Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 266 of 352
Found at i:87307575 original size:18 final size:17
Alignment explanation
Indices: 87307552--87307597 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
87307542 TAATCTAGAA
87307552 AAAAAACATATAATTTAT
1 AAAAAA-ATATAATTTAT
*
87307570 AAAAAAATTATAATTTTT
1 AAAAAAA-TATAATTTAT
*
87307588 TAAAAAATAT
1 AAAAAAATAT
87307598 GATAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAAAATATAATTTAT
Found at i:87307593 original size:20 final size:21
Alignment explanation
Indices: 87307565--87307604 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
87307555 AAACATATAA
*
87307565 TTTATAAAAAAATTATAATTT
1 TTTATAAAAAAATGATAATTT
*
87307586 TTTA-AAAAATATGATAATT
1 TTTATAAAAAAATGATAATT
87307605 AAAAATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TTTATAAAAAAATGATAATTT
Found at i:87307655 original size:20 final size:22
Alignment explanation
Indices: 87307626--87307678 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
87307616 AATTAATAAT
*
87307626 ATTATTAAAAACGT-AAA-AAA
1 ATTATAAAAAACGTAAAAGAAA
**
87307646 ATTATAAAAATTGTAAAAGAAA
1 ATTATAAAAAACGTAAAAGAAA
*
87307668 ATTAAAAAAAA
1 ATTATAAAAAA
87307679 GTTTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.42
21 3 0.12
22 12 0.46
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (22 bp):
ATTATAAAAAACGTAAAAGAAA
Found at i:87307862 original size:25 final size:25
Alignment explanation
Indices: 87307811--87307862 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
87307801 ATTTATAATG
* * *
87307811 ATATATTTTACAATTTTATATATAA
1 ATATATTTTAAAATTTTATAAAAAA
*
87307836 ATATATTTTAAAATTTTTTAAAAAA
1 ATATATTTTAAAATTTTATAAAAAA
87307861 AT
1 AT
87307863 GTATATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATATTTTAAAATTTTATAAAAAA
Found at i:87309798 original size:18 final size:18
Alignment explanation
Indices: 87309775--87309836 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
87309765 ACATCTTGAT
87309775 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
87309793 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
87309814 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
87309832 CTGAA
1 CTGAA
87309837 ACTCGTATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 13 0.38
19 7 0.21
20 6 0.18
21 8 0.24
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:87311455 original size:5 final size:5
Alignment explanation
Indices: 87311445--87311533 Score: 55
Period size: 5 Copynumber: 17.6 Consensus size: 5
87311435 TAATTTAAAA
87311445 ATAAT ATAAT ATAAT ATAAT AT-AT AATAAAGT ATAAT A-ACAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT -AT-AA-T ATAAT ATA-AT ATAAT
* *
87311492 -TTAT A-AAT A-AAT AATAAT A-AAA ATAAT ATAAT GGATAAT ATA
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT --ATAAT ATA
87311534 TAAATAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
4 15 0.22
5 38 0.56
6 6 0.09
7 8 0.12
8 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:87311481 original size:27 final size:26
Alignment explanation
Indices: 87311424--87311521 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
87311414 CAATCAATGA
* * *
87311424 ATAATAATACATAATTTAAAAAT-AAT
1 ATAATAA-ATATAATATATAAATAAAT
87311450 ATAATATAATATAATATAT-AATAAAGT
1 ATAATA-AATATAATATATAAATAAA-T
*
87311477 ATAATAACATATAATTTATAAATAAAT
1 ATAATAA-ATATAATATATAAATAAAT
*
87311504 AATAATAAAAATAATATA
1 -ATAATAAATATAATATA
87311522 ATGGATAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.05
26 17 0.28
27 27 0.45
28 13 0.22
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (26 bp):
ATAATAAATATAATATATAAATAAAT
Found at i:87311608 original size:21 final size:19
Alignment explanation
Indices: 87311582--87311624 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
87311572 TATAAAAATT
* *
87311582 AAATAATATATAAAGTATTTA
1 AAATAA-AT-TAAAATATATA
87311603 AAATAAATTAAAATATATA
1 AAATAAATTAAAATATATA
87311622 AAA
1 AAA
87311625 GGATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATAAATTAAAATATATA
Found at i:87311631 original size:28 final size:30
Alignment explanation
Indices: 87311569--87311634 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
87311559 TACAACTAAT
* *
87311569 ATTTATAA-AAATTAAATAATATATAAAGT
1 ATTTAAAATAAATTAAATAATATATAAAGG
87311598 ATTTAAAATAAATT-AA-AATATATAAAAGG
1 ATTTAAAATAAATTAAATAATATAT-AAAGG
87311627 A-TTAAAAT
1 ATTTAAAAT
87311635 TAAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 14 0.42
29 14 0.42
30 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
ATTTAAAATAAATTAAATAATATATAAAGG
Found at i:87311643 original size:28 final size:28
Alignment explanation
Indices: 87311581--87311644 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
87311571 TTATAAAAAT
*
87311581 TAAATAATATATAAAGTATTTAAAATAAA
1 TAAA-AATATATAAAGGATTTAAAATAAA
*
87311610 TTAAAATATATAAAAGGA-TTAAAATTAAA
1 TAAAAATATAT-AAAGGATTTAAAA-TAAA
87311639 -AAAAAT
1 TAAAAAT
87311645 TGAAAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (28 bp):
TAAAAATATATAAAGGATTTAAAATAAA
Found at i:87313334 original size:44 final size:44
Alignment explanation
Indices: 87313213--87313603 Score: 176
Period size: 44 Copynumber: 8.8 Consensus size: 44
87313203 ATCTATTATT
*
87313213 TTCGATCTGCTCTCT-ACCAATATAGAGACGCCAGATCTGTCATC
1 TTCGATCTGCTCTCTGACC-ATATAGAGACGCCAAATCTGTCATC
* * * **
87313257 TTCAATCGGCTCTCTGACAATACGGAGACGCCAAATCTGTCATC
1 TTCGATCTGCTCTCTGACCATATAGAGACGCCAAATCTGTCATC
* *
87313301 TTTGATCTGCTCTCTGACCATATAGAGATGCCAAA----TCATC
1 TTCGATCTGCTCTCTGACCATATAGAGACGCCAAATCTGTCATC
* * * * * * * * *
87313341 TTAGATTTGCT-TC-AACGTAAACACGTGAAAGCCAAATCAG-CTATGTC
1 TTCGATCTGCTCTCTGAC-CATATA-GAG-ACGCCAAATCTGTC-A--TC
* * * * * * *
87313388 TTCGATCTGCTCCCTGTCGAATACAAAGATGCCAAATCT-ACTATC
1 TTCGATCTGCTCTCTGAC-CATATAGAGACGCCAAATCTGTC-ATC
* * *
87313433 TTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTG-CTATC
1 TTCGATCTGCTCTCTGACCATATAGAGACGCCAAATCTGTC-ATC
** * *
87313477 TTCGATCTGCTCTCTGATAATACAGAGACGCCAAATCAG-CTATGTC
1 TTCGATCTGCTCTCTGACCATATAGAGACGCCAAATCTGTC-A--TC
* ** * * * *
87313523 TTCGATCTGCTCCCTTTCGAATACAGAGATGCCAAATCTGT-TTC
1 TTCGATCTGCTCTCTGAC-CATATAGAGACGCCAAATCTGTCATC
* * * * * *
87313567 TTCGATTTGTTCTTTGACAATACAGAGATGCCAAATC
1 TTCGATCTGCTCTCTGACCATATAGAGACGCCAAATC
87313604 ATCTTGGATC
Statistics
Matches: 275, Mismatches: 53, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
38 2 0.01
39 5 0.02
40 16 0.06
41 7 0.03
43 19 0.07
44 140 0.51
45 20 0.07
46 16 0.06
47 42 0.15
48 2 0.01
49 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACCATATAGAGACGCCAAATCTGTCATC
Found at i:87323570 original size:31 final size:32
Alignment explanation
Indices: 87323529--87323591 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
87323519 TTATTTATAA
*
87323529 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
87323560 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
87323592 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:87324981 original size:21 final size:21
Alignment explanation
Indices: 87324939--87324982 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
87324929 GATTATTTGA
*
87324939 ATTGGATTGAATATTGATTAT
1 ATTGGATTGAATATTGAATAT
*
87324960 ATTGGATTG-ATTTATGAATAT
1 ATTGGATTGAATAT-TGAATAT
87324981 AT
1 AT
87324983 ATATGAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGGATTGAATATTGAATAT
Found at i:87325370 original size:45 final size:45
Alignment explanation
Indices: 87325319--87325429 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
87325309 CGACTACTGT
* *
87325319 TACTGTTACTGTTACTATTACCGATT-TGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAG-CACTTTGTGTGTCGAA
* * *
87325364 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
*
87325409 TACTATTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
87325430 TATTCCGGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:87325483 original size:59 final size:56
Alignment explanation
Indices: 87325415--87325527 Score: 154
Period size: 59 Copynumber: 2.0 Consensus size: 56
87325405 TGAATACTAT
* * * *
87325415 TACTGTTACTGTTACTATTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
1 TACTCTTACTGTTACTATTCCGGATTTG-GCCGATGAGGCACTATGTG--CCGTACTGC
*
87325474 TACTCTTACTGTTACTATTCCGGCTTTGGCCGATGAGGCACTATGTGCCGTACT
1 TACTCTTACTGTTACTATTCCGGATTTGGCCGATGAGGCACTATGTGCCGTACT
87325528 AGTGTGTTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 7 0.14
58 16 0.33
59 26 0.53
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (56 bp):
TACTCTTACTGTTACTATTCCGGATTTGGCCGATGAGGCACTATGTGCCGTACTGC
Found at i:87325630 original size:18 final size:18
Alignment explanation
Indices: 87325609--87325776 Score: 117
Period size: 18 Copynumber: 9.3 Consensus size: 18
87325599 TAACTGATTA
*
87325609 TTACTAAATAATTAACTG
1 TTACTGAATAATTAACTG
* * *
87325627 TTACCGGATAATTGACTG
1 TTACTGAATAATTAACTG
*
87325645 TTACTGTAT-ATTAGACTG
1 TTACTGAATAATTA-ACTG
* * *
87325663 TTACTGAATAACTAAATA
1 TTACTGAATAATTAACTG
* * *
87325681 TTACTGAATAACTGATTG
1 TTACTGAATAATTAACTG
* *
87325699 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTAACTG
*
87325717 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTAACTG
* * *
87325736 TTACTGAATACTTGA-TT
1 TTACTGAATAATTAACTG
* *
