Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 64 of 290
Found at i:19525788 original size:80 final size:80
Alignment explanation
Indices: 19525645--19525817 Score: 184
Period size: 80 Copynumber: 2.2 Consensus size: 80
19525635 AGATCAACCG
* * * * * * * *
19525645 AACACACCAGACAGAAGCTCATAAGAGCTGGTCAAACCAAAATACATCAAATAGAAGCTCATAAT
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAA
* * *
19525710 AGTTGATTCAATCAA
66 AGCTGATCCAACCAA
* * *** *
19525725 AACATGCCAAACAGAAGCTCATAAGAGCTGATCCAATTGAAACACACCAGACAGAAACTCATAAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAA
*
19525790 AGCTGATCCAACCGA
66 AGCTGATCCAACCAA
19525805 AACACGCCAAACA
1 AACACGCCAAACA
19525818 AAGAGTATAA
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.15
Consensus pattern (80 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGATCAAACCAAAACACACCAAACAGAAACTCATAAA
AGCTGATCCAACCAA
Found at i:19528510 original size:53 final size:52
Alignment explanation
Indices: 19528447--19528565 Score: 143
Period size: 53 Copynumber: 2.3 Consensus size: 52
19528437 TTAATATTTA
* * *
19528447 ATTAATATAATATTTATCAAGATAAATATTATATT-AATTAAATATTAAATCTT
1 ATTAAAATAATATTAATCAAGATAAATATTAAATTAAATTAAATATTAAA-C-T
* ** *
19528500 ATTAAAATAATA-GAATGTAGATAAATATTAAATTAAATTTAATATTAAACT
1 ATTAAAATAATATTAATCAAGATAAATATTAAATTAAATTAAATATTAAACT
19528551 ATTAAAATAATATTA
1 ATTAAAATAATATTA
19528566 TTTTTTATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 13 0.23
52 19 0.34
53 24 0.43
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (52 bp):
ATTAAAATAATATTAATCAAGATAAATATTAAATTAAATTAAATATTAAACT
Found at i:19530516 original size:28 final size:29
Alignment explanation
Indices: 19530452--19530524 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
19530442 CAGTCCATGA
19530452 CCCAATTACATAAAACAACCCAAATAAACCCAG
1 CCCAATTAC-T-AAACAACCCAAAT--ACCCAG
*
19530485 CCCAATTACTAAATAACCCAAAT-CCCAG
1 CCCAATTACTAAACAACCCAAATACCCAG
*
19530513 CCC-ATTCCTAAA
1 CCCAATTACTAAA
19530525 ACAGCCTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 8 0.21
28 8 0.21
31 12 0.32
32 1 0.03
33 9 0.24
ACGTcount: A:0.45, C:0.36, G:0.03, T:0.16
Consensus pattern (29 bp):
CCCAATTACTAAACAACCCAAATACCCAG
Found at i:19531496 original size:28 final size:28
Alignment explanation
Indices: 19531456--19531509 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
19531446 GCCCTCTTAA
*
19531456 GTTTGCACGTGTTGTGTTTTGGTCCTAG
1 GTTTGCACGTGTTGTATTTTGGTCCTAG
*
19531484 GTTTGCGCGTGTTGTATTTTGGTCCT
1 GTTTGCACGTGTTGTATTTTGGTCCT
19531510 TCATATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.06, C:0.15, G:0.31, T:0.48
Consensus pattern (28 bp):
GTTTGCACGTGTTGTATTTTGGTCCTAG
Found at i:19535070 original size:16 final size:14
Alignment explanation
Indices: 19535042--19535089 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 14
19535032 TTATTTCATA
19535042 AACCCTAAAAACCTT
1 AACCCT-AAAACCTT
* *
19535057 AACCTTACAAAACCCT
1 AACCCT--AAAACCTT
19535073 AACCCTAAAACCTT
1 AACCCTAAAACCTT
19535087 AAC
1 AAC
19535090 AAAAATCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 12 0.44
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCTAAAACCTT
Found at i:19535099 original size:25 final size:25
Alignment explanation
Indices: 19535057--19535106 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19535047 TAAAAACCTT
*
19535057 AACCTTACAAAACCCT-AACCCTAA
1 AACCTTACAAAAACCTAAACCCTAA
*
19535081 AACCTTAACAAAAATCTAAACCCTAA
1 AACCTT-ACAAAAACCTAAACCCTAA
19535107 CCCTAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (25 bp):
AACCTTACAAAAACCTAAACCCTAA
Found at i:19535336 original size:17 final size:17
Alignment explanation
Indices: 19535314--19535346 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19535304 ATCCATTAAT
*
19535314 TAATATACTATCATAAA
1 TAATATACTATAATAAA
19535331 TAATATACTATAATAA
1 TAATATACTATAATAA
19535347 GAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATACTATAATAAA
Found at i:19535524 original size:31 final size:30
Alignment explanation
Indices: 19535438--19535528 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 30
19535428 TACTATTACA
* *
19535438 AAAAATAATTTATTTATAATATCATTTATTAT
1 AAAAATAATTTATCT-TAATATTA-TTATTAT
* * * *
19535470 -GAATTAATATATCATCAATATTATTATTAT
1 AAAAATAATTTATC-TTAATATTATTATTAT
19535500 AAAAATAATTTATCTGTAATATTATTATT
1 AAAAATAATTTATCT-TAATATTATTATT
19535529 TACCTTAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
30 8 0.17
31 37 0.80
32 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.48
Consensus pattern (30 bp):
AAAAATAATTTATCTTAATATTATTATTAT
Found at i:19536792 original size:3 final size:3
Alignment explanation
Indices: 19536784--19536820 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
19536774 ACATGTAACT
19536784 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
19536821 CATTTCAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:19547288 original size:88 final size:88
Alignment explanation
Indices: 19547165--19547333 Score: 338
Period size: 88 Copynumber: 1.9 Consensus size: 88
19547155 AATATCAGCG
19547165 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
1 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
19547230 TTACTTTCATAGTTGCAATAGCA
66 TTACTTTCATAGTTGCAATAGCA
19547253 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
1 TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
19547318 TTACTTTCATAGTTGC
66 TTACTTTCATAGTTGC
19547334 TCTTTGCTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (88 bp):
TTTCTGATGTCTTAGTACCAGCTCTATGAAAATTAAAGATCCAACTTATAACTCTTTGAAGTATC
TTACTTTCATAGTTGCAATAGCA
Found at i:19554116 original size:19 final size:19
Alignment explanation
Indices: 19554094--19554137 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19554084 AAAAAATGTT
*
19554094 AAAAATAAAAAAATTCTAA
1 AAAAATAAAAAAATTATAA
* * *
19554113 AAAAATCAAAATATTATAT
1 AAAAATAAAAAAATTATAA
19554132 AAAAAT
1 AAAAAT
19554138 TGAATTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATAAAAAAATTATAA
Found at i:19554324 original size:7 final size:7
Alignment explanation
Indices: 19554312--19554377 Score: 60
Period size: 7 Copynumber: 8.9 Consensus size: 7
19554302 AATTTTTAAA
19554312 AAAAATT
1 AAAAATT
19554319 AAAAATT
1 AAAAATT
19554326 AAAAATTT
1 AAAAA-TT
19554334 AAAAATAT
1 AAAAAT-T
*
19554342 AAAATATA
1 AAAA-ATT
19554350 AAAAATAT
1 AAAAAT-T
**
19554358 AAATTTT
1 AAAAATT
*
19554365 AAAAAAT
1 AAAAATT
19554372 AAAAAT
1 AAAAAT
19554378 GATGCAAGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
7 25 0.53
8 20 0.43
9 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:19554353 original size:16 final size:14
Alignment explanation
Indices: 19554312--19554377 Score: 69
Period size: 16 Copynumber: 4.4 Consensus size: 14
19554302 AATTTTTAAA
*
19554312 AAAAATTAAAAATT
1 AAAAATTAAAAAAT
*
19554326 AAAAATTTAAAAAT
1 AAAAATTAAAAAAT
19554340 ATAAAATATAAAAAAT
1 A-AAAAT-TAAAAAAT
*
19554356 ATAAATTTTAAAAAAT
1 A-AAA-ATTAAAAAAT
19554372 AAAAAT
1 AAAAAT
19554378 GATGCAAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 14 0.32
15 8 0.18
16 21 0.48
17 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATTAAAAAAT
Found at i:19557675 original size:25 final size:24
Alignment explanation
Indices: 19557633--19557685 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
19557623 ACATACTGCA
*
19557633 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
**
19557658 GCTCTTTATGAGTTTCCTAATATG
1 GCTCTTTATGAGCGTCCTAATATG
19557682 GCTC
1 GCTC
19557686 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:19559919 original size:13 final size:16
Alignment explanation
Indices: 19559880--19559921 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
19559870 GTGAAAAGTG
19559880 ATATATAATAACAATA
1 ATATATAATAACAATA
19559896 ATATATAATAA-AATA
1 ATATATAATAACAATA
19559911 ATTATATAATA
1 A-TATATAATA
19559922 TGATATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATAATAACAATA
Found at i:19563589 original size:48 final size:48
Alignment explanation
Indices: 19563518--19563609 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
19563508 TTGTTCCTAG
19563518 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATCCGAT
1 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATCCGAT
19563566 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATC
1 TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATC
19563610 GAAGTTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (48 bp):
TTCACTAAAAACGGATTGTTACAGGAATGGTCCAGTAAACTATCCGAT
Found at i:19570563 original size:40 final size:40
Alignment explanation
Indices: 19570519--19570598 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
19570509 ATTTATCTAT
19570519 TCCTTCAATATTTATGTACTCTTAATTTATTTTCAATTTA
1 TCCTTCAATATTTATGTACTCTTAATTTATTTTCAATTTA
19570559 TCCTTCAATATTTATGTACTCTTAATTTATTTTCAATTTA
1 TCCTTCAATATTTATGTACTCTTAATTTATTTTCAATTTA
19570599 CTTATGTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.55
Consensus pattern (40 bp):
TCCTTCAATATTTATGTACTCTTAATTTATTTTCAATTTA
Found at i:19571829 original size:12 final size:12
