Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 35 of 143
Found at i:10499324 original size:43 final size:43
Alignment explanation
Indices: 10499278--10499560 Score: 284
Period size: 43 Copynumber: 6.6 Consensus size: 43
10499268 TGTTAGTGGC
* * *
10499278 GTTTGTGGGAAAAACGTCACTAAAGAACATGTTCTATAACGGC
1 GTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGT
* * *
10499321 GTTTGTGGGAAAAATGCCGCTAAAGAACATGTTCTATAATGGC
1 GTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGT
* * ** * * *
10499364 ATTTGTGGTAAAAACGTTGCTAAAG-ACATGTTCTACAGCGAT
1 GTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGT
* *** *
10499406 GTTTGTGGGAAAAACGCTGCTAAA-AACCACACTCTATGACGGT
1 GTTTGTGGGAAAAACGCCGCTAAAGAA-CATGTTCTATAACGGT
* *
10499449 GTTTGTGGGAAAAGCGCCGCTAAAG-ACAATGTTCTATAGCGGT
1 GTTTGTGGGAAAAACGCCGCTAAAGAAC-ATGTTCTATAACGGT
* * * * *
10499492 GTTTATGGGAAAAATGCCACTAAAGACCATGTTCTATAACAGT
1 GTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGT
* *
10499535 GTTTGTGGGAAAAGCGCCACTAAAGA
1 GTTTGTGGGAAAAACGCCGCTAAAGA
10499561 TTATATTCTA
Statistics
Matches: 194, Mismatches: 41, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
42 35 0.18
43 158 0.81
44 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (43 bp):
GTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGT
Found at i:10499515 original size:128 final size:129
Alignment explanation
Indices: 10499310--10499547 Score: 293
Period size: 128 Copynumber: 1.9 Consensus size: 129
10499300 AAGAACATGT
* * * *
10499310 TCTATAACGGCGTTTGTGGGAAAAATGCCGCTAAAGAACATGTTCTATAATGGCATTTGTGGTAA
1 TCTATAACGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGCATTTATGGGAA
*** *
10499375 AAACGTTGCTAAAGA-CATGTTCTACAGC-GATGTTTGTGGGAAAAACGCTGCTAAAAACCACAC
66 AAACGCCACTAAAGACCATGTTCTACAACAG-TGTTTGTGGGAAAAACGCTGCTAAAAACCACAC
* * * * **
10499438 TCTATGACGGTGTTTGTGGGAAAAGCGCCGCTAAAG-ACAATGTTCTATAGCGGTGTTTATGGGA
1 TCTATAACGGCGTTTGTGGGAAAAACGCCGCTAAAGAAC-ATGTTCTATAACGGCATTTATGGGA
* *
10499502 AAAATGCCACTAAAGACCATGTTCTATAACAGTGTTTGTGGGAAAA
65 AAAACGCCACTAAAGACCATGTTCTACAACAGTGTTTGTGGGAAAA
10499548 GCGCCACTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
127 2 0.02
128 63 0.69
129 25 0.27
130 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (129 bp):
TCTATAACGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTATAACGGCATTTATGGGAA
AAACGCCACTAAAGACCATGTTCTACAACAGTGTTTGTGGGAAAAACGCTGCTAAAAACCACAC
Found at i:10499860 original size:35 final size:35
Alignment explanation
Indices: 10499814--10500124 Score: 318
Period size: 35 Copynumber: 8.9 Consensus size: 35
10499804 GTGTCTTTCT
* * *
10499814 ATGAGGTATTGGCGCTGTGGTGAGATGTTAAATGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
* *
10499849 ATGAGGTATTGGCATTATGGTGGGATGTTAATTGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
* ** *
10499884 ATGAGGAATTGATGTTATGGTGTGATGTTAAATGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
* * ** *
10499919 ATGAGGTATTGGTGTTCTGACGGGATGTTAATTGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
* * *
10499954 ATGAGGAATTGGCGTTGTGGTGGGATGTTAATTGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
* * **
10499989 ATGAGGTATTTGCATTATGGCAGGATGTTAAATGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
* * * **
10500024 ATGAGGTATTGACATTGTGGCAGGATGTTAAATGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
** ***
10500059 ATGACATATTGGCGTTATTAAGGGATGTTAAATGA
1 ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
*
10500094 ATGAGGTATTGGCGTTGTGGTTGGG-TGTTAA
1 ATGAGGTATTGGCGTTATGG-TGGGATGTTAA
10500125 CGTGGAATGT
Statistics
Matches: 227, Mismatches: 48, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
35 224 0.99
36 3 0.01
ACGTcount: A:0.27, C:0.04, G:0.34, T:0.35
Consensus pattern (35 bp):
ATGAGGTATTGGCGTTATGGTGGGATGTTAAATGA
Found at i:10502161 original size:29 final size:30
Alignment explanation
Indices: 10502107--10502164 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
10502097 AGTAGTATTT
10502107 TATTAATTTAATATTAGAGTGATTATCTTAA
1 TATTAATTTAATATTA-AGTGATTATCTTAA
*
10502138 TATTAAATTTAAT-TT-AGTGTTTATCTT
1 TATT-AATTTAATATTAAGTGATTATCTT
10502165 GATAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (30 bp):
TATTAATTTAATATTAAGTGATTATCTTAA
Found at i:10524600 original size:17 final size:17
Alignment explanation
Indices: 10524580--10524621 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10524570 CTCCCTTGAC
*
10524580 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
10524597 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
10524614 CTTGTAAC
1 CTT-TAAC
10524622 TACTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:10524605 original size:24 final size:24
Alignment explanation
Indices: 10524560--10524607 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10524550 ATGGATGTTC
* *
10524560 AACCTTTCATCTCCCTTGACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
