Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 22 of 221
Found at i:6201335 original size:26 final size:26
Alignment explanation
Indices: 6201242--6201328 Score: 122
Period size: 26 Copynumber: 3.3 Consensus size: 26
6201232 TTTTTTTTGT
**
6201242 ATATTTTGATAAATAAAAAAATTATA
1 ATATTTTGATAAATAAAAAAAAGATA
6201268 ATATTTTGATAAATAAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAAG--ATA
6201296 ATATTTT-AGTAAATAAAAAAAAGATA
1 ATATTTTGA-TAAATAAAAAAAAGATA
6201322 ATATTTT
1 ATATTTT
6201329 AGTAAATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
26 31 0.55
27 1 0.02
28 24 0.43
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (26 bp):
ATATTTTGATAAATAAAAAAAAGATA
Found at i:6206868 original size:25 final size:26
Alignment explanation
Indices: 6206818--6206868 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
6206808 CGAAACTTAT
*
6206818 CAGAATAGTTTGTAGCCAAGCTGCCA
1 CAGAATAGTTTATAGCCAAGCTGCCA
6206844 CAGAATAGTTTATAG-CAAGCTGCCA
1 CAGAATAGTTTATAGCCAAGCTGCCA
6206869 ATATATCGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (26 bp):
CAGAATAGTTTATAGCCAAGCTGCCA
Found at i:6206964 original size:17 final size:18
Alignment explanation
Indices: 6206942--6206976 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6206932 ACAGATACAG
6206942 ATAACAG-ATAAACATGT
1 ATAACAGAATAAACATGT
*
6206959 ATAACAGAATTAACATGT
1 ATAACAGAATAAACATGT
6206977 CCCGCATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (18 bp):
ATAACAGAATAAACATGT
Found at i:6207251 original size:32 final size:31
Alignment explanation
Indices: 6207210--6207281 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
6207200 CCCGTGTGGG
* *
6207210 CCCACATGCCCATATTGGCCCT-GCTCGTGTGA
1 CCCACATGCCCAAATCGG-CCTAGCT-GTGTGA
6207242 CCCACATGCCCAAATCGGCCTAGGCTGTGTGA
1 CCCACATGCCCAAATCGGCCTA-GCTGTGTGA
6207274 CCCACATG
1 CCCACATG
6207282 GCCACATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 3 0.08
32 30 0.83
33 3 0.08
ACGTcount: A:0.19, C:0.38, G:0.22, T:0.21
Consensus pattern (31 bp):
CCCACATGCCCAAATCGGCCTAGCTGTGTGA
Found at i:6219273 original size:25 final size:25
Alignment explanation
Indices: 6219244--6219300 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
6219234 GAAACTCTTT
*
6219244 CGAGCCATGTAACAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATG
* ** *
6219269 TGAGCTGTATAACAGGAAGCTCTTG
1 CGAGCCATATAACAGGAAGCTCATG
6219294 CGAGCCA
1 CGAGCCA
6219301 GTTATCGAGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATG
Found at i:6219435 original size:25 final size:25
Alignment explanation
Indices: 6219391--6219490 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
6219381 AGAAGCTTCG
6219391 GAGAGCC-ATTAATC-GAGAAGCTCAT
1 GAGAGCCAATT-ATCAG-GAAGCTCAT
*
6219416 GAGAGCCAATTATCAGGAAGCTCGT
1 GAGAGCCAATTATCAGGAAGCTCAT
* * * *
6219441 AAGGGCCAAATAAT-AGGAAGCTCGT
1 GAGAGCC-AATTATCAGGAAGCTCAT
* * *
6219466 GAGAGCCAAATATCGGGACGCTCAT
1 GAGAGCCAATTATCAGGAAGCTCAT
6219491 AAGATCTGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
24 4 0.07
25 47 0.78
26 9 0.15
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGAGCCAATTATCAGGAAGCTCAT
Found at i:6221936 original size:16 final size:15
Alignment explanation
Indices: 6221905--6221934 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6221895 CGATTCAGTG
6221905 TTTAAATACTAAAAA
1 TTTAAATACTAAAAA
6221920 TTTAAATACTAAAAA
1 TTTAAATACTAAAAA
6221935 ATCAGTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTAAATACTAAAAA
Found at i:6225472 original size:25 final size:25
Alignment explanation
Indices: 6225418--6225472 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
6225408 AAACATTAAA
*
6225418 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
6225443 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
6225467 TATTAA
1 T-TTAA
6225473 GATAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:6226736 original size:13 final size:13
Alignment explanation
Indices: 6226715--6226749 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
6226705 AAATTTTGGG
*
6226715 TTTTCAAAAGCAC
1 TTTTGAAAAGCAC
6226728 TTTTGAAAAGCAC
1 TTTTGAAAAGCAC
*
6226741 TTCTGAAAA
1 TTTTGAAAA
6226750 AGAGAAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (13 bp):
TTTTGAAAAGCAC
Found at i:6229383 original size:21 final size:21
Alignment explanation
Indices: 6229359--6229405 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6229349 TTAATCACCA
* *
6229359 AAAATGCAGTAATGCTGTCTG
1 AAAACGCAGTAATACTGTCTG
*
6229380 AAAACGCAGTAATACTGTTTG
1 AAAACGCAGTAATACTGTCTG
6229401 AAAAC
1 AAAAC
6229406 ACTTCCTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (21 bp):
AAAACGCAGTAATACTGTCTG
Found at i:6241576 original size:16 final size:16
Alignment explanation
Indices: 6241555--6241588 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6241545 CTATTCATGC
*
6241555 AAAATATAAAAGATAG
1 AAAATACAAAAGATAG
6241571 AAAATACAAAAGATAG
1 AAAATACAAAAGATAG
6241587 AA
1 AA
6241589 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.15
Consensus pattern (16 bp):
AAAATACAAAAGATAG
Found at i:6243435 original size:40 final size:39
Alignment explanation
Indices: 6243387--6243465 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 39
6243377 GAAATTGAGA
6243387 TTGATACTGAATTGAATTATGGAA-TACTGAATATTGTTT
1 TTGATACTGAATTGAATTAT-GAAGTACTGAATATTGTTT
6243426 TTGAGTACTGAATTGAATTATGAAGTTACTGAATATTGTT
1 TTGA-TACTGAATTGAATTATGAAG-TACTGAATATTGTT
6243466 ATGTGTACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
39 7 0.19
40 16 0.43
41 14 0.38
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (39 bp):
TTGATACTGAATTGAATTATGAAGTACTGAATATTGTTT
Found at i:6243467 original size:21 final size:20
Alignment explanation
Indices: 6243397--6243474 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 20
6243387 TTGATACTGA
*
6243397 ATTGAATTATGGAATACTGAAT
1 ATTG-ATTAT-GAGTACTGAAT
* *
6243419 ATTGTTTTTGAGTACTG-A-
1 ATTGATTATGAGTACTGAAT
6243437 ATTGAATTATGAAGTTACTGAAT
1 ATTG-ATTATG-AG-TACTGAAT
*
6243460 ATTG-TTATGTGTACT
1 ATTGATTATGAGTACT
6243475 TCATTGAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
18 4 0.09
19 9 0.20
20 10 0.22
21 13 0.29
22 5 0.11
23 4 0.09
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTGATTATGAGTACTGAAT
Found at i:6243482 original size:40 final size:40
Alignment explanation
Indices: 6243391--6243474 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
6243381 TTGAGATTGA
*
6243391 TACTGAATTGAATTATGGAATACTGAATATTGTTTTTGAG
1 TACTGAATTGAATTATGGAATACTGAATATTGTTTATGAG
*
6243431 TACTGAATTGAATTAT-GAAGTTACTGAATATTG-TTATGTG
1 TACTGAATTGAATTATGGAA--TACTGAATATTGTTTATGAG
6243471 TACT
1 TACT
6243475 TCATTGAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 3 0.08
40 25 0.62
41 12 0.30
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (40 bp):
TACTGAATTGAATTATGGAATACTGAATATTGTTTATGAG
Found at i:6243792 original size:6 final size:6
Alignment explanation
Indices: 6243781--6243825 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
6243771 ATTTGTTGAA
** *
6243781 TACTGT TACTGT TACTGT TACTAC TACCGT TACTGAT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT TA
6243826 AGGTGTTGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:6243800 original size:45 final size:45
Alignment explanation
Indices: 6243700--6243801 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
6243690 TGCCGACTAT
* * *
6243700 TGTTACTGTTACCGATTCGACACTTTGTGTGTTGAATATTGTTAC
1 TGTTACTGTTACAGATTCGACACTTTATGTGTTGAATACTGTTAC
** * *
6243745 CATTATTGTTACAGATTC-AGCACTTTATTTGTTGAATACTGTTAC
1 TGTTACTGTTACAGATTCGA-CACTTTATGTGTTGAATACTGTTAC
6243790 TGTTACTGTTAC
1 TGTTACTGTTAC
6243802 TACTACCGTT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.45
Consensus pattern (45 bp):
TGTTACTGTTACAGATTCGACACTTTATGTGTTGAATACTGTTAC
Found at i:6250904 original size:15 final size:15
Alignment explanation
Indices: 6250881--6250917 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6250871 CAAATAAACA
*
6250881 ATTGTTTATGGTGCC
1 ATTGATTATGGTGCC
6250896 ATTGATTATGGTGCC
1 ATTGATTATGGTGCC
6250911 ATTGATT
1 ATTGATT
6250918 TCCTCTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.11, G:0.24, T:0.46
Consensus pattern (15 bp):
ATTGATTATGGTGCC
Found at i:6256739 original size:22 final size:22
Alignment explanation
Indices: 6256714--6256805 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 22
6256704 TGCACTAATG
*
6256714 AACAGATAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
6256736 AACAGAGAGCAC-AGAATTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
6256758 AACAGAGAGCACTAACGTGCTAAA
1 AACAGAGAGCACTAAAGTGCT--A
* *
6256782 AATCAGAGAGCACTGATGTGCTA
1 AA-CAGAGAGCACTAAAGTGCTA
6256805 A
1 A
6256806 TAATCAGAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.02
22 35 0.59
23 3 0.05
24 3 0.05
25 17 0.29
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:6256791 original size:25 final size:25
Alignment explanation
Indices: 6256760--6256818 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
6256750 AATTGCTAAA
6256760 CAGAGAGCACTAACGTGCTAAAAAT
1 CAGAGAGCACTAACGTGCTAAAAAT
* * *