87325753 TTATTGAATAATTGACTG
1 TTACTGAATAATTAACTG
87325771 TTACTG
1 TTACTG
87325777 GATGACCGAT
Statistics
Matches: 118, Mismatches: 26, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
17 19 0.16
18 80 0.68
19 19 0.16
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (18 bp):
TTACTGAATAATTAACTG
Found at i:87325673 original size:54 final size:54
Alignment explanation
Indices: 87325609--87325745 Score: 132
Period size: 54 Copynumber: 2.5 Consensus size: 54
87325599 TAACTGATTA
* * * * * * *
87325609 TTACTAAATAATTAACTGTTACCGGATAATTGACTGTTACTGTAT-ATTAGACTG
1 TTACTGAATAATTAAATGTTACCGAATAACTGACTGTCACTGAATGAAT-GACTG
* * * *
87325663 TTACTGAATAACTAAATATTACTGAATAACTGATTGTCACTGAATGAATGACTG
1 TTACTGAATAATTAAATGTTACCGAATAACTGACTGTCACTGAATGAATGACTG
* *
87325717 TTACTGAATAACTTAATTGTTACTGAATA
1 TTACTGAATAA-TTAAATGTTACCGAATA
87325746 CTTGATTTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
54 51 0.76
55 16 0.24
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (54 bp):
TTACTGAATAATTAAATGTTACCGAATAACTGACTGTCACTGAATGAATGACTG
Found at i:87325761 original size:54 final size:54
Alignment explanation
Indices: 87325658--87325776 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 54
87325648 CTGTATATTA
87325658 GACTGTTACTGAATAACTAAATATTACTGAATAACTGATTGTCACTGAATGAA-T
1 GACTGTTACTGAATAACTAAATATTACTGAATAACTGATTGTCACTGAAT-AATT
* * * *
87325712 GACTGTTACTGAATAACTTAATTGTTACTGAAT-ACTTGATT-TTATTGAATAATT
1 GACTGTTACTGAATAAC-TAAATATTACTGAATAAC-TGATTGTCACTGAATAATT
87325766 GACTGTTACTG
1 GACTGTTACTG
87325777 GATGACCGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 2 0.03
54 38 0.66
55 18 0.31
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (54 bp):
GACTGTTACTGAATAACTAAATATTACTGAATAACTGATTGTCACTGAATAATT
Found at i:87325761 original size:72 final size:72
Alignment explanation
Indices: 87325639--87325781 Score: 164
Period size: 72 Copynumber: 2.0 Consensus size: 72
87325629 ACCGGATAAT
* *
87325639 TGACTGTTACTGTATATTAGACTGTTACTGAATAACTAAATATTACTGAATAACTGATTGTCACT
1 TGACTGTTACTGAATATTAGACTGTTACTGAATAACTAAATATTACTGAATAACTGACTGTCACT
87325704 GAATGAA
66 GAATGAA
* ** * * * *
87325711 TGACTGTTACTGAATAACTTA-ATTGTTACTGAAT-ACTTGATTTTATTGAATAATTGACTGTTA
1 TGACTGTTACTGAAT-A-TTAGACTGTTACTGAATAACTAAATATTACTGAATAACTGACTGTCA
*
87325774 CTGGATGA
64 CTGAATGA
87325782 CCGATCAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
72 43 0.73
73 13 0.22
74 3 0.05
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (72 bp):
TGACTGTTACTGAATATTAGACTGTTACTGAATAACTAAATATTACTGAATAACTGACTGTCACT
GAATGAA
Found at i:87325870 original size:18 final size:18
Alignment explanation
Indices: 87325661--87325874 Score: 90
Period size: 18 Copynumber: 11.5 Consensus size: 18
87325651 TATATTAGAC
* * *
87325661 TGTTACTGAATAACTAAA
1 TGTTACTGAATAAATGAT
* *
87325679 TATTACTGAATAACTGAT
1 TGTTACTGAATAAATGAT
* * *
87325697 TGTCACTGAATGAATGAC
1 TGTTACTGAATAAATGAT
* *
87325715 TGTTACTGAATAACTTAAT
1 TGTTACTGAATAA-ATGAT
**
87325734 TGTTACTGAATACTTGAT
1 TGTTACTGAATAAATGAT
* * *
87325752 T-TTATTGAATAATTGAC
1 TGTTACTGAATAAATGAT
*
87325769 TGTTACTGGATGACCGATCAATTGAT
1 TGTTAC----TGA---AT-AAATGAT
* * * *
87325795 CGATACTGAATAACTGGT
1 TGTTACTGAATAAATGAT
* * *
87325813 TATTATTGAATAATTGAT
1 TGTTACTGAATAAATGAT
* * *
87325831 TGTTACCGAATAACTGAC
1 TGTTACTGAATAAATGAT
*
87325849 TGTTACTGAATAAATAAT
1 TGTTACTGAATAAATGAT
87325867 TGTT-CTGA
1 TGTTACTGA
87325875 TTGTTAATGA
Statistics
Matches: 147, Mismatches: 39, Indels: 21
0.71 0.19 0.10
Matches are distributed among these distances:
17 18 0.12
18 95 0.65
19 16 0.11
22 6 0.04
25 2 0.01
26 10 0.07
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
TGTTACTGAATAAATGAT
Found at i:87329321 original size:22 final size:21
Alignment explanation
Indices: 87329277--87329321 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
87329267 CCAAATATAT
* *
87329277 AATAATATAAACCATATGATA
1 AATAATATAAAACATATAATA
*
87329298 AATAATATAAAAATATATAATA
1 AATAATAT-AAAACATATAATA
87329320 AA
1 AA
87329322 ATGTAATACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAATATAAAACATATAATA
Found at i:87329473 original size:5 final size:5
Alignment explanation
Indices: 87329463--87329550 Score: 73
Period size: 5 Copynumber: 18.2 Consensus size: 5
87329453 AATTTAAAAA
87329463 AATAT AATAT AATAT AATAT -ATAT AATA- AATAT AATA- ACATAT AAT-T
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT
* *
87329510 TATA- AATA- AATAAT AATA- AAAAT AATAT AATGGAT AATAT A
1 AATAT AATAT AAT-AT AATAT AATAT AATAT AAT--AT AATAT A
87329551 TAAATAAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
4 21 0.30
5 39 0.57
6 4 0.06
7 5 0.07
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:87329494 original size:28 final size:27
Alignment explanation
Indices: 87329462--87329568 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 27
87329452 TAATTTAAAA
87329462 AAATATAATATAATATAATATATATAAT
1 AAATATAATA-AATATAATATATATAAT
*
87329490 AAATATAATAACATATAATTTATA-AAT
1 AAATATAATAA-ATATAATATATATAAT
* *
87329517 AAATAATAATAAAAATAATATA-ATGGAT
1 AAAT-ATAATAAATATAATATATAT-AAT
87329545 AATATATAAATAAA-A-AATATATAT
1 AA-ATAT-AATAAATATAATATATAT
87329569 CATTTTATAC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.01
27 22 0.32
28 37 0.54
29 8 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (27 bp):
AAATATAATAAATATAATATATATAAT
Found at i:87329640 original size:19 final size:21
Alignment explanation
Indices: 87329599--87329642 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
87329589 TATAAAAATT
* *
87329599 AAATAATATATAAAGTATTTA
1 AAATAATATATAAAATATATA
87329620 AAATAA-AT-TAAAATATATA
1 AAATAATATATAAAATATATA
87329639 AAAT
1 AAAT
87329643 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATAATATATAAAATATATA
Found at i:87329648 original size:26 final size:29
Alignment explanation
Indices: 87329594--87329651 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 29
87329584 ACACGTATAA
*
87329594 AAATTAAATAATATATAAAGTATTTAAAAT
1 AAATTAAATAATATATAAAG-ATTAAAAAT
87329624 AAATT-AA-AATATATAAA-ATTAAAAAT
1 AAATTAAATAATATATAAAGATTAAAAAT
87329650 AA
1 AA
87329652 TTGAAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 10 0.37
28 10 0.37
29 2 0.07
30 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATTAAATAATATATAAAGATTAAAAAT
Found at i:87338159 original size:11 final size:11
Alignment explanation
Indices: 87338143--87338168 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
87338133 CCTTGGAAAA
87338143 ATAACAATTAT
1 ATAACAATTAT
87338154 ATAACAATTAT
1 ATAACAATTAT
87338165 ATAA
1 ATAA
87338169 TATCACATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAACAATTAT
Found at i:87345128 original size:42 final size:43
Alignment explanation
Indices: 87345017--87345135 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
87345007 TGATATGTGT
* *
87345017 TTTCATGTAAGACCAC-GTCTGGGACGTTGGCATCAACTTATGA
1 TTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCAACTTATGA
* *
87345060 TTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGA
1 TTT-CGTGTAAGACCCTGTCTGGGACATTGGCATC-AACTTATGA
* *
87345103 TTTCGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 TTTCGTGTAAGACCCTGTCTGGGACATTGGCAT
87345136 TGATATTCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 27 0.41
43 9 0.14
44 29 0.44
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCAACTTATGA
Found at i:87345166 original size:43 final size:42
Alignment explanation
Indices: 87345061--87345169 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
87345051 AACTTATGAT
* * * **
87345061 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTACGTGTAAGACCACGTCTAGGACAGTGGCATCGTATTCAA
* *
87345103 TTTCGTGTAAGACC-CTGTCTAGGACAGTGGCATTGATATTCAA
1 TTACGTGTAAGACCAC-GTCTAGGACAGTGGCATCG-TATTCAA
*
87345146 TTACATGTAAGACCACGTCTAGGA
1 TTACGTGTAAGACCACGTCTAGGA
87345170 TGTTGGTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 29 0.53
43 25 0.45
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTAGGACAGTGGCATCGTATTCAA
Found at i:87352205 original size:43 final size:43
Alignment explanation
Indices: 87352124--87352279 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
87352114 TGTGTTTTCG
* *
87352124 TGTAAGA-CACGTCTGGGACGTTGGCATTG-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATTTACA
* * *
87352167 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTACA
* * *
87352209 TGTAAGACC-CTGTCTGGCACAGTGGCATCGATATTCGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTTACA
*
87352252 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
87352280 TATATGTGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.30
43 43 0.46
44 21 0.23
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTACA
Found at i:87354247 original size:28 final size:28
Alignment explanation
Indices: 87354207--87354263 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
87354197 AAGATGAGAA
87354207 TAAACTTGACATAAAGGCTCCAGTGGAG
1 TAAACTTGACATAAAGGCTCCAGTGGAG
87354235 TAAACTTGACATAAAGGCTCCAGTGGAG
1 TAAACTTGACATAAAGGCTCCAGTGGAG
87354263 T
1 T
87354264 CAGCACCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (28 bp):
TAAACTTGACATAAAGGCTCCAGTGGAG
Found at i:87356267 original size:93 final size:93
Alignment explanation