* *
10524584 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
10524608 CATATTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (24 bp):
AACCTTCCATCTCCCTTAACCTTT
Found at i:10530612 original size:5 final size:5
Alignment explanation
Indices: 10530604--10530688 Score: 60
Period size: 5 Copynumber: 17.6 Consensus size: 5
10530594 ATTTAGTCCC
*
10530604 TTTTA TTTT- TTTTA TTTGTA -TTTA -TTCA -TTTA TTTTAA TATTTAA
1 TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTT-A T-TTT-A
10530649 TTTTA -TTTA -TTTA -TTTA TTTTA TTTT- TATTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTT
10530689 GTTATTTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
4 25 0.36
5 31 0.44
6 8 0.11
7 6 0.09
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:10530629 original size:4 final size:4
Alignment explanation
Indices: 10530622--10530699 Score: 56
Period size: 4 Copynumber: 19.2 Consensus size: 4
10530612 TTTTTATTTG
* *
10530622 TATT TATT CATT TATT T-TAA TATT TAATTT TATT TATT TATT TATT T-TAT
1 TATT TATT TATT TATT TAT-T TATT T-A-TT TATT TATT TATT TATT TAT-T
*
10530672 T-TT TATT TATTT TATT T-GT TATT TATT T
1 TATT TATT TA-TT TATT TATT TATT TATT T
10530700 TTATGCCGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
3 6 0.10
4 44 0.73
5 7 0.12
6 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:10530659 original size:22 final size:24
Alignment explanation
Indices: 10530631--10530686 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
10530621 GTATTTATTC
10530631 ATTTATTTTA-ATA-TTTAATTTT
1 ATTTATTTTATATATTTTAATTTT
* *
10530653 ATTTA-TTTATTTATTTTATTTTT
1 ATTTATTTTATATATTTTAATTTT
10530676 ATTTATTTTAT
1 ATTTATTTTAT
10530687 TTGTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.14
22 7 0.24
23 13 0.45
24 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
ATTTATTTTATATATTTTAATTTT
Found at i:10530695 original size:12 final size:11
Alignment explanation
Indices: 10530604--10530703 Score: 61
Period size: 10 Copynumber: 9.1 Consensus size: 11
10530594 ATTTAGTCCC
10530604 TTTTA-TTTT-
1 TTTTATTTTTA
*
10530613 TTTTATTTGTA
1 TTTTATTTTTA
10530624 -TTTATTCATTTA
1 TTTTATT--TTTA
*
10530636 TTTTAATATTTAA
1 TTTT-AT-TTTTA
10530649 TTTTATTTATT-
1 TTTTATTT-TTA
10530660 TATTTA-TTTTA
1 T-TTTATTTTTA
*
10530671 TTTT-TATTTA
1 TTTTATTTTTA
10530681 TTTTATTTGTTA
1 TTTTATTT-TTA
10530693 -TTTATTTTTA
1 TTTTATTTTTA
10530703 T
1 T
10530704 GCCGTTTATA
Statistics
Matches: 71, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
9 5 0.07
10 25 0.35
11 15 0.21
12 13 0.18
13 10 0.14
14 2 0.03
15 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:10530702 original size:49 final size:51
Alignment explanation
Indices: 10530605--10530703 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 51
10530595 TTTAGTCCCT
*
10530605 TTTATTTTTTTTATTTGTATTTATTCATTTATTTTAATATTTAATTTTATTTA
1 TTTATTTATTTTATTTGTATTTATT-ATTTATTTT-ATATTTAATTTTATTTA
* *
10530658 TTTATTTATTTTATTTTTATTTA-T-TTTATTTGT-TATTTATTTTTAT
1 TTTATTTATTTTATTTGTATTTATTATTTATTT-TATATTTAATTTTAT
10530704 GCCGTTTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 12 0.29
50 7 0.17
51 1 0.02
52 1 0.02
53 21 0.50
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.75
Consensus pattern (51 bp):
TTTATTTATTTTATTTGTATTTATTATTTATTTTATATTTAATTTTATTTA
Found at i:10537834 original size:101 final size:100
Alignment explanation
Indices: 10537582--10538069 Score: 382
Period size: 100 Copynumber: 4.9 Consensus size: 100
10537572 GTGGGATGGA
* * *
10537582 ATGAAGTTATAACACCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACA-ATA
1 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGA-A
* * * *
10537646 GAAAGTCTTTATCTCTCAGAAGTTGCAGTGGAGCAAG
65 CAAA-TCTTTATCTCTCTGAAGTTGAAGTAGAGCAAG
* * * * * * ** *
10537683 ATAAAGC--TGCAAATCAAATTCTATATCATTGAAGTTACAGTGGATTGGATTGAAATTTTCAGA
1 ATGAAGCTATG-ACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATT-AAAGCTACAGA
*
10537746 ACCAAAT-TTTATCTCTTTGAAGTTGAAGTAGAGCAAG
64 A-CAAATCTTTATCTCTCTGAAGTTGAAGTAGAGCAAG
* * ** *
10537783 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTGGCAGTGGATCGGATTAAAGCCATTGTAG
1 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAG-AA
10537848 CAAATCTTTATCTCTCTGAAGTT-ATAGTA-AGCAAG
65 CAAATCTTTATCTCTCTGAAGTTGA-AGTAGAGCAAG
* ** * * * ** * * *
10537883 ATGAAGCTATAACCCCAAATCCTATA-CCACTAAAATTATAGTGGGTCAGATTAAAGCTACAAAA
1 ATGAAGCTATGACATCAAATCCTATATCC-TTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAA
* * * *
10537947 GCAGATCTTTATCTC-CTTGAAATTGCAGTGGAGCAAG
65 -CAAATCTTTATCTCTC-TGAAGTTGAAGTAGAGCAAG
* * * * * * * * *
10537984 ATGAAGCTACGACATCAAATCCTATATCCCTAAAGTGGAAGTGGATCGAATTGAAGATATAGAAG
1 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAA-
* *
10538049 AAAAT-ATTATCTCTCTGAAGT
65 CAAATCTTTATCTCTCTGAAGT
10538070 GACAATAGAG
Statistics
Matches: 300, Mismatches: 71, Indels: 33
0.74 0.18 0.08