Alignment explanation
Indices: 19571801--19571842 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
19571791 TTAATACGGT
19571801 ATTTAA-ATTTA
1 ATTTAATATTTA
*
19571812 GTTTTAATATTTA
1 -ATTTAATATTTA
19571825 ATTTAATATTTA
1 ATTTAATATTTA
*
19571837 AATTAA
1 ATTTAA
19571843 ATAATATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
ATTTAATATTTA
Found at i:19571836 original size:19 final size:19
Alignment explanation
Indices: 19571800--19571837 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19571790 TTTAATACGG
*
19571800 TATTTAAATTTAGTTTTAA
1 TATTTAAATTTAATTTTAA
19571819 TATTT-AATTTAATATTTAA
1 TATTTAAATTTAAT-TTTAA
19571838 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TATTTAAATTTAATTTTAA
Found at i:19571961 original size:23 final size:24
Alignment explanation
Indices: 19571929--19571984 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
19571919 AAAAATTCAG
*
19571929 ATATC-AATTTT-AAAATAGTTAA
1 ATATCAAATTTTAAAAAAAGTTAA
* *
19571951 ATATTAAATTTTAAAAAAATTTAA
1 ATATCAAATTTTAAAAAAAGTTAA
19571975 ATATCAAATT
1 ATATCAAATT
19571985 AAACATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 4 0.14
23 6 0.21
24 18 0.64
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATCAAATTTTAAAAAAAGTTAA
Found at i:19574670 original size:21 final size:20
Alignment explanation
Indices: 19574646--19574685 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19574636 AGAAAGAAAT
19574646 AATTAAAATAAAAAGTAAAAG
1 AATTAAAAT-AAAAGTAAAAG
* *
19574667 AATTATAATAAGAGTAAAA
1 AATTAAAATAAAAGTAAAA
19574686 AGATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
AATTAAAATAAAAGTAAAAG
Found at i:19579487 original size:25 final size:25
Alignment explanation
Indices: 19579418--19579476 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
19579408 AGCTATAAAT
19579418 GGTAAGCTCCTCCGAGCTGAATAAC
1 GGTAAGCTCCTCCGAGCTGAATAAC
*
19579443 GATAAGCTCCTCCGAGCTGAATAAC
1 GGTAAGCTCCTCCGAGCTGAATAAC
19579468 GGTAAGCTC
1 GGTAAGCTC
19579477 ATACAAGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (25 bp):
GGTAAGCTCCTCCGAGCTGAATAAC
Found at i:19581717 original size:53 final size:53
Alignment explanation
Indices: 19581601--19581710 Score: 177
Period size: 53 Copynumber: 2.1 Consensus size: 53
19581591 GCAACGATTT
** *
19581601 ATTTTAAACTTTGAATATTTTTAATATTTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTTTTAATATTTTTTTCATTTATCTAATTTTAATTA
19581654 ATTTTAATTTTTGAATATTATTTAATA-TTTTTTCATTTATCTAATTTTAATTA
1 ATTTTAATTTTTGAATATT-TTTAATATTTTTTTCATTTATCTAATTTTAATTA
19581707 ATTT
1 ATTT
19581711 GTATTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
53 46 0.87
54 7 0.13
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (53 bp):
ATTTTAATTTTTGAATATTTTTAATATTTTTTTCATTTATCTAATTTTAATTA
Found at i:19582609 original size:7 final size:7
Alignment explanation
Indices: 19582597--19582621 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19582587 AGTCGTTTCA
19582597 TATTTAG
1 TATTTAG
19582604 TATTTAG
1 TATTTAG
19582611 TATTTAG
1 TATTTAG
19582618 TATT
1 TATT
19582622 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:19587007 original size:126 final size:126
Alignment explanation
Indices: 19586783--19587279 Score: 653
Period size: 126 Copynumber: 4.0 Consensus size: 126
19586773 CATGAAATAC
* * * *
19586783 TGTAGAAAAAGAGC-ATCCACATGGGAG-TTTTTTTAGAAATTTTGCTAACATTGCATCCTGCTT
1 TGTAGAAAAAGAGCGA-CCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTT
19586846 GAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAGGAACTAT
65 GAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAGGAACTAT
* * * * * ** *
19586908 TGTAGGAAAAGAACGACTACTTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATATTGCTTG
1 TGTAGAAAAAGAGCGACCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTG
* * *
19586973 AAGCGTTTTTGACACTTTTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAACTAT
66 AAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAGGAACTAT
*
19587034 TGTAGAAAAAGAGC-ATCCACGTGGGAGCTCTTTTCAGAAATTTTGCTGACATTGCATCCTACTT
1 TGTAGAAAAAGAGCGA-CCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTT
* * *
19587098 GAAGCGTTTTTGATACTATTTGTTCAGAAACGTCTTCTT-AAAATTATTTTTTCAAGAACTAC
65 GAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTT-TTCAAAATTATTTTTTCAGGAACTAT
* * * * * * * *
19587160 TGTAGCAAAAGAGCGTCCACGTAGGAGGTTTTTTCCGTATTTTTGCTGACAGTGCATCCTACTTG
1 TGTAGAAAAAGAGCGACCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTG
* * *
19587225 AAGTGTTTTTGACACTATTTGTTTAGAAATGTCTTTTCAAAATT-TTTTTTGCAGG
66 AAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTT-CAGG
19587280 GTAAAAATAA
Statistics
Matches: 324, Mismatches: 41, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
125 30 0.09
126 293 0.90
127 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (126 bp):
TGTAGAAAAAGAGCGACCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTG
AAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAGGAACTAT
Found at i:19587351 original size:28 final size:30
Alignment explanation
Indices: 19587315--19587391 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 30
19587305 AAATAAACAC
*
19587315 AAACCCTAATTTAATTAATTT-TAACCCT-
1 AAACCCTAATTTAATTAATTTAAAACCCTA
* * *
19587343 AAATCCTAAATTAATTTATTTAAAACCCTA
1 AAACCCTAATTTAATTAATTTAAAACCCTA
*
19587373 AAACCCTAATTTACTTAAT
1 AAACCCTAATTTAATTAAT
19587392 CTATTTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 18 0.46
29 6 0.15
30 15 0.38
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (30 bp):
AAACCCTAATTTAATTAATTTAAAACCCTA
Found at i:19587454 original size:22 final size:22
Alignment explanation
Indices: 19587440--19587481 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19587430 AACCTTAATT
19587440 TAATTTATTTTAAACCCTAACC
1 TAATTTATTTTAAACCCTAACC
* *
19587462 TAATTTATTTAAAATCCTAA
1 TAATTTATTTTAAACCCTAA
19587482 ACCCTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATTTATTTTAAACCCTAACC
Found at i:19587567 original size:22 final size:22
Alignment explanation
Indices: 19587538--19587590 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
19587528 TAATAAACAC
19587538 AAAACCCTAATTTAATTTATTT
1 AAAACCCTAATTTAATTTATTT
* *
19587560 TAAGCCCTAATTTAATTTATTT
1 AAAACCCTAATTTAATTTATTT
19587582 AAAACCCTA
1 AAAACCCTA
19587591 GAACCCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAACCCTAATTTAATTTATTT
Found at i:19587658 original size:57 final size:57
Alignment explanation
Indices: 19587583--19587887 Score: 178
Period size: 56 Copynumber: 5.6 Consensus size: 57
19587573 AATTTATTTA
* * *
19587583 AAACCCTAGAACCCTAATTTAATTCATTTCAACCAAAAAATATAAACCTTAATTTAAT
1 AAACCC-AAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* ** *
19587641 AAACCCAAAACCCTAATTTAATTTATTTTAAACC-CTAAAT-T-AA--TTTATTTAA-
1 AAACCCAAAACCCTAATTTAA-TTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* * * * * *
19587693 AATCCTAAAATCCTAATTTAATTAATTTTAACAAAAAAATATAAACCCTAATTT-AT
1 AAACCCAAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* ** * ** *
19587749 AAACCCGAAATGCT-ATTTAAATTATTTTAAACC-CTAACT-T-AA--TT-ATTT-A-
1 AAACCCAAAACCCTAATTT-AATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
* * * *** *
19587798 AAACCCTAAAACCCTAAATTACTTAATCT-ATTTAAAAAATATAAACCCTAATTTAAT
1 AAACCC-AAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
*
19587855 AAA-CCATAAACCCTAATTTAATTTATTTTAAAC
1 AAACCCA-AAACCCTAATTTAA-TTAATTTAAAC
19587888 ACTAACTTAA
Statistics
Matches: 178, Mismatches: 48, Indels: 42
0.66 0.18 0.16
Matches are distributed among these distances:
49 7 0.04
50 19 0.11
51 14 0.08
52 24 0.13
53 11 0.06
54 4 0.02
55 15 0.08
56 42 0.24
57 26 0.15
58 16 0.09
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (57 bp):
AAACCCAAAACCCTAATTTAATTAATTTAAACCAAAAAATATAAACCTTAATTTAAT
Found at i:19587673 original size:22 final size:22
Alignment explanation
Indices: 19587647--19587701 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
19587637 TAATAAACCC
*
19587647 AAAACCCTAATTTAATTTATTT
1 AAAACCCTAAATTAATTTATTT
*
19587669 TAAACCCTAAATTAATTTATTT
1 AAAACCCTAAATTAATTTATTT
*
19587691 AAAATCCTAAA
1 AAAACCCTAAA
19587702 ATCCTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAACCCTAAATTAATTTATTT
Found at i:19587677 original size:109 final size:108
Alignment explanation
Indices: 19587342--19587932 Score: 751
Period size: 109 Copynumber: 5.5 Consensus size: 108
19587332 ATTTTAACCC
* * * * *** *
19587342 TAAATCCTAAATTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTTAACAAAAAAATAT
* * *
19587407 AAGCCCTAATTTAATAAACTCAAAACCTTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* *
19587450 TAAACCCTAACCTAATTTATTTAAAATCCT-AAACCCTAAATTTAATTAATTTTAACAAAAAAAA
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCT-AATTTAATTAA-TTTAAC-AAAAAAA
* *
19587514 TACAAACCCTAATTTAATAAACACAAAACCCTAATTTAATTTATTT
63 TATAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * * * *
19587560 TAAGCCCTAATTTAATTTATTTAAAACCCTAGAACCCTAATTTAATTCATTTCAACCAAAAAATA
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTT-AACAAAAAAATA
*
19587625 TAAACCTTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