Indices: 87356153--87356324 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
87356143 CGCCCATAAG
* * *
87356153 CGAACTCGGACCCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACCCG
1 CGAACTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCA
87356218 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
87356246 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCA
87356311 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87356325 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87356321 original size:46 final size:46
Alignment explanation
Indices: 87356146--87356321 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
87356136 TGTAACCCGC
* * * *
87356146 CCATAAGCGAACTCGGACCCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
87356192 CCATAAGTGAACTCGGACTCAACCCGACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87356242 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87356285 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87356322 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87363822 original size:93 final size:93
Alignment explanation
Indices: 87363709--87363880 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87363699 CGCCCATAAG
* *
87363709 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87363774 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
87363802 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87363867 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87363881 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87363877 original size:46 final size:46
Alignment explanation
Indices: 87363702--87363877 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87363692 TGTAACCCGC
* * *
87363702 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
87363748 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87363798 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87363841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87363878 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87372054 original size:29 final size:30
Alignment explanation
Indices: 87372012--87372077 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
87372002 AATTGAACCA
* *
87372012 TCCATCAAAATACAAGCATCAA-TAAATTG
1 TCCATCAAAATACAACCATCAATTAAATCG
87372041 TCCATCAAAATACAACCATCAATTAAATCG
1 TCCATCAAAATACAACCATCAATTAAATCG
87372071 TCCATCA
1 TCCATCA
87372078 CCGAAATACG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (30 bp):
TCCATCAAAATACAACCATCAATTAAATCG
Found at i:87392133 original size:17 final size:19
Alignment explanation
Indices: 87392111--87392153 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
87392101 AAACTATGAA
87392111 AAATAAA-A-TAGAACAAT
1 AAATAAACATTAGAACAAT
87392128 AAATAAAACATTAGAACAAT
1 AAAT-AAACATTAGAACAAT
87392148 AAATAA
1 AAATAA
87392154 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 3 0.13
19 3 0.13
20 13 0.57
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (19 bp):
AAATAAACATTAGAACAAT
Found at i:87398673 original size:10 final size:10
Alignment explanation
Indices: 87398658--87398717 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
87398648 AAATTTTAGG
*
87398658 ATTTATTTTT
1 ATTTATCTTT
87398668 ATTTATCTTT
1 ATTTATCTTT
87398678 ATTTATCTTT
1 ATTTATCTTT
*
87398688 AATTATCTTT
1 ATTTATCTTT
87398698 ATTTAT-TTGT
1 ATTTATCTT-T
87398708 ATTTATCTTT
1 ATTTATCTTT
87398718 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:87399476 original size:17 final size:18
Alignment explanation
Indices: 87399443--87399476 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87399433 TATTCCTCTT
*
87399443 TTTAATTTCTGCAATTTA
1 TTTAATTTCTACAATTTA
87399461 TTTAATTTC-ACAATTT
1 TTTAATTTCTACAATTT
87399477 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:87399654 original size:12 final size:12
Alignment explanation
Indices: 87399637--87399662 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87399627 CTACTTCCCC
87399637 TTTACTATTATT
1 TTTACTATTATT
87399649 TTTACTATTATT
1 TTTACTATTATT
87399661 TT
1 TT
87399663 CATTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:87404214 original size:21 final size:19
Alignment explanation
Indices: 87404181--87404234 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
87404171 ATATCAATTT
87404181 AAAA-TATAGAAAATTATTA
1 AAAATTATAGAAAA-TATTA
87404200 AAAATTATAAGAAAATATTA
1 AAAATTAT-AGAAAATATTA
87404220 AAATATTATTAGAAA
1 AAA-ATTA-TAGAAA
87404235 CAATAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.13
20 11 0.35
21 15 0.48
22 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAATTATAGAAAATATTA
Found at i:87404870 original size:18 final size:20
Alignment explanation
Indices: 87404839--87404877 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
87404829 AAATCATTAT
87404839 AAAAATT-TTGTTTTTTAAA
1 AAAAATTATTGTTTTTTAAA
87404858 AAAAATTATT-TTTTTTAAA
1 AAAAATTATTGTTTTTTAAA
87404877 A
1 A
87404878 TATTCATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AAAAATTATTGTTTTTTAAA
Found at i:87426227 original size:6 final size:6
Alignment explanation
Indices: 87426152--87426208 Score: 78
Period size: 6 Copynumber: 8.8 Consensus size: 6
87426142 TACTTTAGCC
87426152 ATTTTT ATTTTT ATTGAAATTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATT----TTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
87426204 ATTTT
1 ATTTT
87426209 AATTACTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
6 41 0.87
10 6 0.13
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:87429806 original size:17 final size:18
Alignment explanation
Indices: 87429784--87429828 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
87429774 CCTTTTTACC
87429784 TATTATCTTATT-AGTTT
1 TATTATCTTATTAAGTTT
* *
87429801 TATTATTTTATTAATTTT
1 TATTATCTTATTAAGTTT
87429819 TATTAATCTT
1 TATT-ATCTT
87429829 TTTATTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 11 0.48
18 8 0.35
19 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATCTTATTAAGTTT
Found at i:87430023 original size:6 final size:6
Alignment explanation
Indices: 87429950--87430030 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
87429940 TGAGTCCGAC
* * * * *
87429950 TATTTT TATGTT TATGTT TATCTT TATTTTT TAGCTTT TA-CTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TA-TTTT TA-TTTT TATTTT TATTTT
* * * *
87429999 TATTTT CACTTT TATTTT TCTTTT TATGTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TA
87430031 CTTTGCTTTC
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
5 4 0.07
6 45 0.76
7 10 0.17
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:87433746 original size:4 final size:5
Alignment explanation
Indices: 87433707--87433745 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
87433697 CCATTTTCTC
* *
87433707 TTTTA TGTTA TTTCA TATTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTT
87433746 ACTTCTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:87439478 original size:15 final size:15
Alignment explanation
Indices: 87439454--87439483 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87439444 TATATGTTAG
87439454 TAATAAAAATAATGA
1 TAATAAAAATAATGA
*
87439469 TAATACAAATAATGA
1 TAATAAAAATAATGA
87439484 ATGATTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (15 bp):
TAATAAAAATAATGA
Found at i:87441540 original size:89 final size:88
Alignment explanation
Indices: 87441375--87441588 Score: 247
Period size: 89 Copynumber: 2.4 Consensus size: 88
87441365 CAAGGAGAAG
* * * *
87441375 AGATTTGT-AATTTCCAGCCTGTGACCCTATTGCTCAGGGGTTTAAGGCCCATCACTTCTGCTAT
1 AGATTTGTCAATTT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACTTCTGATAT
* *
87441439 GCTTCCCTACTGCTTAGGGGGTTA
65 GCTTCCCTACTGCTTAGGGAGATA
* *** *
87441463 AGATTTGTCAATCTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCACCTT-TGATC
1 AGATTTGTCAAT-TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCA-CTTCTGATA
87441527 TGCTTCCCTACTGCTTAGGGAGATA
64 TGCTTCCCTACTGCTTAGGGAGATA
* * *
87441552 AGATTTG-CAATTT-GGTCTGTTACTCTACTGCTTAGGG
1 AGATTTGTCAATTTCAGCCTGTTACCCTACTGCTTAGGG
87441589 AGATAATATC
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
86 20 0.19
87 2 0.02
88 12 0.11
89 69 0.64
90 5 0.05
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (88 bp):
AGATTTGTCAATTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACTTCTGATATG
CTTCCCTACTGCTTAGGGAGATA
Found at i:87441583 original size:42 final size:42
Alignment explanation
Indices: 87441532--87441896 Score: 269
Period size: 42 Copynumber: 8.5 Consensus size: 42
87441522 TGATCTGCTT
*
87441532 CCCTACTGCTTAGGGAGATAAGATTTGCAATTTGGTCTGTTA
1 CCCTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* *
87441574 CTCTACTGCTTAGGGAGATAATATCTGCAATTTGGTCTGTTA
1 CCCTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* * * * * **
87441616 CCCTACTGCTTAGGG-GTTTAAGACCCTTC-GTCTTCGATCTACT-
1 CCCTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGTCTGTTA
*
87441659 CCACTACTTCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
1 CC-CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* * * * *
87441702 CCCTACTGCTTAGGG-GTTTAAGACCCTTC-ATCTTCGATCTGCT-
1 CCCTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGTCTGTTA
*
87441745 CCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTA
1 CC-CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* * * * *
87441788 CCCTACTGCTTAGGG-GTTTAAGACCCTTC-ATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGTCTGTTA
* * ** ** *
87441832 CCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTA
1 CCCTACTGCTTAGGGAGATAAGATCT-GCAATTTGGTCTGTTA
*
87441875 CCCTACTCCTTAGGGAGATAAG
1 CCCTACTGCTTAGGGAGATAAG
87441897 GCTTGTGAAT
Statistics
Matches: 252, Mismatches: 48, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.01
42 108 0.43
43 57 0.23
44 79 0.31
45 5 0.02
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (42 bp):
CCCTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
Found at i:87441686 original size:86 final size:86
Alignment explanation
Indices: 87441576--87441889 Score: 468
Period size: 86 Copynumber: 3.6 Consensus size: 86
87441566 GTCTGTTACT
* *
87441576 CTACTGCTTAGGGAGATAATATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
*
87441641 CTTCGTCTTCGATCTACTCCA
66 CTTCATCTTCGATCTACTCCA
* *
87441662 CTACTTCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
*
87441727 CTTCATCTTCGATCTGCTCCA
66 CTTCATCTTCGATCTACTCCA
87441748 CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
**
87441813 CTTCATCTTCGATCTGTTTCC-
66 CTTCATCTTCGATCT-ACTCCA
* * ** * * *
87441834 CTACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTCCTTAGGG
1 CTACTGCTTAGGGAGATAAGATCT-GCAATTCGGTCTGTTACCCTACTGCTTAGGG
87441890 AGATAAGGCT
Statistics
Matches: 211, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
86 182 0.86
87 29 0.14
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (86 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
CTTCATCTTCGATCTACTCCA
Found at i:87441710 original size:128 final size:128
Alignment explanation
Indices: 87441482--87441716 Score: 348
Period size: 128 Copynumber: 1.8 Consensus size: 128
87441472 AATCTTCAGC
* * * * *
87441482 CTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCACCTTTGATCTGCTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGCCCTGTCACCTTCGATCTACTTCCCTACTGCTTAGGG
* *
87441547 AGATAAGATTTGCAATTTGGTCTGTTACTCTACTGCTTAGGGAGATAATATCTGCAATTTGGT
66 AGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGAGATAATATCTGCAATTTGGT
** *
87441610 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTAC-TCCACTACTTCTTAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG-CCCTGTCACCTTCGATCTACTTCC-CTACTGCTTAG
87441673 GGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGG
64 GGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGG
87441717 GTTTAAGACC
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
127 3 0.03
128 90 0.95
129 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (128 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGCCCTGTCACCTTCGATCTACTTCCCTACTGCTTAGGG
AGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGAGATAATATCTGCAATTTGGT
Found at i:87441847 original size:44 final size:44
Alignment explanation
Indices: 87441609--87441854 Score: 240
Period size: 44 Copynumber: 5.7 Consensus size: 44
87441599 TGCAATTTGG
*
87441609 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGA
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA
** * * * * *
87441653 TCTACT-CCACTACTTCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GG
1 TCTGTTACC-CTACTGCTTAGGG-GTTTAAGACCCTTC-ATCTTCGA
87441695 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA
* * * * * *
87441739 TCTGCT-CCACTACTGCTTAGGGAG-ATAAGA-TCTGCA-ATTCGG
1 TCTGTTACC-CTACTGCTTAGGG-GTTTAAGACCCTTCATCTTCGA
87441781 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA
* *
87441825 TCTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 TCTGTTACCCTACTGCTTAGGGGTTTAAGA
87441855 TCTATAAATT
Statistics
Matches: 159, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.01
42 51 0.32
43 26 0.16
44 78 0.49
45 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (44 bp):
TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA
Found at i:87442074 original size:64 final size:64
Alignment explanation
Indices: 87441973--87442096 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
87441963 GCATCTATGT
*
87441973 TTATGCCAAATAATTAGGACGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTATGCCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* * *
87442037 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTGACTAAATGTG
1 TTATGCCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
87442097 TTACGAATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:87449986 original size:19 final size:18
Alignment explanation
Indices: 87449962--87450000 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
87449952 AGTACGTATG
87449962 ATGCAATGCAGATGC-ATGA
1 ATGCAATG-A-ATGCGATGA
87449981 ATGCAATGAATGCGATGA
1 ATGCAATGAATGCGATGA
87449999 AT
1 AT
87450001 ACAAAAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (18 bp):
ATGCAATGAATGCGATGA
Found at i:87463356 original size:11 final size:10
Alignment explanation
Indices: 87463342--87463381 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 10
87463332 TCTTTAATAA
87463342 TAAATTAAAGT
1 TAAATTAAA-T
87463353 TAAATTAAAT
1 TAAATTAAAT
87463363 TAAATTAAGAT
1 TAAATTAA-AT
87463374 TAAGATTA
1 TAA-ATTA
87463382 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.33
11 14 0.52
12 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (10 bp):
TAAATTAAAT
Found at i:87463375 original size:6 final size:5
Alignment explanation
Indices: 87463342--87463381 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
87463332 TCTTTAATAA
87463342 TAAAT TAAAGT TAAAT TAAAT TAAAT TAAGAT TAAGAT TA
1 TAAAT TAAA-T TAAAT TAAAT TAAAT TAA-AT TAA-AT TA
87463382 TTTTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 18 0.55
6 15 0.45
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:87474790 original size:34 final size:34
Alignment explanation
Indices: 87474746--87474821 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
87474736 AAAACTGCAT
* * *
87474746 AACTGATACTGATACTGAGATGGGCTAAGGCCTA
1 AACTGTTACTGATACTGAAAGGGGCTAAGGCCTA
*
87474780 AACTGTTACTGATACTGAAAGGGGCTTAGGCCTA
1 AACTGTTACTGATACTGAAAGGGGCTAAGGCCTA
87474814 AGACTGTT
1 A-ACTGTT
87474822 TGACTGTGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 31 0.84
35 6 0.16
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (34 bp):
AACTGTTACTGATACTGAAAGGGGCTAAGGCCTA
Found at i:87477839 original size:19 final size:20
Alignment explanation
Indices: 87477792--87477840 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
87477782 GACCCCCTTT
* *
87477792 ATTAAACATAAACAATTAAA
1 ATTAAAAATTAACAATTAAA
**
87477812 ATTGCAAATTAAC-ATTAAA
1 ATTAAAAATTAACAATTAAA
87477831 ATTAAAAATT
1 ATTAAAAATT
87477841 TCTTTTAGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (20 bp):
ATTAAAAATTAACAATTAAA
Found at i:87480419 original size:43 final size:43
Alignment explanation
Indices: 87480324--87480442 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
87480314 ATCGAGATGT
* * * *
87480324 GATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
*
87480367 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
* * *
87480410 GATTTCGTGTAAGACCTTGTCTGGGACAGTGGC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGC
87480443 GCCAATATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 64 0.96
44 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:87484839 original size:25 final size:25
Alignment explanation
Indices: 87484805--87484858 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
87484795 TTGTGTTTTG
87484805 ATGCAGGAAGGCAAAGTTATATCTT
1 ATGCAGGAAGGCAAAGTTATATCTT
87484830 ATGCAGGAAGGCAAAGTTATATCTT
1 ATGCAGGAAGGCAAAGTTATATCTT
87484855 ATGC
1 ATGC
87484859 CTCGAGATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (25 bp):
ATGCAGGAAGGCAAAGTTATATCTT
Found at i:87492566 original size:15 final size:15
Alignment explanation
Indices: 87492546--87492576 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
87492536 AGTTAGACTA
87492546 TGGTCTTTATCCACT
1 TGGTCTTTATCCACT
87492561 TGGTCTTTATCCACT
1 TGGTCTTTATCCACT
87492576 T
1 T
87492577 TTATTTTGGT
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:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (15 bp):
TGGTCTTTATCCACT
Found at i:87497860 original size:28 final size:28
Alignment explanation
Indices: 87497816--87497875 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
87497806 CACCTACAAG
*
87497816 AGGTCTTTATAATGTTGTAAAGAGCCTT
1 AGGTCTTTATAAGGTTGTAAAGAGCCTT
* *
87497844 AGGTCTTTATAAGGTTGTAAAGGGGCTT
1 AGGTCTTTATAAGGTTGTAAAGAGCCTT
87497872 AGGT
1 AGGT
87497876 TAAGGGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.37
Consensus pattern (28 bp):
AGGTCTTTATAAGGTTGTAAAGAGCCTT
Found at i:87498593 original size:20 final size:20
Alignment explanation
Indices: 87498545--87498584 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
87498535 AACTGAAACT
87498545 ACCCTGAATTTGGACGATTA
1 ACCCTGAATTTGGACGATTA
87498565 ACCCTGAATTTGGACGATTA
1 ACCCTGAATTTGGACGATTA
87498585 CTCTAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
ACCCTGAATTTGGACGATTA
Found at i:87500347 original size:15 final size:17
Alignment explanation
Indices: 87500327--87500365 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