Matches are distributed among these distances:
99 5 0.02
100 161 0.54
101 126 0.42
102 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (100 bp):
ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAC
AAATCTTTATCTCTCTGAAGTTGAAGTAGAGCAAG
Found at i:10537960 original size:201 final size:201
Alignment explanation
Indices: 10537582--10538031 Score: 492
Period size: 201 Copynumber: 2.2 Consensus size: 201
10537572 GTGGGATGGA
* * * * *
10537582 ATGAAGTTATAACACCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAATAG
1 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTGGCAGTGGATCGGATTAAAGCCACAATAG
* * * * * * *
10537647 AAAGTCTTTATCTCTCAGAAGTTGCAGTGGAGCAAGATAAAGCTGCAAATCAAATTCTATATCAT
66 AAAGTCTTTATCTCTCAGAAGTTACAGTGAAGCAAGATAAAGCTACAAACCAAATCCTATACCAC
* * ** ** * * * *
10537712 TGAAGTTACAGTGGATTGGATTGAAATTTTCAGAACCAAATTTTATCTCTTTGAAGTTGAAGTAG
131 TAAAATTACAGTGGATCAGATTGAAAGCTACAAAACCAAATTTTATCTCCTTGAAATTGAAGTAG
10537777 AGCAAG
196 AGCAAG
***
10537783 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTGGCAGTGGATCGGATTAAAGCCATTGTAG
1 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTGGCAGTGGATCGGATTAAAGCCACAATAG
* * * * *
10537848 CAAA-TCTTTATCTCTCTGAAGTTATAGT-AAGCAAGATGAAGCTATAACCCCAAATCCTATACC
66 -AAAGTCTTTATCTCTCAGAAGTTACAGTGAAGCAAGATAAAGCTACAA-ACCAAATCCTATACC
* * * * *
10537911 ACTAAAATTATAGTGGGTCAGATT-AAAGCTACAAAAGCAGATCTTTATCTCCTTGAAATTGCAG
129 ACTAAAATTACAGTGGATCAGATTGAAAGCTACAAAACCAAAT-TTTATCTCCTTGAAATTGAAG
*
10537975 TGGAGCAAG
193 TAGAGCAAG
* * * *
10537984 ATGAAGCTACGACATCAAATCCTATATCCCTAAAGTGGAAGTGGATCG
1 ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTGGCAGTGGATCG
10538032 AATTGAAGAT
Statistics
Matches: 206, Mismatches: 40, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
200 27 0.13
201 176 0.85
202 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (201 bp):
ATGAAGCTATGACATCAAATCCTATATCCTTGAAGTGGCAGTGGATCGGATTAAAGCCACAATAG
AAAGTCTTTATCTCTCAGAAGTTACAGTGAAGCAAGATAAAGCTACAAACCAAATCCTATACCAC
TAAAATTACAGTGGATCAGATTGAAAGCTACAAAACCAAATTTTATCTCCTTGAAATTGAAGTAG
AGCAAG
Found at i:10538642 original size:16 final size:16
Alignment explanation
Indices: 10538604--10538645 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10538594 TCCGGCCCAG
10538604 AATAAAACAAACCAAAC
1 AATAAAA-AAACCAAAC
10538621 AA-AAAAAAACCAAA-
1 AATAAAAAAACCAAAC
10538635 ATATAAAAAAA
1 A-ATAAAAAAA
10538646 TTAAATGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 9 0.39
16 11 0.48
17 2 0.09
ACGTcount: A:0.79, C:0.14, G:0.00, T:0.07
Consensus pattern (16 bp):
AATAAAAAAACCAAAC
Found at i:10540019 original size:4 final size:4
Alignment explanation
Indices: 10539985--10540076 Score: 59
Period size: 4 Copynumber: 22.8 Consensus size: 4
10539975 TTTAGTCCCT
* *
10539985 TTTA TTT- TTTA -TTA TTTGTA TTTA TTCA TTTA TTT- TAGTA TTTAA
1 TTTA TTTA TTTA TTTA -TT-TA TTTA TTTA TTTA TTTA T-TTA TTT-A
* *
10540030 TTTTA TTTA TTTA TTCTT TTTA TTT- TTTA TTTA TTT- GTTA TTTA TTT
1 -TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
10540077 TTATGCTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
3 12 0.17
4 43 0.62
5 9 0.13
6 5 0.07
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:10540021 original size:13 final size:12
Alignment explanation
Indices: 10539991--10540077 Score: 67
Period size: 13 Copynumber: 7.3 Consensus size: 12
10539981 CCCTTTTATT
*
10539991 TTTTATTATTTG
1 TTTTATTATTTA
10540003 TATTTATTCATTTA
1 T-TTTATT-ATTTA
*
10540017 TTTTAGTATTTAA
1 TTTTATTATTT-A
10540030 TTTTATTTATTTA
1 TTTTA-TTATTTA
*
10540043 --TTCTT-TTTA
1 TTTTATTATTTA
10540052 TTTT-TTATTTA
1 TTTTATTATTTA
*
10540063 -TTTGTTATTTA
1 TTTTATTATTTA
10540074 TTTT
1 TTTT
10540078 TATGCTATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
9 4 0.06
10 7 0.11
11 15 0.24
12 8 0.13
13 18 0.29
14 10 0.16
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:10540061 original size:34 final size:35
Alignment explanation
Indices: 10540003--10540076 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
10539993 TTATTATTTG
10540003 TATTTATTCATTTATTTTAGTATTTAATT-TTATT
1 TATTTATTCATTTATTTTAGTATTTAATTGTTATT
* * *
10540037 TATTTATTCTTTTTATTTT-TTATTTATTTGTTATT
1 TATTTATTC-ATTTATTTTAGTATTTAATTGTTATT
10540072 TATTT
1 TATTT
10540077 TTATGCTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 17 0.49
35 18 0.51
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (35 bp):
TATTTATTCATTTATTTTAGTATTTAATTGTTATT
Found at i:10540075 original size:15 final size:14
Alignment explanation
Indices: 10539985--10540109 Score: 53
Period size: 15 Copynumber: 8.6 Consensus size: 14
10539975 TTTAGTCCCT
*
10539985 TTTATTTTTTATTA
1 TTTATTTTTTGTTA
* * *
10539999 TTTGTATTTAT-TCA
1 TTTAT-TTTTTGTTA
*
10540013 TTTA-TTTTAG-TA
1 TTTATTTTTTGTTA
*
10540025 TTTAATTTTAT-TTA
1 TTT-ATTTTTTGTTA
* *
10540039 TTTATTCTTTTTATTT
1 TTTA-T-TTTTTGTTA
10540055 TTTATTTATTTGTTA
