Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 40 of 175
Found at i:11060867 original size:150 final size:149
Alignment explanation
Indices: 11060699--11061246 Score: 650
Period size: 150 Copynumber: 3.6 Consensus size: 149
11060689 TACGCTGCCA
* * * ** ** * *
11060699 GGGAAGTAAAATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCG-CAGGGAAGTAAGATTCG
* * ** * * ** * *
11060764 CTGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGGGAGGTAAGATTCGCCGTTGTGGCTTCAA
65 CTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
*
11060829 TCTTTTTAACTGCAATGTCG
130 TCTTTTTAATTGCAATGTCG
* * *
11060849 GGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCG-CAGGGAAGTAAGATTCG
* * * * *
11060914 CCGTTGTGGCTTCAATATTTTTAATTGCAATGTCAAGGAAGCAAGATTTGCCATTGTGGCTTCAA
65 CTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
11060979 TCTTTTTAATTGCAATGTCG
130 TCTTTTTAATTGCAATGTCG
*
11060999 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCAGTGCACCGCTAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGC-AGGGAAGTAAGATTCG
11061064 -TCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-GGGAAGCAAGATTCGCCGTCCGTTGTGGC
65 CT-GTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATT---CG-CCGTTGTGGC
11061127 TTCAATCTTTTTAATTGCAATGTCG
125 TTCAATCTTTTTAATTGCAATGTCG
* * * * * * *
11061152 GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAGTAAGATTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCG-CAGGGAAGTAAGATTCG
** *
11061217 CCATTTTGGCTTCAATCTTTTTAATTGCAA
65 CTGTTGTGGCTTCAATCTTTTTAATTGCAA
11061247 CCTCAGGGGT
Statistics
Matches: 342, Mismatches: 48, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
149 13 0.04
150 212 0.62
152 1 0.00
153 115 0.34
154 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (149 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCAGGGAAGTAAGATTCGC
TGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAAT
CTTTTTAATTGCAATGTCG
Found at i:11065374 original size:23 final size:24
Alignment explanation
Indices: 11065332--11065388 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
11065322 GGGCTCTTTC
*
11065332 ATGAAATTTAATGCAAATG-ATGCA
1 ATGAAATGT-ATGCAAATGAATGCA
* *
11065356 ATGAAATGTATGCAGATGAATGGA
1 ATGAAATGTATGCAAATGAATGCA
11065380 ATG-AATGTA
1 ATGAAATGTA
11065389 AAAAGAGACG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (24 bp):
ATGAAATGTATGCAAATGAATGCA
Found at i:11068846 original size:21 final size:21
Alignment explanation
Indices: 11068781--11068847 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
11068771 AAATTGGGCC
*
11068781 ATTAAAATATTATTTTTAATT
1 ATTAAAATATTATTTTTTATT
* * *
11068802 TTTTAATTA-TATTTATTT-TT
1 ATTAAAATATTATTT-TTTATT
*
11068822 ATTAAAATATTATTTTTTATA
1 ATTAAAATATTATTTTTTATT
11068843 ATTAA
1 ATTAA
11068848 TGTAGCCTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTAAAATATTATTTTTTATT
Found at i:11076146 original size:21 final size:20
Alignment explanation
Indices: 11076113--11076151 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11076103 AAATTTTCAG
* *
11076113 AAATTTTATGATTTTTTTAA
1 AAATTTTAAGATTATTTTAA
11076133 AAATTATTAAGATTATTTT
1 AAATT-TTAAGATTATTTT
11076152 CCATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
AAATTTTAAGATTATTTTAA
Found at i:11077925 original size:29 final size:28
Alignment explanation
Indices: 11077892--11077948 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
11077882 ATGTTAGAAA
11077892 AAACAGAGTTGAAAATGGAAAAAATGTAT
1 AAACAGAGTTGAAAATGG-AAAAATGTAT
*
11077921 AAACAGCGTTGAAAATGGAAAAATGTAT
1 AAACAGAGTTGAAAATGGAAAAATGTAT
11077949 GTATAATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (28 bp):
AAACAGAGTTGAAAATGGAAAAATGTAT
Found at i:11084125 original size:234 final size:234
Alignment explanation
Indices: 11083692--11084367 Score: 1149
Period size: 234 Copynumber: 2.9 Consensus size: 234
11083682 TCGATGTAAA
* * *
11083692 TTTAGTTTGACCGTTGGATTTG-GGGAGCTCAACTATAAATAGAGAGCCTCCGCCTTAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
* *
11083756 ATCATTCATTGTTTCTGTATTCTTTAAGAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
11083821 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
131 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
11083886 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
* *
11083925 TTTAGTTTGACTGTTGAATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
11083990 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
11084055 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
131 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
* *
11084120 TATATAAATTGGTTTGGATGTTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
*
11084159 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAATTAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
* *
11084224 ATCA-TCTATTGTTTCTGTATTCTTTGATAAAGTGAAAACAATTGAGAGCATTTAATCAAACACC
66 ATCATTC-ATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACC
* * * * * *
11084288 TCTCGTGCATAGTTTTTTATCGTTATTCTGTTCTTTAAGCATTCTTTTATCTTTGTGTTGCTTTC
130 TCTCGTGCATAG-TTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTC
*
11084353 ACTATATAAATTGGT
194 GCTATATAAATTGGT
11084368 GCCTTGGAGG
Statistics
Matches: 419, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
233 22 0.05
234 337 0.80
235 60 0.14
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (234 bp):
TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
Found at i:11088528 original size:6 final size:6
Alignment explanation
Indices: 11088520--11088554 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
11088510 AAAAAAAACC
*
11088520 TCAAAC TCAAAA TCAAAA TCAAAA TCAAAA TCAAA
1 TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA TCAAA
11088555 TGTTCTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (6 bp):
TCAAAA
Found at i:11106621 original size:33 final size:32
Alignment explanation
Indices: 11106576--11106736 Score: 126
Period size: 33 Copynumber: 4.8 Consensus size: 32
11106566 ACATTCGTAG
*
11106576 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGTTATGGTCTTA-CATCAGAA
* * *
11106609 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGTTATGGTCTTACAT-CAGA-A
* * *** * *
11106643 CTGCCATTGTCCAACCATGGTCTTACATTCATAG
1 -TGCCATAGCCCAGTTATGGTCTTACA-TCAGAA
* * *
11106677 TGTCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGTTATGGTCTTA-CATCAGAA
11106710 TGCCATAGCCCAGCTT-TGGTCTTACAT
1 TGCCATAGCCCAG-TTATGGTCTTACAT
11106737 ATAAACACTG
Statistics
Matches: 100, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
32 6 0.06
33 64 0.64
34 5 0.05
35 24 0.24
36 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAGTTATGGTCTTACATCAGAA
Found at i:11106739 original size:101 final size:101
Alignment explanation
Indices: 11106564--11106803 Score: 399
Period size: 101 Copynumber: 2.4 Consensus size: 101
11106554 AATTCATCCT
* * *
11106564 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
11106629 CTTACATATAAACACTGCCATTGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
*
11106665 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTTTGGT
1 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
11106730 CTTACATATAAACACTGCCATGGTCCAGCCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
** *
11106766 TTATGTTCATAGTGTCATAACCCATTTATGGTCTTATC
1 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATC
11106804 CGTCAATTCA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 130 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:11110892 original size:16 final size:16
Alignment explanation
Indices: 11110862--11110895 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
11110852 CCAACTGCTC
11110862 AAAAATGAAACACAAA
1 AAAAATGAAACACAAA
11110878 AAAAGATGAAA-ACAAA
1 AAAA-ATGAAACACAAA
11110894 AA
1 AA
11110896 TCCAAAGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.76, C:0.09, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAATGAAACACAAA
Found at i:11111479 original size:13 final size:13
Alignment explanation
Indices: 11111444--11111480 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
11111434 GAGATATTTG
11111444 TAATTTGAAAACT
1 TAATTTGAAAACT
11111457 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
11111471 TAATTTGAAA
1 TAATTTGAAA
11111481 TTTTGGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:11111490 original size:21 final size:20
Alignment explanation
Indices: 11111461--11111517 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
11111451 AAAACTTAAG
*
11111461 TTTGAAAACTTAATTTGAAAT
1 TTTGAAAACTTAAATT-AAAT
*
11111482 TTTGGAAACTTAAAAATTAAAT
1 TTTGAAAACTT--AAATTAAAT
*
11111504 TTTGTAAACTTAAA
1 TTTGAAAACTTAAA
11111518 AATTTTGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 10 0.32
22 14 0.45
23 4 0.13
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTGAAAACTTAAATTAAAT
Found at i:11111503 original size:22 final size:22
Alignment explanation
Indices: 11111478--11111521 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11111468 ACTTAATTTG
11111478 AAATTTTGGAAACTTAAAAATT
1 AAATTTTGGAAACTTAAAAATT
*
11111500 AAATTTTGTAAACTTAAAAATT
1 AAATTTTGGAAACTTAAAAATT
11111522 TTGAGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (22 bp):
AAATTTTGGAAACTTAAAAATT
Found at i:11111559 original size:22 final size:22
Alignment explanation
Indices: 11111520--11111562 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11111510 AACTTAAAAA
*
11111520 TTTTGAGAAACTTTGAGAAACT
1 TTTTGAGAAAATTTGAGAAACT
11111542 TTTTG-GAAAATTTGGAGAAAC
1 TTTTGAGAAAATTT-GAGAAAC
11111563 AACTCAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (22 bp):