6256785 CAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAAAAAT
6256810 CAGAGAGCA
1 CAGAGAGCA
6256819 TGCTAAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAAAAAT
Found at i:6272216 original size:11 final size:11
Alignment explanation
Indices: 6272169--6272216 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
6272159 GTTTTCTCCC
*
6272169 TATTTTGTTAC
1 TATTTTGTTAT
* *
6272180 CATTTTATTAT
1 TATTTTGTTAT
* *
6272191 TATGTTGCTAT
1 TATTTTGTTAT
6272202 TATTTTGTTAT
1 TATTTTGTTAT
6272213 TATT
1 TATT
6272217 GTTCGGATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (11 bp):
TATTTTGTTAT
Found at i:6273901 original size:18 final size:18
Alignment explanation
Indices: 6273868--6273925 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
6273858 ATTCTTCTGT
*
6273868 TAATGTTATAATATATTATT
1 TAAT-TTAT-ATATATTATA
*
6273888 TTATTTATATATATTATA
1 TAATTTATATATATTATA
*
6273906 TAATTTATA-ATAATATA
1 TAATTTATATATATTATA
6273923 TAA
1 TAA
6273926 ATAAACATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.29
18 17 0.50
19 4 0.12
20 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TAATTTATATATATTATA
Found at i:6275108 original size:43 final size:43
Alignment explanation
Indices: 6275027--6275108 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
6275017 AGGTTTATTC
* * *
6275027 ATATTTTTTATTTTTTAAAAATATTTATAGTATTTTTAATTTA
1 ATATTTTTTATTTATTAAAAATATTAATAGTATATTTAATTTA
*
6275070 ATATTTTTTATTTATTACAAAT-TTAAATA-TATAATTTAA
1 ATATTTTTTATTTATTAAAAATATT-AATAGTAT-ATTTAA
6275109 CATATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
42 5 0.15
43 28 0.85
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (43 bp):
ATATTTTTTATTTATTAAAAATATTAATAGTATATTTAATTTA
Found at i:6278019 original size:22 final size:22
Alignment explanation
Indices: 6277987--6278031 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
6277977 GAAAAGAGAA
*
6277987 AACATTGACGTAAAAGAGTGGG
1 AACATTAACGTAAAAGAGTGGG
6278009 AACATTAACGTAAAAGAGTGGG
1 AACATTAACGTAAAAGAGTGGG
6278031 A
1 A
6278032 GACCCAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (22 bp):
AACATTAACGTAAAAGAGTGGG
Found at i:6281709 original size:12 final size:12
Alignment explanation
Indices: 6281694--6281718 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6281684 TAAAAATATT
6281694 TAAAATATTATA
1 TAAAATATTATA
6281706 TAAAATATTATA
1 TAAAATATTATA
6281718 T
1 T
6281719 TTTTAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAATATTATA
Found at i:6281864 original size:15 final size:16
Alignment explanation
Indices: 6281844--6281873 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6281834 TTTTAATAGT
6281844 AAATTTTAAA-AATAA
1 AAATTTTAAATAATAA
6281859 AAATTTTAAATAATA
1 AAATTTTAAATAATA
6281874 TTATTCACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTTAAATAATAA
Found at i:6282869 original size:15 final size:16
Alignment explanation
Indices: 6282845--6282879 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6282835 AGGATGTTTC
6282845 TTTTGATTTGAA-TGT
1 TTTTGATTTGAAGTGT
*
6282860 TTTTGTTTTGAAGTGT
1 TTTTGATTTGAAGTGT
6282876 TTTT
1 TTTT
6282880 TAATTGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.14, C:0.00, G:0.20, T:0.66
Consensus pattern (16 bp):
TTTTGATTTGAAGTGT
Found at i:6283814 original size:29 final size:31
Alignment explanation
Indices: 6283745--6283814 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
6283735 TCAAAATTAG
* *
6283745 AGTTTCATGTATATATTTGAACTATGATCAA
1 AGTTTCATGTATATAATTGAACTATAATCAA
*
6283776 AGTTTAATGTATATAATT-ACACTA-AATCAA
1 AGTTTCATGTATATAATTGA-ACTATAATCAA
6283806 AG-TTCATGT
1 AGTTTCATGT
6283815 GTCAAATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 6 0.18
30 8 0.24
31 20 0.59
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (31 bp):
AGTTTCATGTATATAATTGAACTATAATCAA
Found at i:6286182 original size:3 final size:3
Alignment explanation
Indices: 6286169--6286208 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6286159 AGTCTTGATT
6286169 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6286209 TTAAAACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6286625 original size:23 final size:23
Alignment explanation
Indices: 6286599--6286652 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
6286589 AATTTGATAA
6286599 TTTACAAAAG-ATAAACATTTTAT
1 TTTA-AAAAGAATAAACATTTTAT
* *
6286622 TTTAAAACGCAATAACCATTTTAT
1 TTTAAAAAG-AATAAACATTTTAT
6286646 TTTAAAA
1 TTTAAAA
6286653 CGCAAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 19 0.70
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
TTTAAAAAGAATAAACATTTTAT
Found at i:6286636 original size:24 final size:24
Alignment explanation
Indices: 6286609--6286657 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6286599 TTTACAAAAG
6286609 ATAAACATTTTATTTTAAAACGCA
1 ATAAACATTTTATTTTAAAACGCA
*
6286633 ATAACCATTTTATTTTAAAACGCA
1 ATAAACATTTTATTTTAAAACGCA
6286657 A
1 A
6286658 GAATTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (24 bp):
ATAAACATTTTATTTTAAAACGCA
Found at i:6289851 original size:15 final size:15
Alignment explanation
Indices: 6289806--6289856 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6289796 AATTTGGGCC
* *
6289806 TTTTCCTTCTCTTTT
1 TTTTTCTTCCCTTTT
*
6289821 TTCTTT-TT-CCTATT
1 TT-TTTCTTCCCTTTT
6289835 TTTTTCTTCCCTTTT
1 TTTTTCTTCCCTTTT
6289850 TTTTTCT
1 TTTTTCT
6289857 ACTGTTGGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 3 0.10
14 8 0.28
15 16 0.55
16 2 0.07
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTCTTCCCTTTT
Found at i:6290395 original size:13 final size:13
Alignment explanation
Indices: 6290377--6290404 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6290367 AAATTTTTTA
6290377 TTTCTTTTTCTTC
1 TTTCTTTTTCTTC
6290390 TTTCTTTTTCTTC
1 TTTCTTTTTCTTC
6290403 TT
1 TT
6290405 CTTATTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:6290534 original size:37 final size:38
Alignment explanation
Indices: 6290488--6290572 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 38
6290478 TCCCTCTTTT
6290488 TCTTT-TTTTTTCCTCATTC-CTTCCCT-TTCTCTTCTC
1 TCTTTCTTTTTTCCT-ATTCTCTTCCCTCTTCTCTTCTC
* * *
6290524 TCTTTCTTTTTT-CTTTTCTTTTCTCTCTTCTCTTCTC
1 TCTTTCTTTTTTCCTATTCTCTTCCCTCTTCTCTTCTC
6290561 T-TTTCTTTTTTC
1 TCTTTCTTTTTTC
6290573 TTTTCTTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 3 0.07
36 22 0.52
37 17 0.40
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (38 bp):
TCTTTCTTTTTTCCTATTCTCTTCCCTCTTCTCTTCTC
Found at i:6290543 original size:12 final size:12
Alignment explanation
Indices: 6290513--6290582 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
6290503 ATTCCTTCCC
*
6290513 TTTCTCTTCTCT
1 TTTCTTTTCTCT
*
6290525 CTTTCTTTTTTCT
1 -TTTCTTTTCTCT
6290538 TTTCTTTTCTCT
1 TTTCTTTTCTCT
* *
6290550 CTTCTCTTCTCT
1 TTTCTTTTCTCT
*
6290562 TTTCTTTTTTCT
1 TTTCTTTTCTCT
6290574 TTTCTTTTC
1 TTTCTTTTC
6290583 GAAAGCCCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
12 38 0.79
13 10 0.21
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCTTTTCTCT
Found at i:6290566 original size:7 final size:7
Alignment explanation
Indices: 6290513--6290578 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 7
6290503 ATTCCTTCCC
6290513 TTTCTCT
1 TTTCTCT
*
6290520 TCTCTC-
1 TTTCTCT
6290526 TTTCT-T
1 TTTCTCT
6290532 TTT-TC-
1 TTTCTCT
6290537 TTT-TCT
1 TTTCTCT
6290543 TTTCTCT
1 TTTCTCT
*
6290550 CTTCTC-
1 TTTCTCT
6290556 -TTCTCT
1 TTTCTCT
6290562 TTTCT-T
1 TTTCTCT
6290568 TTT-TCT
1 TTTCTCT
6290574 TTTCT
1 TTTCT
6290579 TTTCGAAAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
5 12 0.25
6 18 0.38
7 18 0.38
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCTCT
Found at i:6290568 original size:5 final size:5
Alignment explanation
Indices: 6290532--6290582 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
6290522 TCTCTTTCTT
* * *
6290532 TTTTC TTTTC TTTTC -TCTC TTCTC TTCTC TTTTC TTTTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC --TTTTC TTTTC TTTTC
6290583 GAAAGCCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 3 0.07
5 33 0.80
7 5 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:6290736 original size:21 final size:21
Alignment explanation
Indices: 6290674--6290737 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 21
6290664 TTTTAGCTGT
*
6290674 TGCTATTTTTTTT-TGTTTGGC
1 TGCTATTTTTTTTAT-TTTTGC
6290695 TGCT-TTTTTCTTTAGTGTTTTTGC
1 TGCTATTTTT-TTTA---TTTTTGC
6290719 TGCTATTTTTTTTATTTTT
1 TGCTATTTTTTTTATTTTT
6290738 CTTTTTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
20 5 0.14
21 12 0.33
24 13 0.36
25 6 0.17
ACGTcount: A:0.06, C:0.09, G:0.14, T:0.70
Consensus pattern (21 bp):
TGCTATTTTTTTTATTTTTGC
Found at i:6291053 original size:30 final size:29
Alignment explanation
Indices: 6290970--6291069 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 29
6290960 AGGGTTGAAT
** **
6290970 TGTAATTTTAGGAAAATTTAAGGTCAAAA
1 TGTAATTTTAAAAAAATTGGAGGTCAAAA
6290999 TGTAATTTT-AAAAAATTGGAGGTCAAAA
1 TGTAATTTTAAAAAAATTGGAGGTCAAAA
*
6291027 TATAATTTTAAAAAAAGTTAGG-GGTCAAAA
1 TGTAATTTTAAAAAAA-TT-GGAGGTCAAAA
6291057 TGTAAATTTTAAA