1 TTTATTT-TTTGTTA
*
10540070 TTTATTTTTATGCTA
1 TTTATTTTT-TGTTA
10540085 TTTATATTTTTGCCTT-
1 TTTAT-TTTTTG--TTA
10540101 TTTATTTTT
1 TTTATTTTT
10540110 GTCCTTGATT
Statistics
Matches: 83, Mismatches: 15, Indels: 25
0.67 0.12 0.20
Matches are distributed among these distances:
12 7 0.08
13 2 0.02
14 22 0.27
15 36 0.43
16 15 0.18
17 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTATTTTTTGTTA
Found at i:10541442 original size:24 final size:26
Alignment explanation
Indices: 10541401--10541459 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
10541391 TTACGAAAAT
10541401 TAATAAATTACATATAAT-AATA-AA
1 TAATAAATTACATATAATAAATATAA
*
10541425 TAATAAATTA-GTATTAATAAATATAA
1 TAATAAATTACATA-TAATAAATATAA
*
10541451 TAGTAAATT
1 TAATAAATT
10541460 TAAATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 14 0.47
25 4 0.13
26 10 0.33
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (26 bp):
TAATAAATTACATATAATAAATATAA
Found at i:10544488 original size:44 final size:42
Alignment explanation
Indices: 10544441--10544640 Score: 258
Period size: 42 Copynumber: 4.7 Consensus size: 42
10544431 TTCAATTTCC
*
10544441 CCCTCTAGATGGGGGTAAAAGATTGGATAGTGACTTCAATCTA
1 CCCTCTAGAT-GGGGTAAAAGATTGGATGGTGACTTCAATCTA
* *
10544484 CCCCTCTAGGTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTA
1 -CCCTCTAGAT-GGGGTAAAAGATTGGATGGTGACTTCAATCTA
* * *
10544528 CCCTCTGGATGGGGTAAAA-ATTGAATGGTGACTTCAAGCTA
1 CCCTCTAGATGGGGTAAAAGATTGGATGGTGACTTCAATCTA
* * * * *
10544569 CCCTCTGGTTAGGGTAAAAGATTGGATGGTGGCTTCAATCTG
1 CCCTCTAGATGGGGTAAAAGATTGGATGGTGACTTCAATCTA
*
10544611 CCCTCTAGATGTGGTAAAAGATTGGATGGT
1 CCCTCTAGATGGGGTAAAAGATTGGATGGT
10544641 AGCTTAAATT
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
41 36 0.26
42 53 0.39
43 8 0.06
44 39 0.29
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (42 bp):
CCCTCTAGATGGGGTAAAAGATTGGATGGTGACTTCAATCTA
Found at i:10544595 original size:83 final size:86
Alignment explanation
Indices: 10544441--10544640 Score: 300
Period size: 83 Copynumber: 2.3 Consensus size: 86
10544431 TTCAATTTCC
* *
10544441 CCCTCTAGATGGGGGTAAAAGATTGGATAGTGACTTCAATCTACCCCTCTAGGTAGGGGTAAAAG
1 CCCTCTAGAT-GGGGTAAAAGATTGGATGGTGACTTCAAGCTACCCCTCTAGGTAGGGGTAAAAG
10544506 ATTGGATGGTGGCTTCAATCTA
65 ATTGGATGGTGGCTTCAATCTA
* *
10544528 CCCTCTGGATGGGGTAAAA-ATTGAATGGTGACTTCAAGCTA-CCCTCT-GGTTA-GGGTAAAAG
1 CCCTCTAGATGGGGTAAAAGATTGGATGGTGACTTCAAGCTACCCCTCTAGG-TAGGGGTAAAAG
*
10544589 ATTGGATGGTGGCTTCAATCTG
65 ATTGGATGGTGGCTTCAATCTA
*
10544611 CCCTCTAGATGTGGTAAAAGATTGGATGGT
1 CCCTCTAGATGGGGTAAAAGATTGGATGGT
10544641 AGCTTAAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
83 49 0.48
84 17 0.17
85 19 0.18
86 9 0.09
87 9 0.09
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (86 bp):
CCCTCTAGATGGGGTAAAAGATTGGATGGTGACTTCAAGCTACCCCTCTAGGTAGGGGTAAAAGA
TTGGATGGTGGCTTCAATCTA
Found at i:10544722 original size:42 final size:42
Alignment explanation
Indices: 10544658--10545002 Score: 476
Period size: 42 Copynumber: 8.1 Consensus size: 42
10544648 ATTTGCCTTC
*
10544658 TGGTGGCCTT-AATCTGCCCTCTGGTTGGGGTAAGAGATTGGA
1 TGGTGG-CTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
* * *
10544700 TGGTGGCTTCAATCTGCTCTCTGGTTGGGGCAAAAGATTCGA
1 TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
* * *
10544742 TGGTGGTTTCATTCTGCTCTCTGGTTGGGGTAAAAGATTGGA
1 TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
* * * *
10544784 TGGTGGCTTCAATCTACCCTATGGATGGGGTAAAATATTGGA
1 TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
* * *
10544826 TTGTGGCTTCAATCTGCCCTTTGGTTGGAGTAAAAGATTGGA
1 TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
*
10544868 TGGTGGCTTCAATCTGCCCTCTGGTTGAGGTAAAAGATTGGA
1 TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
*
10544910 TGGTGGCTTCAATCTGCCCTCTGATTGGGGTAAAAGATTGGA
1 TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
* *
10544952 TGGTGGCTTCAATCTGCCCCTCTTGATTTAGGGGTAAAATATTGGA
1 TGGTGGCTTCAATCTG-CCCTC-TG-GTT-GGGGTAAAAGATTGGA
10544998 TGGTG
1 TGGTG
10545003 ATGTAACTTC
Statistics
Matches: 269, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
41 3 0.01
42 237 0.88
43 5 0.02
44 2 0.01
45 2 0.01
46 20 0.07
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (42 bp):
TGGTGGCTTCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGA
Found at i:10544723 original size:63 final size:63
Alignment explanation
Indices: 10544595--10544724 Score: 165
Period size: 63 Copynumber: 2.1 Consensus size: 63
10544585 AAAGATTGGA
* *
10544595 TGGTGGCTTCAATCTGCCCTCTAGATGTGGTAAAAGATTGGATGGTAGCTTAAATTTGCCTTC
1 TGGTGGCTTCAATCTGCCCTCTAGATGGGGTAAAAGATTGGATGGTAGCTTAAATCTGCCTTC
* * * * *
10544658 TGGTGGCCTT-AATCTGCCCTCTGGTTGGGGTAAGAGATTGGATGGTGGCTTCAATCTG-CTCTC
1 TGGTGG-CTTCAATCTGCCCTCTAGATGGGGTAAAAGATTGGATGGTAGCTTAAATCTGCCT-TC
10544721 TGGT
1 TGGT
10544725 TGGGGCAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 2 0.03