87500317 CAATAATTAT
87500327 AATAATAGTA-T-TAAA
1 AATAATAGTACTGTAAA
*
87500342 AATAATAGTACTGTAAT
1 AATAATAGTACTGTAAA
87500359 AATAATA
1 AATAATA
87500366 AAAATGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 10 0.48
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (17 bp):
AATAATAGTACTGTAAA
Found at i:87500919 original size:25 final size:25
Alignment explanation
Indices: 87500885--87500941 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
87500875 TGACTGTTTC
87500885 TATTTTTCATTTTCGTTTCATTTTA
1 TATTTTTCATTTTCGTTTCATTTTA
87500910 TATTTTTCATTTTCGTTTCATTTTA
1 TATTTTTCATTTTCGTTTCATTTTA
87500935 TATTTTT
1 TATTTTT
87500942 TTATTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.70
Consensus pattern (25 bp):
TATTTTTCATTTTCGTTTCATTTTA
Found at i:87500958 original size:16 final size:16
Alignment explanation
Indices: 87500929--87500969 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
87500919 TTTTCGTTTC
87500929 ATTTTATA-TTTTTTT
1 ATTTTATATTTTTTTT
87500944 ATTTTATATTTTTTTT
1 ATTTTATATTTTTTTT
*
87500960 ATTTTCTATT
1 ATTTTATATT
87500970 ACAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTATATTTTTTTT
Found at i:87501849 original size:2 final size:2
Alignment explanation
Indices: 87501842--87501871 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87501832 TATTTATCTA
87501842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87501872 GTATTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87502423 original size:23 final size:25
Alignment explanation
Indices: 87502397--87502454 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
87502387 TTATTTTATG
87502397 TATATTATTTACTTTA-ACATTTT-
1 TATATTATTTACTTTAGACATTTTA
* *
87502420 TATATTATTTATTTTAGACCTTTTA
1 TATATTATTTACTTTAGACATTTTA
*
87502445 TATGTTATTT
1 TATATTATTT
87502455 TAAATTGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 15 0.50
24 6 0.20
25 9 0.30
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (25 bp):
TATATTATTTACTTTAGACATTTTA
Found at i:87503080 original size:127 final size:127
Alignment explanation
Indices: 87502845--87503162 Score: 422
Period size: 127 Copynumber: 2.5 Consensus size: 127
87502835 GAAAATTCCT
** * *
87502845 TAAAACGAAGGCAATGTTTGATGTTTGGAAATTCGAGAAATCGTGCCCTACCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * *
87502910 ATTTCCCGTTTGTTCAAAATAATCGAATATTCATTTAGAATTTCACTCGTGTTTTCCAAATTC
65 ATTTCCCGTTTATTCAAAATAATCGAATATTCATTTAGAATTTCACTCGTATTTTACAAATTC
* *
87502973 TAAAACAAGGCAATGTTCAAGGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* * * * * * *
87503038 TTTCCGGTTTATTCCAAATAATTGAATGTTCCTTTAGTATTTCACTCGTATTTTATAAATTC
66 TTTCCCGTTTATTCAAAATAATCGAATATTCATTTAGAATTTCACTCGTATTTTACAAATTC
* * ** * *
87503100 TAAAACAAGGCAATG-TCAATGTTTGCAAATTTGAGGAATTATGCCCTATTGTGTTGGGTTTCG
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
87503163 TTTTTCATTG
Statistics
Matches: 166, Mismatches: 24, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
126 40 0.24
127 120 0.72
128 6 0.04
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTCCCGTTTATTCAAAATAATCGAATATTCATTTAGAATTTCACTCGTATTTTACAAATTC
Found at i:87507775 original size:46 final size:46
Alignment explanation
Indices: 87507725--87507900 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87507715 TGGTTGAGCA
87507725 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
87507771 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
87507816 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
87507864 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87507901 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87507881 original size:93 final size:93
Alignment explanation
Indices: 87507722--87507892 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
87507712 GGATGGTTGA
* *
87507722 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87507787 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
87507815 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87507880 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
87507893 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:87524005 original size:25 final size:27
Alignment explanation
Indices: 87523946--87524011 Score: 91
Period size: 28 Copynumber: 2.5 Consensus size: 27
87523936 CATACATACC
*
87523946 TAAAAAATAGTCACTACTTGCATATTAT
1 TAAAAAATAGTCACTACATGCA-ATTAT
*
87523974 TAAAAAATAGTCACTGCATGC-A-TAT
1 TAAAAAATAGTCACTACATGCAATTAT
87523999 TAAAAAATAGTCA
1 TAAAAAATAGTCA
87524012 ACAGCATGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 16 0.44
26 1 0.03
28 19 0.53
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (27 bp):
TAAAAAATAGTCACTACATGCAATTAT
Found at i:87524018 original size:26 final size:25
Alignment explanation
Indices: 87523971--87524019 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
87523961 ACTTGCATAT
*
87523971 TATTAAAAAATAGTCACTGCATGCA
1 TATTAAAAAATAGTCACAGCATGCA
87523996 TATTAAAAAATAGTCAACAGCATG
1 TATTAAAAAATAGTC-ACAGCATG
87524020 TGACCATCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (25 bp):
TATTAAAAAATAGTCACAGCATGCA
Found at i:87524111 original size:82 final size:80
Alignment explanation
Indices: 87523974--87524240 Score: 296
Period size: 82 Copynumber: 3.4 Consensus size: 80
87523964 TGCATATTAT
*
87523974 TAAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAA
1 TAAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAACAGCATATGACCATCCCCACCAACAA
*
87524039 TCATACACACACACACC
66 TCATACACACACA-A-A
* * * *
87524056 TAAAAAATAGTCATTGCATGCATATTAAAAAATAGTCAACAGTATATGATCATCCCTACCAACAA
1 TAAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAACAGCATATGACCATCCCCACCAACAA
* * *
87524121 TCATGCATAGACAAA
66 TCATACACACACAAA
* * * * *
87524136 TTAAAAA-A--CACTGCATGCATATTAAAAAATAGTCAACAGCATGTAACTAACCCCACCAACAA
1 TAAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAACAGCATATGACCATCCCCACCAACAA
* * * *
87524198 TTATACATAGACAGA
66 TCATACACACACAAA
*
87524213 TTAAAAA-A---ACTGCATGCATATTAAAAAA
1 TAAAAAATAGTCACTGCATGCATATTAAAAAA
87524241 CACGCACTAA
Statistics
Matches: 164, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
76 20 0.12
77 66 0.40
79 1 0.01
80 6 0.04
81 1 0.01
82 70 0.43
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.22
Consensus pattern (80 bp):
TAAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAACAGCATATGACCATCCCCACCAACAA
TCATACACACACAAA
Found at i:87524194 original size:77 final size:77
Alignment explanation
Indices: 87523985--87524240 Score: 318
Period size: 77 Copynumber: 3.3 Consensus size: 77
87523975 AAAAAATAGT
* * *
87523985 CACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACA
1 CACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACTATCCCCACCAACAATCATACATAGA
* *
87524050 CACACCTAAAAAATA
66 CA-A-ATTAAAAA-A
* * * * *
87524065 GTCATTGCATGCATATTAAAAAATAGTCAACAGTATATGA-TCATCCCTACCAACAATCATGCAT
1 --CACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACT-ATCCCCACCAACAATCATACAT
87524129 AGACAAATTAAAAAA
63 AGACAAATTAAAAAA
* * *
87524144 CACTGCATGCATATTAAAAAATAGTCAACAGCATGTAACTAACCCCACCAACAATTATACATAGA
1 CACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACTATCCCCACCAACAATCATACATAGA
*
87524209 CAGATTAAAAAA
66 CAAATTAAAAAA
87524221 -ACTGCATGCATATTAAAAAA
1 CACTGCATGCATATTAAAAAA
87524241 CACGCACTAA
Statistics
Matches: 153, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
76 20 0.13
77 66 0.43
78 1 0.01
79 1 0.01
80 6 0.04
81 1 0.01
82 58 0.38
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.21
Consensus pattern (77 bp):
CACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACTATCCCCACCAACAATCATACATAGA
CAAATTAAAAAA
Found at i:87531446 original size:54 final size:53
Alignment explanation
Indices: 87531367--87531477 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
87531357 TTTATAATAT
* *
87531367 ATATAGTATATATGCATGACTTAAATGAAGC-TAAATGGAATATATATGCATTA
1 ATATAGTATATATGCATGACTTAAATAAAGCAAAAAT-GAATATATATGCATTA
**
87531420 ATATA-TATATATGCACATGACTTAAATAAAGCAAAAATTTATATATATGCATTA
1 ATATAGTATATATG--CATGACTTAAATAAAGCAAAAATGAATATATATGCATTA
87531474 ATAT
1 ATAT
87531478 TAAATGAAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
52 8 0.16
53 5 0.10
54 34 0.67
55 4 0.08
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (53 bp):
ATATAGTATATATGCATGACTTAAATAAAGCAAAAATGAATATATATGCATTA
Found at i:87531481 original size:36 final size:36
Alignment explanation
Indices: 87531441--87531513 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
87531431 TGCACATGAC
* *
87531441 TTAAATAAAGC-AAAAATTTATATATATGCATTAATA
1 TTAAATAAAGCTAAAAA-GTATACATATGCATTAATA
* *
87531477 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATAAAGCTAAAAAGTATACATATGCATTAATA
87531513 T
1 T
87531514 ATATATGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 28 0.88
37 4 0.12
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (36 bp):
TTAAATAAAGCTAAAAAGTATACATATGCATTAATA
Found at i:87531535 original size:50 final size:48
Alignment explanation
Indices: 87531459--87531614 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 48
87531449 AGCAAAAATT
* *
87531459 TATATATATGCATTAATATTAAATGAAGCTAAACAGTATACATATGCATTAA
1 TATATATATGC-TTGA-CTTAAATGAAGCTAAAC-GTATA-ATATGCATTAA
* *