65 TAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * *
19587669 TAAACCCTAAATTAATTTATTTAAAATCCTAAAATCCTAATTTAATTAATTTTAACAAAAAAATA
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAA-TTTAACAAAAAAATA
* ** *
19587734 TAAACCCTAATTT-ATAAACCCGAAATGCT-ATTTAAATTATTT
65 TAAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
* * * ***
19587776 TAAACCCTAACTTAA-TTATTTAAAACCCTAAAACCCTAAATTACTTAATCTATTTAAAAAATAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTTAACAAAAAAATAT
19587840 AAACCCTAATTTAATAAA-CCATAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCCA-AAACCCTAATTTAATTTATTT
* * * *
19587883 TAAACACTAACTTAATTTATTTAAAATCCTAGAACCCTAATTTACTTAAT
1 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAAT
19587933 CTATTTAAAA
Statistics
Matches: 420, Mismatches: 53, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
105 26 0.06
106 39 0.09
107 59 0.14
108 80 0.19
109 121 0.29
110 89 0.21
111 6 0.01
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (108 bp):
TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAATTAATTTAACAAAAAAATAT
AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTT
Found at i:19587844 original size:34 final size:33
Alignment explanation
Indices: 19587785--19587848 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
19587775 TTAAACCCTA
**
19587785 ACTTAATTATTTAAAACCCTAAAACCCTAAATT
1 ACTTAATTATTTAAAACAATAAAACCCTAAATT
19587818 ACTTAATCTATTTAAAA-AATATAAACCCTAA
1 ACTTAAT-TATTTAAAACAATA-AAACCCTAA
19587849 TTTAATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (33 bp):
ACTTAATTATTTAAAACAATAAAACCCTAAATT
Found at i:19587851 original size:21 final size:22
Alignment explanation
Indices: 19587827--19587876 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
19587817 TACTTAATCT
*
19587827 ATTTAA-AAAATATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
*
19587848 ATTTAATAAACCATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
19587870 ATTTAAT
1 ATTTAAT
19587877 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTTAATAAAACATAAACCCTA
Found at i:19587886 original size:22 final size:22
Alignment explanation
Indices: 19587861--19587913 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19587851 TAATAAACCA
*
19587861 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
*
19587883 TAAACACTAACTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
19587905 AAAATCCTA
1 TAAACCCTA
19587914 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:19590204 original size:15 final size:16
Alignment explanation
Indices: 19590184--19590220 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19590174 TTTAGGTTAA
19590184 TTCAAA-ATCTTAAAT
1 TTCAAATATCTTAAAT
*
19590199 TTCAAATATCTTAATT
1 TTCAAATATCTTAAAT
19590215 TTCAAA
1 TTCAAA
19590221 CAAAGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
TTCAAATATCTTAAAT
Found at i:19593655 original size:9 final size:10
Alignment explanation
Indices: 19593618--19593652 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
19593608 GGACTAAACC
19593618 GAAAACTTTA
1 GAAAACTTTA
19593628 GAAAACTTTGA
1 GAAAACTTT-A
19593639 GAAAA-TTTA
1 GAAAACTTTA
19593648 GAAAA
1 GAAAA
19593653 TTTTCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 6 0.25
10 12 0.50
11 6 0.25
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (10 bp):
GAAAACTTTA
Found at i:19597419 original size:20 final size:21
Alignment explanation
Indices: 19597386--19597429 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
19597376 CTCTGTTTCT
*
19597386 TTTCTATTTCTTTTAC-TTTG
1 TTTCTATTTATTTTACTTTTG
*
19597406 TTTCTTTTTATTTTACTTTTG
1 TTTCTATTTATTTTACTTTTG
19597427 TTT
1 TTT
19597430 ATTATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTCTATTTATTTTACTTTTG
Found at i:19609186 original size:35 final size:35
Alignment explanation
Indices: 19609147--19609216 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
19609137 ACAAAAGTAG
* * *
19609147 AAATGAAAACAATATGAAATAAAGATGAAACTAAA
1 AAATGAAAACAACATAAAATAAAGACGAAACTAAA
19609182 AAATGAAAACAACATAAAATAAAGACGAAACTAAA
1 AAATGAAAACAACATAAAATAAAGACGAAACTAAA
19609217 GTAAAACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.67, C:0.09, G:0.10, T:0.14
Consensus pattern (35 bp):
AAATGAAAACAACATAAAATAAAGACGAAACTAAA
Found at i:19609234 original size:30 final size:32
Alignment explanation
Indices: 19609147--19609234 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 32
19609137 ACAAAAGTAG
*
19609147 AAATGAAAACAATATGAAATAAAGATGAAACTAAA
1 AAATGAAAACAAT-T-AAATAAAGACGAAACT-AA
*
19609182 AAATGAAAACAACATAAAATAAAGACGAAACT-A
1 AAATGAAAAC-A-ATTAAATAAAGACGAAACTAA
*
19609215 AAGT-AAAACAATTAAATAAA
1 AAATGAAAACAATTAAATAAA
19609235 TGAAAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 9 0.19
31 1 0.02
32 5 0.11
33 4 0.09
35 25 0.53
36 1 0.02
37 2 0.04
ACGTcount: A:0.67, C:0.08, G:0.09, T:0.16
Consensus pattern (32 bp):
AAATGAAAACAATTAAATAAAGACGAAACTAA
Found at i:19612255 original size:15 final size:15
Alignment explanation
Indices: 19612235--19612265 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19612225 AAACCTATAA
*
19612235 AAATTAAATTAAACT
1 AAATTAAATAAAACT
19612250 AAATTAAATAAAACT
1 AAATTAAATAAAACT
19612265 A
1 A
19612266 CTAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:19617185 original size:32 final size:32
Alignment explanation
Indices: 19617148--19617216 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
19617138 ACAAATTCTA
* *
19617148 CATGGAATGACTTCATTTAAAATTGTGGAATT
1 CATGGAATGAATTCATTTAAAATTATGGAATT
*
19617180 CATGGAATGAATTCATTTACAATTATGGAATT
1 CATGGAATGAATTCATTTAAAATTATGGAATT
*
19617212 TATGG
1 CATGG
19617217 CCCAATAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (32 bp):
CATGGAATGAATTCATTTAAAATTATGGAATT
Found at i:19622672 original size:4 final size:4
Alignment explanation
Indices: 19622663--19622703 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
19622653 GTTAAGAAAA
* *
19622663 TAAT TAAT TAAA TAATT TAAT TAAC TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAA-T TAAT TAAT TAAT TAAT TAAT TAAT
19622704 ATTTTGGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:19622675 original size:12 final size:12
Alignment explanation
Indices: 19622660--19622703 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
19622650 TGGGTTAAGA
19622660 AAATAATTAATT
1 AAATAATTAATT
19622672 AAATAATTTAATT
1 AAATAA-TTAATT
*
19622685 AACTAATTAATT
1 AAATAATTAATT
*
19622697 AATTAAT
1 AAATAAT
19622704 ATTTTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATAATTAATT
Found at i:19624164 original size:22 final size:22
Alignment explanation
Indices: 19624147--19624198 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
19624137 TGTTTTGTTT
19624147 TACTAAAACAACGATTTTGGTC
1 TACTAAAACAACGATTTTGGTC
19624169 TACTAAAACAACGATTTTGGTC
1 TACTAAAACAACGATTTTGGTC
*
19624191 TACGAAAA
1 TACTAAAA
19624199 TCGAGAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (22 bp):
TACTAAAACAACGATTTTGGTC
Found at i:19625401 original size:15 final size:15
Alignment explanation
Indices: 19625381--19625411 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19625371 AAGTGAACAA
19625381 ATAATAAAAAATAAT
1 ATAATAAAAAATAAT
*
19625396 ATAATAAAAACTAAT
1 ATAATAAAAAATAAT
19625411 A
1 A
19625412 AAGTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAAAAAATAAT
Found at i:19625742 original size:3 final size:3
Alignment explanation
Indices: 19625734--19625961 Score: 85
Period size: 3 Copynumber: 75.0 Consensus size: 3
19625724 TAATACTAAG
* * * *
19625734 ATA ATA ATA ATA GTA ATA GAGA GTA ACA ATA CATTA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
* * * * *
19625781 ATG TTA ATA ACA ATA ATA ATA ATA TATA A-A AAA AGGGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA A--TA ATA ATA ATA
* * * * * *
19625828 GT- ATA GTA AAA ATA ATA AT- TTA TTA ATA ATA ATG ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
19625873 ATGA GATT ATA ATA ATA ATA TTA ATA AAA ATGG AT- GTA A-A AGAA ATA
1 AT-A -ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA
* * *
19625920 GTA ATA ATA GTA ATA ATA ATA GTA ATA AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
19625962 TATGTTTGCA
Statistics
Matches: 165, Mismatches: 41, Indels: 38
0.68 0.17 0.16
Matches are distributed among these distances:
2 13 0.08
3 132 0.80
4 14 0.08
5 6 0.04
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19625844 original size:23 final size:22
Alignment explanation
Indices: 19625769--19625846 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 22
19625759 ACAATACATT
*
19625769 AATAATAATAATATGT-TAATAAC
1 AATAATAATAATA-GTAT-ATAAA
*
19625792 AATAATAATAATA-TATAAAAA
1 AATAATAATAATAGTATATAAA
*
19625813 AAGGGAATAATAATAGTATAGTAAA
1 AA--TAATAATAATAGTATA-TAAA
19625838 AATAATAAT
1 AATAATAAT
19625847 TTATTAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.13
22 1 0.02
23 29 0.64
24 4 0.09
25 5 0.11
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAGTATATAAA
Found at i:19625858 original size:17 final size:17
Alignment explanation
Indices: 19625768--19625892 Score: 63