1 TGT-AATTTTAAA
6291070 TTTTAAAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 23 0.38
29 15 0.25
30 12 0.20
31 11 0.18
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (29 bp):
TGTAATTTTAAAAAAATTGGAGGTCAAAA
Found at i:6302911 original size:21 final size:20
Alignment explanation
Indices: 6302865--6302913 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6302855 TTGAATGTTT
* *
6302865 CAAAAAATTCAATTTTAAAC
1 CAAAAAAATCAAATTTAAAC
* *
6302885 CGAAAAAATCAAATTTAAAGG
1 CAAAAAAATCAAATTTAAA-C
6302906 CAAAAAAA
1 CAAAAAAA
6302914 GATCTTTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.20
Consensus pattern (20 bp):
CAAAAAAATCAAATTTAAAC
Found at i:6305519 original size:114 final size:114
Alignment explanation
Indices: 6305319--6305548 Score: 424
Period size: 114 Copynumber: 2.0 Consensus size: 114
6305309 ATCGGTTTAA
*
6305319 AGAAGCTGCTCTATGGGGTTGAATTGACCTCCCAGGAAAGTCACCCATGCCCTAGGGGAATTGTA
1 AGAAGCAGCTCTATGGGGTTGAATTGACCTCCCAGGAAAGTCACCCATGCCCTAGGGGAATTGTA
6305384 ATAAAAGAAGTGAAAAAGTATAAACAAAACAAATCTTCCCTAAAGAATC
66 ATAAAAGAAGTGAAAAAGTATAAACAAAACAAATCTTCCCTAAAGAATC
6305433 AGAAGCAGCTCTATGGGGTTGAATTGACCTCCCAGGAAAGTCACCCATGCCCTAGGGGAATTGTA
1 AGAAGCAGCTCTATGGGGTTGAATTGACCTCCCAGGAAAGTCACCCATGCCCTAGGGGAATTGTA
* * *
6305498 ATAAATGGAGTGAAAAAGTATAAACAAAACAAATCTTCCTTAAAGAATC
66 ATAAAAGAAGTGAAAAAGTATAAACAAAACAAATCTTCCCTAAAGAATC
6305547 AG
1 AG
6305549 TCACAAGATG
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (114 bp):
AGAAGCAGCTCTATGGGGTTGAATTGACCTCCCAGGAAAGTCACCCATGCCCTAGGGGAATTGTA
ATAAAAGAAGTGAAAAAGTATAAACAAAACAAATCTTCCCTAAAGAATC
Found at i:6317009 original size:516 final size:505
Alignment explanation
Indices: 6315966--6317034 Score: 1529
Period size: 516 Copynumber: 2.1 Consensus size: 505
6315956 AACGGATTCC
* * *
6315966 ATAGCTACAAATCTAGAATCTAATTGTGCCAACGGAAAGATAGAAAGCCATTGAATCGAAAAACC
1 ATAGCTACAAAACTAGAATCTAATTGTGCCAATGGAAAGATAAAAAGCCATTGAATCGAAAAACC
* *
6316031 CAGATATCTTCATTCACTTACGTTTCACGAGTAGCCAAAGGGCACTTCTTACAACTTTTCGTGAC
66 CAGAAATCTTCATTCACTTACGTTTAACGAGTAGCCAAAGGGCACTTCTTACAACTTTTCGTGAC
* * *
6316096 ATTAACTGGAGAAAATTCCTTAAATAATAACCATACTTGTAGTCAACACCCTAATAAACAAGGGA
131 ACTAACTGGAGAAAATTCCTTAAATAATAACCATACTTGTAATCAACACCCTAATAAACAAGAGA
6316161 ACAAGAAATAACATTTCTACTTACGTATAACTATAACATTCAAAAGCTTTAGAAAATGAGATGGT
196 ACAAGAAATAACATTTCTACTTAC--ATAAC-ATAACATTCAAAAGCTTTAGAAAATGAGATGGT
*
6316226 TGCCCAATGCTAGATTGCATCAGAACTTTCAACAAAATTCCACTTTCAGAATCATTTGACATTAA
258 TGCCCAATGCTAGATTGCATCAGAACTTTCAACAAAATTCCACTTCCAGAATCATTTGACATTAA
* *
6316291 ATACAATGGTTGATTGTTAATGCAATGATTCACAATAAACCAACAGAACCTAATTATTATATATC
323 ATACAATGGTTGATTGTTAATGCAATGATTCACAATAAACCAACACAACCTAATTATTATACATC
* * *
6316356 ATAACAAACCAACCAAATTTTCCAAAAGAAGTTATCAACTACACGTGGCAAGTTTGCAAGTTAGA
388 ATAACAAACCAACCAAATTTGCCAAAAGAACTTATCAACTACACGTGACAAGTTTGCAAGTTAGA
* *
6316421 ATCAGGCATGAGCTAACTAAACTGGTACAATGAAACGGATTCCATTTTTGTTA
453 ATCAGGCAAGAGCTAACTAAACTGGTACAAAGAAACGGATTCCATTTTTGTTA
* *
6316474 ATAGCTACAAAATCTAGAATCTAATTGTGCCAATGGAAAGATAAAAAGTCATTGAATCGTAAAAC
1 ATAGCTACAAAA-CTAGAATCTAATTGTGCCAATGGAAAGATAAAAAGCCATTGAATCGAAAAAC
* *
6316539 CCAGAAATCTTCATTCACTTAGGTTTAACG-GTAGCCAAAGGGCACTTCTTACGACTTTTCGTGA
65 CCAGAAATCTTCATTCACTTACGTTTAACGAGTAGCCAAAGGGCACTTCTTACAACTTTTCGTGA
**
6316603 CACTGGCTGGAGAAAATTCCTTAAATAATGATCATGTATGGCACATGTTACTTGTAATCAACACC
130 CACTAACTGGAGAAAATTCCTTAAAT-A--AT-A---A---C-CA---TACTTGTAATCAACACC
* * *
6316668 CTAATAAACAAGAGAACAAGAAATATCATTTCTGCTTA-A-GA-ATAACATTCAAAAGCTTTAGA
181 CTAATAAACAAGAGAACAAGAAATAACATTTCTACTTACATAACATAACATTCAAAAGCTTTAGA
** ** *
6316730 AAATGAGATGGTTGCCTGATGCTAGATTGCATCAGAACTTTCAACGCAGTTCCACTTCCAGAATC
246 AAATGAGATGGTTGCCCAATGCTAGATTGCATCAGAACTTTCAACAAAATTCCACTTCCAGAATC
* * * *
6316795 TTTTGACATTAAATACAGTGGTTGATTGTTAATGCAATGATTCGCAATAAACCAACACAATCTAA
311 ATTTGACATTAAATACAATGGTTGATTGTTAATGCAATGATTCACAATAAACCAACACAACCTAA
** * *
6316860 TTATTATACATCATAATGAACTAACCAAATTTGCCAAAAGAACTTATCAACTACACGTGACAGGT
376 TTATTATACATCATAACAAACCAACCAAATTTGCCAAAAGAACTTATCAACTACACGTGACAAGT
* * *
6316925 TTGCCAAGTTAGAAT-ATGGCAAGAGCTAACTAAACTGGTTCAAAGAAATGGCTTCCATTTTTGT
441 TTG-CAAGTTAGAATCA-GGCAAGAGCTAACTAAACTGGTACAAAGAAACGGATTCCATTTTTGT
6316989 TA
504 TA
*
6316991 ATAGCTACAAAACTAGAATCTAATTGCAG-CAATGGAAAGATAAA
1 ATAGCTACAAAACTAGAATCTAATTG-TGCCAATGGAAAGATAAA
6317035 CAAAGAAAAG
Statistics
Matches: 501, Mismatches: 42, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
508 67 0.13
509 76 0.15
511 2 0.00
512 1 0.00
515 1 0.00
516 230 0.46
517 68 0.14
518 2 0.00
519 3 0.01
522 51 0.10
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (505 bp):
ATAGCTACAAAACTAGAATCTAATTGTGCCAATGGAAAGATAAAAAGCCATTGAATCGAAAAACC
CAGAAATCTTCATTCACTTACGTTTAACGAGTAGCCAAAGGGCACTTCTTACAACTTTTCGTGAC
ACTAACTGGAGAAAATTCCTTAAATAATAACCATACTTGTAATCAACACCCTAATAAACAAGAGA
ACAAGAAATAACATTTCTACTTACATAACATAACATTCAAAAGCTTTAGAAAATGAGATGGTTGC
CCAATGCTAGATTGCATCAGAACTTTCAACAAAATTCCACTTCCAGAATCATTTGACATTAAATA
CAATGGTTGATTGTTAATGCAATGATTCACAATAAACCAACACAACCTAATTATTATACATCATA
ACAAACCAACCAAATTTGCCAAAAGAACTTATCAACTACACGTGACAAGTTTGCAAGTTAGAATC
AGGCAAGAGCTAACTAAACTGGTACAAAGAAACGGATTCCATTTTTGTTA
Found at i:6317051 original size:70 final size:70
Alignment explanation
Indices: 6316965--6317173 Score: 314
Period size: 70 Copynumber: 3.0 Consensus size: 70
6316955 TAAACTGGTT
* * *
6316965 CAAAGAAATGGCTTCCATTTTTGTTAATAGCTACAAAA-CTAGAATCTAATTGCAG-CAATGGAA
1 CAAAGAAAAGGATTCCA-TTTTGTTAATAGCTACAAAATCTAGAATCTAATTG-TGCCAATGGAA
6317028 AGATAAA
64 AGATAAA
* *
6317035 CAAAGAAAAGGATTCCATTTTGTTGATAGCTACAAAATCTAGAATCTAATTGTGTCAATGGAAAG
1 CAAAGAAAAGGATTCCATTTTGTTAATAGCTACAAAATCTAGAATCTAATTGTGCCAATGGAAAG
*
6317100 ATGAA
66 ATAAA
* *
6317105 CAAAGAAACGGATTCCATTTTGTTCATAGCTACAAAATCTAGAATCTAATTGTGCCAATGGAAAG
1 CAAAGAAAAGGATTCCATTTTGTTAATAGCTACAAAATCTAGAATCTAATTGTGCCAATGGAAAG
6317170 ATAA
66 ATAA
6317174 GAAGTCATTG
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
69 20 0.16
70 108 0.84
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (70 bp):
CAAAGAAAAGGATTCCATTTTGTTAATAGCTACAAAATCTAGAATCTAATTGTGCCAATGGAAAG
ATAAA
Found at i:6319757 original size:21 final size:21
Alignment explanation
Indices: 6319731--6319776 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6319721 TTCTAATTTT
*
6319731 ACCGCTACAGTATCCAATCTC
1 ACCGCTACAGTAACCAATCTC
* *
6319752 ACCGCTGCAGTAACTAATCTC
1 ACCGCTACAGTAACCAATCTC
6319773 ACCG
1 ACCG
6319777 TCACCGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.37, G:0.13, T:0.22
Consensus pattern (21 bp):
ACCGCTACAGTAACCAATCTC
Found at i:6321512 original size:32 final size:31
Alignment explanation
Indices: 6321452--6321512 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
6321442 TCATGCTTGT
*
6321452 AATATAATTTTTACAAGTTAAACTTGTATAA
1 AATATAATTTTTACAAGTTAAACATGTATAA
6321483 AATATAACTTTTTA-AAGTTAAAACATGTAT
1 AATATAA-TTTTTACAAGTT-AAACATGTAT
6321513 GAGTGTTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (31 bp):
AATATAATTTTTACAAGTTAAACATGTATAA
Found at i:6324167 original size:28 final size:27
Alignment explanation
Indices: 6324127--6324212 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 27
6324117 TTGTTCAACA
6324127 AAGCATG--TGGGTAGATTTATTTGAT
1 AAGCATGATTGGGTAGATTTATTTGAT
* * **
6324152 GAAGCATTATTGGGTAGATTGA-TCCA-
1 -AAGCATGATTGGGTAGATTTATTTGAT
*
6324178 AAGCATGATTGGGTGGATTTATTTGAT
1 AAGCATGATTGGGTAGATTTATTTGAT
6324205 AAAGCATG
1 -AAGCATG
6324213 TGAATAATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
25 18 0.39
26 8 0.17
27 2 0.04
28 18 0.39
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (27 bp):
AAGCATGATTGGGTAGATTTATTTGAT
Found at i:6330777 original size:3 final size:3
Alignment explanation
Indices: 6330769--6330814 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
6330759 TCTTCTGCAA
* * * *
6330769 CAT CAT CAT CAT CAT CAT CAT CTT CAT AAT CAC CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
6330815 TTCTGTACTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:6334099 original size:13 final size:13
Alignment explanation
Indices: 6334081--6334105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6334071 TAAAGGAACA
6334081 AGAAAAAAAATAG
1 AGAAAAAAAATAG
6334094 AGAAAAAAAATA
1 AGAAAAAAAATA
6334106 AAAAGAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AGAAAAAAAATAG
Found at i:6337178 original size:43 final size:43
Alignment explanation
Indices: 6337130--6337282 Score: 182
Period size: 43 Copynumber: 3.6 Consensus size: 43
6337120 GGTTTTGTGC
* * *
6337130 AAGACCATGTCTGGGACATTGGCATCGATATAAGATTACGTGG
1 AAGACCATGTCTGGGACATTGGCATCGATATGAGATTACATGT
* *
6337173 AAGACCATGTCCGGGATATTGGCATCGATATGAGATTACATGT
1 AAGACCATGTCTGGGACATTGGCATCGATATGAGATTACATGT
* ** * * *
6337216 AAGACCCTGTCTGAAACAGTGGCATCGATATGTGATAACATGT
1 AAGACCATGTCTGGGACATTGGCATCGATATGAGATTACATGT
* *
6337259 AAGACCATATCTGGGATA-TGGCAT
1 AAGACCATGTCTGGGACATTGGCAT
6337283 TGTATGTGAT
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 6 0.07
43 86 0.93
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (43 bp):
AAGACCATGTCTGGGACATTGGCATCGATATGAGATTACATGT