87531511 TATATATATGCTTGACTTAAATGAAGCTAAACCTGCTAATA---ATGT--
1 TATATATATGCTTGACTTAAATGAAGCTAAACGT-ATAATATGCAT-TAA
* * * *
87531556 TATATACATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATTAA
1 TATATATATGCTTGACTTAAATGAAGCTAAA-CGTATA-ATATGCATTAA
87531606 TATATATAT
1 TATATATAT
87531615 ACATATATAT
Statistics
Matches: 84, Mismatches: 11, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
45 31 0.37
46 5 0.06
47 1 0.01
48 1 0.01
49 6 0.07
50 26 0.31
51 3 0.04
52 11 0.13
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (48 bp):
TATATATATGCTTGACTTAAATGAAGCTAAACGTATAATATGCATTAA
Found at i:87531682 original size:36 final size:36
Alignment explanation
Indices: 87531642--87531714 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
87531632 TGTGCATGAC
* *
87531642 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
87531678 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
87531714 T
1 T
87531715 ATATAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:87531777 original size:45 final size:45
Alignment explanation
Indices: 87531722--87531812 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
87531712 TATATATAAA
* *
87531722 TATATATATGCTTGATTTAAATGAAGT-TAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAA-TCTAAACCTGCTAATAATGG
87531767 TATATATATGCATGACTTAAATGAATCTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAATCTAAACCTGCTAATAATGG
87531812 T
1 T
87531813 TAATTTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (45 bp):
TATATATATGCATGACTTAAATGAATCTAAACCTGCTAATAATGG
Found at i:87534081 original size:22 final size:22
Alignment explanation
Indices: 87534043--87534138 Score: 81
Period size: 24 Copynumber: 4.2 Consensus size: 22
87534033 AGCTTACCGA
*
87534043 TTTAGCTCGAA-ATAGCTTAGTG
1 TTTAGCTC-AATAGAGCTTAGTG
87534065 TTTAGCTCAATAGAGCTTA-TCG
1 TTTAGCTCAATAGAGCTTAGT-G
87534087 TTTTCAGCTCAATAGAGCTTACCGT-
1 -TTT-AGCTCAATAGAGCTTA--GTG
* *
87534112 TTTCAGCTCAGTAGAGCTTACTG
1 TTT-AGCTCAATAGAGCTTAGTG
87534135 TTTA
1 TTTA
87534139 TCAGCTCAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
21 3 0.05
22 18 0.29
23 6 0.10
24 35 0.56
27 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (22 bp):
TTTAGCTCAATAGAGCTTAGTG
Found at i:87534100 original size:24 final size:23
Alignment explanation
Indices: 87534056--87534146 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 23
87534046 AGCTCGAAAT
87534056 AGCTTA-GTGTTT-AGCTCAATAG
1 AGCTTACGT-TTTCAGCTCAATAG
87534078 AGCTTATCGTTTTCAGCTCAATAG
1 AGCTTA-CGTTTTCAGCTCAATAG
*
87534102 AGCTTACCGTTTTCAGCTCAGTAG
1 AGCTTA-CGTTTTCAGCTCAATAG
87534126 AGCTTACTGTTTATCAGCTCA
1 AGCTTAC-GTTT-TCAGCTCA
87534147 GAGGAGCTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.10
23 4 0.06
24 44 0.71
25 8 0.13
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (23 bp):
AGCTTACGTTTTCAGCTCAATAG
Found at i:87534153 original size:25 final size:23
Alignment explanation
Indices: 87534076--87534155 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 23
87534066 TTAGCTCAAT
*
87534076 AGAGCTTA-TCGTTTTCAGCTCAAT
1 AGAGCTTACT-GTTTTCAGCTC-AG
*
87534100 AGAGCTTACCGTTTTCAGCTCAG
1 AGAGCTTACTGTTTTCAGCTCAG
87534123 TAGAGCTTACTGTTTATCAGCTCAG
1 -AGAGCTTACTGTTT-TCAGCTCAG
87534148 AGGAGCTT
1 A-GAGCTT
87534156 GCCAACCATG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 33 0.67
25 15 0.31
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGTTTTCAGCTCAG
Found at i:87535956 original size:12 final size:12
Alignment explanation
Indices: 87535939--87535969 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
87535929 CCACACGCTC
*
87535939 GTGTGCCAGGCA
1 GTGTGCCAAGCA
87535951 GTGTGCCAAGCA
1 GTGTGCCAAGCA
87535963 GTGTGCC
1 GTGTGCC
87535970 CTTTCGAAAT
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:0.16, C:0.26, G:0.39, T:0.19
Consensus pattern (12 bp):
GTGTGCCAAGCA
Found at i:87538104 original size:21 final size:21
Alignment explanation
Indices: 87538078--87538127 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
87538068 GGGTTGAACC
87538078 TTCTTTCTCTCTTTC-TTCTTT
1 TTCTTTCTCTCTTTCTTTC-TT
* * *
87538099 TTCTTTTTTTTTTTCTTTCTT
1 TTCTTTCTCTCTTTCTTTCTT
87538120 TTCTTTCT
1 TTCTTTCT
87538128 GTTTCGCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTCTTTCTCTCTTTCTTTCTT
Found at i:87538126 original size:9 final size:9
Alignment explanation
Indices: 87538078--87538132 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
87538068 GGGTTGAACC
87538078 TTCTTTC-T
1 TTCTTTCTT
*
87538086 CTCTTTCTT
1 TTCTTTCTT
87538095 CTT-TTTCTT
1 -TTCTTTCTT
87538104 TT-TTT-TT
1 TTCTTTCTT
87538111 TTCTTTCTT
1 TTCTTTCTT
87538120 TTCTTTCTGT
1 TTCTTTCT-T
87538130 TTC
1 TTC
87538133 GCATGGCTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 4 0.10
8 14 0.35
9 17 0.43
10 5 0.12
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:87538262 original size:26 final size:26
Alignment explanation
Indices: 87538211--87538262 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
87538201 TTAAGTAAAC
** *
87538211 ATATTATAATATATATTTTAACTTTA
1 ATATTATAATATATATAATAAATTTA
87538237 ATATTATAATATATATAATAAATTTA
1 ATATTATAATATATATAATAAATTTA
87538263 CACATGTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATTATAATATATATAATAAATTTA
Found at i:87542746 original size:17 final size:17
Alignment explanation
Indices: 87542724--87542757 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87542714 ATCTAAGTTA
*
87542724 CTCAAATTTAGATATGT
1 CTCAAATATAGATATGT
*
87542741 CTCAAATATAGGTATGT
1 CTCAAATATAGATATGT
87542758 GCCTGAGACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (17 bp):
CTCAAATATAGATATGT
Found at i:87550861 original size:19 final size:19
Alignment explanation
Indices: 87550837--87550882 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
87550827 TTTTATTCCT
* **
87550837 AAAAATTTAAATTTAATTA
1 AAAAATTTAAAATTAAGAA
*
87550856 AAAAATTAAAAATTAAGAA
1 AAAAATTTAAAATTAAGAA
87550875 AAAAATTT
1 AAAAATTT
87550883 TGATTTATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTTAAAATTAAGAA
Found at i:87552107 original size:111 final size:114
Alignment explanation
Indices: 87551909--87552137 Score: 322
Period size: 112 Copynumber: 2.0 Consensus size: 114
87551899 TATCAAAAAT
* * ** *
87551909 AAACTGCCATGTCATTTAACTTTTAAAATTATTTTTTAATTGTTGGGGATAAACCTATAATAAAC
1 AAACAGCCATGTCATTTAACCTTTAAAAGCATTTTTTAATTGTCGGGGATAAACCTATAATAAAC
* *
87551974 AACGAACAAGAAAAGTAAAGAAGATTG-AACACACAAATTTTACGTAAA
66 AACGAACAAGAAAAGTAAAGAAGATCGAAACACACAAATTTTACATAAA
* *
87552022 AAACAGCCATGTCATTTAACCTTTAAAAGCA-TTTTTAATTGTCGGGGATCAA-CTCGT-ATAAA
1 AAACAGCCATGTCATTTAACCTTTAAAAGCATTTTTTAATTGTCGGGGATAAACCT-ATAATAAA
* *
87552084 TAACGAACAAGAAAAGTAAAGAAGATCGAAACACACAAATTTTACATGAA
65 CAACGAACAAGAAAAGTAAAGAAGATCGAAACACACAAATTTTACATAAA
87552134 AAAC
1 AAAC
87552138 TCCTTCGAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
111 33 0.32
112 43 0.42
113 27 0.26
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (114 bp):
AAACAGCCATGTCATTTAACCTTTAAAAGCATTTTTTAATTGTCGGGGATAAACCTATAATAAAC
AACGAACAAGAAAAGTAAAGAAGATCGAAACACACAAATTTTACATAAA
Found at i:87564612 original size:39 final size:39
Alignment explanation
Indices: 87564579--87564686 Score: 198
Period size: 39 Copynumber: 2.8 Consensus size: 39
87564569 TTCCATCATG
*
87564579 TAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACA
1 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACA
87564618 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACA
1 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACA
*
87564657 TAGCCTGCGGACCCTAAGTCCGGATATAAT
1 TAGCCTGCGGACCTTAAGTCCGGATATAAT
87564687 CATCACTGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACA
Found at i:87564614 original size:78 final size:77
Alignment explanation
Indices: 87564521--87564686 Score: 174
Period size: 78 Copynumber: 2.1 Consensus size: 77
87564511 AAATTTAAAC
** * * * * **
87564521 CCGGTATAATACCAGCTTGA-AGCCTGCGGGA-TTTTAGCCCGGACATATTTCCATCATGTAGCC
1 CCGGTATAATACCAGC-ACATAGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCC
*
87564584 TGCGGACCTTAAGT
64 TGCGGACCCTAAGT
* * *
87564598 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCT
87564663 GCGGACCCTAAGT
65 GCGGACCCTAAGT
87564676 CCGGATATAAT
1 CCGG-TATAAT
87564687 CATCACTGAA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
77 8 0.11
78 65 0.89
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (77 bp):
CCGGTATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTG
CGGACCCTAAGT
Found at i:87566414 original size:19 final size:19
Alignment explanation
Indices: 87566373--87566414 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
87566363 AAACATACCT
*
87566373 CCAATTAGAAACATCAAAT
1 CCAATTAGAAACATCAAAG
*
87566392 CCAATTAGAAACATCCAAG
1 CCAATTAGAAACATCAAAG
87566411 CCAA
1 CCAA
87566415 ATATCCAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.26, G:0.07, T:0.17
Consensus pattern (19 bp):
CCAATTAGAAACATCAAAG
Found at i:87568253 original size:18 final size:17
Alignment explanation
Indices: 87568202--87568255 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
87568192 TAAAAGAGTT
*
87568202 ATTAATTAAAAATAATAT
1 ATTAATTAAAAATAA-AA
* **
87568220 ATTTATTAATTATAAAA
1 ATTAATTAAAAATAAAA
87568237 ATTAATTAAAAATTAAAA
1 ATTAATTAAAAA-TAAAA
87568255 A