TTTTGAGAAAATTTGAGAAACT
Found at i:11111803 original size:34 final size:34
Alignment explanation
Indices: 11111759--11111836 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
11111749 TTTTCTTATC
* *
11111759 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCA
1 TTTTCTTGCAGGGAATATTCCCTGTTCACACAT-A
*
11111794 -TTTCTTGCAGGGAATCTTCCCTGTTCACACATA
1 TTTTCTTGCAGGGAATATTCCCTGTTCACACATA
11111827 TTTTCTTGCA
1 TTTTCTTGCA
11111837 TCATTTCTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (34 bp):
TTTTCTTGCAGGGAATATTCCCTGTTCACACATA
Found at i:11114684 original size:21 final size:23
Alignment explanation
Indices: 11114645--11114690 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
11114635 GAACAAATTG
11114645 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
11114667 TTGA-TCTA-TTCTTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTTGTAT
11114689 TT
1 TT
11114691 CTCTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.70
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:11123071 original size:21 final size:22
Alignment explanation
Indices: 11123031--11123071 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11123021 ATTAATCATA
*
11123031 AAAAGAAGCAAATCTCTTTTCT
1 AAAAGAAGCAAATATCTTTTCT
*
11123053 AAAAGAAG-AAATATGTTTT
1 AAAAGAAGCAAATATCTTTT
11123072 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (22 bp):
AAAAGAAGCAAATATCTTTTCT
Found at i:11123077 original size:21 final size:22
Alignment explanation
Indices: 11123030--11123077 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
11123020 AATTAATCAT
* *
11123030 AAAAAGAAGCAAATCTCTTTTC
1 AAAAAGAAGCAAATATCTTTTA
* *
11123052 TAAAAGAAG-AAATATGTTTTA
1 AAAAAGAAGCAAATATCTTTTA
11123073 AAAAA
1 AAAAA
11123078 TTAACTGAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAAGAAGCAAATATCTTTTA
Found at i:11123133 original size:20 final size:23
Alignment explanation
Indices: 11123103--11123147 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
11123093 GGAAAAAGAG
11123103 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
11123124 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
11123146 AA
1 AA
11123148 CAATTTGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:11130630 original size:218 final size:218
Alignment explanation
Indices: 11130358--11130761 Score: 684
Period size: 218 Copynumber: 1.9 Consensus size: 218
11130348 TGCACCGCCT
* **
11130358 GGGAAATAAGATTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
1 GGGAAATAAGATTCGCCATCTTCAATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
* * * *
11130423 TCAGTCTGTTCCGCTGCAACTTTAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
66 TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
*
11130488 GAGAGATAAGATCTATAACTTTAATCC-GCTCCACTACTACTTCAGGGAGATAGGATTATCGGCT
131 GAGAGATAAGATCTATAACTTTAA-CCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCT
11130552 TCAATCTGCTCCACTGTAACTTCA
195 TCAATCTGCTCCACTGTAACTTCA
* * *
11130576 GGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
1 GGGAAATAAGATTCGCCATCTTCAATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
11130641 TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
66 TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
*
11130706 GAGAGATAAGATCTATTACTTTAACCTGCTCCACTACAACTTCAGGGAGATAGGAT
131 GAGAGATAAGATCTATAACTTTAACCTGCTCCACTACAACTTCAGGGAGATAGGAT
11130762 CTGTAATTTC
Statistics
Matches: 173, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 2 0.01
218 171 0.99
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (218 bp):
GGGAAATAAGATTCGCCATCTTCAATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
GAGAGATAAGATCTATAACTTTAACCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTT
CAATCTGCTCCACTGTAACTTCA
Found at i:11130750 original size:44 final size:44
Alignment explanation
Indices: 11130476--11130763 Score: 162
Period size: 44 Copynumber: 6.6 Consensus size: 44
11130466 GATCCACTCT
* *
11130476 ACTGCAACTTCAGAGAGATAAGATCTATAACTTTAATCC-GCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTCAA-CCTGCTCC
* * * * ** *
11130520 ACTACTACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTCAACCTGCTCC
* * * *** * * *
11130564 ACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCC
1 ACTGCAACTTCAGAGAGATAAGATCTATTA-CTTCAACCTGCTCC
* * **
11130609 ACTGCAACTTCAGA-AGGATAAGACCTGCTTAC-TCAGTCTGCTCC
1 ACTGCAACTTCAGAGA-GATAAGATCT-ATTACTTCAACCTGCTCC
* * * * * *
11130653 GCTGCAACTTCA-AGGAGATAAGA-C-CTGA-TGCAATCC-ACTCT
1 ACTGCAACTTCAGA-GAGATAAGATCTATTACTTCAA-CCTGCTCC
*
11130694 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTCAACCTGCTCC
* * *
11130738 ACTACAACTTCAGGGAGATAGGATCT
1 ACTGCAACTTCAGAGAGATAAGATCT
11130764 GTAATTTCCC
Statistics
Matches: 184, Mismatches: 45, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
41 28 0.15
42 3 0.02
43 10 0.05
44 107 0.58
45 35 0.19
46 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTACTTCAACCTGCTCC
Found at i:11130938 original size:128 final size:129
Alignment explanation
Indices: 11130749--11131156 Score: 649
Period size: 128 Copynumber: 3.2 Consensus size: 129
11130739 CTACAACTTC
* * * *
11130749 AGGGAGATAGGATCTGTAATTTCCCAACCTATTCCACTGCTAACCAGGAATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * *
11130814 TTAAATCAGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTTCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
*
11130878 AGGGAGACAAGATCTGTGATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * * *
11130942 TTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCC-ACTTCGATCTGCTCCGCTACTGCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
* * * *
11131005 AGGGATACAAGGTCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGAATTGTGGC
1 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
*
11131070 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTATTGCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
11131134 AGGGAGACAAGATCTGTAATTTC
1 AGGGAGACAAGATCTGTAATTTC
11131157 ACAGATCTAT
Statistics
Matches: 253, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
127 40 0.16
128 150 0.59
129 63 0.25
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (129 bp):
AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
Found at i:11133314 original size:39 final size:38
Alignment explanation
Indices: 11133271--11133363 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 38
11133261 TTTATTTTTC
*
11133271 TTTTTTCTTTTAATTT-TTTTGATTTTGATTTTGATTGAT
1 TTTTTTCTTTT--TTTACTTTGATTTTGATTTTGATTGAT
**
11133310 TTTTTTCATTTTTTTACTTTGATTTTGATTTTGATTTTT
1 TTTTTTC-TTTTTTTACTTTGATTTTGATTTTGATTGAT
11133349 TCTTTTTCTTTTTTT
1 T-TTTTTCTTTTTTT
11133364 TTTGAATCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.06
39 35 0.73
40 10 0.21
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.75
Consensus pattern (38 bp):
TTTTTTCTTTTTTTACTTTGATTTTGATTTTGATTGAT
Found at i:11133322 original size:33 final size:34
Alignment explanation
Indices: 11133285--11133349 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
11133275 TTCTTTTAAT
*
11133285 TTTTTTGATTTTGATTTTGA-TTGATTTTTTTCA
1 TTTTTTGACTTTGATTTTGATTTGATTTTTTTCA
*
11133318 TTTTTTTACTTTGATTTTGATTTTGATTTTTT
1 TTTTTTGACTTTGATTTTGA-TTTGATTTTTT
11133350 CTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 18 0.64
35 10 0.36
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.72
Consensus pattern (34 bp):
TTTTTTGACTTTGATTTTGATTTGATTTTTTTCA
Found at i:11146717 original size:18 final size:17
Alignment explanation
Indices: 11146696--11146747 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
11146686 TTTATACATA
11146696 TATTTTAAAT-TTAATATG
1 TATTTTAAATATT--TATG
*
11146714 TATTTAAAATATTTATG
1 TATTTTAAATATTTATG
*
11146731 TATTTTTATATATTTAT
1 TA-TTTTAAATATTTAT
11146748 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.21
18 21 0.72
19 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TATTTTAAATATTTATG
Found at i:11154714 original size:5 final size:5
Alignment explanation
Indices: 11154704--11154741 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
11154694 ATTCCATTAT
11154704 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
11154742 CTACATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:11158960 original size:35 final size:35
Alignment explanation
Indices: 11158921--11159106 Score: 210
Period size: 35 Copynumber: 5.3 Consensus size: 35
11158911 AATCTAACAG
11158921 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * *
11158956 AAACATGCCAATGCTCACAAGGGCTAGTCCAACCA
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * *
11158991 AAACCCGTCAATGCTCATAAGAGCTAGTCCAACCG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * * * **
11159026 AAACACACCAATGCTCATAAGAGGTAGTCTATCTG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * * **
11159061 AAACCCGCCAATGCTCATAAGAGTTAATCCAATTA
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
*
11159096 AAACAAGCCAA
1 AAACACGCCAA
11159107 ACAAAGAGTA
Statistics
Matches: 125, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 125 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.17
Consensus pattern (35 bp):
AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
Found at i:11172277 original size:44 final size:44
Alignment explanation
Indices: 11172229--11172336 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
11172219 TTAATCTGCT
*
11172229 CCACTGCAACCTCAGGGAGATAAGATTTGTTTTCTTAGTCTACC
1 CCACTGCAACCTCAGGGAGATAAGACTTGTTTTCTTAGTCTACC
** * * * * *
11172273 CCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTTGGTCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACTTGTTTTCTTAGTCTACC
11172317 CCACTGCGAA-CTCAGGGAGA
1 CCACTGC-AACCTCAGGGAGA
11172337 AAGGACTCGT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 50 0.98
45 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (44 bp):
CCACTGCAACCTCAGGGAGATAAGACTTGTTTTCTTAGTCTACC
Found at i:11172436 original size:129 final size:129
Alignment explanation
Indices: 11172281--11172529 Score: 392
Period size: 129 Copynumber: 1.9 Consensus size: 129
11172271 CCCCACTGTG
* * * *
11172281 ACTTCAGGGGGATAAGACTTGTTTTCTTGGTCTGCTCCACTGCGAA-CTCAGGGAGAAAGGACTC
1 ACTTCAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTG-GAACCTCAGGGAGAAAGGACTC
*
11172345 GTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTGCA
65 GTGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTGCA
* * *
11172410 ACTTGAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTGTAACCTCAGGGAGAAAGGACTTG
1 ACTTCAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTGGAACCTCAGGGAGAAAGGACTCG
**
11172475 TGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGT
66 TGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGT
11172530 CCTACTACTG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 2 0.02
129 107 0.98
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (129 bp):
ACTTCAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTGGAACCTCAGGGAGAAAGGACTCG
TGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTGCA
Found at i:11172879 original size:87 final size:87
Alignment explanation
Indices: 11172673--11173005 Score: 479
Period size: 87 Copynumber: 3.8 Consensus size: 87
11172663 CATTGTCGAC
* * * * * *
11172673 GCAGGAGGGCAAGATCTGTTATCTTTAACTAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTT
1 GCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
* * * *
11172738 TTCAATTTGCTTCACTG-CAAT
66 TTCGATCTGCTTCGCTGTTAAT
* *
11172759 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGCTTTGTT
1 GCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
*
11172824 TTCGATCTACTTCGCTGTTAAT
66 TTCGATCTGCTTCGCTGTTAAT
* * *
11172846 GCAGGAAGACAATATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTT
1 GCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
*
11172911 TTCGATCTGCTTCGCTATTAAT
66 TTCGATCTGCTTCGCTGTTAAT
* * *
11172933 GTAGGAAGACAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATT
1 GCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
11172998 TTCGATCT
66 TTCGATCT
11173006 TCACTGATCT
Statistics
Matches: 224, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
86 72 0.32
87 152 0.68
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
GCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
TTCGATCTGCTTCGCTGTTAAT
Found at i:11175095 original size:15 final size:13
Alignment explanation
Indices: 11175061--11175099 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
11175051 TTGACCTTTC
11175061 CTTTT-CTTTTTT
1 CTTTTCCTTTTTT
11175073 CTTTTCCTTTTTT
1 CTTTTCCTTTTTT
11175086 CTTCTCTCCTTTTT
1 CTT-T-TCCTTTTT
11175100 CATTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 1 0.04
15 8 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTCCTTTTTT
Found at i:11180327 original size:16 final size:17
Alignment explanation
Indices: 11180306--11180346 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
11180296 ATAGATTAAT
*
11180306 AAATAAAGTTTAA-ATA
1 AAATAAAGTATAATATA
11180322 AAATAAAGTATAATATA
1 AAATAAAGTATAATATA
11180339 AAAGTAAA
1 AAA-TAAA
11180347 AATAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 6 0.27
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (17 bp):
AAATAAAGTATAATATA
Found at i:11181148 original size:8 final size:7
Alignment explanation
Indices: 11181114--11181146 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
11181104 TTTATAGCCG
11181114 AAAATGAA
1 AAAAT-AA
11181122 AAAATAA
1 AAAATAA
11181129 AAAATAA
1 AAAATAA
11181136 AAAATAA
1 AAAATAA
11181143 AAAA
1 AAAA
11181147 ATCTACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:11183089 original size:25 final size:25
Alignment explanation
Indices: 11183061--11183113 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
11183051 ATCTTGAATT
*
11183061 ATTTGATTCTAATCAATTTGATTAA
1 ATTTGATTCTAATCAAATTGATTAA
*
11183086 ATTTGATTTTAATCAAATTGATTAA
1 ATTTGATTCTAATCAAATTGATTAA
11183111 ATT
1 ATT
11183114 GCCCCTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (25 bp):
ATTTGATTCTAATCAAATTGATTAA
Found at i:11183885 original size:89 final size:89
Alignment explanation
Indices: 11183783--11184201 Score: 440
Period size: 89 Copynumber: 4.7 Consensus size: 89
11183773 ATTTTTTTCC
* *
11183783 AAATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGATT-AACGGATTTTATTCCAT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCG-TTCAACGGATTTTATTCCAT
*
11183847 TATTTTGATTTTATTTCCAAACGAG
65 TATTTTAATTTTATTTCCAAACGAG
* * *
11183872 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAATGGATTTTATTCCATT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
*
11183937 ATTTTAATTTTATTTCCAAACGGG
66 ATTTTAATTTTATTTCCAAACGAG
* * * * ** *
11183961 AAATTAATGGGAAATAAAATCCATTTCGCGATTTATTCCCGCCCATCAACGGATTTAATTCCATT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
* * *
11184026 ATTTTGATTTTATTACCAAA-TAGG
66 ATTTTAATTTTATTTCCAAACGA-G
* * *
11184050 AAATTAAAGGTAAATAAAAT-TCATTTGGGGATTGATTCCCGCTGTTCAAC-GATTTTATT-C-T
1 AAATTAAAGGTAAATAAAATCT-ATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
* *
11184111 AATTTTAATTTTATTTTCAAAACTGAG
65 TATTTTAATTTTA-TTTCCAAAC-GAG
* * ** * * * ** *
11184138 -TATGAAAACTAACTAAAAATCTATTTCGGGATGTATTCCAGTTGTTCAACGGA-TTTATTACAT
1 AAATTAAAGGTAAAT-AAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
11184201 T
65 T
11184202 TTGATTTTGT
Statistics
Matches: 274, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
86 12 0.04
87 16 0.06
88 45 0.16
89 200 0.73
90 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (89 bp):
AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
ATTTTAATTTTATTTCCAAACGAG
Found at i:11208276 original size:7 final size:7
Alignment explanation
Indices: 11208264--11208299 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
11208254 TTACTCGAAT
11208264 CCTAAAC
1 CCTAAAC
11208271 CCTAAAC
1 CCTAAAC
11208278 CCTAAAAC
1 CCT-AAAC
*
11208286 CTTAAAC
1 CCTAAAC
11208293 CCTAAAC
1 CCTAAAC
11208300 ACTTTCAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:11208291 original size:15 final size:15
Alignment explanation
Indices: 11208267--11208298 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11208257 CTCGAATCCT
11208267 AAACCCTAAACCCTA
1 AAACCCTAAACCCTA
*
11208282 AAACCTTAAACCCTA
1 AAACCCTAAACCCTA
11208297 AA
1 AA
11208299 CACTTTCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:11215168 original size:32 final size:32
Alignment explanation
Indices: 11215127--11215191 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
11215117 TGAGGGGGAG
*
11215127 TGTTGGAATCCTTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
11215159 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
11215191 T
1 T
11215192 TACCTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTTGGAATCCCTATAATTAAGGATAGAAATC
Found at i:11217121 original size:40 final size:40
Alignment explanation
Indices: 11217023--11217285 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
11217013 TCCTCGTTCA
* * * ** *
11217023 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
11217062 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
11217102 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
11217142 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
11217182 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
11217222 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
11217262 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11217286 CAGCATTCAC
Statistics
Matches: 197, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.19
40 152 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:11217167 original size:80 final size:79
Alignment explanation
Indices: 11217023--11217285 Score: 334
Period size: 80 Copynumber: 3.3 Consensus size: 79
11217013 TCCTCGTTCA
* * * * *
11217023 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
11217088 TAACAACTCGCACG
66 TAACAACTCGCACG
*
11217102 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
11217167 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
11217182 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGA
* * *
11217246 TATATTC-ACTTAGCAC-
64 TTTA-ACAAC-TCGCACG
* *
11217262 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11217286 CAGCATTCAC
Statistics
Matches: 164, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
79 37 0.23
80 121 0.74
81 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:11222321 original size:17 final size:17
Alignment explanation
Indices: 11222289--11222322 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11222279 TTAAAATTAG
11222289 ATTGAGAAATTTATTTA
1 ATTGAGAAATTTATTTA
11222306 ATTGA-AAATTTAATTTA
1 ATTGAGAAATTT-ATTTA
11222323 GTTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
ATTGAGAAATTTATTTA
Found at i:11222895 original size:74 final size:74
Alignment explanation
Indices: 11222748--11222896 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 74
11222738 GCCTAAACGA
* *
11222748 AATGTTCGAAGTATAAATTGTGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
1 AATGTCCGAAGTATAAATTGCGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
* *
11222813 CTTTATCAG
66 CCTCATCAG