63 53 0.91
64 3 0.05
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (63 bp):
TGGTGGCTTCAATCTGCCCTCTAGATGGGGTAAAAGATTGGATGGTAGCTTAAATCTGCCTTC
Found at i:10544758 original size:147 final size:146
Alignment explanation
Indices: 10544512--10544792 Score: 375
Period size: 147 Copynumber: 1.9 Consensus size: 146
10544502 AAAGATTGGA
10544512 TGGTGGCTTCAATCTACCCTCTGGATGGGGTAAAAATTGAATGGTGACTTCAAGCTACCCTCTGG
1 TGGTGGCTTCAATCTACCCTCTGGATGGGGTAAAAATTGAATGGTGACTTCAAGCTACCCTCTGG
* * *
10544577 TTAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTAGATGTGGTAAAAGATTGGATGGTA
66 TTAGGGCAAAAGATTCGATGGTGGCTTCAATCTGCCCTCTAGATGGGGTAAAAGATTGGATGGTA
10544642 GCTTAAATTTGCCTTC
131 GCTTAAATTTGCCTTC
* * * * * * * *
10544658 TGGTGGCCTT-AATCTGCCCTCTGGTTGGGGTAAGAGATTGGATGGTGGCTTCAATCTGCTCTCT
1 TGGTGG-CTTCAATCTACCCTCTGGATGGGGTAA-AAATTGAATGGTGACTTCAAGCTACCCTCT
* * * * * *
10544722 GGTTGGGGCAAAAGATTCGATGGTGGTTTCATTCTGCTCTCTGGTTGGGGTAAAAGATTGGATGG
64 GGTTAGGGCAAAAGATTCGATGGTGGCTTCAATCTGCCCTCTAGATGGGGTAAAAGATTGGATGG
*
10544787 TGGCTT
129 TAGCTT
10544793 CAATCTACCC
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
146 27 0.23
147 88 0.77
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (146 bp):
TGGTGGCTTCAATCTACCCTCTGGATGGGGTAAAAATTGAATGGTGACTTCAAGCTACCCTCTGG
TTAGGGCAAAAGATTCGATGGTGGCTTCAATCTGCCCTCTAGATGGGGTAAAAGATTGGATGGTA
GCTTAAATTTGCCTTC
Found at i:10545552 original size:20 final size:21
Alignment explanation
Indices: 10545527--10545565 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10545517 TGCATTTTTA
10545527 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTTAGTGACT
10545547 GCATTTTCTAACTTAGTGA
1 GCATTTTCTAACTTAGTGA
10545566 TGTTCGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
GCATTTTCTAACTTAGTGACT
Found at i:10554849 original size:17 final size:17
Alignment explanation
Indices: 10554829--10554886 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
10554819 ATTGTCATCA
*
10554829 CATTTCTTTTGTCCCTG
1 CATTTCTTTTGTCACTG
10554846 CATTT-TTATTGTCACTG
1 CATTTCTT-TTGTCACTG
* *
10554863 CATTTGCATTTGTCATTG
1 CATTT-CTTTTGTCACTG
10554881 CATTTC
1 CATTTC
10554887 CATATATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 2 0.06
17 19 0.54
18 13 0.37
19 1 0.03
ACGTcount: A:0.14, C:0.22, G:0.12, T:0.52
Consensus pattern (17 bp):
CATTTCTTTTGTCACTG
Found at i:10557597 original size:20 final size:20
Alignment explanation
Indices: 10557567--10557619 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 20
10557557 AGCAATGGCT
*
10557567 AAAAATCGCAAACATTGGTC
1 AAAAATAGCAAACATTGGTC
* *
10557587 GAAAATGGC--A-ATTGGTC
1 AAAAATAGCAAACATTGGTC
10557604 AAAAATAGCAAACATT
1 AAAAATAGCAAACATT
10557620 AATCAAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 14 0.54
18 1 0.04
19 1 0.04
20 10 0.38
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAAATAGCAAACATTGGTC
Found at i:10557936 original size:11 final size:11
Alignment explanation
Indices: 10557918--10557950 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10557908 TTTCTTTTTC
10557918 TTTT-TCTCTT
1 TTTTCTCTCTT
10557928 TTTTCTCTCTT
1 TTTTCTCTCTT
10557939 TTTTCTCT-TT
1 TTTTCTCTCTT
10557949 TT
1 TT
10557951 CTGGGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTCTCTT
Found at i:10580506 original size:17 final size:17
Alignment explanation
Indices: 10580447--10580523 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
10580437 GTTAGTAAGA
* *
10580447 ATTGTCATCGCATTCCC
1 ATTGTCATTGCATTTCC
* *
10580464 ATTGTCATTACATTT-T
1 ATTGTCATTGCATTTCC
* *
10580480 AGTTGCCATTGCATTTGC
1 A-TTGTCATTGCATTTCC
10580498 ATTGTCATTGCATTTCC
1 ATTGTCATTGCATTTCC
10580515 ATTTGTCAT
1 A-TTGTCAT
10580524 GGTACTTTAG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.02
17 39 0.81
18 8 0.17
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (17 bp):
ATTGTCATTGCATTTCC
Found at i:10584370 original size:21 final size:20
Alignment explanation
Indices: 10584319--10584358 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10584309 TACCTTGTGT
*
10584319 TTAGCATTTTTTTACTGATG
1 TTAGCATTTTTTTACTAATG
*
10584339 TTAGCAATTTTTTACTAATG
1 TTAGCATTTTTTTACTAATG
10584359 CTTGTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (20 bp):
TTAGCATTTTTTTACTAATG
Found at i:10585133 original size:51 final size:50
Alignment explanation
Indices: 10585042--10585732 Score: 234
Period size: 50 Copynumber: 13.8 Consensus size: 50
10585032 GTTATAACAC
* * * * * *
10585042 CAAATCCTATATCCTTGAAGTTGCAATGGATC-GGATTAAAGCTACAGTAG
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAGAAG
* * *
10585092 CAAGTCTTTATCTCCTTGAAGTTACAGTGGAGCAAGATAAAGCTACA-AAT
1 CAAATC-TTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAGAAG
* * * * * ** * *
10585142 TAAATCCTATATCCTTGAAGTTACAGTGGATC-AGATTGAAAATTTCAGAAC
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA-T-AAAGCTACAGAAG
* * *