Found at i:6339410 original size:25 final size:25
Alignment explanation
Indices: 6339380--6339438 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
6339370 ATGAGGGTCC
6339380 CACAACTCATCATGTATCATGCAAA
1 CACAACTCATCATGTATCATGCAAA
*
6339405 CACAACCCATCATGTATCATGCAAA
1 CACAACTCATCATGTATCATGCAAA
6339430 CACAACTCA
1 CACAACTCA
6339439 CATCACAAGA
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:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (25 bp):
CACAACTCATCATGTATCATGCAAA
Found at i:6340891 original size:44 final size:43
Alignment explanation
Indices: 6340843--6340946 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
6340833 TGTCCCAGAC
** *
6340843 ATGGTCTTACATGGAAATCTCATATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACA-CAAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
6340887 ATGGTCTTACACAAAATCTCAAATCGATGTCAATAGCGCAGCT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
6340930 TTGGTCTTACACGAAAT
1 ATGGTCTTACACAAAAT
6340947 TACACCACGA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 42 0.79
44 11 0.21
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:6341201 original size:31 final size:31
Alignment explanation
Indices: 6341065--6341192 Score: 168
Period size: 31 Copynumber: 4.1 Consensus size: 31
6341055 ATATAATGCT
*
6341065 CAAATC-AATTCGGCAATATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATA-A-CCATATA
* *
6341097 CGAATCAAATTCGTCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* *
6341128 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
6341159 CAAATCAAATTCGGCAATGTATAAAACATATA
1 CAAATCAAATTCGGCAATGTAT-AACCATATA
6341191 CA
1 CA
6341193 TTTAAATTCA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
31 56 0.67
32 14 0.17
33 14 0.17
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATAACCATATA
Found at i:6342761 original size:25 final size:24
Alignment explanation
Indices: 6342733--6342804 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
6342723 TTCAAGCAAG
6342733 CAATGTCGGGAAGCTCATAAAGAGC
1 CAAT-TCGGGAAGCTCATAAAGAGC
* **
6342758 CAATTACCAGGAAGCTCACGAAGAGC
1 CAATT--CGGGAAGCTCATAAAGAGC
*
6342784 CATAATCGGGAAGCTCATAAA
1 CA-ATTCGGGAAGCTCATAAA
6342805 AGCTAAGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 1 0.03
25 16 0.43
26 18 0.49
27 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (24 bp):
CAATTCGGGAAGCTCATAAAGAGC
Found at i:6342770 original size:26 final size:25
Alignment explanation
Indices: 6342741--6342804 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
6342731 AGCAATGTCG
*
6342741 GGAAGCTCATAAAGAGCCAATTACCA
1 GGAAGCTCATAAAGAGCC-ATAACCA
** * *
6342767 GGAAGCTCACGAAGAGCCATAATCG
1 GGAAGCTCATAAAGAGCCATAACCA
6342792 GGAAGCTCATAAA
1 GGAAGCTCATAAA
6342805 AGCTAAGGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.14
Consensus pattern (25 bp):
GGAAGCTCATAAAGAGCCATAACCA
Found at i:6351795 original size:26 final size:27
Alignment explanation
Indices: 6351738--6351813 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 27
6351728 GAAGCTCCGG
* * *
6351738 AGAGCTTTTAATCAGAAAGCTCA-CAA
1 AGAGCCTTTAATCGGGAAGCTCATCAA
*
6351764 AGAGCCTTTAATCGGGAAGCTCATGAA
1 AGAGCCTTTAATCGGGAAGCTCATCAA
* *
6351791 A-AGCC-ATATATCGGGACGCTCAT
1 AGAGCCTTTA-ATCGGGAAGCTCAT
6351814 AAGAGTTGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
25 2 0.05
26 37 0.88
27 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AGAGCCTTTAATCGGGAAGCTCATCAA
Found at i:6353079 original size:11 final size:11
Alignment explanation
Indices: 6353053--6353086 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6353043 CGAAACAGGG
6353053 GAAAAGAAAGAA
1 GAAAAGAAA-AA
6353065 GAAAAGAAAAA
1 GAAAAGAAAAA
*
6353076 GAAAGGAAAAA
1 GAAAAGAAAAA
6353087 CTAGGGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:6354118 original size:11 final size:11
Alignment explanation
Indices: 6354102--6354126 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6354092 GAATTTACGG
6354102 TAGAAATTGAA
1 TAGAAATTGAA
6354113 TAGAAATTGAA
1 TAGAAATTGAA
6354124 TAG
1 TAG
6354127 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:6354842 original size:23 final size:23
Alignment explanation
Indices: 6354812--6354866 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
6354802 AGCTTTGCCG
* *
6354812 ATCAGGCACTATATGTGTTGTAT
1 ATCAGGCACTATATGTGTCGCAT
*
6354835 ATCAGGCACTTTATGTGTCGCAT
1 ATCAGGCACTATATGTGTCGCAT
*
6354858 TTCAGGCAC
1 ATCAGGCAC
6354867 CTCGTGTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (23 bp):
ATCAGGCACTATATGTGTCGCAT
Found at i:6354874 original size:23 final size:21
Alignment explanation
Indices: 6354848--6354907 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
6354838 AGGCACTTTA
*
6354848 TGTGTCGCATTTCAGGCACCTCG
1 TGTGTCG--TTTCAGGCACCTAG
*
6354871 TGTGTCGTATCAGGCACCTAG
1 TGTGTCGTTTCAGGCACCTAG
6354892 TGTGTCGTTTCAGGCA
1 TGTGTCGTTTCAGGCA
6354908 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 27 0.79
23 7 0.21
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (21 bp):
TGTGTCGTTTCAGGCACCTAG
Found at i:6354883 original size:21 final size:21
Alignment explanation
Indices: 6354859--6354921 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
6354849 GTGTCGCATT
*
6354859 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTAGTGTGTCGTA
*
6354880 TCAGGCACCTAGTGTGTCGTT
1 TCAGGCACCTAGTGTGTCGTA
**
6354901 TCAGGCATTTA-TGTGTCGTA
1 TCAGGCACCTAGTGTGTCGTA
6354921 T
1 T
6354922 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 9 0.24
21 28 0.76
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (21 bp):
TCAGGCACCTAGTGTGTCGTA
Found at i:6357438 original size:13 final size:13
Alignment explanation
Indices: 6357420--6357444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6357410 AAATTCAATG
6357420 TCAATTTCATATA
1 TCAATTTCATATA
6357433 TCAATTTCATAT
1 TCAATTTCATAT
6357445 CCAAACATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:6362625 original size:45 final size:45
Alignment explanation
Indices: 6362560--6362649 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
6362550 ACAACATACA
* * *
6362560 TGGTGGCTTCATCTACAACCTACATGACAGCTTGTCTGTGAATAT
1 TGGTGACTTCATCCACAACCTACATGACAACTTGTCTGTGAATAT
* *
6362605 TGGTGACTTCGTCCACAACCTACATGGCAACTTGTCTGTGAATAT
1 TGGTGACTTCATCCACAACCTACATGACAACTTGTCTGTGAATAT
6362650 CGGTAGTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (45 bp):
TGGTGACTTCATCCACAACCTACATGACAACTTGTCTGTGAATAT
Found at i:6362872 original size:19 final size:19
Alignment explanation
Indices: 6362848--6362886 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6362838 TTATTATAAG
6362848 ACCCACACTAGGCTTTAAA
1 ACCCACACTAGGCTTTAAA
6362867 ACCCACACTAGGCTTTAAA
1 ACCCACACTAGGCTTTAAA
6362886 A
1 A
6362887 GCTTACCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.21
Consensus pattern (19 bp):
ACCCACACTAGGCTTTAAA
Found at i:6368240 original size:28 final size:28
Alignment explanation
Indices: 6368200--6368253 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
6368190 TTTATGATGG
6368200 GATGATATGTATATGATGACACTACAGA
1 GATGATATGTATATGATGACACTACAGA
6368228 GATGATATGTATATGATGACACTACA
1 GATGATATGTATATGATGACACTACA
6368254 ATAATGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (28 bp):
GATGATATGTATATGATGACACTACAGA
Found at i:6368265 original size:33 final size:29
Alignment explanation
Indices: 6368196--6368273 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 29
6368186 TGTTTTTATG
6368196 ATGGGATGATATGTATATGATGACACTAC
1 ATGGGATGATATGTATATGATGACACTAC
*
6368225 A-GAGATGATATGTATATGATGACACTAC
1 ATGGGATGATATGTATATGATGACACTAC
6368253 AATAATGGGATGATATGTATA
1 ----ATGGGATGATATGTATA
6368274 CGATTGGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 26 0.62
29 1 0.02
32 1 0.02
33 14 0.33
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (29 bp):
ATGGGATGATATGTATATGATGACACTAC
Found at i:6370601 original size:13 final size:13
Alignment explanation
Indices: 6370570--6370602 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
6370560 ATTAAAAATA
6370570 AAAATAATTTATT
1 AAAATAATTTATT
6370583 -AAATAATTTATT
1 AAAATAATTTATT
6370595 AAAATAAT
1 AAAATAAT
6370603 AAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATAATTTATT
Found at i:6370624 original size:16 final size:16
Alignment explanation
Indices: 6370579--6370627 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
6370569 AAAAATAATT
6370579 TATTAAATAATTTATTA
1 TATT-AATAATTTATTA
**
6370596 -A--AATAATAAATTA
1 TATTAATAATTTATTA
6370609 TATTAATAATTTATTA
1 TATTAATAATTTATTA
6370625 TAT
1 TAT
6370628 GATTAGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
16 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAATAATTTATTA
Found at i:6374232 original size:62 final size:62
Alignment explanation
Indices: 6374161--6374278 Score: 218
Period size: 62 Copynumber: 1.9 Consensus size: 62
6374151 AGTATTATTT
*
6374161 ATATATGTCAAATTCTGCTGTTTGTCATTGCACTATGTGTCCTTATACTCTAATTTAGTTTA
1 ATATATGTCAAATTCTGCTGTTTGTCATTGCACTATGTGTACTTATACTCTAATTTAGTTTA
*
6374223 ATATATGTCAAATTCTGCTGTTTGTCATTTCACTATGTGTACTTATACTCTAATTT