** *
11222822 AATGTCCGAAGTATAAATTGCGCTTCGTGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCGCA
1 AATGTCCGAAGTATAAATTGCGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
11222887 CCTCATCAG
66 CCTCATCAG
11222896 A
1 A
11222897 CTTCCAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (74 bp):
AATGTCCGAAGTATAAATTGCGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
CCTCATCAG
Found at i:11228209 original size:17 final size:18
Alignment explanation
Indices: 11228189--11228227 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
11228179 TGACTGATTT
11228189 GGGCGTGTGGG-CCACAC
1 GGGCGTGTGGGCCCACAC
11228206 GGGCGTGTGGGCCCACAC
1 GGGCGTGTGGGCCCACAC
11228224 GGGC
1 GGGC
11228228 ATGCCACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.10, C:0.31, G:0.49, T:0.10
Consensus pattern (18 bp):
GGGCGTGTGGGCCCACAC
Found at i:11228734 original size:24 final size:23
Alignment explanation
Indices: 11228689--11228734 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
11228679 ATACCACACG
* **
11228689 TGGTGTGTTGGGATGGTTGAAGT
1 TGGTGTGTAGGGATGGGGGAAGT
11228712 TGGTGTGTAGAGGATGGGGGAAG
1 TGGTGTGTAG-GGATGGGGGAAG
11228735 GACTATGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.30
Consensus pattern (23 bp):
TGGTGTGTAGGGATGGGGGAAGT
Found at i:11235076 original size:23 final size:23
Alignment explanation
Indices: 11235046--11235093 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
11235036 TTCACCAAGT
*
11235046 ATAAAATTTTTAACCCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
11235069 ATAAAATTTTAAACCCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
11235092 AT
1 AT
11235094 GACTCAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATTTTAAACCCTATTAAC
Found at i:11235239 original size:19 final size:19
Alignment explanation
Indices: 11235204--11235240 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11235194 AAATGCATAC
*
11235204 TGGCACACAAGGCGCATCT
1 TGGCACACAAAGCGCATCT
*
11235223 TGGCACACAAAGTGCATC
1 TGGCACACAAAGCGCATC
11235241 CTAGTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (19 bp):
TGGCACACAAAGCGCATCT
Found at i:11237932 original size:30 final size:30
Alignment explanation
Indices: 11237898--11237959 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
11237888 TGATCTACCA
11237898 TAATTTGATATGAAAAATTAAGTTCTTTTT
1 TAATTTGATATGAAAAATTAAGTTCTTTTT
11237928 TAATTTGATATGAAAAATTAAGTTCTTTTT
1 TAATTTGATATGAAAAATTAAGTTCTTTTT
11237958 TA
1 TA
11237960 CACTTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (30 bp):
TAATTTGATATGAAAAATTAAGTTCTTTTT
Found at i:11239874 original size:33 final size:34
Alignment explanation
Indices: 11239836--11239908 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 34
11239826 TTTTTTCTTG
** **
11239836 CTATTTTTGTTGTTGTTTTGCTGCTAT-TTGCTA
1 CTATTTTTGTTGTCATTTTGCCACTATATTGCTA
*
11239869 CTA-TTTTGTTGTCATTTTGCCATTATATTGCTA
1 CTATTTTTGTTGTCATTTTGCCACTATATTGCTA
11239902 CTATTTT
1 CTATTTT
11239909 AGAGACTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 18 0.55
33 12 0.36
34 3 0.09
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (34 bp):
CTATTTTTGTTGTCATTTTGCCACTATATTGCTA
Found at i:11263210 original size:13 final size:13
Alignment explanation
Indices: 11263192--11263219 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11263182 GACTTGAATA
11263192 ATGTTTTGATGAT
1 ATGTTTTGATGAT
11263205 ATGTTTTGATGAT
1 ATGTTTTGATGAT
11263218 AT
1 AT
11263220 AAATGTGGTA
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:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:11268250 original size:19 final size:20
Alignment explanation
Indices: 11268226--11268274 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
11268216 TTGTTAGTAA
11268226 TTTTTGTGATTAGGTTAAT-
1 TTTTTGTGATTAGGTTAATG
*
11268245 TTTTTGT--TTAGTTTAATG
1 TTTTTGTGATTAGGTTAATG
11268263 TTTATTGTGATT
1 TTT-TTGTGATT
11268275 TGGTAGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TTTTTGTGATTAGGTTAATG
Found at i:11268255 original size:17 final size:18
Alignment explanation
Indices: 11268223--11268261 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11268213 ATTTTGTTAG
11268223 TAATTTTTGTGATTAGGT
1 TAATTTTTGTGATTAGGT
* *
11268241 TAATTTTT-TGTTTAGTT
1 TAATTTTTGTGATTAGGT
11268258 TAAT
1 TAAT
11268262 GTTTATTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TAATTTTTGTGATTAGGT
Found at i:11276746 original size:39 final size:38
Alignment explanation
Indices: 11276697--11276796 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 38
11276687 CGAATATAAT
*
11276697 AATTATAATTACCATAATTATAATAATATTTGA-CCAAAA
1 AATTATAATTACCATAATTATAATAATATTCGATCC--AA
* *
11276736 AATTACAATTA-CAGTAATTATAATAATATTCGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTCGATCCAA
*
11276774 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
11276797 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 22 0.42
39 29 0.55
40 2 0.04
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTCGATCCAA
Found at i:11280054 original size:41 final size:42
Alignment explanation
Indices: 11279965--11280069 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
11279955 TACATGTTTA
* * * * * *
11279965 TACTTCAGTTTATCCAATGATGCACTTTTGTGCCATTATATT
1 TACTTCGGTTTATCCGATGATGCACTTATGTGCAAGTATATC
*
11280007 TGCTTCGGTTTATCCGATGATGCAC-TATGTGCAAGTATGA-C
1 TACTTCGGTTTATCCGATGATGCACTTATGTGCAAGTAT-ATC
*
11280048 TACTTCGGTTTATTCGATGATG
1 TACTTCGGTTTATCCGATGATG
11280070 AATTGCAACG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 30 0.57
42 23 0.43
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (42 bp):
TACTTCGGTTTATCCGATGATGCACTTATGTGCAAGTATATC
Found at i:11283335 original size:40 final size:40
Alignment explanation
Indices: 11283280--11283428 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
11283270 TATGTCATGA
*
11283280 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCCAGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
* * * * *
11283320 GATTATCAGGCTTAGTGCATAACAGGCTTTGTGTTGGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
* *
11283360 GATTATTAGGCTTAGTGCCTAGAAGGCTTTATGCTAGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
* * *
11283400 -AGTTATTAGACTTAGTGCCTCGTAGGCTT
1 GA-TTATTAGGCTTAGTGCCTAGCAGGCTT
11283429 CGTGTGGATG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 91 0.99
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (40 bp):
GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
Found at i:11283722 original size:21 final size:21
Alignment explanation
Indices: 11283696--11283739 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
11283686 TATTGGTATA
11283696 CTTCAGTGGTATAACGAAATC
1 CTTCAGTGGTATAACGAAATC
*
11283717 CTTCAGTGGTATAATGAAATC
1 CTTCAGTGGTATAACGAAATC
11283738 CT
1 CT
11283740 ACTTGGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (21 bp):
CTTCAGTGGTATAACGAAATC
Found at i:11284035 original size:10 final size:10
Alignment explanation
Indices: 11284007--11284036 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
11283997 TAGTTTTAGG
11284007 TTTAGTTTTC
1 TTTAGTTTTC
11284017 TTTAGGTTTTC
1 TTTA-GTTTTC
11284028 TTTAGTTTT
1 TTTAGTTTT
11284037 TCTCTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:11289911 original size:55 final size:54
Alignment explanation
Indices: 11289809--11289916 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
11289799 ACCTTCGAAC
*
11289809 TAGGGACACACGGCCATGTCCTAGCCCATGTCCTCACCCATGTAACTCTCTAAG
1 TAGGGACACACGGCCATGTCCTAGCCCATGTCCTCACCCATGTAACTCACTAAG
* * * *
11289863 TAGGGTCACACGGGCATGTCAC-ACGCCCATGT-CTCAGGCTATGTAACTCACTAA
1 TAGGGACACACGGCCATGTC-CTA-GCCCATGTCCTCA-CCCATGTAACTCACTAA
11289917 CTTGCACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
54 23 0.50
55 23 0.50
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (54 bp):
TAGGGACACACGGCCATGTCCTAGCCCATGTCCTCACCCATGTAACTCACTAAG
Found at i:11293021 original size:50 final size:50
Alignment explanation
Indices: 11292926--11293026 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
11292916 TGTGTCAAAT
* * *
11292926 ATCACGTCTGGCTTGCAAAGAAAGGTATAGTTTTCACTATAGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATAATTTACACTATAGTTTGTCTG
* * *
11292976 ATCACATCTGGCTTGCAACGAAAGGTATAATTCTAC-CTTTTGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATAATT-TACACTATAGTTTGTCTG
11293026 A
1 A
11293027 AGTTAATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (50 bp):
ATCACATCTGGCTTGCAAAGAAAGGTATAATTTACACTATAGTTTGTCTG
Found at i:11298053 original size:20 final size:20
Alignment explanation
Indices: 11298029--11298077 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
11298019 TGCTACTAAC
* *
11298029 GATTTAAATCTGCTTCAATCT
1 GATTTAAATCCGCTGCAAT-T
11298050 -ATTTAAATCCGCTGCAATT
1 GATTTAAATCCGCTGCAATT
11298069 GATTTAAAT
1 GATTTAAAT
11298078 ATGTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
GATTTAAATCCGCTGCAATT
Found at i:11301937 original size:3 final size:3
Alignment explanation
Indices: 11301931--11302065 Score: 59
Period size: 3 Copynumber: 43.3 Consensus size: 3
11301921 AGTCCTTTTT
* *
11301931 TTA TTA TTC TTG TTA TGTTA TTGA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA T-T-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11301978 GGTA TTA TTA TT- GTA TTA GT- TTA TATA TCTA TTTA CCTT- TTA TATA
1 -TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA --TTA TTA T-TA
*
11302024 TTA TT- TTA TT- TTA TTA TGTA TTA TTA TT- TTAA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T
11302066 CATATATATC
Statistics
Matches: 103, Mismatches: 13, Indels: 32
0.70 0.09 0.22
Matches are distributed among these distances:
2 12 0.12
3 64 0.62
4 22 0.21
5 5 0.05
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11301975 original size:18 final size:17
Alignment explanation
Indices: 11301929--11302065 Score: 72
Period size: 18 Copynumber: 7.9 Consensus size: 17
11301919 TTAGTCCTTT
* *
11301929 TTTTATTATTCTTGTTA
1 TTTTATTATTATTATTA
*
11301946 TGTTATTGATTATTATTA
1 TTTTATT-ATTATTATTA
11301964 --TTATTATTATTA-TA
1 TTTTATTATTATTATTA
* *
11301978 GGTATTATTATT-GTATTA
1 --TTTTATTATTATTATTA
*
11301996 GTTTA-TA-TATCTATTTA
1 TTTTATTATTAT-TA-TTA
11302013 CCTTTTATATATTATT-TTA
1 --TTTTAT-TATTATTATTA
11302032 TTTTATTATGTATTATTA
1 TTTTATTAT-TATTATTA
*
11302050 TTTTAATTATTTTTAT
1 TTTT-ATTATTATTAT
11302066 CATATATATC
Statistics
Matches: 94, Mismatches: 9, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.03
15 9 0.10
16 13 0.14
17 21 0.22
18 30 0.32
19 12 0.13
21 3 0.03
22 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTATTATTATTATTA
Found at i:11302035 original size:17 final size:18
Alignment explanation
Indices: 11301997--11302054 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
11301987 ATTGTATTAG
11301997 TTTATATATCTA-TTTACCT
1 TTTATATATCTATTTTA--T
11302016 TTTATATAT-TATTTTAT
1 TTTATATATCTATTTTAT
*
11302033 TTTAT-TATGTATTATTAT
1 TTTATATATCTATT-TTAT
11302051 TTTA
1 TTTA
11302055 ATTATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.08
17 10 0.28
18 10 0.28
19 13 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATATATCTATTTTAT
Found at i:11308485 original size:22 final size:22
Alignment explanation
Indices: 11308466--11308509 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11308456 CATAAATATT
* *
11308466 TTCAAATATATATAATAATAAA
1 TTCAAAAATATATAAAAATAAA
11308488 TTCAAAAATATATAAAAATAAA
1 TTCAAAAATATATAAAAATAAA
11308510 ATAATATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
TTCAAAAATATATAAAAATAAA
Found at i:11309316 original size:49 final size:51
Alignment explanation
Indices: 11309263--11309359 Score: 121
Period size: 49 Copynumber: 1.9 Consensus size: 51
11309253 ATTTAAATTT
* *
11309263 AAATTTATTATTATGT-TTTTT--AAATAATTTTTGT-TTTTATATATTTCTC
1 AAATTCATTATTATGTCTTTTTGAAAAT-ATTTATGTATTTT-TATATTTCTC
*
11309312 AAATTCATTATTATTTCTTTTTGAAAATATTTATGTATTTTTATATTT
1 AAATTCATTATTATGTCTTTTTGAAAATATTTATGTATTTTTATATTT
11309360 TTTTAGAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 14 0.34
50 5 0.12
51 14 0.34
52 8 0.20
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (51 bp):
AAATTCATTATTATGTCTTTTTGAAAATATTTATGTATTTTTATATTTCTC
Found at i:11311356 original size:16 final size:17
Alignment explanation
Indices: 11311335--11311380 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
11311325 TCGGGTTGAG
11311335 AAAATTATTTAATTAA-
1 AAAATTATTTAATTAAT
*
11311351 AAAATTAATTAATTAATT
1 AAAATTATTTAATTAA-T
11311369 AAAATTAATTTA
1 AAAATT-ATTTA
11311381 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTATTTAATTAAT
Found at i:11332751 original size:45 final size:45
Alignment explanation
Indices: 11332687--11332832 Score: 195
Period size: 45 Copynumber: 3.2 Consensus size: 45
11332677 GTAACGATAG
* * *
11332687 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
* * *
11332732 CAGTAACGGTAACAGTATTCGACACACAAAGTG-TCAAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAATCAGTAA
* *
11332777 CAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
*
11332822 TAGTAACAGTA
1 CAGTAACAGTA
11332833 GTCGGCACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 86 0.99
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
Found at i:11333089 original size:40 final size:39
Alignment explanation
Indices: 11333034--11333121 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
11333024 AATTCATTAC
* * * *
11333034 TTCAGTAATTTCACAATTCAGTGCATTATACATAACAATA
1 TTCAGTATTTTCACAATTCACT-CAGTATACAAAACAATA
*
11333074 TTCAGTATTTTCACAATTCACTCAGTATTCAAAACAATA
1 TTCAGTATTTTCACAATTCACTCAGTATACAAAACAATA
*
11333113 TCCAGTATT
1 TTCAGTATT
11333122 CCCTAATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 22 0.52
40 20 0.48
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (39 bp):
TTCAGTATTTTCACAATTCACTCAGTATACAAAACAATA
Found at i:11333790 original size:8 final size:8
Alignment explanation
Indices: 11333777--11333831 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
11333767 GTTTATTTAA
11333777 AATATAAT
1 AATATAAT
11333785 AATATAAT
1 AATATAAT
11333793 AATATAAT
1 AATATAAT
* *
11333801 -ATAATTTAC
1 AAT-A-TAAT
11333810 AATATAAT
1 AATATAAT
*
11333818 AAAATAAT
1 AATATAAT
11333826 AATATA
1 AATATA
11333832 CTTCAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 2 0.05
8 31 0.82
9 3 0.08
10 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATAAT
Found at i:11339105 original size:31 final size:31
Alignment explanation
Indices: 11339068--11339129 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11339058 AGATAATTTT
11339068 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
11339099 AAAGAGTTTTATTAGGATTCACTTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
11339130 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:11350298 original size:14 final size:14
Alignment explanation
Indices: 11350275--11350307 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11350265 ATTTAATAAA
11350275 TAAAAATCTAAAAC
1 TAAAAATCTAAAAC
*
11350289 TAAAAGTCTAAAAC
1 TAAAAATCTAAAAC
11350303 TAAAA
1 TAAAA
11350308 CACAATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAAAATCTAAAAC
Found at i:11353613 original size:28 final size:28
Alignment explanation
Indices: 11353580--11353678 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
11353570 TAATGAGACT
* **
11353580 AGCACTAAGTGTACGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTTTAAGGGTAA
*
11353607 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAAGGGTAA
* *** *
11353636 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAAGGGTAA
11353664 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
11353679 TACTTATTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 56 0.93
29 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAAGGGTAA
Found at i:11354723 original size:47 final size:47
Alignment explanation
Indices: 11354664--11355139 Score: 519
Period size: 47 Copynumber: 10.1 Consensus size: 47
11354654 CTAAATTTGA
* * * * *
11354664 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * * * *
11354710 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * * * * *
11354757 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * *
11354804 TGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATTTATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * *
11354851 TGTCCAATTGTGAGTATATTTAAGCTATCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * * * * *
11354898 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * *
11354945 TGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATTTATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
* * ** * *
11354992 TGTCCAATTGTGAGTATATTTAAGCTATGTAATTTTATGTATAATGT
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
*
11355039 TGTCCAATTTTGGGTATATTTAAGCTG-CCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTTAAGCTGTCC-AATTTGATGTATAATGC
* * * *
11355086 TGTCC-ATTTTGAGCATA-TTATTGCTGTCCAATTTGTTGAATAATTGC
1 TGTCCAATTTTGAGTATATTTA-AGCTGTCCAATTTGATGTATAA-TGC
11355133 TGTCCAA
1 TGTCCAA
11355140 AACAGAGTTG
Statistics
Matches: 379, Mismatches: 45, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
45 3 0.01
46 31 0.08
47 344 0.91
48 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTATATTTAAGCTGTCCAATTTGATGTATAATGC
Found at i:11354865 original size:141 final size:140
Alignment explanation
Indices: 11354702--11355139 Score: 589
Period size: 141 Copynumber: 3.1 Consensus size: 140
11354692 CATTTTAATG
* * * * *
11354702 TATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTT
1 TATAATGCTGTCCAATTGTGAGTATATTTAAGCTGTCAATTTT-ATGTATAATGCTGTCCAATTT
11354767 TGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATATTTAAGCTGT
65 TGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATATTTAAGCTGT
11354832 CTAATTTGATT
130 CTAATTTGATT
* *
11354843 TATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTTGATGTATAATGCTGTCCAATTT
1 TATAATGCTGTCCAATTGTGAGTATATTTAAGCTGTC-AATTTTATGTATAATGCTGTCCAATTT
11354908 TGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATATTTAAGCTGT
65 TGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATATTTAAGCTGT
11354973 CTAATTTGATT
130 CTAATTTGATT
*
11354984 TATAATGCTGTCCAATTGTGAGTATATTTAAGCTATGT-AATTTTATGTATAATGTTGTCCAATT
1 TATAATGCTGTCCAATTGTGAGTATATTTAAGC--TGTCAATTTTATGTATAATGCTGTCCAATT
* * * * * * * * * *
11355048 TTGGGTATATTTAAGCTG-CCTAATTTGATGTATAATGCTGTCC-ATTTTGAGCATA-TTATTGC
64 TTGAGTGTATTGATGCTGTCC-ATTTTAATATATAATGCTGTCCAATTGTGAGTATATTTA-AGC
*
11355110 TGTCCAATTTG-TT
127 TGTCTAATTTGATT
*
11355123 GAATAATTGCTGTCCAA
1 -TATAA-TGCTGTCCAA
11355140 AACAGAGTTG
Statistics
Matches: 268, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
139 5 0.02
140 28 0.10
141 229 0.85
142 4 0.01
143 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (140 bp):
TATAATGCTGTCCAATTGTGAGTATATTTAAGCTGTCAATTTTATGTATAATGCTGTCCAATTTT
GAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATATTTAAGCTGTC
TAATTTGATT
Found at i:11361578 original size:28 final size:27
Alignment explanation
Indices: 11361545--11361643 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 27
11361535 TAATGAGACT
11361545 AGCACTAAGTGTACGAGTTTAATTGAA
1 AGCACTAAGTGTACGAGTTTAATTGAA
* * **