Period size: 17 Copynumber: 7.6 Consensus size: 17
19625758 AACAATACAT
19625768 TAATAATAATAATAT-G
1 TAATAATAATAATATAG
*
19625784 TTAATAACAATAATA-A-
1 -TAATAATAATAATATAG
*
19625800 TAATATATAA-AA-AAAGG
1 TAATA-ATAATAATATA-G
* *
19625817 GAATAATAATAGTATAG
1 TAATAATAATAATATAG
* * *
19625834 TAAAAATAATAATTTAT
1 TAATAATAATAATATAG
*
19625851 TAATAATAATGATA-A-
1 TAATAATAATAATATAG
19625866 TAATAA-AATGAGAT-TA-
1 TAATAATAAT-A-ATATAG
19625882 TAATAATAATA
1 TAATAATAATA
19625893 TTAATAAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
14 4 0.05
15 14 0.17
16 18 0.22
17 45 0.54
18 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (17 bp):
TAATAATAATAATATAG
Found at i:19625895 original size:14 final size:15
Alignment explanation
Indices: 19625838--19625895 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 15
19625828 GTATAGTAAA
19625838 AATAATAAT--TTATT
1 AATAATAATGATTA-T
*
19625852 AATAATAATGATAAT
1 AATAATAATGATTAT
19625867 AATAA-AATGAGATTAT
1 AATAATAAT--GATTAT
19625883 AATAATAAT-ATTA
1 AATAATAATGATTA
19625896 ATAAAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 16 0.43
15 6 0.16
16 12 0.32
17 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
AATAATAATGATTAT
Found at i:19625899 original size:12 final size:11
Alignment explanation
Indices: 19625770--19625963 Score: 71
Period size: 11 Copynumber: 17.3 Consensus size: 11
19625760 CAATACATTA
19625770 ATAATAATAAT
1 ATAATAATAAT
** *
19625781 ATGTTAATAACA
1 ATAATAATAA-T
19625793 ATAATAATAAT
1 ATAATAATAAT
* *
19625804 AT-ATAAAAAA
1 ATAATAATAAT
*
19625814 AGGGAATAATAAT
1 A--TAATAATAAT
*
19625827 AGT-ATAGTAA-
1 A-TAATAATAAT
19625837 A-AATAATAAT
1 ATAATAATAAT
* *
19625847 TTATTAATAAT
1 ATAATAATAAT
*
19625858 AATGATAATAAT
1 -ATAATAATAAT
* * * *
19625870 AAAATGAGATT
1 ATAATAATAAT
19625881 ATAATAATAAT
1 ATAATAATAAT
*
19625892 ATTAATAAAAAT
1 A-TAATAATAAT
*
19625904 GGATGTAA-AAGAA-
1 --A--TAATAATAAT
*
19625917 ATAGTAATAAT
1 ATAATAATAAT
19625928 AGTAATAATAAT
1 A-TAATAATAAT
19625940 AGTAATAAT-AT
1 A-TAATAATAAT
19625951 A-AATAATAAT
1 ATAATAATAAT
19625961 ATA
1 ATA
19625964 TGTTTGCAAA
Statistics
Matches: 132, Mismatches: 34, Indels: 34
0.66 0.17 0.17
Matches are distributed among these distances:
9 14 0.11
10 15 0.11
11 44 0.33
12 44 0.33
13 7 0.05
14 5 0.04
15 3 0.02
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:19626005 original size:18 final size:18
Alignment explanation
Indices: 19625984--19626026 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19625974 ATAACGATAG
19625984 TAATAA-AAAATATAATAA
1 TAATAATAAAA-ATAATAA
**
19626002 TAATAATGGAAATAATAA
1 TAATAATAAAAATAATAA
19626020 TAATAAT
1 TAATAAT
19626027 GGCATTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAATAAAAATAATAA
Found at i:19626676 original size:4 final size:4
Alignment explanation
Indices: 19626669--19626733 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
19626659 TAAATATATA
19626669 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
19626717 TATG TATG TATG TATG T
1 TATG TATG TATG TATG T
19626734 TTAAAAGATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:19634953 original size:19 final size:18
Alignment explanation
Indices: 19634926--19634973 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
19634916 TTCAAAACAA
19634926 AATAA-AAATATAAAAAT
1 AATAACAAATATAAAAAT
* *
19634943 AATAACCAAATAGAAATAT
1 AATAA-CAAATATAAAAAT
*
19634962 AGTAACAAATAT
1 AATAACAAATAT
19634974 TTATTAGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 14 0.56
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (18 bp):
AATAACAAATATAAAAAT
Found at i:19635469 original size:36 final size:36
Alignment explanation
Indices: 19635388--19635470 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
19635378 ACATTATAAA
* * * *
19635388 CACTGTCACATGGCATGAATAACATACCCACATATT
1 CACTATCACATGGCATAAACAACACACCCACATATT
* *
19635424 TACTATCACATGGCATAAACAACACACCCTCATATT
1 CACTATCACATGGCATAAACAACACACCCACATATT
* *
19635460 CATTTTCACAT
1 CACTATCACAT
19635471 CAGTCATCAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.28
Consensus pattern (36 bp):
CACTATCACATGGCATAAACAACACACCCACATATT
Found at i:19635533 original size:8 final size:8
Alignment explanation
Indices: 19635517--19635547 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
19635507 CTCATATATG
*
19635517 TTCATAAT
1 TTCACAAT
19635525 TTCACAAT
1 TTCACAAT
19635533 TTCACAAT
1 TTCACAAT
19635541 TTCACAA
1 TTCACAA
19635548 GCATACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (8 bp):
TTCACAAT
Found at i:19639633 original size:16 final size:18
Alignment explanation
Indices: 19639596--19639634 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
19639586 TATTGCCTCG
*
19639596 TTTCTTTTCTTCTTCCTT
1 TTTCTTTTCTTCTTCCTA
19639614 TTTCTTTT-TT-TTCCTA
1 TTTCTTTTCTTCTTCCTA
19639630 TTTCT
1 TTTCT
19639635 CCTCATCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTCTTTTCTTCTTCCTA
Found at i:19642861 original size:4 final size:4
Alignment explanation
Indices: 19642852--19642941 Score: 162
Period size: 4 Copynumber: 22.5 Consensus size: 4
19642842 TTTGAGTTCA
*
19642852 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
19642900 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
19642942 GGTTGTTGCA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 82 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:19649687 original size:17 final size:17
Alignment explanation
Indices: 19649662--19649704 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
19649652 ATTTCGTTTG
19649662 TTTATTTTTC-TTCATTTA
1 TTTA-TTTTCGTT-ATTTA
*
19649680 TTTCTTTTCGTTATTTA
1 TTTATTTTCGTTATTTA
19649697 TTTATTTT
1 TTTATTTT
19649705 TATCTCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTTTCGTTATTTA
Found at i:19651818 original size:19 final size:19
Alignment explanation
Indices: 19651775--19651818 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19651765 AATATAAGTG
19651775 ATATTT-AAAATAAATAAA
1 ATATTTAAAAATAAATAAA
*
19651793 ATTTTTAAAAATAATATAAA
1 ATATTTAAAAATAA-ATAAA
19651813 A-ATTTA
1 ATATTTA
19651819 GAACTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATTTAAAAATAAATAAA
Found at i:19651858 original size:18 final size:18
Alignment explanation
Indices: 19651835--19651869 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19651825 TATTAGAAAG
* *
19651835 TAAATTATAATATTAAAT
1 TAAATTAAAAAATTAAAT
19651853 TAAATTAAAAAATTAAA
1 TAAATTAAAAAATTAAA
19651870 AAAAATTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATTAAAAAATTAAAT
Found at i:19652512 original size:16 final size:15
Alignment explanation
Indices: 19652475--19652535 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
19652465 CTTTGTTAGA
* **
19652475 TTTCTCTTTATGAGT
1 TTTCTCTTTTTGTTT
19652490 TTTCTCTTTTTGTTT
1 TTTCTCTTTTTGTTT
* * *
19652505 TATTCTCTTTGTGATA
1 T-TTCTCTTTTTGTTT
19652521 TTTCTCTTTTTGTTT
1 TTTCTCTTTTTGTTT
19652536 ATTTTCCTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.69
Consensus pattern (15 bp):
TTTCTCTTTTTGTTT
Found at i:19652514 original size:31 final size:31
Alignment explanation
Indices: 19652476--19652535 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
19652466 TTTGTTAGAT
19652476 TTCTCTTTATGAGT-TTTCTCTTTTTGTTTTA
1 TTCTCTTTATGA-TATTTCTCTTTTTGTTTTA
*
19652507 TTCTCTTTGTGATATTTCTCTTTTTGTTT
1 TTCTCTTTATGATATTTCTCTTTTTGTTT
19652536 ATTTTCCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.68
Consensus pattern (31 bp):
TTCTCTTTATGATATTTCTCTTTTTGTTTTA
Found at i:19654034 original size:6 final size:6
Alignment explanation
Indices: 19654023--19654051 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19654013 TCTTTAACTA
19654023 ATAATT ATAATT ATAATT ATAATT ATAAT
1 ATAATT ATAATT ATAATT ATAATT ATAAT
19654052 AAAACTTTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:19658882 original size:18 final size:19
Alignment explanation
Indices: 19658861--19658896 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19658851 CTATTTTTCT
19658861 GAATTTT-CATAATATTTA
1 GAATTTTACATAATATTTA
*
19658879 GAATTTTATATAATATTT
1 GAATTTTACATAATATTT
19658897 TTATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
GAATTTTACATAATATTTA
Found at i:19668276 original size:84 final size:84
Alignment explanation
Indices: 19668128--19668312 Score: 289
Period size: 84 Copynumber: 2.2 Consensus size: 84
19668118 TTATGGGCCT
* * *
19668128 ACATGCCCGTGTGGGCCCACACACCCAAATTGACCTTACCCATGTAGCCCATACGGTCTGGCCCA
1 ACATGCCCGTGTGGGCCCACACACCCAAATTGACATTACCCATGTAGCCCATACGATCTAGCCCA
*
19668193 AAACCCACACTCCCATGTG
66 AAACCCACACGCCCATGTG
* * * * *
19668212 GCATGCCCGTGTGGGCCCACACTCCCATATTGACATTACCCATGTGGCCCATATGATCTAGCCCA
1 ACATGCCCGTGTGGGCCCACACACCCAAATTGACATTACCCATGTAGCCCATACGATCTAGCCCA
19668277 AAACCCACACGCCCATGTG
66 AAACCCACACGCCCATGTG
19668296 ACATGCCCGTGTGGGCC
1 ACATGCCCGTGTGGGCC
19668313 TATACGCCCA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.23, C:0.38, G:0.20, T:0.19
Consensus pattern (84 bp):
ACATGCCCGTGTGGGCCCACACACCCAAATTGACATTACCCATGTAGCCCATACGATCTAGCCCA
AAACCCACACGCCCATGTG