1 ATATATGTCAAATTCTGCTGTTTGTCATTGCACTATGTGTACTTATACTCTAATTT
6374279 GGTTATTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (62 bp):
ATATATGTCAAATTCTGCTGTTTGTCATTGCACTATGTGTACTTATACTCTAATTTAGTTTA
Found at i:6380878 original size:3 final size:3
Alignment explanation
Indices: 6380870--6380910 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6380860 TGCAAAATTG
6380870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6380911 TTATTTAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6382596 original size:22 final size:22
Alignment explanation
Indices: 6382560--6382615 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6382550 AAAATTTAGT
*
6382560 TTTTTAAAATATTTATTAGAA-AA
1 TTTTTAAAA-CTTTATT-GAATAA
6382583 TTTTTAAAACTTTATTGAATAA
1 TTTTTAAAACTTTATTGAATAA
* *
6382605 TGTTCAAAACT
1 TTTTTAAAACT
6382616 CTTAAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.10
22 17 0.59
23 9 0.31
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (22 bp):
TTTTTAAAACTTTATTGAATAA
Found at i:6383911 original size:65 final size:66
Alignment explanation
Indices: 6383786--6383915 Score: 167
Period size: 65 Copynumber: 2.0 Consensus size: 66
6383776 TCTGAAGCTA
* * ** *
6383786 TAGCTGGAGTTCGTCATATTTTTTTGTTGCCTCTGCTTCTCTCGCTGCTGCCTTCGCTTTAAGTT
1 TAGCTGGAGTTCATCATATTTTTTTGTAGCCTCTGCTTCTCTCAATGCTGCCTTCACTTTAAGTT
6383851 G
66 G
*
6383852 TAGCTGGAGTTCATTATATTTTCTTTG-AG-CTCTGCTTCTCTCAATGCTGCC-TCTACTTTAAG
1 TAGCTGGAGTTCATCATATTTT-TTTGTAGCCTCTGCTTCTCTCAATGCTGCCTTC-ACTTTAAG
6383914 TT
64 TT
6383916 AAGCAATTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 2 0.04
65 29 0.52
66 21 0.38
67 4 0.07
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTTTTGTAGCCTCTGCTTCTCTCAATGCTGCCTTCACTTTAAGTT
G
Found at i:6392152 original size:36 final size:34
Alignment explanation
Indices: 6392078--6392162 Score: 95
Period size: 36 Copynumber: 2.5 Consensus size: 34
6392068 GCAGTCAGGG
* *
6392078 AAAATCTAAGGGATTTGGGGATTTTTGATTTGGGAA
1 AAAAACTAAGGGATTTGGGGAATTTTGA--TGGGAA
6392114 AAAAACTAAGGGATTTGGGGAAAATTTTGA-GGG-A
1 AAAAACTAAGGGATTTGGGG--AATTTTGATGGGAA
6392148 AAAAA-TAAGGGATTT
1 AAAAACTAAGGGATTT
6392163 CGAGAAACTG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 10 0.22
34 6 0.13
35 3 0.07
36 19 0.42
38 7 0.16
ACGTcount: A:0.39, C:0.02, G:0.29, T:0.29
Consensus pattern (34 bp):
AAAAACTAAGGGATTTGGGGAATTTTGATGGGAA
Found at i:6398500 original size:65 final size:66
Alignment explanation
Indices: 6398428--6398587 Score: 250
Period size: 67 Copynumber: 2.4 Consensus size: 66
6398418 AAAATAAAAA
*
6398428 TAAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAGAATCCTACATTAACCC
1 TAAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAAAATCCTACATTAACCC
6398493 T
66 T
*
6398494 TAAAAAAAACAGCACATAGAAACCAAAAAGAATATTCAATCAAAACACAAAATCCTACATTAACC
1 T-AAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAAAATCCTACATTAACC
6398559 CT
65 CT
* * *
6398561 T-AAAGAACATCACATAAAAACACAAAA
1 TAAAAAAACAGCACATAGAAAC-CAAAA
6398588 CAAAAACTGG
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
65 17 0.20
66 6 0.07
67 64 0.74
ACGTcount: A:0.58, C:0.22, G:0.05, T:0.15
Consensus pattern (66 bp):
TAAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAAAATCCTACATTAACCC
T
Found at i:6398506 original size:67 final size:67
Alignment explanation
Indices: 6398429--6398564 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
6398419 AAATAAAAAT
*
6398429 AAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAGAATCCTACATTAACCCT
1 AAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAAAATCCTACATTAACCCT
6398494 TA
66 TA
*
6398496 AAAAAAACAGCACATAGAAACCAAAAAGAATATTCAATCAAAACACAAAATCCTACATTAACCCT
1 AAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAAAATCCTACATTAACCCT
6398561 TA
66 TA
6398563 AA
1 AA
6398565 GAACATCACA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.57, C:0.22, G:0.05, T:0.15
Consensus pattern (67 bp):
AAAAAAACAGCACATAGAAACCAAAAAGAAAATTCAATCAAAACACAAAATCCTACATTAACCCT
TA
Found at i:6402001 original size:17 final size:17
Alignment explanation
Indices: 6401974--6402006 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
6401964 AAAATATAGG
6401974 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
6401992 GGGG-AATAAAAGTTT
1 GGGGAAATAAAAGTTT
6402007 GAGTGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:6402346 original size:30 final size:30
Alignment explanation
Indices: 6402285--6402346 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
6402275 GCAGGGGAGG
* **
6402285 GGAGTAAAAGTTTTAGGGGGAAAGTGCAAA
1 GGAGTAAAAGTTTTAGGGGAAAAGTAAAAA
6402315 GGAGTAAAAGTTTT-GAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTAG-GGGAAAAGTAAAAA
6402345 GG
1 GG
6402347 TTTGGAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAGTTTTAGGGGAAAAGTAAAAA
Found at i:6402401 original size:9 final size:9
Alignment explanation
Indices: 6402387--6402423 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6402377 TATAGTTTGA
6402387 TATTCGAAT
1 TATTCGAAT
6402396 TATTCGAAT
1 TATTCGAAT
*
6402405 TATTCGAGT
1 TATTCGAAT
6402414 TATTCGAAT
1 TATTCGAAT
6402423 T
1 T
6402424 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6402606 original size:16 final size:16
Alignment explanation
Indices: 6402587--6402625 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
6402577 TAGAAGTATT
6402587 CATTGGAAGAATGATA
1 CATTGGAAGAATGATA
6402603 CATTGGAAGAATGATA
1 CATTGGAAGAATGATA
6402619 CATTGGA
1 CATTGGA
6402626 CTGGATCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.26
Consensus pattern (16 bp):
CATTGGAAGAATGATA
Found at i:6403776 original size:42 final size:42
Alignment explanation
Indices: 6403717--6403800 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
6403707 CAGTAGCCAA
6403717 ACCGAATTCGGGTGTCGTGAGGGTGTCGCGACTGCACCACTG
1 ACCGAATTCGGGTGTCGTGAGGGTGTCGCGACTGCACCACTG
6403759 ACCGAATTCGGGTGTCGTGAGGGTGTCGCGACTGCACCACTG
1 ACCGAATTCGGGTGTCGTGAGGGTGTCGCGACTGCACCACTG
6403801 GGCACTACGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (42 bp):
ACCGAATTCGGGTGTCGTGAGGGTGTCGCGACTGCACCACTG
Found at i:6404016 original size:61 final size:58
Alignment explanation
Indices: 6403942--6404074 Score: 149
Period size: 61 Copynumber: 2.2 Consensus size: 58
6403932 TCTAAAAATA
* ** * * *
6403942 ATATTATTTTAATAGTTTTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATATT
1 ATATTAATTTAATACATGTAATACTAAATTAAATATAATATTTATC-T-T-GATAAATATT
* * * *
6404003 ATATTAATTTAATACATGTAATACTAGATTTAATATGATATTTATCTTGATAAGTATT
1 ATATTAATTTAATACATGTAATACTAAATTAAATATAATATTTATCTTGATAAATATT
6404061 ATATTAATTTAATA
1 ATATTAATTTAATA
6404075 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 23 0.37
59 1 0.02
60 1 0.02
61 37 0.60
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
ATATTAATTTAATACATGTAATACTAAATTAAATATAATATTTATCTTGATAAATATT
Found at i:6405032 original size:29 final size:29
Alignment explanation
Indices: 6404963--6405065 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 29
6404953 CTTAATTTTT
*
6404963 TTACATTTTGACCCCTAAACTTTTTAAAA
1 TTACATTTTGACCCCTAAACCTTTTAAAA
* *** * * *
6404992 TTGCACCATGACCCCTGAGCCTTTTGAAA
1 TTACATTTTGACCCCTAAACCTTTTAAAA
* **
6405021 TTACATTTTGACCCTTAAATTTTCTTAAAA
1 TTACATTTTGACCCCTAAACCTT-TTAAAA
* *
6405051 TTATATTTTGGCCCC
1 TTACATTTTGACCCC
6405066 AAAAGTTTTG
Statistics
Matches: 52, Mismatches: 21, Indels: 1
0.70 0.28 0.01
Matches are distributed among these distances:
29 35 0.67
30 17 0.33
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (29 bp):
TTACATTTTGACCCCTAAACCTTTTAAAA
Found at i:6405346 original size:21 final size:20
Alignment explanation
Indices: 6405305--6405347 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
6405295 TTTAGCAGCA
6405305 AAAGAAAAAGGAAGGAAGAGG
1 AAAGAAAAAGGAAGG-AGAGG
6405326 AAAGAAAGAAGAGAAGG-GAGG
1 AAAGAAA-AAG-GAAGGAGAGG
6405347 A
1 A
6405348 GCGACGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 12 0.60
22 3 0.15
23 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGGAAGGAGAGG
Found at i:6405423 original size:9 final size:9
Alignment explanation
Indices: 6405406--6405447 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
6405396 TAGGGTTTCC
*
6405406 AAAAGAAGA
1 AAAAAAAGA
6405415 AAAAAAAG-
1 AAAAAAAGA
6405423 -AAAAAAGA
1 AAAAAAAGA
6405431 AAAAAAAGA
1 AAAAAAAGA
6405440 AATAAAAA
1 AA-AAAAA
6405448 ATATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 7 0.24
9 17 0.59
10 5 0.17
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:6405432 original size:16 final size:17
Alignment explanation
Indices: 6405406--6405441 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
6405396 TAGGGTTTCC
6405406 AAAAGAAGAAAAAAAAG
1 AAAAGAAGAAAAAAAAG
6405423 AAAA-AAGAAAAAAAAG
1 AAAAGAAGAAAAAAAAG
6405439 AAA
1 AAA
6405442 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAGAAAAAAAAG
Found at i:6405735 original size:8 final size:8
Alignment explanation
Indices: 6405724--6405775 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
6405714 TTAGCCCAGC
6405724 AGAAAAAA
1 AGAAAAAA
6405732 AG--AAAA
1 AGAAAAAA
*
6405738 A-AAAAGA
1 AGAAAAAA
6405745 AGAAAAAA