11361572 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTACGAGTTTAATTG-AA
* *
11361601 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTACGAGTTTAATTGA--A
11361629 AGCACTAAGTGTACG
1 AGCACTAAGTGTACG
11361644 TACTTATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 54 0.92
29 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTACGAGTTTAATTGAA
Found at i:11362689 original size:47 final size:47
Alignment explanation
Indices: 11362630--11363151 Score: 543
Period size: 47 Copynumber: 11.1 Consensus size: 47
11362620 CTAAATTTGA
* * *
11362630 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* ** * *
11362676 TGTCCAATTTTGAGTGTATTGTTGCTGCCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * *
11362723 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * * *
11362770 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * * * *
11362817 TGTCC-ATTGTGAGTATATTTAAGCTGTCTAATTTGATTTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * * * *
11362863 TGTCCAATTGTGAGTATATTTAAGCTATCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * * *
11362910 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * * * *
11362957 TGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATTTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * * * *
11363004 TGTCCAATTGTGAGTATATTTAAGCTATCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
* * *
11363051 TGTCCAATTTTGGGTATATTTAAGCTG-CCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTATATTGAAGCTGTCC-AATTTAATGTATAATGC
* * ** *
11363098 TGTCC-ATTTTTA-TCATATT-ATTGCTGTCCAATTTGTTGAATAATTGC
1 TGTCCAATTTTGAGT-ATATTGA-AGCTGTCCAATTTAATGTATAA-TGC
11363145 TGTCCAA
1 TGTCCAA
11363152 AATAGAGTTG
Statistics
Matches: 425, Mismatches: 43, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.00
46 70 0.16
47 352 0.83
48 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATGTATAATGC
Found at i:11363026 original size:141 final size:141
Alignment explanation
Indices: 11362630--11363103 Score: 686
Period size: 141 Copynumber: 3.4 Consensus size: 141
11362620 CTAAATTTGA
* * *
11362630 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATA
* * * * * * * * * * * * *
11362694 TTGT-TGCTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTT
66 TT-TAAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTT
*
11362758 AATGTATAATGC
130 GATGTATAATGC
11362770 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCC-ATTGTGAGTATA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATA
11362834 TTTAAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTTG
66 TTTAAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTTG
11362899 ATGTATAATGC
131 ATGTATAATGC
11362910 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATA
11362975 TTTAAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTTG
66 TTTAAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTTG
11363040 ATGTATAATGC
131 ATGTATAATGC
* * * * * * *
11363051 TGTCCAATTTTGGGTATATTTAAGCTG-CCTAATTTGATGTATAATGCTGTCCA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCC-ATTTTAATATATAATGCTGTCCA
11363104 TTTTTATCAT
Statistics
Matches: 306, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
139 1 0.00
140 129 0.42
141 176 0.58
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (141 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATA
TTTAAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTTAAGCTATCTAATTTG
ATGTATAATGC
Found at i:11370512 original size:17 final size:17
Alignment explanation
Indices: 11370490--11370527 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11370480 AATTTCATCC
*
11370490 TTTACGGTAAGTTAAAG
1 TTTACGGTAAGTCAAAG
*
11370507 TTTACGTTAAGTCAAAG
1 TTTACGGTAAGTCAAAG
11370524 TTTA
1 TTTA
11370528 AGTTTATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (17 bp):
TTTACGGTAAGTCAAAG
Found at i:11376426 original size:21 final size:21
Alignment explanation
Indices: 11376400--11376472 Score: 110
Period size: 21 Copynumber: 3.5 Consensus size: 21
11376390 TTCTTTTGAA
11376400 CCTCTGCTTCTCTCGATGTAG
1 CCTCTGCTTCTCTCGATGTAG
*
11376421 CCTCTGCTTCTCTCGATATAG
1 CCTCTGCTTCTCTCGATGTAG
* * *
11376442 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGATGTAG
11376463 CCTCTGCTTC
1 CCTCTGCTTC
11376473 CCTCACTGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.08, C:0.37, G:0.16, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGATGTAG
Found at i:11376481 original size:21 final size:21
Alignment explanation
Indices: 11376400--11376492 Score: 107
Period size: 21 Copynumber: 4.4 Consensus size: 21
11376390 TTCTTTTGAA
*
11376400 CCTCTGCTTCTCTCGATGTAG
1 CCTCTGCTTCTCTCGATGCAG
**
11376421 CCTCTGCTTCTCTCGATATAG
1 CCTCTGCTTCTCTCGATGCAG
* *
11376442 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGATGCAG
* *
11376463 CCTCTGCTTCCCTC-ACTGCCG
1 CCTCTGCTTCTCTCGA-TGCAG
11376484 CCTCTGCTT
1 CCTCTGCTT
11376493 TTAGTTGTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.08, C:0.40, G:0.16, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGATGCAG
Found at i:11379293 original size:13 final size:12
Alignment explanation
Indices: 11379266--11379304 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11379256 CTAAATAAAC
11379266 TTCATTCAGAAA
1 TTCATTCAGAAA
*
11379278 TTCATTTAGAAAA
1 TTCATTCAG-AAA
*
11379291 TTCATTCAGCAA
1 TTCATTCAGAAA
11379303 TT
1 TT
11379305 TGTATGTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (12 bp):
TTCATTCAGAAA
Found at i:11379557 original size:18 final size:18
Alignment explanation
Indices: 11379534--11379568 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11379524 TTTGCCCTTA
*
11379534 GTAATCGGCAGAGGCAAC
1 GTAATCGACAGAGGCAAC
11379552 GTAATCGACAGAGGCAA
1 GTAATCGACAGAGGCAA
11379569 ACCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.31, T:0.11
Consensus pattern (18 bp):
GTAATCGACAGAGGCAAC
Found at i:11380393 original size:20 final size:20
Alignment explanation
Indices: 11380368--11380405 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11380358 AGTAATGCAT
*
11380368 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
11380388 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
11380406 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:11380802 original size:21 final size:21
Alignment explanation
Indices: 11380778--11380823 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11380768 CCGTAAATCA
11380778 TAAACCCCAAA-CTATAAACCC
1 TAAACCCCAAATC-ATAAACCC
*
11380799 TAAACCCCAAATCATAAACCT
1 TAAACCCCAAATCATAAACCC
11380820 TAAA
1 TAAA
11380824 TCTTAAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
TAAACCCCAAATCATAAACCC
Found at i:11380837 original size:14 final size:14
Alignment explanation
Indices: 11380799--11380837 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
11380789 CTATAAACCC
*
11380799 TAAACCCCAAATCA
1 TAAACCCTAAATCA
* *
11380813 TAAACCTTAAATCT
1 TAAACCCTAAATCA
11380827 TAAACCCTAAA
1 TAAACCCTAAA
11380838 CCCTCAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:11381024 original size:14 final size:13
Alignment explanation
Indices: 11381001--11381049 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
11380991 AAAACTAGCC
*
11381001 AAACCCTAAAGTCT
1 AAACCATAAA-TCT
11381015 AAACCATAAATCAT
1 AAACCATAAATC-T
11381029 AAACCAT-AATCCT
1 AAACCATAAAT-CT
11381042 AAACCATA
1 AAACCATA
11381050 TCTTTCGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 13 0.42
14 18 0.58
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACCATAAATCT
Found at i:11381044 original size:13 final size:13
Alignment explanation
Indices: 11381013--11381049 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11381003 ACCCTAAAGT
11381013 CTAAACCATAAATC
1 CTAAACCAT-AATC
*
11381027 ATAAACCATAATC
1 CTAAACCATAATC
11381040 CTAAACCATA
1 CTAAACCATA
11381050 TCTTTCGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (13 bp):
CTAAACCATAATC
Found at i:11381849 original size:113 final size:113
Alignment explanation
Indices: 11381712--11382210 Score: 615
Period size: 115 Copynumber: 4.4 Consensus size: 113
11381702 TCTATAGCTG
* *
11381712 AAGACCAAACGCTGCGTTTCGGTTAAGATATTTTGCGGTGCTTTTTATATTGCGCCGCTAATACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATACT
* * * *
11381777 GTGATTTAGCGGCGAGTTTCATAAGCGCCACTAATTCTAATATGCCTG
66 GTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAATATACCTC
* * *
11381825 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATATAACGCCGCTAATACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATACT
* * **
11381890 GTGCTTTAGAGGCGTTTTTCATAAGCGCCACTAATTCTGGTATACCTC
66 GTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAATATACCTC
* * * * *
11381938 AAGACAAAAACACTGCATTTTTGGTTAAGATATTTTTCGGTGCTTTTTTTATAGCGCCGCTAATA
1 AAGAC-CAAACGCTGC-GTTTTGGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATA
* * *
11382003 CTGTGCTTTAGCGGC-ATTTTTCGTAAGTGCCACTAATTCTGATATACCTC
64 CTGTGCTTTAGCGGCGA-TTTTCATAAGCGCCACTAATTCTAATATACCTC
* * * * * *
11382053 AAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCGATGCTTTTTATATTGTGCCGCTAATGC
1 AAGACC-AAACGCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATAC
* *
11382118 TGTGCTTTAGCAGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTC
65 TGTGCTTTAGCGGCGATTTT-CATAAGCGCCACTAATTCTAATATACCTC
* ** * * *
11382168 AAGCCCCTACGCTGCGTTTTGTTTAACAT-TTTCTGCGGCGCTT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTT-TGCGGTGCTT
11382211 ACAAATGAAC
Statistics
Matches: 329, Mismatches: 50, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
113 108 0.33
114 92 0.28
115 129 0.39
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (113 bp):
AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATACT
GTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAATATACCTC
Found at i:11382001 original size:228 final size:230
Alignment explanation
Indices: 11381732--11382170 Score: 643
Period size: 228 Copynumber: 1.9 Consensus size: 230
11381722 GCTGCGTTTC
*
11381732 GGTTAAGATATTTTGCGGTGCTTTTTATATTGCGCCGCTAATACTGTGATTTAGCGGCGA-GTTT
1 GGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATACTGTGATTTAGCGGC-ATGTTT
* * * *
11381796 CATAAGCGCCACTAATTCTAATATGCCTGAAGACC-AAACGCTGCGTTTTGGTTAAGATATTTTG
65 CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTG
* *
11381860 TGGCGCTTTTTATATAACGCCGCTAATACTGTGCTTTAG-AGGCGTTTTT-CATAAGCGCCACTA
130 CGACGCTTTTTATATAACGCCGCTAATACTGTGCTTTAGCA-GCGTTTTTGCATAAGCGCCACTA
**
11381923 ATTCTGGTATACCTCAAGACAAAAACACTGCATTTTT
194 ATTCTAATATACCTCAAGACAAAAACACTGCATTTTT
* * * *
11381960 GGTTAAGATATTTTTCGGTGCTTTTTTTATAGCGCCGCTAATACTGTGCTTTAGCGGCATTTTTC
1 GGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATACTGTGATTTAGCGGCATGTTTC
* * *
11382025 GTAAGTGCCACTAATTCTGATATACCTCAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGC
66 ATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGC
* *** *
11382090 GATGCTTTTTATATTGTGCCGCTAATGCTGTGCTTTAGCAGCGTTTTTGCATAAGCGCCACTAAT
131 GACGCTTTTTATATAACGCCGCTAATACTGTGCTTTAGCAGCGTTTTTGCATAAGCGCCACTAAT
11382155 TCTAATATACCTCAAG
196 TCTAATATACCTCAAG
11382171 CCCCTACGCT
Statistics
Matches: 186, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
227 1 0.01
228 87 0.47
229 67 0.36
230 31 0.17
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (230 bp):
GGTTAAGATATTTTGCGGTGCTTTTTATATAGCGCCGCTAATACTGTGATTTAGCGGCATGTTTC
ATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGC
GACGCTTTTTATATAACGCCGCTAATACTGTGCTTTAGCAGCGTTTTTGCATAAGCGCCACTAAT
TCTAATATACCTCAAGACAAAAACACTGCATTTTT
Found at i:11392087 original size:27 final size:27
Alignment explanation
Indices: 11392021--11392117 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
11392011 TCTCGATAAG
* * **
11392021 CTATCTCACTTTAAATTTCTAGACAGA
1 CTATCTCACTTTTAATTTCTTGATGGA
**
11392048 CTATCTCGTTTTTAATTTCTTGATGGA
1 CTATCTCACTTTTAATTTCTTGATGGA
* * *
11392075 CTATCCCACTTTTAATGTCCTGATGGA
1 CTATCTCACTTTTAATTTCTTGATGGA
*
11392102 TTATCTCACTTTTAAT
1 CTATCTCACTTTTAAT
11392118 GTCCCGGCGG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (27 bp):
CTATCTCACTTTTAATTTCTTGATGGA
Found at i:11392140 original size:27 final size:27
Alignment explanation
Indices: 11392021--11392166 Score: 96
Period size: 27 Copynumber: 5.4 Consensus size: 27
11392011 TCTCGATAAG
* * ** *
11392021 CTATCTCACTTTAAATTTCTAGACAGA
1 CTATCTCACTTTTAATGTCCCGACGGA
** * ** *
11392048 CTATCTCGTTTTTAATTTCTTGATGGA
1 CTATCTCACTTTTAATGTCCCGACGGA
* * *
11392075 CTATCCCACTTTTAATGTCCTGATGGA
1 CTATCTCACTTTTAATGTCCCGACGGA
* *
11392102 TTATCTCACTTTTAATGTCCCGGCGGA
1 CTATCTCACTTTTAATGTCCCGACGGA
* * * *
11392129 CTATTTCGCTTTTAATATCCC-ATCAGA
1 CTATCTCACTTTTAATGTCCCGA-CGGA
11392156 CTATCTCACTT
1 CTATCTCACTT
11392167 GCCATAACTG
Statistics
Matches: 94, Mismatches: 24, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (27 bp):
CTATCTCACTTTTAATGTCCCGACGGA
Found at i:11393298 original size:17 final size:18
Alignment explanation
Indices: 11393276--11393312 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11393266 AAAGCAACCC
*
11393276 AAGAAGAAGATGAA-AAA
1 AAGAAGAAAATGAATAAA
11393293 AAGAAGAAAATGAATAAA
1 AAGAAGAAAATGAATAAA
11393311 AA
1 AA
11393313 ATGAGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AAGAAGAAAATGAATAAA
Found at i:11396341 original size:13 final size:13
Alignment explanation
Indices: 11396323--11396353 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
11396313 AAATAATTGC
11396323 AATTAATTTAATT
1 AATTAATTTAATT
11396336 AATTAATTTAATT
1 AATTAATTTAATT
11396349 AATTA
1 AATTA
11396354 CAAGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:11399910 original size:59 final size:58
Alignment explanation
Indices: 11399800--11399911 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 58
11399790 TTTTAATGAT
* * * * *
11399800 TAACTTAGATAAAAAAAATTCATGTCACAATATGGGAACATTTGCCTAGTTCAGGATC
1 TAACTTAGACAAAAAAAATTCAAGTCACAATATGAGAACAGTTGCCAAGTTCAGGATC
* *
11399858 TAACTTAGACAAAAAGAAGTTCAAG-CATCAATATGAGAAGAGTTGCCAAGTTCA
1 TAACTTAGACAAAAA-AAATTCAAGTCA-CAATATGAGAACAGTTGCCAAGTTCA
11399912 AACCCTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 16 0.36
59 29 0.64
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (58 bp):
TAACTTAGACAAAAAAAATTCAAGTCACAATATGAGAACAGTTGCCAAGTTCAGGATC
Found at i:11400168 original size:14 final size:15
Alignment explanation
Indices: 11400146--11400174 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11400136 TATATTTTAA
11400146 ATTTAATTATTTATT
1 ATTTAATTATTTATT
11400161 ATTT-ATTATTTATT
1 ATTTAATTATTTATT
11400175 TGTACCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTAATTATTTATT
Found at i:11400832 original size:9 final size:9
Alignment explanation
Indices: 11400818--11400842 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11400808 ATGCAACTCT
11400818 AATTATTAA
1 AATTATTAA
11400827 AATTATTAA
1 AATTATTAA
11400836 AATTATT
1 AATTATT
11400843 TTTTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTATTAA
Found at i:11405450 original size:15 final size:15
Alignment explanation
Indices: 11405441--11405473 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11405431 CAAATGCTAT
11405441 AATAATAAATACAAC
1 AATAATAAATACAAC
*
11405456 AATAATAAATACATC
1 AATAATAAATACAAC
11405471 AAT
1 AAT
11405474 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:11405868 original size:28 final size:27
Alignment explanation
Indices: 11405807--11405871 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
11405797 AAACATATAC
* *
11405807 ATATAAGTAT-GAAAATATTCATAAAA
1 ATATAAATATAGAAAACATTCATAAAA
* *
11405833 AAATAAATATAGAAAACATTCGTTAAAA
1 ATATAAATATAGAAAACATTC-ATAAAA
11405861 ATATAAATATA
1 ATATAAATATA
11405872 CATACATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.25
27 9 0.28
28 15 0.47
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (27 bp):
ATATAAATATAGAAAACATTCATAAAA
Found at i:11408540 original size:20 final size:19
Alignment explanation
Indices: 11408502--11408542 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
11408492 TTTATTTTTT
11408502 ATTTTTTGAAAATTGAAAA
1 ATTTTTTGAAAATTGAAAA
11408521 ATTTGTTTGATAAATT-AAAA
1 ATTT-TTTGA-AAATTGAAAA
11408541 AT
1 AT
11408543 CATTTTCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTTTTTGAAAATTGAAAA
Found at i:11411850 original size:15 final size:16
Alignment explanation
Indices: 11411817--11411852 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
11411807 ATTTTACGTG
11411817 AAAATCCTTTCGAGAA
1 AAAATCCTTTCGAGAA
*
11411833 AAAATCCTTTCGGGAA
1 AAAATCCTTTCGAGAA
11411849 AAAA
1 AAAA
11411853 CCACTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (16 bp):
AAAATCCTTTCGAGAA
Found at i:11413768 original size:58 final size:59
Alignment explanation
Indices: 11413677--11413798 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 59
11413667 CAGTTTACTA
* *
11413677 ATGCCTTATCCATTAAGAAGTCCTCTTTTGCTTAATTGTGCCATGCCATTCTCACTCAT
1 ATGCCTTATCCATCAAGAAGTCCTCTTTTGCTTAATTCTGCCATGCCATTCTCACTCAT
* * * *
11413736 ATGCC-TATCTATCAAGAAGTCCTTTTTTGCTTAATTCTGTCATGCCATTCTCATTCAT
1 ATGCCTTATCCATCAAGAAGTCCTCTTTTGCTTAATTCTGCCATGCCATTCTCACTCAT
11413794 ATGCC
1 ATGCC
11413799 CTAGATGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 52 0.91
59 5 0.09
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.40
Consensus pattern (59 bp):
ATGCCTTATCCATCAAGAAGTCCTCTTTTGCTTAATTCTGCCATGCCATTCTCACTCAT
Found at i:11417115 original size:37 final size:37
Alignment explanation
Indices: 11417065--11417143 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
11417055 TTATTACGAA
* * *
11417065 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
11417102 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
11417139 GTCTT
1 GTCTT
11417144 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:11417348 original size:47 final size:47
Alignment explanation
Indices: 11417312--11417436 Score: 207
Period size: 47 Copynumber: 2.7 Consensus size: 47
11417302 CTCGGCCCTG
11417312 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
11417359 TCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
11417406 TCACATATATGCA-TGTTCACATCCATCACAT
1 TCACATATATACACT-TTCACATTCATCACAT
11417437 AGAATCCTAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 72 0.99
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:11420701 original size:40 final size:40
Alignment explanation
Indices: 11420644--11420826 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
11420634 CCAGCATGAT
* * *
11420644 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
11420684 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * *
11420724 TGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
11420765 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
11420805 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
11420827 CATCATTCGA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 102 0.86
41 17 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:11421172 original size:29 final size:29
Alignment explanation
Indices: 11421138--11421210 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
11421128 AATCAACCAT
*
11421138 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACTC
*
11421167 GCACACTTAGTGCCATGCATTTCAAGCTC
1 GCACACTTAGTGCCATGCATTTCAAACTC