Found at i:19674507 original size:3 final size:3
Alignment explanation
Indices: 19674499--19674563 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
19674489 TAATTTATTT
* * *
19674499 TAA TAA TAA TGA TAA TAA TAA TAA T-T TAA TAA T-T TAA T-A TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
19674543 CT-A TAA TAA TAA TTA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA
19674564 ATATCTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
2 7 0.15
3 41 0.85
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:19674576 original size:24 final size:23
Alignment explanation
Indices: 19674522--19674578 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
19674512 AATAATAATA
19674522 ATTTAATAATTTAATATAAAACT
1 ATTTAATAATTTAATATAAAACT
* *
19674545 ATAATAATAATTATAATA-AATATCT
1 AT-TTAATAATT-TAATATAA-AACT
19674570 ATTTAATAA
1 ATTTAATAA
19674579 AAAATACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 16 0.57
25 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAATAATTTAATATAAAACT
Found at i:19675239 original size:21 final size:21
Alignment explanation
Indices: 19675215--19675259 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19675205 CAAGAACATC
*
19675215 AAATTCGAAAATCGAAACCAA
1 AAATTCGAAAATCAAAACCAA
* *
19675236 AAATTCGAAATTCAAAACCCA
1 AAATTCGAAAATCAAAACCAA
19675257 AAA
1 AAA
19675260 CCAAAAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.20, G:0.07, T:0.16
Consensus pattern (21 bp):
AAATTCGAAAATCAAAACCAA
Found at i:19675933 original size:18 final size:16
Alignment explanation
Indices: 19675896--19675926 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19675886 AGGAAACATG
19675896 TAAAAATTATATAAAT
1 TAAAAATTATATAAAT
19675912 TAAAAATTATATAAA
1 TAAAAATTATATAAA
19675927 AGTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATTATATAAAT
Found at i:19676226 original size:32 final size:32
Alignment explanation
Indices: 19676154--19676228 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
19676144 AAAAAGTGAC
*
19676154 TTGTCATTTAATCAGCCACGTTGGAGTCCTTA
1 TTGTCATTTAATCAGCCACGTTGGAGACCTTA
* * * ** *
19676186 CTGCCATTTAATCGGCCACGTTGGAGAGTTTG
1 TTGTCATTTAATCAGCCACGTTGGAGACCTTA
19676218 TTGTCATTTAA
1 TTGTCATTTAA
19676229 ACAATCCCAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (32 bp):
TTGTCATTTAATCAGCCACGTTGGAGACCTTA
Found at i:19676982 original size:3 final size:3
Alignment explanation
Indices: 19676976--19677036 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
19676966 TCATCTCCAT
* * * *
19676976 TTC TTC -TC TTC TTC TTC TTC TTC TTC TCC TCC TTC TTC TTC TTT TTA
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
19677023 TTT TTC TTC TTC TT
1 TTC TTC TTC TTC TT
19677037 TTATTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:19677505 original size:28 final size:28
Alignment explanation
Indices: 19677456--19677512 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
19677446 TATCTTAACT
19677456 CTTTTATTTATTATCATGTCTCCTTCTTA
1 CTTTTATTTATTATCATGTCTCCTT-TTA
* *
19677485 CTTTTA-TTATTATTATTTCTCCTTTTA
1 CTTTTATTTATTATCATGTCTCCTTTTA
19677512 C
1 C
19677513 ATTCTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.15
28 16 0.62
29 6 0.23
ACGTcount: A:0.18, C:0.19, G:0.02, T:0.61
Consensus pattern (28 bp):
CTTTTATTTATTATCATGTCTCCTTTTA
Found at i:19677522 original size:28 final size:27
Alignment explanation
Indices: 19677462--19677522 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
19677452 AACTCTTTTA
19677462 TTTATTATCATGTCTCCTTCTTACTTT
1 TTTATTATCATGTCTCCTTCTTACTTT
* *
19677489 TATTATTATTATTTCTCCTT-TTACATTCT
1 T-TTATTATCATGTCTCCTTCTTAC-TT-T
19677518 TTTAT
1 TTTAT
19677523 ACTTTTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 5 0.17
28 22 0.76
29 2 0.07
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTATTATCATGTCTCCTTCTTACTTT
Found at i:19678624 original size:18 final size:18
Alignment explanation
Indices: 19678594--19678669 Score: 52
Period size: 17 Copynumber: 4.3 Consensus size: 18
19678584 TTCTTTATAT
*
19678594 ATTTTTAT-TTTTTTGAA
1 ATTTTTATAATTTTTGAA
*
19678611 ATTTTTATAATTTTTTAA
1 ATTTTTATAATTTTTGAA
** * *
19678629 AAATATA-AAATTTT-AA
1 ATTTTTATAATTTTTGAA
19678645 ATTTTTATAAATATTTTG-A
1 ATTTTTAT-AAT-TTTTGAA
19678664 ATTTTT
1 ATTTTT
19678670 GAAAATTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
16 6 0.14
17 14 0.32
18 13 0.30
19 11 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTTATAATTTTTGAA
Found at i:19678679 original size:20 final size:19
Alignment explanation
Indices: 19678632--19678688 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
19678622 TTTTTAAAAA
*
19678632 TATAAA-ATTTTAAATTTT
1 TATAAATATTTTGAATTTT
19678650 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
19678669 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
19678688 T
1 T
19678689 TTTTTGTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 6 0.17
19 21 0.60
20 8 0.23
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:19685896 original size:17 final size:17
Alignment explanation
Indices: 19685866--19685907 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19685856 AGTCTCTAAT
*
19685866 AGTTTACTATAG-TTTC
1 AGTTTACTACAGTTTTC
19685882 AGTTTAACTACAGTTTTC
1 AGTTT-ACTACAGTTTTC
*
19685900 AGTGTACT
1 AGTTTACT
19685908 TTCGCAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 8 0.36
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
AGTTTACTACAGTTTTC
Found at i:19688955 original size:20 final size:20
Alignment explanation
Indices: 19688932--19688974 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19688922 CACATGCCCT
19688932 TGTGGCCTGGGACATGGCCA
1 TGTGGCCTGGGACATGGCCA
** *
19688952 TGTGGTTTGGGACATGGTCA
1 TGTGGCCTGGGACATGGCCA
19688972 TGT
1 TGT
19688975 CGCCAGCCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.40, T:0.30
Consensus pattern (20 bp):
TGTGGCCTGGGACATGGCCA
Found at i:19690988 original size:24 final size:25
Alignment explanation
Indices: 19690939--19690988 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
19690929 AACCTCAAAG
* *
19690939 CCCTATTTTTCCTTTCTTTTTCTTT
1 CCCTATTTTTCCTTTCTTTCTATTT
19690964 CCCT-TTTTT-CTTTCCTTTCTATTT
1 CCCTATTTTTCCTTT-CTTTCTATTT
19690988 C
1 C
19690989 GTTTTCATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (25 bp):
CCCTATTTTTCCTTTCTTTCTATTT
Found at i:19708457 original size:128 final size:128
Alignment explanation
Indices: 19708229--19708489 Score: 486
Period size: 128 Copynumber: 2.0 Consensus size: 128
19708219 GTAAACAGAT
* *
19708229 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGCAAAACTGTGCATGCATGGTTATGGCAATG
1 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
* *
19708294 CACTATTTTAGAAAACGAAATGTAGATTTTTCAGAAAATTTCCTACTCAACTCTATTACACAC
66 CACTATTTTAGAAAACAAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
19708357 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
1 CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
19708422 CACTATTTTAGAAAACAAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
66 CACTATTTTAGAAAACAAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
19708485 CAAAA
1 CAAAA
19708490 GGAGTTCCCC
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (128 bp):
CAAAATGTCGTAGAGGTTTCATCAAACTTGAATGGAAAAACTATGCATGCATGGTTATGGCAATG
CACTATTTTAGAAAACAAAATGTAGATTTTTCAGAAAACTTCCTACTCAACTCTATTACACAC
Found at i:19709797 original size:15 final size:15
Alignment explanation
Indices: 19709777--19709811 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
19709767 CAACAACAAT
19709777 AATAAAAATAATAAA
1 AATAAAAATAATAAA
*
19709792 AATAAAAATAATAAT
1 AATAAAAATAATAAA
19709807 AATAA
1 AATAA
19709812 CAGAGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:19709811 original size:9 final size:9
Alignment explanation
Indices: 19709774--19709808 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
19709764 GAACAACAAC
19709774 AATAATAAA
1 AATAATAAA
19709783 AATAATAAA
1 AATAATAAA
19709792 AATAA-AAA
1 AATAATAAA
19709800 TAATAATAA
1 -AATAATAA
19709809 TAACAGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 3 0.12
9 19 0.79
10 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAA
Found at i:19710038 original size:3 final size:3
Alignment explanation
Indices: 19710032--19710150 Score: 89
Period size: 3 Copynumber: 39.3 Consensus size: 3
19710022 ATGGTAAAAC
** **
19710032 ATA ATA ATA ATA AT- ATGA ATA ATA ATA ACG ATA ATAA ATA ATA GCA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
19710078 ATA ATA ATA ATA ATG ATA ATA GAAA ATA ATA ATA GTA CTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
19710124 ATG GTA ATA ATA AT- ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19710151 AAAAATGATG
Statistics
Matches: 88, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
2 4 0.05
3 77 0.88
4 7 0.08
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:19710120 original size:34 final size:32
Alignment explanation
Indices: 19710034--19710150 Score: 100
Period size: 31 Copynumber: 3.7 Consensus size: 32
19710024 GGTAAAACAT
*
19710034 AATAATAATAATATGAATAATAATAACGATAATA
1 AATAATAATAATAT--ATAATAATAATGATAATA