1 AGAAAAAA
6405753 AG-AAAAA
1 AGAAAAAA
6405760 AGAAAAAA
1 AGAAAAAA
6405768 AGGAAAAA
1 A-GAAAAA
6405776 GCCCGAGTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 5 0.14
7 11 0.30
8 15 0.41
9 6 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:6405762 original size:15 final size:15
Alignment explanation
Indices: 6405727--6405776 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
6405717 GCCCAGCAGA
6405727 AAAAAAG-AAAAAA-
1 AAAAAAGAAAAAAAG
*
6405740 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
6405755 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
6405770 GAAAAAG
1 AAAAAAG
6405777 CCCGAGTCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 20 0.62
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:6405768 original size:10 final size:10
Alignment explanation
Indices: 6405726--6405760 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
6405716 AGCCCAGCAG
6405726 AAAAAAAGAA
1 AAAAAAAGAA
6405736 AAAAAAAGAA
1 AAAAAAAGAA
6405746 GAAAAAAAGAA
1 -AAAAAAAGAA
6405757 AAAA
1 AAAA
6405761 GAAAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:6405776 original size:7 final size:7
Alignment explanation
Indices: 6405727--6405767 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
6405717 GCCCAGCAGA
6405727 AAAAAAG
1 AAAAAAG
6405734 AAAAAA-
1 AAAAAAG
*
6405740 AAAGAAG
1 AAAAAAG
6405747 AAAAAAAG
1 -AAAAAAG
6405755 AAAAAAG
1 AAAAAAG
6405762 AAAAAA
1 AAAAAA
6405768 AGGAAAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6418317 original size:75 final size:76
Alignment explanation
Indices: 6418192--6419183 Score: 1082
Period size: 75 Copynumber: 12.9 Consensus size: 76
6418182 TTTCAAGAAA
* *
6418192 TATTTTTCAATTTCTGCTTTTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCTG-TTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
6418257 GTCACGCTGAGG
65 GTCACGCTGAGG
*
6418269 TATTTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGG
1 TATTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
6418333 TCACGCTGAGG
66 TCACGCTGAGG
* *** * *
6418344 TATTTTT-AATTTCTATCTTTTTTTTTAAATCAAGTCATAATACGAGAGGTGAGTTGAGTCTCGG
1 TATTTTTAAATTTCTGT-TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
6418408 GTCACGCTGAGG
65 GTCACGCTGAGG
*
6418420 TATTTTT-AATTTCTGTCTTTTTTAAAAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCC
1 TATTTTTAAATTTCTGT-TTTTTT----CAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCC
6418484 TCGGGTCACGCTGAGG
61 TCGGGTCACGCTGAGG
** *
6418500 TATTTTT-AATTTCTGTCTTTTTT-TTAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAG
1 TATTTTTAAATTTCTGT-TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
6418563 GTCACGCTGAGG
65 GTCACGCTGAGG
* * * **
6418575 TATTTTT-AATTTCTGTCTTTTTT-TAAAATCAACTCATAATATGAAAGGTGAGTTGAGCCTCAA
1 TATTTTTAAATTTCTGT-TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
6418638 GTCACGCTGAGG
65 GTCACGCTGAGG
* *
6418650 TATTTTT-AATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAGAGGTTAGTTGAGCCTCGG
1 TATTTTTAAATTTCT-GTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
6418714 GTCACGCTGAGG
65 GTCACGCTGAGG
* * * *
6418726 TATTTTTTAAATTTCTATTTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCG
1 TA-TTTTTAAATTTCTGTTTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
6418791 GGTCACACGCTGAGG
64 GGT--CACGCTGAGG
* * *
6418806 TATTTCTTTTAAATTTATGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TA--T-TTTTAAATTTCTG-TTTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCC
*** * *
6418871 TCGAACCATGCCGAGG
61 TCGGGTCACGCTGAGG
* * * *
6418887 TATTTCTTTTAAATTTCTG--TTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 TA--T-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
** * *
6418950 GGACCATGCTGACG
63 GGGTCACGCTGAGG
* * *
6418964 TATTTCTTTTAAATTTC--TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TA--T-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
* * *
6419027 GAGTCACGCCGATG
63 GGGTCACGCTGAGG
* * * * * *
6419041 TATTTTTCAA-TTCT-TGTTTTTCAAAAATCAACTCATACTGCGAGGGGTGAGTTGTGCCTCGGG
1 TATTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
* *
6419104 TCGCATGCCGAGG
66 T--CACGCTGAGG
* * *
6419117 TATTTTTTTCAAA-TTCTG--TTTTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TA--TTTTT-AAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
6419179 GGGTC
63 GGGTC
6419184 GCATGCCGAG
Statistics
Matches: 822, Mismatches: 69, Indels: 49
0.87 0.07 0.05
Matches are distributed among these distances:
73 3 0.00
74 51 0.06
75 214 0.26
76 143 0.17
77 136 0.17
78 100 0.12
79 6 0.01
80 83 0.10
81 28 0.03
82 11 0.01
83 47 0.06
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (76 bp):
TATTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGG
Found at i:6418802 original size:306 final size:302
Alignment explanation
Indices: 6418194--6419183 Score: 1158
Period size: 306 Copynumber: 3.2 Consensus size: 302
6418184 TCAAGAAATA
*
6418194 TTTTTCAATTTCTGCTTTTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTCGGGT
1 TTTTTCAATTTCTG-TTTTTTT-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
6418259 CACGCTGAGGTATTTTTAATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTG
64 CACGCTGAGGTATTTTTAATTTCTGTTTTTTT-AAAAATCAACTCATAATACGAGAGGTGAGTTG
** *
6418324 AGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTATCTTTTTTT-TTAAATCAAGTCATAATACG
128 AGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTAT-TTTTTTTCAAAAATCAACTCATAATACG
* *
6418388 AGAGGTGAGTTGAGTCTCGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTAAAAAAAAAA
192 AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCT-T-TTTTTT---CAAAAAA
*
6418453 TCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTA-
252 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTAT
** *
6418502 TTTTT-AATTTCTGTCTTTTTTTTAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTTCAATTTCTGT-TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
* * *
6418566 ACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTAAAATCAACTCATAATATGAAAGGTGAGTTGA
65 ACGCTGAGGTATTTTTAATTTCTGT-TTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGA
*
6418631 GCCTCAAGTCACGCTGAGGTATTTTTAATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAG
129 GCCTCAGGTCACGCTGAGGTATTTTTAATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAG
*
6418696 AGGTTAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAATTTCTATTTTTTTCAAAAAATCAA
194 AGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTT-AATTTCT-TTTTTTTCAAAAAATCAA
* *
6418761 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATT
256 CTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA-T
* * * * *
6418810 TCTTTTAAATTTATGTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
1 T-TTTTCAATTTCTG-TTTTTTT--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
** * * ** * *
6418875 ACCATGCCGAGGTATTTCTTTTAAATTTCTG-TTTTTCGAAAATCAACTCATATTGCGAGAGGTG
62 GTCACGCTGAGGTA--T-TTTT-AATTTCTGTTTTTTTAAAAATCAACTCATAATACGAGAGGTG
* * * *
6418939 AGTTGAGCCT-TGGACCATGCTGACGTATTTCTTTTAAATTTCTA---TTTTTCAAAAATCAACT
123 AGTTGAGCCTCAGG-TCACGCTGAGGTA--T-TTTT-AATTTCTATTTTTTTTCAAAAATCAACT
* * * * * *
6419000 CATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACGCCGATGTATTTTTCAA-TTCTTGTTTTTC-
183 CATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT-AATTTCTTTTTTTTCA
* * * * *
6419063 AAAAATCAACTCATACTGCGAGGGGTGAGTTGTGCCTCGGGTCGCATGCCGAGGTATT
247 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA-T
* * * * *
6419121 TTTTTCAAATTCTG-TTTTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTCAATTTCTGTTTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
6419184 GCATGCCGAG
Statistics
Matches: 596, Mismatches: 63, Indels: 48
0.84 0.09 0.07
Matches are distributed among these distances:
304 40 0.07
305 7 0.01
306 229 0.38
307 31 0.05
308 19 0.03
309 4 0.01
310 23 0.04
311 53 0.09
312 51 0.09
313 5 0.01
314 55 0.09
315 58 0.10
316 9 0.02
317 4 0.01
318 8 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (302 bp):
TTTTTCAATTTCTGTTTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
CGCTGAGGTATTTTTAATTTCTGTTTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGC
CTCAGGTCACGCTGAGGTATTTTTAATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAGAG
GTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCTTTTTTTTCAAAAAATCAACTCAT
AATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTAT
Found at i:6419414 original size:29 final size:29
Alignment explanation
Indices: 6419379--6419497 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
6419369 TTTAATTTTT
6419379 TTGCATTTTGACCCCTAAACTTTTTAAAA
1 TTGCATTTTGACCCCTAAACTTTTTAAAA
6419408 TTGCATTTTGA-CCCTGAAACTTTTTAAAA
1 TTGCATTTTGACCCCT-AAACTTTTTAAAA
*** * * * * *
6419437 TTGCACCATAACCCCTGAGCTCTTTGAAA
1 TTGCATTTTGACCCCTAAACTTTTTAAAA
* *
6419466 TTGCATTTTGACCCTTAAATTTTCTTAAAA
1 TTGCATTTTGACCCCTAAACTTT-TTAAAA
6419496 TT
1 TT
6419498 ATATTTTGGC
Statistics
Matches: 69, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
28 4 0.06
29 54 0.78
30 11 0.16
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (29 bp):
TTGCATTTTGACCCCTAAACTTTTTAAAA