11421196 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
11421211 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACTC
Found at i:11421256 original size:43 final size:43
Alignment explanation
Indices: 11421195--11421294 Score: 191
Period size: 43 Copynumber: 2.3 Consensus size: 43
11421185 ATTTCAAGCT
*
11421195 CGCACACTTAGTGCCAATCTCACAACCGTGACCACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
11421238 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
11421281 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11421295 TGAAAACCAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
Found at i:11423221 original size:37 final size:36
Alignment explanation
Indices: 11423161--11423238 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
11423151 TTATTACGAA
* * *
11423161 GTCTTACCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCGGACAAAATCCCCACACGAAGTCATCGG
*
11423197 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTA-CCGGACAAAATCCCCACACGAAGTCATCGG
11423234 GTCTT
1 GTCTT
11423239 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 6 0.16
37 31 0.84
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (36 bp):
GTCTTACCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:11423460 original size:47 final size:48
Alignment explanation
Indices: 11423407--11423588 Score: 217
Period size: 47 Copynumber: 3.7 Consensus size: 48
11423397 CTCGGCCCTG
* *
11423407 TCACATATATACACT-TTCACATTCATCACATCGACCATTAGGCCTTT
1 TCACATATATACACTATTCACATTCATCACATCGGCCATTAGGCCTTA
11423454 TCACATATATACACATATATACACTTTTACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACAC-TAT-T---C----ACATTCATCACATCGGCCATTAGGCCTTA
11423511 TCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTATTCACATTCATCACATCGGCCATTAGGCCTTA
* * *
11423558 TCACATATATGCA-TGTTCACATCCATCACAT
1 TCACATATATACACTATTCACATTCATCACAT
11423589 AGAATCCTAA
Statistics
Matches: 120, Mismatches: 4, Indels: 22
0.82 0.03 0.15
Matches are distributed among these distances:
46 1 0.01
47 70 0.58
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 1 0.01
57 41 0.34
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TCACATATATACACTATTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:11430489 original size:29 final size:29
Alignment explanation
Indices: 11430388--11430489 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 29
11430378 TATATTGTTT
* *
11430388 AAAAATGAAAAATATCATATGTAAAA-TATA
1 AAAAATTAAAAATATTATATG-AAAATTA-A
*
11430418 AAAAA-TAAAAAGTATGTAAATAT-AAATTTAA
1 AAAAATTAAAAA-TAT-T--ATATGAAAATTAA
* *
11430449 AAAAAATCAAAATATTATATGAAAATTAA
1 AAAAATTAAAAATATTATATGAAAATTAA
11430478 AAAAATTAAAAA
1 AAAAATTAAAAA
11430490 AATGCATTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
28 4 0.07
29 22 0.38
30 9 0.16
31 12 0.21
32 7 0.12
33 4 0.07
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (29 bp):
AAAAATTAAAAATATTATATGAAAATTAA
Found at i:11430690 original size:27 final size:27
Alignment explanation
Indices: 11430660--11430717 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
11430650 TATATATATA
11430660 TAGA-AAATTTTTAAATTTTTAGAAATT
1 TAGATAAATTTTTAAATTTTTAG-AATT
*** *
11430687 TAGATTTTTTTTTGAATTTTTAGAATT
1 TAGATAAATTTTTAAATTTTTAGAATT
11430714 TAGA
1 TAGA
11430718 GTTTTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.53
Consensus pattern (27 bp):
TAGATAAATTTTTAAATTTTTAGAATT
Found at i:11430722 original size:27 final size:28
Alignment explanation
Indices: 11430667--11430723 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
11430657 ATATAGAAAA
*
11430667 TTTTTAAATTTTTAGAAATTTAGATTTT
1 TTTTTAAATTTTTAGAAATTTAGAGTTT
*
11430695 TTTTTGAATTTTTAG-AATTTAGAGTTT
1 TTTTTAAATTTTTAGAAATTTAGAGTTT
11430722 TT
1 TT
11430724 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (28 bp):
TTTTTAAATTTTTAGAAATTTAGAGTTT
Found at i:11430778 original size:19 final size:19
Alignment explanation
Indices: 11430756--11430850 Score: 82
Period size: 19 Copynumber: 5.4 Consensus size: 19
11430746 TAAATTTTCA
11430756 ATTTTTATATAATATTTTT
1 ATTTTTATATAATATTTTT
11430775 ATTTTT-TA-AA-ATTTTT
1 ATTTTTATATAATATTTTT
*
11430791 A--TTTATAT-AT-TTTAT
1 ATTTTTATATAATATTTTT
*
11430806 AATTTTATAT-AT-TTTTT
1 ATTTTTATATAATATTTTT
*
11430823 AAATTTTTATATAATATTTTG
1 --ATTTTTATATAATATTTTT
11430844 ATTTTTA
1 ATTTTTA
11430851 AAAAAAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.05
15 8 0.13
16 7 0.11
17 15 0.24
18 2 0.03
19 22 0.35
20 2 0.03
21 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (19 bp):
ATTTTTATATAATATTTTT
Found at i:11430804 original size:9 final size:9
Alignment explanation
Indices: 11430792--11430834 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
11430782 AAAATTTTTA
11430792 TTTATATAT
1 TTTATATAT
11430801 TTTATA-AT
1 TTTATATAT
11430809 TTTATATAT
1 TTTATATAT
* *
11430818 TTTTTAAAT
1 TTTATATAT
11430827 TTT-TATAT
1 TTTATATAT
11430835 AATATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 12 0.40
9 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATATAT
Found at i:11430814 original size:17 final size:18
Alignment explanation
Indices: 11430792--11430834 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
11430782 AAAATTTTTA
11430792 TTTATATATTTTAT-AAT
1 TTTATATATTTTATAAAT
*
11430809 TTTATATATTTTTTAAAT
1 TTTATATATTTTATAAAT
11430827 TTT-TATAT
1 TTTATATAT
11430835 AATATTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATATTTTATAAAT
Found at i:11430821 original size:40 final size:39
Alignment explanation
Indices: 11430763--11430842 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 39
11430753 TCAATTTTTA
* *
11430763 TATAATATTTTTATTTTTTAAAATTTTTATTTATATATTT
1 TATAATATTTATATTTTTTAAAATTTTTATATA-ATATTT
*
11430803 TATAAT-TTTATATATTTTTTAAATTTTTATATAATATTT
1 TATAATATTTATAT-TTTTTAAAATTTTTATATAATATTT
11430842 T
1 T
11430843 GATTTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 13 0.36
40 23 0.64
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (39 bp):
TATAATATTTATATTTTTTAAAATTTTTATATAATATTT
Found at i:11430840 original size:69 final size:69
Alignment explanation
Indices: 11430750--11430912 Score: 188
Period size: 69 Copynumber: 2.4 Consensus size: 69
11430740 TTATGATAAA
* * * * * *
11430750 TTTTCAATTTTTATATAATATTTTTATTTTT-TAAAATTTTTATTTATATATTTTATAATTTTAT
1 TTTTAAATTTTTATATAATATTTTTATTTTTAAAAAAATTATATTTACATATTTTAGAATTTT-T
11430814 ATATT
65 ATATT
*
11430819 TTTTAAATTTTTATATAATATTTTGATTTTTAAAAAAAAATTATATTTACATATTTTAGAATTTT
1 TTTTAAATTTTTATATAATATTTTTATTTTT--AAAAAAATTATATTTACATATTTTAGAATTTT
*
11430884 TATTTT
64 TATATT
* *
11430890 TTTTGAACTTTT-TA-AATATTTTT
1 TTTTAAATTTTTATATAATATTTTT
11430913 GAATTATTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
69 37 0.46
70 2 0.03
71 15 0.19
72 26 0.32
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (69 bp):
TTTTAAATTTTTATATAATATTTTTATTTTTAAAAAAATTATATTTACATATTTTAGAATTTTTA
TATT
Found at i:11432077 original size:58 final size:58
Alignment explanation
Indices: 11431983--11432103 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 58
11431973 AAGGTACGTA
* * * * * *
11431983 GTGTAAGACTATTGATAAAAGACGCCATGGTAGCATGGT-ACAAGGATAAAGGTATATG
1 GTGTAAGACCATGGATAAAAGACGCCATGGCAGCATGGTAAAAAGTAT-AAGGTATACG
* ** *
11432041 GTGTAAGACCATGGATGAAAGACGTTATGGCGGCATGGTAAAAAGTATAAGGTATACG
1 GTGTAAGACCATGGATAAAAGACGCCATGGCAGCATGGTAAAAAGTATAAGGTATACG
11432099 GTGTA
1 GTGTA
11432104 CGAATATAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 46 0.88
59 6 0.12
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (58 bp):
GTGTAAGACCATGGATAAAAGACGCCATGGCAGCATGGTAAAAAGTATAAGGTATACG
Found at i:11432339 original size:28 final size:28
Alignment explanation
Indices: 11432278--11432411 Score: 97
Period size: 28 Copynumber: 4.8 Consensus size: 28
11432268 AAATAGAGAT
* * **
11432278 AGTTCATTGGGATAGTAAACACAAAAAA
1 AGTTCGTTGGGACAGTAAACACAAGGAA
* * * **
11432306 AATTCGTTGGGATAGTGAACACGGGGAA
1 AGTTCGTTGGGACAGTAAACACAAGGAA
11432334 AGTTCGTTGGGACAGTAAACACAAGGAA
1 AGTTCGTTGGGACAGTAAACACAAGGAA
* * * * * * * *
11432362 AGTCCATCGAGATAATAAACAAAAGGTA
1 AGTTCGTTGGGACAGTAAACACAAGGAA
* *
11432390 AGTCCGTTGGAACAGTAAACAC
1 AGTTCGTTGGGACAGTAAACAC
11432412 TGGGTAAGTC
Statistics
Matches: 79, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (28 bp):
AGTTCGTTGGGACAGTAAACACAAGGAA
Found at i:11436014 original size:9 final size:9
Alignment explanation
Indices: 11435938--11436013 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
11435928 GTAGTGATTC
*
11435938 AATTTGGTT
1 AATTCGGTT
*
11435947 AATTCAGTT
1 AATTCGGTT
*
11435956 AATTCGGGT
1 AATTCGGTT
11435965 AATTCGGTT
1 AATTCGGTT
*
11435974 AATTCGGGT
1 AATTCGGTT
11435983 AATTCGGTT
1 AATTCGGTT
11435992 AATTCGGTT
1 AATTCGGTT
*
11436001 AATTTGGTT
1 AATTCGGTT
11436010 AATT
1 AATT
11436014 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11436192 original size:12 final size:12
Alignment explanation
Indices: 11436175--11436199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11436165 TGTTATTTCG
11436175 GGTCGGTTAACC
1 GGTCGGTTAACC
11436187 GGTCGGTTAACC
1 GGTCGGTTAACC
11436199 G
1 G
11436200 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:11438088 original size:26 final size:26
Alignment explanation
Indices: 11438059--11438113 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
11438049 CCCAAAATTT
*
11438059 TTTTGACAATTTTA-CCCTTGGTAAAA
1 TTTTGACAATTTTATCCC-TGATAAAA
**
11438085 TTTTGATGATTTTATCCCTGATAAAA
1 TTTTGACAATTTTATCCCTGATAAAA
11438111 TTT
1 TTT
11438114 CGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTTGACAATTTTATCCCTGATAAAA
Done.