**
19710068 AATAATAGCAATA-ATAATAATAATGATAATA
1 AATAATAATAATATATAATAATAATGATAATA
* *
19710099 GAA-AATAATAATAGTACTAATAGTAATGGTAAT-
1 -AATAATAATAATA-TA-TAATAATAATGATAATA
*
19710132 AATAAT-ATAA-AAATAATAA
1 AATAATAATAATATATAATAA
19710151 AAAAATGATG
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
29 5 0.07
30 1 0.01
31 26 0.38
32 8 0.12
33 4 0.06
34 25 0.36
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (32 bp):
AATAATAATAATATATAATAATAATGATAATA
Found at i:19711008 original size:10 final size:9
Alignment explanation
Indices: 19710993--19711017 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19710983 AAACAGATTC
19710993 AAAAAAATA
1 AAAAAAATA
19711002 AAAAAAATA
1 AAAAAAATA
19711011 AAAAAAA
1 AAAAAAA
19711018 GATGAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:19713145 original size:31 final size:31
Alignment explanation
Indices: 19713110--19713192 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
19713100 CTTCCTGCAT
* *
19713110 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
19713141 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
19713172 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
19713193 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:19719074 original size:9 final size:9
Alignment explanation
Indices: 19719060--19719187 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
19719050 ATGTATTAGT
19719060 TAAGTTATG
1 TAAGTTATG
19719069 TAAGTTGTTATG
1 TAA---GTTATG
*
19719081 TACGTTATG
1 TAAGTTATG
*
19719090 TGAGTTATG
1 TAAGTTATG
*
19719099 TAAATTATG
1 TAAGTTATG
19719108 TAAGTTATG
1 TAAGTTATG
*
19719117 TGAGTTATG
1 TAAGTTATG
19719126 TAAGTTGTTATG
1 TAA---GTTATG
*
19719138 TAAATTATG
1 TAAGTTATG
*
19719147 TAAGTTATA
1 TAAGTTATG
*
19719156 TGAGTTATG
1 TAAGTTATG
19719165 TAAGTTATG
1 TAAGTTATG
* *
19719174 TAATTTATT
1 TAAGTTATG
19719183 TAAGT
1 TAAGT
19719188 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:19719187 original size:57 final size:57
Alignment explanation
Indices: 19719060--19719187 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
19719050 ATGTATTAGT
** * *
19719060 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
19719117 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
19719174 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
19719188 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:19719732 original size:241 final size:241
Alignment explanation
Indices: 19719306--19719740 Score: 861
Period size: 241 Copynumber: 1.8 Consensus size: 241
19719296 TGAATATAGT
19719306 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
19719371 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
19719436 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
19719501 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
19719547 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
19719612 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
19719677 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAATCTACATGGTAATAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
19719741 ATTAATTCAT
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 193 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
Found at i:19719889 original size:23 final size:23
Alignment explanation
Indices: 19719863--19719912 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
19719853 GTTCAAGTTT
19719863 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
19719886 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
19719909 ATTT
1 ATTT
19719913 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:19722424 original size:14 final size:15
Alignment explanation
Indices: 19722400--19722429 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19722390 CACAAACTTC
19722400 AGAATTTATGTATTT
1 AGAATTTATGTATTT
19722415 AGAA-TTATGTATTT
1 AGAATTTATGTATTT
19722429 A
1 A
19722430 TATAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AGAATTTATGTATTT
Found at i:19723025 original size:76 final size:76
Alignment explanation
Indices: 19722899--19723058 Score: 313
Period size: 76 Copynumber: 2.1 Consensus size: 76
19722889 ACTTTGAAAA
19722899 TCATTAATCGTTGAACTATTTTCTTACCTTGAACTGTTTTCTTCAACCCCGAAGCCAACTTCTGA
1 TCATTAATCGTTGAACTATTTTCTTACCTTGAACTGTTTTCTTCAACCCCGAAGCCAACTTCTGA
19722964 AACCTTTCCTT
66 AACCTTTCCTT
19722975 TCATTAATCGTTGAACTATTTTCTTACCTTGAACTGTTTTCTTCAACCCCGAAGCCAACTTCTGA
1 TCATTAATCGTTGAACTATTTTCTTACCTTGAACTGTTTTCTTCAACCCCGAAGCCAACTTCTGA
19723040 AACCTTTCCTT
66 AACCTTTCCTT
19723051 TC-TTAATC
1 TCATTAATC
19723059 CAATTTTCTA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 6 0.07
76 78 0.93
ACGTcount: A:0.24, C:0.28, G:0.09, T:0.40
Consensus pattern (76 bp):
TCATTAATCGTTGAACTATTTTCTTACCTTGAACTGTTTTCTTCAACCCCGAAGCCAACTTCTGA
AACCTTTCCTT
Found at i:19724509 original size:21 final size:22
Alignment explanation
Indices: 19724485--19724531 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
19724475 TGTTTTATGT
*
19724485 TTTAAAATTTAAGGTTT-AGGG
1 TTTAAAATTTAAGATTTAAGGG
**
19724506 TTTAATGTTTAAGATTTAAGGG
1 TTTAAAATTTAAGATTTAAGGG
19724528 TTTA
1 TTTA
19724532 CAGAAAGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (22 bp):
TTTAAAATTTAAGATTTAAGGG
Found at i:19724880 original size:41 final size:40
Alignment explanation
Indices: 19724834--19725112 Score: 319
Period size: 41 Copynumber: 6.9 Consensus size: 40
19724824 CGTTTGGACC
* *
19724834 AAAAACGCCGCTATTAATCAGTTTTTAGTGGCATTTTGGA
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGA
* * * *
19724874 TAAAAACGCCACAATTGATCAGTTTTTTGTGGCGTTTCGGA
1 -AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGA
*
19724915 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCG-TTTGAGA
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTG-GA
* *
19724955 TTAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTTGCG-
1 -AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTG-GA
* **
19724996 AAAAACGCCGCTATTGACCAGTTTTTAGTGGCGTTTTTGCC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCG-TTTTGGA
* * *
19725037 AAAAACGCCGCTATTGACCAGTTTTTAGTGGCGTTTTTGC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGA
* * * * *
19725077 CAAAACGCCGCTATAGTTTAGCTTTTAGTGGCGTTT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT
19725113 CGGACAAACG
Statistics
Matches: 208, Mismatches: 25, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.01
40 98 0.47
41 102 0.49
42 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (40 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGA
Found at i:19725109 original size:81 final size:81
Alignment explanation
Indices: 19724833--19725112 Score: 337
Period size: 81 Copynumber: 3.5 Consensus size: 81
19724823 GCGTTTGGAC
* * * * *
19724833 CAAAAACGCCGCTATTAATCAGTTTTTAGTGGCATTTTGGATAAAAACGCCACAATTGATCAGTT
1 CAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTAGATAAAAACGCCGCTATTGATCAGTT
* **
19724898 TTTTGTGGCGTTTCGG
66 TTTAGTGGCGTTTTTG
* * * * *
19724914 AAAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTGAGATTAAAACGCCGCTATTGATCAGCT
1 CAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTAGATAAAAACGCCGCTATTGATCAGTT
19724979 TTTAGTGGCG-TTTTG
66 TTTAGTGGCGTTTTTG
* * ** *
19724994 CGAAAAACGCCGCTATTGACCAGTTTTTAGTGGCGTTTTTGCCAAAAACGCCGCTATTGACCAGT
1 C-AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTAGATAAAAACGCCGCTATTGATCAGT
19725059 TTTTAGTGGCGTTTTTG
65 TTTTAGTGGCGTTTTTG
* * * * *
19725076 CCAAAACGCCGCTATAGTTTAGCTTTTAGTGGCGTTT
1 CAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT
19725113 CGGACAAACG
Statistics
Matches: 168, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 3 0.02
81 159 0.95
82 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (81 bp):
CAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTAGATAAAAACGCCGCTATTGATCAGTT
TTTAGTGGCGTTTTTG
Found at i:19726171 original size:16 final size:16
Alignment explanation
Indices: 19726150--19726180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19726140 TAGGCAAACC
*
19726150 CCCATGTATGTGAACT
1 CCCATGTATGCGAACT
19726166 CCCATGTATGCGAAC
1 CCCATGTATGCGAAC
19726181 CCACATGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (16 bp):
CCCATGTATGCGAACT
Found at i:19726187 original size:16 final size:15
Alignment explanation
Indices: 19726149--19726187 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19726139 TTAGGCAAAC
*
19726149 CCCCATGTATGTGAA
1 CCCCATGTATGCGAA
19726164 CTCCCATGTATGCGAA
1 C-CCCATGTATGCGAA
19726180 CCCACATG
1 CCC-CATG
19726188 CTAACCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (15 bp):
CCCCATGTATGCGAA
Found at i:19726260 original size:34 final size:34
Alignment explanation
Indices: 19726205--19726343 Score: 188
Period size: 34 Copynumber: 4.1 Consensus size: 34
19726195 TTATGGACTC
* *
19726205 AGTATGCGAACACTCATGTTATATAGTATGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
* *
19726239 GGTATGCAAACCCTCACGTTATATAGTATGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
* * *
19726273 AGTATGTGAACCCTCACGTTATATAGGAAGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