1 A
87568256 AAAAGCTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAATTAAAAATAAAA
Found at i:87576448 original size:5 final size:5
Alignment explanation
Indices: 87576434--87576463 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
87576424 TCTGTGTGTT
87576434 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
87576464 CACATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:87577066 original size:28 final size:29
Alignment explanation
Indices: 87577004--87577066 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
87576994 TTCATTTTGA
*
87577004 GTGACCAAAATAAAAGTGTACTAAAAATGAT
1 GTGACCAAAATAAAAGTG-A-TAAAAATGAC
*
87577035 GTGACCAAAATAAAAGTG-TAAATATGAC
1 GTGACCAAAATAAAAGTGATAAAAATGAC
87577063 GTGA
1 GTGA
87577067 AGTGTACAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 12 0.40
31 18 0.60
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (29 bp):
GTGACCAAAATAAAAGTGATAAAAATGAC
Found at i:87577183 original size:161 final size:161
Alignment explanation
Indices: 87576876--87577199 Score: 461
Period size: 161 Copynumber: 2.0 Consensus size: 161
87576866 GAAGTTGGGC
* * * *
87576876 GACCAAAATAAAAGTGTAATTATGATGTGGAGTGTACAATTAACCTTCGTTAGAGATATAATAGT
1 GACCAAAATAAAAGTGTAAATATGACGTGAAGTGTACAATTAACCTTCATTAGAGATATAATAGT
* * * * * * *
87576941 TGAATGATTAAAATGAAAGCGTCTTAAAAATTGGGTGACGAAATTGTAAGAATTTCATTTTGAGT
66 TGAATGATTAAAATGAAAGCATCTTAAAAATTAGATGACAAAATTGCAAAAATTTCATTTTGAGC
*
87577006 GACCAAAATAAAAGTGTACTAAAAATGATGT
131 GACCAAAACAAAAGTGTACTAAAAATGATGT
*
87577037 GACCAAAATAAAAGTGTAAATATGACGTGAAGTGTACAGTTAACCTTCATTAGAGATATAATAGT
1 GACCAAAATAAAAGTGTAAATATGACGTGAAGTGTACAATTAACCTTCATTAGAGATATAATAGT
* *
87577102 TGAATGATTAAAATGAAAGCAT-TGTAAAAATTAGATGACAAAATTGCAAAAATTTTATTTTGGG
66 TGAATGATTAAAATGAAAGCATCT-TAAAAATTAGATGACAAAATTGCAAAAATTTCATTTTGAG
* * * *
87577166 CGATCAAAACGAAAGTGTACTAAAAGTTATGT
130 CGACCAAAACAAAAGTGTACTAAAAATGATGT
87577198 GA
1 GA
87577200 ACATTTAGGG
Statistics
Matches: 143, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
160 1 0.01
161 142 0.99
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (161 bp):
GACCAAAATAAAAGTGTAAATATGACGTGAAGTGTACAATTAACCTTCATTAGAGATATAATAGT
TGAATGATTAAAATGAAAGCATCTTAAAAATTAGATGACAAAATTGCAAAAATTTCATTTTGAGC
GACCAAAACAAAAGTGTACTAAAAATGATGT
Found at i:87582993 original size:63 final size:63
Alignment explanation
Indices: 87582894--87583013 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
87582884 ATGCTCAACC
* * *
87582894 CGTCCGACCCGACTCGCTCCAGCCTAGGATCCGCGTGTTTTTAATCGGAATGGCTAAAAAACT
1 CGTCCGACCCGACCCACTCCAGCCTAGGATCCGCGTGTTTTTAATCGGAAGGGCTAAAAAACT
87582957 CGTCCGACCCGACCCACTCCAGCCTAGGATCCGCGTGTTTTTAATCGGAAGGGCTAA
1 CGTCCGACCCGACCCACTCCAGCCTAGGATCCGCGTGTTTTTAATCGGAAGGGCTAA
87583014 TTGCGCTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (63 bp):
CGTCCGACCCGACCCACTCCAGCCTAGGATCCGCGTGTTTTTAATCGGAAGGGCTAAAAAACT
Found at i:87583301 original size:3 final size:3
Alignment explanation
Indices: 87583288--87583426 Score: 127
Period size: 3 Copynumber: 46.7 Consensus size: 3
87583278 ATTAAAATTA
* * * * * *
87583288 ATT AAT ATT ATT ATT ACT ATT ATT ACT ATT TTT GTT ATT ATG ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
87583336 ATT ATT ACT ATT ATT TTT ATT ACT ATT ATT ATT ACT ATT TTT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
87583384 ATC ATT ATT ACT ATT A-T ATT ACT ATT ATT ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
87583427 ATTTTCTTTT
Statistics
Matches: 105, Mismatches: 30, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
2 2 0.02
3 103 0.98
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:87583609 original size:3 final size:3
Alignment explanation
Indices: 87583593--87583654 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
87583583 TTTAGAATAT
* * * *
87583593 TTA TTA TT- TGTA TTA TTG TTA TTA TTA TTA ATA TTA CTA TCA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
87583638 TTA TTA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
87583655 TTTAAATCCT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 1 0.02
3 45 0.96
4 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:87583627 original size:21 final size:21
Alignment explanation
Indices: 87583593--87583653 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
87583583 TTTAGAATAT
** * *
87583593 TTATTATTTGTATTATTGTTA
1 TTATTATTAATATTATTATCA
*
87583614 TTATTATTAATATTACTATCA
1 TTATTATTAATATTATTATCA
87583635 TTATTATTAATATTATTAT
1 TTATTATTAATATTATTAT
87583654 TTTTAAATCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTATTAATATTATTATCA
Found at i:87595968 original size:21 final size:21
Alignment explanation
Indices: 87595942--87595982 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87595932 ATCTGCTCAA
* *
87595942 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
87595963 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
87595983 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:87600082 original size:11 final size:12
Alignment explanation
Indices: 87600057--87600092 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
87600047 TTTTTTAATA
87600057 TTATTTAATTTT
1 TTATTTAATTTT
87600069 TTATTTAATTTT
1 TTATTTAATTTT
87600081 TATAATTTAATT
1 T-T-ATTTAATT
87600093 AAATCTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.59
13 1 0.05
14 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTAATTTT
Found at i:87600388 original size:14 final size:14
Alignment explanation
Indices: 87600369--87600407 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
87600359 ATGATAAGGG
*
87600369 TTAATTTCATTTTT
1 TTAATTTCAATTTT
87600383 TTAATTTCAATTTT
1 TTAATTTCAATTTT
*
87600397 ATAATTT-AATT
1 TTAATTTCAATT
87600408 AAACCCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTCAATTTT
Found at i:87605330 original size:20 final size:19
Alignment explanation
Indices: 87605302--87605342 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
87605292 TACAAAAAAC
87605302 TATTATTTTCTTACTTTTTT
1 TATTATTTTCTT-CTTTTTT
*
87605322 TATTGTTTTCTTCTTTTTT
1 TATTATTTTCTTCTTTTTT
87605341 TA
1 TA
87605343 ATCTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTATTTTCTTCTTTTTT
Found at i:87605436 original size:12 final size:11
Alignment explanation
Indices: 87605409--87605443 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
87605399 ATATTGTATA
87605409 ATTATTATTTT
1 ATTATTATTTT
87605420 ATTATTAATTTT
1 ATTATT-ATTTT
*
87605432 GTTATTATTTT
1 ATTATTATTTT
87605443 A
1 A
87605444 GAGGCATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:87609060 original size:59 final size:59
Alignment explanation
Indices: 87608989--87609130 Score: 239
Period size: 59 Copynumber: 2.4 Consensus size: 59
87608979 GGGCTTTGTC
*
87608989 GGATTAACAGTCTAGGCTAAATCCTTGTATGACAAAGAATTCCCTATAAAGTTCATTCT
1 GGATTACCAGTCTAGGCTAAATCCTTGTATGACAAAGAATTCCCTATAAAGTTCATTCT
* *
87609048 GGATTACCAGTCTAGGCTAAATCCTTGTATGACAAAGAATTCCCTATAGAGTTCATTTT
1 GGATTACCAGTCTAGGCTAAATCCTTGTATGACAAAGAATTCCCTATAAAGTTCATTCT
* *
87609107 GGATTACAAGTCCAGGCTAAATCC
1 GGATTACCAGTCTAGGCTAAATCC
87609131 AGTCAATTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (59 bp):
GGATTACCAGTCTAGGCTAAATCCTTGTATGACAAAGAATTCCCTATAAAGTTCATTCT
Found at i:87618528 original size:38 final size:38
Alignment explanation
Indices: 87618486--87618563 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
87618476 ATTATTTTCA
*
87618486 AAACTTATAAGTAAAGAAAGTTTTTTATTTTATTCACC
1 AAACTTATAAGTAAAGAAAATTTTTTATTTTATTCACC
87618524 AAACTTATAAGTAAAGAAAATTTTTTATTTTATTCACC
1 AAACTTATAAGTAAAGAAAATTTTTTATTTTATTCACC
87618562 AA
1 AA
87618564 CACCCTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.41
Consensus pattern (38 bp):
AAACTTATAAGTAAAGAAAATTTTTTATTTTATTCACC
Found at i:87619185 original size:109 final size:116
Alignment explanation
Indices: 87618966--87619227 Score: 297
Period size: 109 Copynumber: 2.3 Consensus size: 116
87618956 AAATTAAAAA
*
87618966 AAAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCTCATTAGGTTGTTGGCAAACACCAAG
1 AAAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCCCATTAGGTTGTTGGCAAACACCAAG
*
87619031 CTTGGGTACTTAAAAAAAAAGAAGAGAGAGACTGAAATTAAAAAAAAAACAATA-
66 CTTGGGTACTT-AAAAAAAAGAAGAGAGAGAC--AAATTAAAAAAAAAA-AAGAG
* * * * * *
87619085 CAAAGGTGATGGGATTGGACGGGCCTAGAGAAG-TAGGCCCGTTAGGTTGTTGGCCAACACTAGG
1 AAAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCCCATTAGGTTGTTGGCAAACACCAAG
* * *
87619149 CTTGGGTA-TT-TAAAAAAGAAGA-AGA-A-AGATT-CAAAAAAAAAAGAG
66 CTTGGGTACTTAAAAAAAAGAAGAGAGAGACAAATTAAAAAAAAAAAAGAG
* * * *
87619194 AAAAGATAATGGGATTGAATGGGCCTAGAGAAGC
1 AAAAGGTGATGGGATTGGACGGGCCTAGAGAAGC
87619228 GAGCAGGTCA
Statistics
Matches: 125, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
108 3 0.02
109 36 0.29
110 4 0.03
113 1 0.01
114 3 0.02
115 11 0.09
117 2 0.02
118 33 0.26
119 32 0.26
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (116 bp):
AAAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCCCATTAGGTTGTTGGCAAACACCAAG
CTTGGGTACTTAAAAAAAAGAAGAGAGAGACAAATTAAAAAAAAAAAAGAG
Found at i:87619216 original size:119 final size:118
Alignment explanation
Indices: 87618967--87619190 Score: 312
Period size: 118 Copynumber: 1.9 Consensus size: 118
87618957 AATTAAAAAA