10585193 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAAGATGAAGCTAC-GACAT
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAGA-AG
* ** * * * * * *
10585243 CAAATCCTATAACCTTGAAGTGGCAGTGGATC-GGATTAAAACCACAGTAG
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAGAAG
* * **
10585293 CAAATCTTTATCT-CTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACA-ACCC
1 CAAATC-TTATCTCCT-TGAAGTTGCAGTGGAGCAAGATAAAGCTACAGA-AG
* * * *
10585344 CAAATCTTAT-ACCTCTAAAGTTGTAGTGG-GTCGAA-TTAAAGCTACAGAAG
1 CAAATCTTATCTCCT-TGAAGTTGCAGTGGAG-C-AAGATAAAGCTACAGAAG
* * * * *
10585394 CAAATCTTTATCTCCCTGAAGCTACAGTGGAGCAAGATGAAGCTAC-GACAT
1 CAAATC-TTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAGA-AG
* * * * ** *** * * *
10585445 CAAATCCTATATCCCTGAAGTGGCAACGGA-TTGGATTGAAGCTATAGATG
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAGAAG
* * * * * * *
10585495 CAAATCTTATCT-CTCTGAAGTTACAATAGAGTAAGACGAAA-CTATA-AAC
1 CAAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAGAAG
* * * * * * *
10585544 CAAATCTTATCTCCCT-AAATATGCAGTGGAGTAAGATGAGGATACA-ACAC
1 CAAATCTTATCTCCTTGAAGT-TGCAGTGGAGCAAGATAAAGCTACAGA-AG
* * * * * * *
10585594 CAAATCCTATATCCCTCAAGTTGTAGTGGATCAA-ATTCAAGCTACAGAAG
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAGAAG
** * ** * * * * *
10585644 TGAATCTTATCTCCCTGAAAATGAAGTGGAGCAACATGAAGCTA-TGATAT
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAGA-AG
* * * * *
10585694 TAAATCCTATCTTCTTAAAGTTGCAGTGAAGC-AGATAAA
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAA
10585733 ATAGTAATTC
Statistics
Matches: 465, Mismatches: 141, Indels: 71
0.69 0.21 0.10
Matches are distributed among these distances:
48 7 0.02
49 70 0.15
50 242 0.52
51 136 0.29
52 10 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (50 bp):
CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAGAAG
Found at i:10585292 original size:201 final size:202
Alignment explanation
Indices: 10585042--10585530 Score: 578
Period size: 201 Copynumber: 2.4 Consensus size: 202
10585032 GTTATAACAC
* * * *
10585042 CAAATCCTATATCCTTGAAGTTGCAATGGATCGGATTAAAGCTACAGTAGCAAGTCTTTATCTC-
1 CAAATCCTATATCCTTGAAGTGGCAATGGATCGGATTAAAACCACAGTAGCAAATCTTTATCTCT
* ** *
10585106 CTTGAAGTTACAGTGGAGCAAGATAAAGCTACAA-ATTAAATCCTATATCCT-TGAAGTTACAGT
66 C-TGAAGTTACAGTAGAGCAAGATAAAGCTACAACACCAAATCCTATA-CCTCTAAAGTTACAGT
* * * * **
10585169 GGATC-AGATTGAAAATTTCAGAACCAAATC-TTATCTCCTTGAAGTTGTAGTGGAGCAAGATGA
129 GGATCGA-ATT-AAAACTACAGAACCAAATCTTTATCTCCCTGAAGCTACAGTGGAGCAAGATGA
10585232 AGCTACGACAT
192 AGCTACGACAT
* *
10585243 CAAATCCTATAACCTTGAAGTGGCAGTGGATCGGATTAAAACCACAGTAGCAAATCTTTATCTCT
1 CAAATCCTATATCCTTGAAGTGGCAATGGATCGGATTAAAACCACAGTAGCAAATCTTTATCTCT
* * * * **
10585308 CTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACCCCAAATCTTATACCTCTAAAGTTGTAGTGG
66 CTGAAGTTACAGTAGAGCAAGATAAAGCTACAACACCAAATCCTATACCTCTAAAGTTACAGTGG
* * *
10585373 GTCGAATTAAAGCTACAGAAGCAAATCTTTATCTCCCTGAAGCTACAGTGGAGCAAGATGAAGCT
131 ATCGAATTAAAACTACAGAACCAAATCTTTATCTCCCTGAAGCTACAGTGGAGCAAGATGAAGCT
10585438 ACGACAT
196 ACGACAT
* * * * * * *
10585445 CAAATCCTATATCCCTGAAGTGGCAACGGATTGGATTGAAGCTATAG-ATGCAAATC-TTATCTC
1 CAAATCCTATATCCTTGAAGTGGCAATGGATCGGATTAAAACCACAGTA-GCAAATCTTTATCTC
* *
10585508 TCTGAAGTTACAATAGAGTAAGA
65 TCTGAAGTTACAGTAGAGCAAGA
10585531 CGAAACTATA
Statistics
Matches: 245, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
201 133 0.54
202 111 0.45
203 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (202 bp):
CAAATCCTATATCCTTGAAGTGGCAATGGATCGGATTAAAACCACAGTAGCAAATCTTTATCTCT
CTGAAGTTACAGTAGAGCAAGATAAAGCTACAACACCAAATCCTATACCTCTAAAGTTACAGTGG
ATCGAATTAAAACTACAGAACCAAATCTTTATCTCCCTGAAGCTACAGTGGAGCAAGATGAAGCT
ACGACAT
Found at i:10585314 original size:101 final size:100
Alignment explanation
Indices: 10585042--10585519 Score: 523
Period size: 101 Copynumber: 4.8 Consensus size: 100
10585032 GTTATAACAC
* * *
10585042 CAAATCCTATATCCTTGAAGTTGCAATGGATCGGATTAAAGCTACAGTAGCAAGTCTTTATCTCC
1 CAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGCAAATCTTTATCTCC
* *
10585107 TTGAAGTTACAGTGGAGCAAGATAAAGCTAC-AAAT
66 -TGAAGTTACAGTGGAGCAAGATGAAGCTACGACAT
* * * ** * *
10585142 TAAATCCTATATCCTTGAAGTTACAGTGGATCAGATTGAAAATTTCAGAACCAAATC-TTATCTC
1 CAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATT-AAAGCTACAGAAGCAAATCTTTATCTC
**
10585206 CTTGAAGTTGTAGTGGAGCAAGATGAAGCTACGACAT
65 C-TGAAGTTACAGTGGAGCAAGATGAAGCTACGACAT
* * * * *
10585243 CAAATCCTATAACCTTGAAGTGGCAGTGGATCGGATTAAAACCACAGTAGCAAATCTTTATCTCT
1 CAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGCAAATCTTTATCTC-
* * * **
10585308 CTGAAGTTGCAGTAGAGCAAGATGAAGCTACAACCC
65 CTGAAGTTACAGTGGAGCAAGATGAAGCTACGACAT
* * * * *
10585344 CAAATCTTATA-CCTCTAAAGTTGTAGTGGGTCGAATTAAAGCTACAGAAGCAAATCTTTATCTC
1 CAAATCCTATATCCT-TGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGCAAATCTTTATCT-
*
10585408 CCTGAAGCTACAGTGGAGCAAGATGAAGCTACGACAT