** *
19726307 AGTATGCGAACCCTCATTTTGTATAGTATGACAT
1 AGTATGCGAACCCTCACGTTATATAGTATGACAT
19726341 AGT
1 AGT
19726344 GAACTGTTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 90 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (34 bp):
AGTATGCGAACCCTCACGTTATATAGTATGACAT
Found at i:19726541 original size:34 final size:34
Alignment explanation
Indices: 19726499--19726643 Score: 182
Period size: 34 Copynumber: 4.3 Consensus size: 34
19726489 GCGAACCCCA
* * * * *
19726499 TATGACATAGTATGCGAACCTTTATGTTATATAA
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
* * *
19726533 TATGACATAATATGTTAACCCTCACATTATATAG
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
* *
19726567 TAAGACATAGTATGCAAACCCTCACGTTATATAG
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
* *
19726601 TAAGACATAGTATGCTAACCCTCATGTTATATAG
1 TATGACATAGTATGCTAACCCTCACGTTATATAG
19726635 TATGACATA
1 TATGACATA
19726644 ATGAACTGTT
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 95 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (34 bp):
TATGACATAGTATGCTAACCCTCACGTTATATAG
Found at i:19726756 original size:302 final size:303
Alignment explanation
Indices: 19726205--19726781 Score: 838
Period size: 302 Copynumber: 1.9 Consensus size: 303
19726195 TTATGGACTC
* ** * *
19726205 AGTATGCGAACACTCATGTTATATAGTATGACATGGTATGCAAACCCTCACGTTATATAGTATGA
1 AGTATGCGAACACTCATGTTATATAATATGACATAATATGCAAACCCTCACATTATATAGTAAGA
** * *
19726270 CATAGTATGTGAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATTTTGTATAGTA
66 CATAGTATGCAAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATGTTATATAGTA
* * * * *
19726335 TGACATAGTGAACTGTTAGTACATGTATGTGAACCCTAGGTGAATTATTATGCGAACTTTTATGT
131 TGACATAATGAACTGTTAGTACATGTATGCGAACCCTAGATAAATTATTATGCAAACTTTTATGT
* *
19726400 GAACTGTTAAGCGAACCCTTAGTACATGTATGCGAACCACTTTAGAGAATATATGCGAACCC-AC
196 GAACTATTAAGCGAACCCTTAGTACATGTAGGCGAACCACTTTAGAGAATATATGCGAACCCTAC
19726464 ATGCAAACCCTTATGGATTCAGTATGCGAACCCCATATGACAT
261 ATGCAAACCCTTATGGATTCAGTATGCGAACCCCATATGACAT
* **
19726507 AGTATGCGAAC-CTTTATGTTATATAATATGACATAATATGTTAACCCTCACATTATATAGTAAG
1 AGTATGCGAACAC-TCATGTTATATAATATGACATAATATGCAAACCCTCACATTATATAGTAAG
* *
19726571 ACATAGTATGCAAACCCTCACGTTATATAGTAAGACATAGTATGCTAACCCTCATGTTATATAGT
65 ACATAGTATGCAAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATGTTATATAGT
*
19726636 ATGACATAATGAACTGTTAGTACATGTTTGCGAACCCTAGATAAATTATTATGCAAACTTTTATG
130 ATGACATAATGAACTGTTAGTACATGTATGCGAACCCTAGATAAATTATTATGCAAACTTTTATG
* * * *
19726701 TGAACTATTAAGCGAACCTTTAGTACATGTAGGCGATCC-C-TTAGTGAATATATATGTGAACCC
195 TGAACTATTAAGCGAACCCTTAGTACATGTAGGCGAACCACTTTAGAG-A-ATATATGCGAACCC
** *
19726764 TTTATGCGAACCCTTATG
258 TACATGCAAACCCTTATG
19726782 CGATATAGTA
Statistics
Matches: 242, Mismatches: 29, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
300 5 0.02
301 3 0.01
302 220 0.91
303 14 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (303 bp):
AGTATGCGAACACTCATGTTATATAATATGACATAATATGCAAACCCTCACATTATATAGTAAGA
CATAGTATGCAAACCCTCACGTTATATAGGAAGACATAGTATGCGAACCCTCATGTTATATAGTA
TGACATAATGAACTGTTAGTACATGTATGCGAACCCTAGATAAATTATTATGCAAACTTTTATGT
GAACTATTAAGCGAACCCTTAGTACATGTAGGCGAACCACTTTAGAGAATATATGCGAACCCTAC
ATGCAAACCCTTATGGATTCAGTATGCGAACCCCATATGACAT
Found at i:19733087 original size:6 final size:7
Alignment explanation
Indices: 19733066--19733095 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
19733056 TAAGGATGAA
19733066 TTTATTT
1 TTTATTT
19733073 TTTATTT
1 TTTATTT
19733080 TTTATTT
1 TTTATTT
19733087 TTTACTTT
1 TTTA-TTT
19733095 T
1 T
19733096 GTATCAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTATTT
Found at i:19735338 original size:23 final size:23
Alignment explanation
Indices: 19735299--19735367 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
19735289 AATAATTCAT
*
19735299 ATATAATATATATAATTTTAAAAA
1 ATATAAT-TATAAAATTTTAAAAA
** * *
19735323 ATATTTTTATAAAATTCTAAAAT
1 ATATAATTATAAAATTTTAAAAA
19735346 ATATAATTAT-AAATTTTAAAAA
1 ATATAATTATAAAATTTTAAAAA
19735368 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 10 0.28
23 21 0.58
24 5 0.14
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATAATTATAAAATTTTAAAAA
Found at i:19735623 original size:22 final size:20
Alignment explanation
Indices: 19735582--19735625 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
19735572 TCTTTCTAGG
*
19735582 TTTTATATATATTTGAATTT
1 TTTTATATATATTTCAATTT
*
19735602 TTTTATATATTTATTTCTATTT
1 TTTTATATA--TATTTCAATTT
19735624 TT
1 TT
19735626 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATATATATTTCAATTT
Found at i:19736050 original size:29 final size:27
Alignment explanation
Indices: 19736015--19736068 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
19736005 TTGAGTGTAT
**
19736015 TTTAGGTACTGAAGTGAGACAAAAAAAAG
1 TTTAGGTACCAAAGTG-GA-AAAAAAAAG
19736044 TTTAGGTACCAAAGTGGAAAAAAAA
1 TTTAGGTACCAAAGTGGAAAAAAAA
19736069 TATATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 2 0.09
29 14 0.61
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.20
Consensus pattern (27 bp):
TTTAGGTACCAAAGTGGAAAAAAAAAG
Found at i:19736450 original size:10 final size:10
Alignment explanation
Indices: 19736420--19736464 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
19736410 GTTTTATTCT
19736420 AAAAATTCAA
1 AAAAATTCAA
*
19736430 AAATATT---
1 AAAAATTCAA
19736437 AAAAATTACAA
1 AAAAATT-CAA
19736448 AAAAATTCAA
1 AAAAATTCAA
19736458 AAAAATT
1 AAAAATT
19736465 ATAATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
7 6 0.21
10 16 0.55
11 7 0.24
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTCAA
Found at i:19738485 original size:15 final size:17
Alignment explanation
Indices: 19738465--19738502 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
19738455 TTGCTCTCCA
19738465 TCTTTTTA-TTTA-TTC
1 TCTTTTTATTTTATTTC
19738480 TCTTTTTATTTTATTTC
1 TCTTTTTATTTTATTTC
19738497 TCTTTT
1 TCTTTT
19738503 CTTTACACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 4 0.19
17 9 0.43
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTATTTTATTTC
Found at i:19739451 original size:34 final size:34
Alignment explanation
Indices: 19739372--19739454 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
19739362 AATTAATTTA
* * *
19739372 TTATAAGCATAATAATTGCTACCGTATTGATTTG
1 TTATAAGCATATTAACTGCTACCGTATTGATATG
*
19739406 TTATGAGCATATTAACTGCTACCGTATTGATATG
1 TTATAAGCATATTAACTGCTACCGTATTGATATG
19739440 TTATAAGCATATTAA
1 TTATAAGCATATTAA
19739455 ATGTTATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (34 bp):
TTATAAGCATATTAACTGCTACCGTATTGATATG
Found at i:19739476 original size:34 final size:34
Alignment explanation
Indices: 19739367--19739479 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 34
19739357 TACTAAATTA
* * * *
19739367 ATTTATTATAAGCATAATAATTGCTACCGTATTG
1 ATTTGTTATAAGCATATTAAATGCTACCATATTG
* * *
19739401 ATTTGTTATGAGCATATTAACTGCTACCGTATTG
1 ATTTGTTATAAGCATATTAAATGCTACCATATTG
* * ** *
19739435 ATATGTTATAAGCATATTAAATGTTATTATATTT
1 ATTTGTTATAAGCATATTAAATGCTACCATATTG
19739469 ATTTGTTATAA
1 ATTTGTTATAA
19739480 ATATGTCAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (34 bp):
ATTTGTTATAAGCATATTAAATGCTACCATATTG
Found at i:19743999 original size:43 final size:44
Alignment explanation
Indices: 19743908--19743999 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
19743898 AACTCCACAG
* * * * *
19743908 CGTTTGTAAAAAAAAGTGTCGCTAAAGATCATGTTCTGTAGTGG
1 CGTTTGTAAAAAAAAGCGCCGCTAAAGATAATGTTCTATAGTGC
*
19743952 CGTTTGT-AATAAAAGCGCCGCTAAAGATAATGTTCTATAGAT-C
1 CGTTTGTAAAAAAAAGCGCCGCTAAAGATAATGTTCTATAG-TGC
19743995 CGTTT
1 CGTTT
19744000 TCCCACATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (44 bp):
CGTTTGTAAAAAAAAGCGCCGCTAAAGATAATGTTCTATAGTGC
Found at i:19746727 original size:30 final size:30
Alignment explanation
Indices: 19746691--19746750 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
19746681 TTAATACTTA
19746691 CATGCATACATGTAACCGATGAGACGTTTG
1 CATGCATACATGTAACCGATGAGACGTTTG
*
19746721 CATGCATACATGTAACCGATGAGACTTTTG
1 CATGCATACATGTAACCGATGAGACGTTTG
19746751 TTGAAATAGT
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:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (30 bp):
CATGCATACATGTAACCGATGAGACGTTTG
Found at i:19749688 original size:20 final size:20
Alignment explanation
Indices: 19749644--19749688 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19749634 TGCTCCGGCT
*
19749644 GTGTGGAAGTCAACACATCC
1 GTGTGGAAGTCAACACACCC
*
19749664 ATGTGGAGAGTC-ACACACCC
1 GTGTGGA-AGTCAACACACCC
19749684 GTGTG
1 GTGTG
19749689 ACATAGGGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (20 bp):
GTGTGGAAGTCAACACACCC
Found at i:19754082 original size:15 final size:15
Alignment explanation
Indices: 19754062--19754100 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19754052 TAACAAATGC
19754062 CACCTTTTTCTAAAT
1 CACCTTTTTCTAAAT
**
19754077 CACCTTTCCCTAAAT
1 CACCTTTTTCTAAAT
*
19754092 CCCCTTTTT
1 CACCTTTTT
19754101 TAATAGCAAG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (15 bp):
CACCTTTTTCTAAAT
