32862429 CACACGCCTGTGTGGATATGGGA
1 CACAC-CC-GTGTGGATACGGGA
* *
32862452 CATACCCGTGTGGGTACGGGA
1 CACACCCGTGTGGATACGGGA
*
32862473 CACACCCATGTGG
1 CACACCCGTGTGG
32862486 TCACACACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 23 0.79
22 2 0.07
23 4 0.14
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.19
Consensus pattern (21 bp):
CACACCCGTGTGGATACGGGA
Found at i:32868699 original size:27 final size:27
Alignment explanation
Indices: 32868660--32868712 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
32868650 ACTCTCAGGC
*
32868660 ATGGTGATGCATGTGCTGAGAATGGGA
1 ATGGTGATACATGTGCTGAGAATGGGA
*
32868687 ATGGTGATACATGTGCTGAGAGTGGG
1 ATGGTGATACATGTGCTGAGAATGGG
32868713 TAAAGTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.42, T:0.26
Consensus pattern (27 bp):
ATGGTGATACATGTGCTGAGAATGGGA
Found at i:32869878 original size:23 final size:23
Alignment explanation
Indices: 32869848--32869893 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
32869838 GTATTAATGA
32869848 GTTAATTTTGCTGTTATAGACCC
1 GTTAATTTTGCTGTTATAGACCC
32869871 GTTAATTTTGCTGTTATAGACCC
1 GTTAATTTTGCTGTTATAGACCC
32869894 CGAGAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (23 bp):
GTTAATTTTGCTGTTATAGACCC
Found at i:32872086 original size:21 final size:21
Alignment explanation
Indices: 32872060--32872112 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
32872050 AACAGGGGTC
32872060 ACACGCTCGTGCAGATATGGG
1 ACACGCTCGTGCAGATATGGG
** *
32872081 ACACGCTCGTGTGGGTATGGG
1 ACACGCTCGTGCAGATATGGG
*
32872102 ACACGCCCGTG
1 ACACGCTCGTG
32872113 TGGGCAGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.19
Consensus pattern (21 bp):
ACACGCTCGTGCAGATATGGG
Found at i:32872113 original size:21 final size:21
Alignment explanation
Indices: 32872075--32872116 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32872065 CTCGTGCAGA
*
32872075 TATGGGACACGCTCGTGTGGG
1 TATGGGACACGCCCGTGTGGG
32872096 TATGGGACACGCCCGTGTGGG
1 TATGGGACACGCCCGTGTGGG
32872117 CAGGCTGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.43, T:0.21
Consensus pattern (21 bp):
TATGGGACACGCCCGTGTGGG
Found at i:32878356 original size:21 final size:21
Alignment explanation
Indices: 32878332--32878373 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32878322 TAGTAAAGGA
*
32878332 AAAAAAATTAAACTAACATTC
1 AAAAAAATTAAACTAAAATTC
32878353 AAAAAAATTAAACTAAAATTC
1 AAAAAAATTAAACTAAAATTC
32878374 TTTTTGTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAATTAAACTAAAATTC
Done.