64 CCTGAAGTTACAGTGGAGCAAGATGAAGCTACGACAT
* * ** * * * *
10585445 CAAATCCTATATCCCTGAAGTGGCAACGGATTGGATTGAAGCTATAGATGCAAATC-TTATCTCT
1 CAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGCAAATCTTTATCTC-
10585509 CTGAAGTTACA
65 CTGAAGTTACA
10585520 ATAGAGTAAG
Statistics
Matches: 312, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
99 1 0.00
100 102 0.33
101 205 0.66
102 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (100 bp):
CAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGCAAATCTTTATCTCC
TGAAGTTACAGTGGAGCAAGATGAAGCTACGACAT
Found at i:10586074 original size:16 final size:17
Alignment explanation
Indices: 10586053--10586089 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10586043 GGCCCAGAAT
10586053 AAAACAAA-CAAAACAA
1 AAAACAAACCAAAACAA
*
10586069 AAAACAAACCAAAATAA
1 AAAACAAACCAAAACAA
10586086 AAAA
1 AAAA
10586090 AACCTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.81, C:0.16, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAACAAACCAAAACAA
Found at i:10587334 original size:29 final size:28
Alignment explanation
Indices: 10587257--10587355 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 28
10587247 AATTTTAATT
* *
10587257 TTTTCTTTTATTTAATTTAGCCCCATTTAA
1 TTTT-TTTTATTTAATTTAGTCCC-TTTTA
* * ** * *
10587287 TTTCTGTGTATAAAATTTA-TGCCTTATTG
1 TTT-TTTTTATTTAATTTAGTCCCTT-TTA
10587316 TTTTATTTTATTTAATTTAGTCCCTTTTA
1 TTTT-TTTTATTTAATTTAGTCCCTTTTA
10587345 TTTTTTTTATT
1 TTTTTTTTATT
10587356 ATTTGTACTA
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
28 10 0.20
29 22 0.43
30 18 0.35
31 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (28 bp):
TTTTTTTTATTTAATTTAGTCCCTTTTA
Found at i:10587402 original size:34 final size:29
Alignment explanation
Indices: 10587364--10587439 Score: 71
Period size: 30 Copynumber: 2.4 Consensus size: 29
10587354 TTATTTGTAC
10587364 TATTCATTTATTTTAGTATTTAATTTTATTTATT
1 TATTCATTTATTTT-GT-TTTAA-TTTA-TT-TT
* *
10587398 TATTCTTTTTATTTTGTTTTTATTTATTTT
1 TATTC-ATTTATTTTGTTTTAATTTATTTT
10587428 TATGTCATTTAT
1 TAT-TCATTTAT
10587440 ATTTTTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 10 0.27
31 4 0.11
32 4 0.11
33 4 0.11
34 7 0.19
35 8 0.22
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (29 bp):
TATTCATTTATTTTGTTTTAATTTATTTT
Found at i:10588572 original size:23 final size:24
Alignment explanation
Indices: 10588527--10588582 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
10588517 GAAAGAATGA
10588527 AAAAAAAATTAAAAAACATAAAA-
1 AAAAAAAATTAAAAAACATAAAAT
* **
10588550 AGAAAAAATTAAATTAC-TGAAAAT
1 AAAAAAAATTAAAAAACAT-AAAAT
10588574 AAAAAAAAT
1 AAAAAAAAT
10588583 ATAACAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 18 0.67
24 8 0.30
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (24 bp):
AAAAAAAATTAAAAAACATAAAAT
Found at i:10590841 original size:22 final size:23
Alignment explanation
Indices: 10590804--10590847 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
10590794 CAGCAAATGA
*
10590804 TTTTAAAATTATTAAAATTATTT
1 TTTTAAAAATATTAAAATTATTT
10590827 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
10590848 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTAAAAATATTAAAATTATTT
Found at i:10590845 original size:31 final size:31
Alignment explanation
Indices: 10590807--10590881 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
10590797 CAAATGATTT
10590807 TAAAATTATTAAAATTATTTTTTTAAAA-ATA
1 TAAAATTATTAAAATTATTTTTTTAAAATA-A
*
10590838 TAAAATTATTAAAATTATTTTTTTTAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
10590869 TAAAATTATTAAA
1 TAAAATTATTAAA
10590882 TAATTTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:10592011 original size:15 final size:16
Alignment explanation
Indices: 10591987--10592016 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10591977 TTGATTTTTA
10591987 AAAAATTTCAGATTTC
1 AAAAATTTCAGATTTC
10592003 AAAAA-TTCAGATTT
1 AAAAATTTCAGATTT
10592017 TATTTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (16 bp):
AAAAATTTCAGATTTC
Found at i:10596373 original size:19 final size:20
Alignment explanation
Indices: 10596334--10596373 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10596324 CAAATCAATT
* *
10596334 ATCATTCAAACGAAATGAAA
1 ATCATTCAAACAAAATAAAA
10596354 ATCATT-AAACAAAATAAAA
1 ATCATTCAAACAAAATAAAA
10596373 A
1 A
10596374 GCGTATTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (20 bp):
ATCATTCAAACAAAATAAAA
Found at i:10601511 original size:16 final size:17
Alignment explanation
Indices: 10601476--10601513 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10601466 CGGAGGAACA
*
10601476 TTTA-TTTTATTTTATT
1 TTTATTTTTATTTTACT
10601492 TTTATTTTTATTTT-CT
1 TTTATTTTTATTTTACT
10601508 TTTATT
1 TTTATT
10601514 ATCCAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTATTTTACT
Found at i:10610431 original size:15 final size:16