Found at i:6419665 original size:18 final size:20
Alignment explanation
Indices: 6419630--6419669 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
6419620 CCCTACGAAT
6419630 AAAAAAAGAAGAAAAGTTTC
1 AAAAAAAGAAGAAAAGTTTC
*
6419650 AAAAAAA-AAG-AGAGTTTC
1 AAAAAAAGAAGAAAAGTTTC
6419668 AA
1 AA
6419670 CAGCAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.65, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAAAGAAGAAAAGTTTC
Found at i:6419805 original size:13 final size:13
Alignment explanation
Indices: 6419787--6419811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6419777 AAAAGAAAAA
6419787 AAGAAGAAGAAGG
1 AAGAAGAAGAAGG
6419800 AAGAAGAAGAAG
1 AAGAAGAAGAAG
6419812 AAAAGAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGG
Found at i:6420107 original size:11 final size:11
Alignment explanation
Indices: 6420088--6420122 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6420078 AGCCCAGCAG
6420088 AAAAA-AAGAA
1 AAAAAGAAGAA
6420098 AAAAAGAAGAA
1 AAAAAGAAGAA
6420109 AAAAAGAA-AA
1 AAAAAGAAGAA
6420119 AAAA
1 AAAA
6420123 GGAAAAAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.46
11 13 0.54
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAGAAGAA
Found at i:6420129 original size:11 final size:10
Alignment explanation
Indices: 6420088--6420129 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
6420078 AGCCCAGCAG
6420088 AAAAAAAG--
1 AAAAAAAGAA
6420096 AAAAAAAGAA
1 AAAAAAAGAA
6420106 GAAAAAAAGAA
1 -AAAAAAAGAA
*
6420117 AAAAAAGGAA
1 AAAAAAAGAA
6420127 AAA
1 AAA
6420130 GCCCGAGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
10 12 0.40
11 10 0.33
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:6420289 original size:22 final size:23
Alignment explanation
Indices: 6420264--6420306 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
6420254 TTTTAAAGCA
6420264 TTTT-TTTATATTTCA-TATTTAG
1 TTTTATTTA-ATTTCATTATTTAG
6420286 TTTTATTTAATTTCATTATTT
1 TTTTATTTAATTTCATTATTT
6420307 TAAATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATTTAATTTCATTATTTAG
Found at i:6420640 original size:29 final size:29
Alignment explanation
Indices: 6420602--6420717 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 29
6420592 TAATTTTTTT
*
6420602 CATTTAGACCCCTAAACTTTTTAAAATTG
1 CATTTTGACCCCTAAACTTTTTAAAATTG
*
6420631 CATTTTGACCCCAAAACTTTTTAAAATTG
1 CATTTTGACCCCTAAACTTTTTAAAATTG
*** * * * * *
6420660 CACCATAACCCCTAAGCTCTTTGAAATTA
1 CATTTTGACCCCTAAACTTTTTAAAATTG
* *
6420689 CATTTTGACCCTTAAATTTTCTTAAAATT
1 CATTTTGACCCCTAAACTTT-TTAAAATT
6420718 ATATTTTGGC
Statistics
Matches: 66, Mismatches: 20, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
29 59 0.89
30 7 0.11
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (29 bp):
CATTTTGACCCCTAAACTTTTTAAAATTG
Found at i:6421085 original size:3 final size:3
Alignment explanation
Indices: 6421071--6421110 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
6421061 GGGTTTCCGA
6421071 AAG AAG AA- AAG AAG AAG AAGG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AA
6421111 AAAAGAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6421097 original size:13 final size:12
Alignment explanation
Indices: 6421071--6421110 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
6421061 GGGTTTCCGA
6421071 AAGAAGAA-AAG
1 AAGAAGAAGAAG
6421082 AAGAAGAAGGAAG
1 AAGAAGAA-GAAG
6421095 AAGAAGAAGAA-
1 AAGAAGAAGAAG
6421106 AAGAA
1 AAGAA
6421111 AAAAGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 13 0.48
12 3 0.11
13 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAG
Found at i:6421116 original size:21 final size:21
Alignment explanation
Indices: 6421070--6421117 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6421060 AGGGTTTCCG
*
6421070 AAAGAAGAAAAGAAGAAGAAG
1 AAAGAAGAAAAGAAGAAGAAA
*
6421091 GAAGAAGAAGAAGAA-AAGAAA
1 AAAGAAGAA-AAGAAGAAGAAA
6421112 AAAGAA
1 AAAGAA
6421118 ATAAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAAAGAAGAAGAAA
Found at i:6421453 original size:8 final size:8
Alignment explanation
Indices: 6421398--6421445 Score: 73
Period size: 8 Copynumber: 6.1 Consensus size: 8
6421388 TTAGCCCAGC
6421398 AGAAAAAA
1 AGAAAAAA
6421406 AGAAAAAA
1 AGAAAAAA
6421414 A-AGAAAAA
1 AGA-AAAAA
6421422 AG-AAAAA
1 AGAAAAAA
6421429 AGAAAAAA
1 AGAAAAAA
6421437 AGAAAAAA
1 AGAAAAAA
6421445 A
1 A
6421446 AGGAAAAAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 8 0.22
8 29 0.78
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:6421454 original size:7 final size:7
Alignment explanation
Indices: 6421410--6421444 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
6421400 AAAAAAAGAA
6421410 AAAAAAG
1 AAAAAAG
6421417 AAAAAAG
1 AAAAAAG
6421424 AAAAAAG
1 AAAAAAG
6421431 AAAAAAAG
1 -AAAAAAG
6421439 AAAAAA
1 AAAAAA
6421445 AAGGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6421613 original size:22 final size:23
Alignment explanation
Indices: 6421588--6421630 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
6421578 TTTTAAAGCA
6421588 TTTT-TTTATATTTCA-TATTTAG
1 TTTTATTTA-ATTTCATTATTTAG
6421610 TTTTATTTAATTTCATTATTT
1 TTTTATTTAATTTCATTATTT
6421631 TAAATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTATTTAATTTCATTATTTAG
Found at i:6423252 original size:26 final size:26
Alignment explanation
Indices: 6423223--6423280 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6423213 TTGCAGTGAC
*
6423223 TGATTTGACC-ATCTGATTCTATGAAT
1 TGATTTAACCAAT-TGATTCTATGAAT
*
6423249 TGATTTAACCAATTGATTCTATTAAT
1 TGATTTAACCAATTGATTCTATGAAT
6423275 T-ATTTA
1 TGATTTA
6423281 TTTAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 22 0.76
27 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (26 bp):
TGATTTAACCAATTGATTCTATGAAT
Found at i:6424952 original size:53 final size:53
Alignment explanation
Indices: 6424872--6425023 Score: 207
Period size: 53 Copynumber: 2.9 Consensus size: 53
6424862 GTATTTTTCA
* * * *
6424872 ATTTGTAAGATACAATGTTGTTGGTCTTGAACAAAA-CTGTTTAATTATGTTTT
1 ATTTGTAAGATACAATGTTGTCGGTCTTAAACAAAATC-ATTTAATTATGTATT
* * * *
6424925 ATTTGTAAGATAAAATGATGTCAGTCTTAAATAAAATCATTTAATTATGTATT
1 ATTTGTAAGATACAATGTTGTCGGTCTTAAACAAAATCATTTAATTATGTATT
*
6424978 ATTTGTAAGACACAATGTTGTCGGTCTTAAACAAAATCATTTAATT
1 ATTTGTAAGATACAATGTTGTCGGTCTTAAACAAAATCATTTAATT
6425024 TTTTTTAGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 84 0.99
54 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (53 bp):
ATTTGTAAGATACAATGTTGTCGGTCTTAAACAAAATCATTTAATTATGTATT
Found at i:6426652 original size:2 final size:2
Alignment explanation
Indices: 6426645--6426669 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6426635 ACATGTGCAT
6426645 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
6426670 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6431192 original size:22 final size:22
Alignment explanation
Indices: 6431167--6431212 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6431157 AGAAGTGATG
*
6431167 TGAAAAAAT-AAAAAGATGAAAA
1 TGAAAAAATGAAAAAG-TAAAAA
6431189 TGAAAAAATGAAAAAGTAAAAA
1 TGAAAAAATGAAAAAGTAAAAA
6431211 TG
1 TG
6431213 GAAAGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (22 bp):
TGAAAAAATGAAAAAGTAAAAA
Found at i:6432734 original size:132 final size:131
Alignment explanation
Indices: 6432558--6433978 Score: 1894
Period size: 132 Copynumber: 10.9 Consensus size: 131
6432548 CATAGACAGC
*
6432558 GGAGCAGATCAAAGATGAC-GAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* * *
6432622 AATTTTA-TCTCCCTAGGCAGCAGTGGAATAGATTGAGGATTTCAGATCTTGTCTCCCTAAGCAG
65 AATTCTACT-TCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAG
6432686 TAGT
128 TAGT
* *
6432690 GGAGCAAATCAAATATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
6432755 ATTCTACTTCTCTGGATAGCAGCAGAATATATTGAAGATTTCAGATCTTGTCTCCCTAAGCAATA
66 ATTCTACTTCCCTGG-CAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
6432820 GT
130 GT
* * * *
6432822 GGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
6432887 ATTCTA-TCTCCCTGGGCAGCAGTGGAATAG--T-----CTT--G-TCTT-TCTGCAT-AG-A-T
66 ATTCTACT-TCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
*
6432937 AGC
129 AGT
* * * * *
6432940 GAAGCATATCAAAGACGGCAGATTTTACCTCCCTGAGGTTACAGTGAAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * ** *
6433005 ATTCTA-TCTCCCTGGGCAGCAGTGGAATAGACTGAAGATTTTGGATCTTGTCTTCCT--GCA-T
66 ATTCTACT-TCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
6433066 AGAT
129 AG-T
*
6433070 AGCGAAGCAGATCAAAGACGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 -G-G-AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* ** * *
6433135 GTAATTCTACTTCTCTAGATAGCAGCAGAATAGATTCAAGATTTCAGATCTTGTCTCCCTAAGCA
63 GTAATTCTACTTCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCA
6433200 GTAGT
127 GTAGT
*
6433205 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
** * *
6433270 ATTCTACTTTTCTGGACAACAGCGGAATAGATTGAAGATTTCAGATCTTGTTTCCCTAAGCAGTA
66 ATTCTACTTCCCTGG-CAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
*
6433335 GC
130 GT
* *
6433337 GGAGCAGATCAAATATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * * * *
6433402 ATTCTACTTCTCTGGATAGTAGCAGAATAGATTGAAGATTTCAGATATTGTCTCCCTAACCGGTA
66 ATTCTACTTCCCTGG-CAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
6433467 GT
130 GT
* *
6433469 AGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
6433534 ATTCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGATTTCAGATCTTGTTTCCCTAAGCAGTA
66 ATTCTACTTCCCTGG-CAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
*
6433599 GC
130 GT
* * *
6433601 GAATCAGATCAAATATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
6433666 ATTCTACTTCCCTGGACAGCAGCGGAATAGATTGAGGATTTCAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGG-CAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
6433731 GT
130 GT
* * * *
6433733 GGAGTAGATCAAAGATGGCAGATTTTACCTTCTTATGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
6433798 ATTCTACTTCCCTGAACAGTAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTACTTCCCTG-GCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
6433863 GT
130 GT
* * *
6433865 GGAGCAGATCAAAGATGGCAGATTTTACTTCCCTGTAGTTGCAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
6433930 ATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGATTTCAGATCTT
66 ATTCTACTTCCCT-GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTT
6433979 ACCTCCTTAG
Statistics
Matches: 1145, Mismatches: 116, Indels: 56
0.87 0.09 0.04
Matches are distributed among these distances:
118 91 0.08
119 1 0.00
120 3 0.00
121 5 0.00
122 4 0.00
123 1 0.00
125 4 0.00
127 1 0.00
128 5 0.00
129 9 0.01
130 1 0.00
131 5 0.00
132 896 0.78
133 110 0.10
134 2 0.00
135 4 0.00
136 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (131 bp):
GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
T
Found at i:6434060 original size:50 final size:50
Alignment explanation
Indices: 6434003--6434467 Score: 342
Period size: 50 Copynumber: 9.3 Consensus size: 50
6433993 GCAGTGGAAC
* * *
6434003 AGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGATATTACAGTTAAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
* * *** * * * * ** *
6434053 AGATTGAAACCACAACGGCGGATCTTACTT-CCTTAGCAGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-TATTGCAGTTAAAA
* * *
6434103 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTACAATTAAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
* *** * * * * ** *
6434153 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
* *
6434203 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
* * *** * * * * ** *
6434253 AGATTGAAGCCACAATGGCGGATCTTACTTCCTTAACAGTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
*
6434303 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
* * * *** * * ** *
6434353 AGATTGAAGCCACATCGACGGATCTTACTTCCCTGACGA-TGCGGTGGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-TATTGCAGTTAAAA
* ** * *
6434403 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCAACATTGCAGTTGAACA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTT-AAAA
6434454 A-ATTGAAGCTACAA
1 AGATTGAAGCTACAA
6434468 GTCTTATCTC
Statistics
Matches: 302, Mismatches: 108, Indels: 10
0.72 0.26 0.02
Matches are distributed among these distances:
49 5 0.02
50 290 0.96
51 7 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAGTTAAAA
Found at i:6434151 original size:100 final size:100
Alignment explanation
Indices: 6433973--6434435 Score: 750
Period size: 100 Copynumber: 4.6 Consensus size: 100
6433963 AAAGATTTCA
* *
6433973 GATCTTACCTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
* *
6434038 ATATTACAGTTAAAAAGATTGAAACCACAACGGCG
66 ATATTACAATTAAAAAGATTGAAGCCACAACGGCG
*
6434073 GATCTTACTTCCTTAGCAGTACAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
6434138 ATATTACAATTAAAAAGATTGAAGCCACAACGGCG
66 ATATTACAATTAAAAAGATTGAAGCCACAACGGCG
*
6434173 GATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
* *
6434238 ATATTGCAATTAAAAAGATTGAAGCCACAATGGCG
66 ATATTACAATTAAAAAGATTGAAGCCACAACGGCG
* * *
6434273 GATCTTACTTCCTTAACAGTGCAGTGGAATAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
* * *
6434338 ATATTGCAATTAAAAAGATTGAAGCCACATCGACG
66 ATATTACAATTAAAAAGATTGAAGCCACAACGGCG
* *
6434373 GATCTTACTTCCCT-G-ACGATGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
1 GATCTTACTTCCTTAGCA-G-TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
6434436 CAACATTGCA
Statistics
Matches: 342, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
98 1 0.00
99 1 0.00
100 340 0.99
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
ATATTACAATTAAAAAGATTGAAGCCACAACGGCG
Found at i:6435875 original size:2 final size:2
Alignment explanation
Indices: 6435868--6435892 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6435858 ACATGTGCAT
6435868 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
6435893 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6440832 original size:12 final size:13
Alignment explanation
Indices: 6440811--6440848 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6440801 CTTCCATTAA
6440811 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
*
6440824 AAAAA-AAAAAGG
1 AAAAAGAAAAAAG
*
6440836 AAAAAGGAAAAAG
1 AAAAAGAAAAAAG
6440849 GGAACTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:6440832 original size:18 final size:19
Alignment explanation
Indices: 6440809--6440847 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6440799 TTCTTCCATT
6440809 AAAAAAA-GAAAAAAGAAA
1 AAAAAAAGGAAAAAAGAAA
*
6440827 AAAAAAAGGAAAAAGGAAA
1 AAAAAAAGGAAAAAAGAAA
6440846 AA
1 AA
6440848 GGGAACTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAAGGAAAAAAGAAA
Found at i:6447482 original size:15 final size:14
Alignment explanation
Indices: 6447462--6447492 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6447452 GGGAAAGAAA
6447462 ATCAAATCAAATCAG
1 ATCAAATCAAA-CAG
6447477 ATCAAATCAAACAG
1 ATCAAATCAAACAG
6447491 AT
1 AT
6447493 TTCTTGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (14 bp):
ATCAAATCAAACAG
Found at i:6454484 original size:15 final size:16
Alignment explanation
Indices: 6454464--6454493 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6454454 GGCAAAAATG
6454464 ATTTTTTTTT-AACTA
1 ATTTTTTTTTCAACTA
6454479 ATTTTTTTTTCAACT
1 ATTTTTTTTTCAACT
6454494 TCAAGTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTTTTTCAACTA
Found at i:6456892 original size:38 final size:37
Alignment explanation
Indices: 6456823--6456895 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
6456813 TTTTCATTAT
* *
6456823 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
6456860 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
6456896 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:6456926 original size:23 final size:22
Alignment explanation
Indices: 6456883--6456926 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6456873 TTTCAAGTCA
6456883 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
6456906 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6456927 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:6457051 original size:23 final size:23
Alignment explanation
Indices: 6457025--6457140 Score: 163
Period size: 23 Copynumber: 5.3 Consensus size: 23
6457015 ATAAGTGCCA
6457025 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
6457048 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
6457071 CACTGATATGTAGCCGAAG----
1 CACTGATATGTAGCCGAAGCTAC
6457090 --CTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
6457111 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
6457134 CACTGAT
1 CACTGAT
6457141 CAATAACACT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
17 17 0.21
23 64 0.79
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:6457095 original size:17 final size:17
Alignment explanation
Indices: 6457073--6457108 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6457063 GAAGCTACCA
6457073 CTGATATGTAGCCGAAG
1 CTGATATGTAGCCGAAG
6457090 CTGATATGTAGCCGAAG
1 CTGATATGTAGCCGAAG
6457107 CT
1 CT
6457109 ACCATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (17 bp):
CTGATATGTAGCCGAAG
Found at i:6457110 original size:40 final size:40
Alignment explanation
Indices: 6457050--6457131 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
6457040 GAAGCTACCA
*
6457050 CTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAG
1 CTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAG
* *
6457090 CTGATATGTAGCCGAAGCTACCATTGAAATGTAGCCGAAG
1 CTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAG
6457130 CT
1 CT
6457132 ACCACTGATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (40 bp):
CTGAAATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAG
Found at i:6463263 original size:34 final size:34
Alignment explanation
Indices: 6463220--6463288 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
6463210 GTGAATCAAA
6463220 TCTAAGTTATTCTTTGAGAAAATAAACACTTGAC
1 TCTAAGTTATTCTTTGAGAAAATAAACACTTGAC
6463254 TCTAAGTTATTCTTTGAGAAAATAAACACTTGAC
1 TCTAAGTTATTCTTTGAGAAAATAAACACTTGAC
6463288 T
1 T
6463289 AATAAACCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (34 bp):
TCTAAGTTATTCTTTGAGAAAATAAACACTTGAC
Done.