*
87618967 AAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCTCATTAGGTTGTTGGCAAACACCAAGC
1 AAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCCCATTAGGTTGTTGGCAAACACCAAGC
* *
87619032 TTGGGTACTTAAAAAAAAAGAAGAGAGAGACTGAAATTAAAAAAAAAACAATAC
66 TTGGGTACTTAAAAAAAAAGAAGAGAGAGACTCAAA-TAAAAAAAAAAAAATAC
* * * * *
87619086 AAAGGTGATGGGATTGGACGGGCCTAGAGAAG-TAGGCCCGTTAGGTTGTTGGCCAACACTAGGC
1 AAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCCCATTAGGTTGTTGGCAAACACCAAGC
* * *
87619150 TTGGGTATTTAAAAAAGAAGAAGA-A-AGATTCAAA-AAAAAAA
66 TTGGGTACTTAAAAAAAAAGAAGAGAGAGACTCAAATAAAAAAA
87619191 GAGAAAAGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
114 7 0.07
116 7 0.07
117 1 0.01
118 48 0.51
119 32 0.34
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (118 bp):
AAAGGTGATGGGATTGGACGGGCCTAGAGAAGCAAGGCCCATTAGGTTGTTGGCAAACACCAAGC
TTGGGTACTTAAAAAAAAAGAAGAGAGAGACTCAAATAAAAAAAAAAAAATAC
Found at i:87620813 original size:48 final size:48
Alignment explanation
Indices: 87620742--87620839 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
87620732 ATTTGGAAGA
87620742 GTAATTAGTGACCTTCATACTATCATGGGTTCACGAGTAGCAAGCTAT
1 GTAATTAGTGACCTTCATACTATCATGGGTTCACGAGTAGCAAGCTAT
*
87620790 GTAATTAGTGACCTTCATACTATCATGGGTTCACGGGTAGCAAGCTAT
1 GTAATTAGTGACCTTCATACTATCATGGGTTCACGAGTAGCAAGCTAT
87620838 GT
1 GT
87620840 TCGCGTCGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (48 bp):
GTAATTAGTGACCTTCATACTATCATGGGTTCACGAGTAGCAAGCTAT
Found at i:87622002 original size:18 final size:19
Alignment explanation
Indices: 87621981--87622019 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
87621971 AATTTGTAAA
87621981 AAAAATAAA-ATAAAAAAT
1 AAAAATAAAGATAAAAAAT
87621999 -AAAATAAAGATAAAAAAT
1 AAAAATAAAGATAAAAAAT
87622017 AAA
1 AAA
87622020 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 9 0.47
19 2 0.11
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAAATAAAGATAAAAAAT
Found at i:87622020 original size:13 final size:13
Alignment explanation
Indices: 87621983--87622022 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
87621973 TTTGTAAAAA
87621983 AAATAAAATAAA-
1 AAATAAAATAAAG
87621995 AAATAAAATAAAG
1 AAATAAAATAAAG
87622008 ATAA-AAAATAAAG
1 A-AATAAAATAAAG
87622021 AA
1 AA
87622023 CACACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 13 0.50
13 11 0.42
14 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAG
Found at i:87631781 original size:16 final size:17
Alignment explanation
Indices: 87631757--87631798 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
87631747 CTTCAAAAAG
87631757 AAAAA-AAAATATAAC-
1 AAAAAGAAAATATAACT
* *
87631772 AAAAAGAAAATCTATCT
1 AAAAAGAAAATATAACT
87631789 AAAAAGAAAA
1 AAAAAGAAAA
87631799 GAAAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 5 0.22
16 8 0.35
17 10 0.43
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAAGAAAATATAACT
Found at i:87634546 original size:29 final size:29
Alignment explanation
Indices: 87634510--87634607 Score: 169
Period size: 29 Copynumber: 3.4 Consensus size: 29
87634500 TTTGTGTACC
*
87634510 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
*
87634539 ATGTGAAAAGGGATAGCTTCGGCTATTGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
*
87634568 ATGTGGAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
87634597 ATGTGAAAAGG
1 ATGTGAAAAGG
87634608 TTAGGTATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:87634674 original size:32 final size:32
Alignment explanation
Indices: 87634600--87634789 Score: 222
Period size: 32 Copynumber: 5.9 Consensus size: 32
87634590 CTATCGAATG
* * *
87634600 TGAAAAGGTTAGGTATACTTTGTGTATACCACA
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACA
* *
87634633 TGAAAAGGTTATGTACACATTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACA
87634665 TGAAAAGGTTATGTACACTTTGTGTGTACACA
1 TGAAAAGGTTATGTACACTTTGTGTGTACACA
87634697 TGAAAAGGTTATGTACACTTTGTGTGTACA-A
1 TGAAAAGGTTATGTACACTTTGTGTGTACACA
* * * *
87634728 TTGAAAAGG-AATGTATACTTTGTGTATACCATA
1 -TGAAAAGGTTATGTACACTTTGTGTGTA-CACA
** * *
87634761 TGAAAAGGAAAGGTATACTTTGTGTGTAC
1 TGAAAAGGTTATGTACACTTTGTGTGTAC
87634790 CAATCAGAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
31 17 0.12
32 82 0.58
33 42 0.30
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACA
Found at i:87634712 original size:64 final size:65
Alignment explanation
Indices: 87634600--87634768 Score: 261
Period size: 64 Copynumber: 2.6 Consensus size: 65
87634590 CTATCGAATG
* *
87634600 TGAAAAGGTTAGGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACATTGTGTGTACACT
1 TGAAAAGGTTATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACATTGTGTGTACAAT
* * *
87634665 TGAAAAGGTTATGTACACTTTGTGTGTA-CACATGAAAAGGTTATGTACACTTTGTGTGTACAAT
1 TGAAAAGGTTATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACATTGTGTGTACAAT
* *
87634729 TGAAAAGG-AATGTATACTTTGTGTATACCATATGAAAAGG
1 TGAAAAGGTTATGTATACTTTGTGTATACCACATGAAAAGG
87634769 AAAGGTATAC
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
63 16 0.17
64 53 0.56
65 25 0.27
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (65 bp):
TGAAAAGGTTATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACATTGTGTGTACAAT
Found at i:87634781 original size:64 final size:65
Alignment explanation
Indices: 87634600--87634789 Score: 258
Period size: 64 Copynumber: 3.0 Consensus size: 65
87634590 CTATCGAATG
* * * *
87634600 TGAAAAGGTTAGGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACATTGTGTGTACACT
1 TGAAAAGGTAATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACTTTGTGTGTACAAT
* * *
87634665 TGAAAAGGTTATGTACACTTTGTGTGTA-CACATGAAAAGGTTATGTACACTTTGTGTGTACAAT
1 TGAAAAGGTAATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACTTTGTGTGTACAAT
* ** * *
87634729 TGAAAAGG-AATGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 TGAAAAGGTAATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACTTTGTGTGTAC
87634790 CAATCAGAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
63 16 0.14
64 70 0.63
65 25 0.23
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (65 bp):
TGAAAAGGTAATGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACTTTGTGTGTACAAT
Found at i:87638899 original size:138 final size:138
Alignment explanation
Indices: 87638571--87638995 Score: 625
Period size: 138 Copynumber: 3.1 Consensus size: 138
87638561 AGAGAACATA
* *
87638571 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTAT
* * *
87638636 TAATATAAACAATTATATTAATTAATTTTGGTCAAAAATATAAAAGAAATGAAAAATTAATATTT
66 TAATATAAACAGTTATATTAATTAATTTTGGTC-AAAATATAAAAGAAATG-GAAATTAATATTA
87638701 TTTTGGAAAG
129 TTTTGGAAAG
* *
87638711 AATATAATTAATATATTAATTTGATTCATACAAAATATTAATTGTGTATATTTTACAGAATTTAT
1 AATATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTAT
* * * * *
87638776 TAATATAAACTGTTACATTAATTAATTTCGGTCAAAATATTAAAGATATGGAAATTAATATTATT
66 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGAAATGGAAATTAATATTATT
*
87638841 TTAGAAAG
131 TTGGAAAG
* *
87638849 AATATAATTAATATATAAATTTTATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
1 AATATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTAT
* * ** * * *
87638914 TAATATAAACAGTTATATTAATTAATTTTAGTTAAAATATAAAAGGCATGGACATTTATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGAAATGGAAATTAATATTATT
*
87638979 TTGGAAAT
131 TTGGAAAG
87638987 AATATAATT
1 AATATAATT
87638996 CCTTTTTCTA
Statistics
Matches: 256, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
138 150 0.59
139 15 0.06
140 91 0.36
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (138 bp):
AATATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTAT
TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGAAATGGAAATTAATATTATT
TTGGAAAG
Found at i:87639177 original size:75 final size:74
Alignment explanation
Indices: 87639013--87639179 Score: 219
Period size: 75 Copynumber: 2.2 Consensus size: 74
87639003 CTAACTTTCC
87639013 ATTAATAAA-GGAATAATCCTATTTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATT
1 ATTAA-AAAGGGAATAATCCTATTTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATT
** *
87639077 TGTTTTCTCT
65 TGCCTTCTCA
* ** * * * *
87639087 ATTCATTAGGAAATAATCTTGTATTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTTCATT
1 ATTAAAAAGGGAATAATCCTAT-TTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATT
87639152 TGCCTTCTCA
65 TGCCTTCTCA
87639162 ATTAAAAAGGGAATAATC
1 ATTAAAAAGGGAATAATC
87639180 ATGGTTTTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
73 1 0.01
74 14 0.18
75 62 0.81
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (74 bp):
ATTAAAAAGGGAATAATCCTATTTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTT
GCCTTCTCA
Found at i:87643690 original size:51 final size:51
Alignment explanation
Indices: 87643609--87643710 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
87643599 GTAGCATGTG
* *
87643609 AAACTAGTGATAAAGTTATGGAGGGTATTATTGTGCTATGATGGGATATGA
1 AAACTAGTGATAAAGTTATGGAAGGCATTATTGTGCTATGATGGGATATGA
*
87643660 AAACTAGTGGTAAAGTTATGGAAGGCATTATTGTGCTATGATGGGATATGA
1 AAACTAGTGATAAAGTTATGGAAGGCATTATTGTGCTATGATGGGATATGA
87643711 CTAGCCTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.32
Consensus pattern (51 bp):
AAACTAGTGATAAAGTTATGGAAGGCATTATTGTGCTATGATGGGATATGA
Done.