Found at i:19763697 original size:47 final size:47
Alignment explanation
Indices: 19763574--19763697 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 47
19763564 ATGTGAATAA
* * * * *
19763574 TACCTTGATTTGGCTATGGGCC-TTGATGTAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATTG-TATAGGTACTCTGAGAGAAGT
* * *
19763621 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATTGTATAGGTACTCTGAGAGAAGT
*
19763668 TACCTTGATTTGGCTACGAGCCATTGTATA
1 TACCTTGATTTGGCTACGGGCCATTGTATA
19763698 AGTGTTTATC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
47 64 0.97
48 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATTGTATAGGTACTCTGAGAGAAGT
Found at i:19765201 original size:30 final size:29
Alignment explanation
Indices: 19765167--19765233 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 29
19765157 CAATTAGGGT
*
19765167 TTATCAGGTACTATGTGCCAGTGATTACAG
1 TTATCAGGTACTATGTACCAGTG-TTACAG
* * *
19765197 TTATCAGGTACTTTGTACCGGTGTTATAG
1 TTATCAGGTACTATGTACCAGTGTTACAG
19765226 TTATCAGG
1 TTATCAGG
19765234 CAGTTTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (29 bp):
TTATCAGGTACTATGTACCAGTGTTACAG
Found at i:19765240 original size:29 final size:29
Alignment explanation
Indices: 19765195--19765261 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
19765185 CAGTGATTAC
* *
19765195 AGTTATCAGGTACTTTGTACCGGTGTTAT
1 AGTTATCAGGCACTTTGTACCGATGTTAT
* **
19765224 AGTTATCAGGCAGTTTGTGTCGATGTTAT
1 AGTTATCAGGCACTTTGTACCGATGTTAT
19765253 A-TTATCAGG
1 AGTTATCAGG
19765262 TAGTGGACAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 8 0.24
29 25 0.76
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.40
Consensus pattern (29 bp):
AGTTATCAGGCACTTTGTACCGATGTTAT
Found at i:19779889 original size:17 final size:17
Alignment explanation
Indices: 19779859--19779891 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19779849 ATTCGAATGT
19779859 TATTGATTTATGTTATG
1 TATTGATTTATGTTATG
19779876 TATTGTATTT-TGTTAT
1 TATTG-ATTTATGTTAT
19779892 ATTGAATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (17 bp):
TATTGATTTATGTTATG
Found at i:19781152 original size:130 final size:130
Alignment explanation
Indices: 19780926--19781199 Score: 300
Period size: 130 Copynumber: 2.1 Consensus size: 130
19780916 AACAACTTGT
* * * * *
19780926 TGATTTACGATCACTGTTGTTATTATTAAGGCTTGTTGATTTATGATCACCACTTAAGTTCATTG
1 TGATTTACGATCACTGCTGATATTATTAAGGCTTGTTAATTTACGATCACCACCTAAGTTCATTG
** * * * ** *
19780991 ATTTATGATCATGAACAATTTATTTTAAGTTAGTTGATTTGTGATTACAACTCCAAACAGCTCGC
66 ATTTACAATCACGAACAATTTATTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTCGC
* * *
19781056 TTATTTACGATCAC-GACTGATATTATTAAGGCTTGTTAATTTACGGTTA-CAGCCTAAGTTCAT
1 TGATTTACGATCACTG-CTGATATTATTAAGGCTTGTTAATTTACGATCACCA-CCTAAGTTCAT
* * * * * **
19781119 TGATTTACAATCACGAATAATTTCTTCTGAGTTAGCTGGTTTACGATCGCAACTTTAAACAGCTC
64 TGATTTACAATCACGAACAATTTATTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTC
19781184 GC
129 GC
*
19781186 TGATTTACAATCAC
1 TGATTTACGATCAC
19781200 AGTCTAAGTT
Statistics
Matches: 117, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
129 3 0.03
130 114 0.97
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (130 bp):
TGATTTACGATCACTGCTGATATTATTAAGGCTTGTTAATTTACGATCACCACCTAAGTTCATTG
ATTTACAATCACGAACAATTTATTCTAAGTTAGCTGATTTACGATCACAACTCCAAACAGCTCGC
Found at i:19781284 original size:94 final size:94
Alignment explanation
Indices: 19781104--19781286 Score: 204
Period size: 94 Copynumber: 1.9 Consensus size: 94
19781094 ATTTACGGTT
* * * * **
19781104 ACAGCCTAAGTTCATTGATTTACAATCACGAATAATTTCTTCTGAGTTAGCTGGTTTACGATCGC
1 ACAGCCTAAGTTCATTGATTTACAATCACGAACAATTTCTTCTGAGTTAACTGATTTACAATCAA
** *
19781169 AACTTTAAACAGCTCGCTGATTTACAATC
66 AACTCCAAACAACTCGCTGATTTACAATC
* ** * * * *
19781198 ACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGTTAATTTATTTACAATCAA
1 ACAGCCTAAGTTCATTGATTTACAATCACGAACAATTTCTTCTGAGTTAACTGATTTACAATCAA
* *
19781263 AACTCCAAATAACTCGTTGATTTA
66 AACTCCAAACAACTCGCTGATTTA
19781287 TGGTCACGAT
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (94 bp):
ACAGCCTAAGTTCATTGATTTACAATCACGAACAATTTCTTCTGAGTTAACTGATTTACAATCAA
AACTCCAAACAACTCGCTGATTTACAATC
Found at i:19781355 original size:130 final size:130
Alignment explanation
Indices: 19781180--19781896 Score: 905
Period size: 130 Copynumber: 5.5 Consensus size: 130
19781170 ACTTTAAACA
* * ** * *
19781180 GCTCGCTGATTTACAATCACAGTCTAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
** * * ** * *
19781245 TAATTTATTTACAATCAAAACTCCAAATAACTCGTTGATTTATGGTCACGATTGATATTATTAAG
66 TAGCTAATTTACGATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* * * * ** *
19781310 GCTCGTTGATTTATGATCACATCTTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* * * * *
19781375 TAGTTGATTTACGATCGCAACTCCAAATAGCTCGTTGATTTACGATCATGATTGATATTACTAAG
66 TAGCTAATTTACGATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
*
19781440 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAAAAATTTCTTCTAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* * * ** * *
19781505 TAGCTAATTTATGACCGCAACTCCAAACAACTC-TTGATTTATGAAAACGATTGATATTATTAAA
66 TAGCTAATTTACGATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* * * * *
19781569 GCTCGTTGATTTACGATCACAGCCTAAGTTCATTAATTTACGATCATGAACCATTTCTTCTGAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* * * * * * *
19781634 TGGCTAAATTACAATCGTAACTCCAAATAGCTTGTTGATTTATGATCATGATTGATATTATTAAT
66 TAGCTAATTTACGATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
** * * * *
19781699 GCTCACTAATTTACGATCACAGCTTAAGTTCATTTATTTATGATCATGAACAATTTCTTCTAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
* * * *
19781764 TAGCTAATTTATGACCGCAACTCCAAACAACTCGTTTATTTATGATCATGATTGATATTATTAAG
66 TAGCTAATTTACGATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
* *
19781829 GCTAGTTGATTTACGATCACAACCTAAGTTCATTGATTTGTGATCATGAACAATTTCTTCTAAGT
1 GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
19781894 TAG
66 TAG
19781897 TTGATTTGCA
Statistics
Matches: 500, Mismatches: 86, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
129 108 0.22
130 392 0.78
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (130 bp):
GCTCGTTGATTTACGATCACAACCTAAGTTCATTGATTTATGATCATGAACAATTTCTTCTAAGT
TAGCTAATTTACGATCGCAACTCCAAATAACTCGTTGATTTATGATCATGATTGATATTATTAAG
Found at i:19781368 original size:224 final size:224
Alignment explanation
Indices: 19780980--19781422 Score: 555
Period size: 224 Copynumber: 2.0 Consensus size: 224
19780970 GATCACCACT
* * *** * *
19780980 TAAGTTCATTGATTTATGATCATGAACAATTTATTTTAAGTTAGTTGATTTGTGATTACAACTCC
1 TAAGTTCATTGATTTATGATCATGAACAATTTATTCTAAGTTAATTGATTTACAATCAAAACTCC
* * * *
19781045 AAACAGCTCGCTTATTTACGATCACGACTGATATTATTAAGGCTTGTTAATTTACGGTTACAGCC
66 AAACAACTCGCTTATTTACGATCACGACTGATATTATTAAGGCTCGTTAATTTACGATCACAGCC
** * **
19781110 TAAGTTCATTGATTTACAATCACGAATAATTTCTTCTGAGTTAGCTGGTTTACGATCGCAACTTT
131 TAAGTTCATTGATTTACAATCACGAATAATTTCTTCCAAGTTAGCTGATTTACGATCGCAACTCC
19781175 AAACAGCTCGCTGATTTACAATCACAGTC
196 AAACAGCTCGCTGATTTACAATCACAGTC
* * * *
19781204 TAAGTTCATTGATTTATGATCATGAACCATTTCTTCTGAGTTAATTTATTTACAATCAAAACTCC
1 TAAGTTCATTGATTTATGATCATGAACAATTTATTCTAAGTTAATTGATTTACAATCAAAACTCC
* * * * * * *
19781269 AAATAACTCG-TTGATTTATGGTCACGATTGATATTATTAAGGCTCGTTGATTTATGATCACATC
66 AAACAACTCGCTT-ATTTACGATCACGACTGATATTATTAAGGCTCGTTAATTTACGATCACAGC
* * * * *
19781333 TTAAGTTCATTGATTTACGATCATGAATTATTTCTTCCAAGTTAGTTGATTTACGATCGCAACTC
130 CTAAGTTCATTGATTTACAATCACGAATAATTTCTTCCAAGTTAGCTGATTTACGATCGCAACTC
* * *
19781398 CAAATAGCTCGTTGATTTACGATCA
195 CAAACAGCTCGCTGATTTACAATCA
19781423 TGATTGATAT
Statistics
Matches: 183, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
223 2 0.01
224 181 0.99
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (224 bp):
TAAGTTCATTGATTTATGATCATGAACAATTTATTCTAAGTTAATTGATTTACAATCAAAACTCC
AAACAACTCGCTTATTTACGATCACGACTGATATTATTAAGGCTCGTTAATTTACGATCACAGCC
TAAGTTCATTGATTTACAATCACGAATAATTTCTTCCAAGTTAGCTGATTTACGATCGCAACTCC
AAACAGCTCGCTGATTTACAATCACAGTC
Found at i:19781422 original size:67 final size:65
Alignment explanation
Indices: 19781342--19781545 Score: 175
Period size: 67 Copynumber: 3.1 Consensus size: 65
19781332 CTTAAGTTCA
*
19781342 TTGATTTACGATCATGAATTATTTCTTCCAAGTTAGTTGATTTACGATCGCAACTCCAAATAGCT
1 TTGATTTACGATCATGAATTATTTCTTCTAAGTTAGTTGATTTACGATCGCAACTCCAAA-AGCT
19781407 C
65 C
* * * * * *
19781408 GTTGATTTACGATCATG-ATTGATAT-TACTAAGGCTCGTTGATTTACGATCACAA--CC-TAAG
1 -TTGATTTACGATCATGAATT-ATTTCTTCTAA-GTTAGTTGATTTACGATCGCAACTCCAAAAG
*
19781468 TTC
63 CTC
* ** * * * * *
19781471 ATTGATTTATGATCATGAAAAATTTCTTCTAAGTTAGCTAATTTATGACCGCAACTCCAAACAAC
1 -TTGATTTACGATCATGAATTATTTCTTCTAAGTTAGTTGATTTACGATCGCAACTCCAAA-AGC
19781536 TC
64 TC
19781538 TTGATTTA
1 TTGATTTA
19781546 TGAAAACGAT
Statistics
Matches: 105, Mismatches: 24, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
63 37 0.35
64 7 0.07
65 4 0.04
66 16 0.15
67 41 0.39
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (65 bp):
TTGATTTACGATCATGAATTATTTCTTCTAAGTTAGTTGATTTACGATCGCAACTCCAAAAGCTC
Done.