Alignment explanation
Indices: 10610411--10610454 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
10610401 ATAAATTTTT
10610411 TTTCTTCTTTTTCTC-
1 TTTCTTCTTTTTCTCA
10610426 TTTCTTCCTTTTTCTCA
1 TTTCTT-CTTTTTCTCA
10610443 TTT-TTCTTTTTC
1 TTTCTTCTTTTTC
10610455 AAGTGACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 13 0.48
16 11 0.41
17 3 0.11
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCTTCTTTTTCTCA
Found at i:10611507 original size:3 final size:3
Alignment explanation
Indices: 10611499--10611541 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
10611489 CCTTTTCATT
*
10611499 TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC TTC TTT TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
10611542 TCTCTTGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:10624805 original size:35 final size:35
Alignment explanation
Indices: 10624732--10624811 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
10624722 AAATATGGGC
* * * *
10624732 AATAAATAATTAATTAAAAACATGTAAATTAAACA
1 AATAAATAAATAATTAAAAACATGCAAATAAAAAA
*
10624767 AATAAA-AAATAATTAAAAATCATGCCAATAAAAAA
1 AATAAATAAATAATTAAAAA-CATGCAAATAAAAAA
*
10624802 AATAATTAAA
1 AATAAATAAA
10624812 ATCATGCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 12 0.32
35 22 0.59
36 3 0.08
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (35 bp):
AATAAATAAATAATTAAAAACATGCAAATAAAAAA
Found at i:10624812 original size:27 final size:27
Alignment explanation
Indices: 10624770--10624841 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
10624760 TTAAACAAAT
*
10624770 AAAAAATAATTAAAAATCATGCCAATAA
1 AAAAAATAATT-AAAATCATGCAAATAA
*
10624798 AAAAAATAATTAAAATCATGCAAATTA
1 AAAAAATAATTAAAATCATGCAAATAA
* *
10624825 AATAAATAAATAAAATC
1 AAAAAATAATTAAAATC
10624842 CTATCAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 29 0.73
28 11 0.28
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (27 bp):
AAAAAATAATTAAAATCATGCAAATAA
Found at i:10624832 original size:62 final size:61
Alignment explanation
Indices: 10624712--10624834 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 61
10624702 GCGAATATGT
* * * *
10624712 AAATAATGAAAAATATGGGCAATAAATAATTAATTAAAAACATGTAAATTAAACAAATAAA
1 AAATAATGAAAAATATGGCCAATAAAAAAATAATTAAAAACATGCAAATTAAACAAATAAA
* * *
10624773 AAATAATTAAAAATCAT-GCCAATAAAAAAAATAATTAAAATCATGCAAATTAAATAAATAAA
1 AAATAATGAAAAAT-ATGGCCAAT-AAAAAAATAATTAAAAACATGCAAATTAAACAAATAAA
10624835 TAAAATCCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 18 0.34
62 35 0.66
ACGTcount: A:0.63, C:0.07, G:0.06, T:0.24
Consensus pattern (61 bp):
AAATAATGAAAAATATGGCCAATAAAAAAATAATTAAAAACATGCAAATTAAACAAATAAA
Found at i:10624853 original size:27 final size:27
Alignment explanation
Indices: 10624765--10624861 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
10624755 GTAAATTAAA
*
10624765 CAAA-TAAA-AAATAATTAAAAATCATG
1 CAAATTAAATAAATAAAT-AAAATCATG
* * * *
10624791 CCAATAAAAAAAATAATTAAAATCATG
1 CAAATTAAATAAATAAATAAAATCATG
10624818 CAAATTAAATAAATAAATAAAATCCTAT-
1 CAAATTAAATAAATAAATAAAAT-C-ATG
10624846 CAAA-TAAATAAATAAA
1 CAAATTAAATAAATAAA
10624862 ATGTAAAGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
26 3 0.05
27 43 0.70
28 13 0.21
29 2 0.03
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (27 bp):
CAAATTAAATAAATAAATAAAATCATG
Found at i:10626489 original size:50 final size:49
Alignment explanation
Indices: 10626413--10626600 Score: 144
Period size: 49 Copynumber: 3.8 Consensus size: 49
10626403 TTTTTTTTAG
* * *
10626413 GGTGTAAGATTCACCGTTACGACTTCAATCTGTTCCCTCTTCAATTATAA
1 GGTGTTAGATCCACCGTTACGACTTCAATCT-ATCCCTCTTCAATTATAA
* * * * * *
10626463 GGTGTTAGATCCACCGTTGCGGCTTCAATCTATCCCTTTTCGATTTTAG
1 GGTGTTAGATCCACCGTTACGACTTCAATCTATCCCTCTTCAATTATAA
* * * * * * * *
10626512 GGTGTTAGGTCCGCCATTACAACTTCAACCTATCCCTTTTCAGTTGT-A
1 GGTGTTAGATCCACCGTTACGACTTCAATCTATCCCTCTTCAATTATAA
* * * * * *
10626560 GGATGTTAGATCCGCCATTGCTACTTTAACCTATCCCTCTT
1 GG-TGTTAGATCCACCGTTACGACTTCAATCTATCCCTCTT
10626601 TAACCTATCC
Statistics
Matches: 112, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 2 0.02
49 83 0.74
50 27 0.24
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (49 bp):
GGTGTTAGATCCACCGTTACGACTTCAATCTATCCCTCTTCAATTATAA
Found at i:10626538 original size:49 final size:49
Alignment explanation
Indices: 10626485--10626597 Score: 147
Period size: 49 Copynumber: 2.3 Consensus size: 49
10626475 ACCGTTGCGG
* * * *
10626485 CTTCAATCTATCCCTTTTC-GATTTTAGGGTGTTAGGTCCGCCATTACAA
1 CTTCAACCTATCCCTTTTCAG-TTGTAGGATGTTAGATCCGCCATTACAA
* *
10626534 CTTCAACCTATCCCTTTTCAGTTGTAGGATGTTAGATCCGCCATTGCTA
1 CTTCAACCTATCCCTTTTCAGTTGTAGGATGTTAGATCCGCCATTACAA
*
10626583 CTTTAACCTATCCCT
1 CTTCAACCTATCCCT
10626598 CTTTAACCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 55 0.98
50 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.38
Consensus pattern (49 bp):
CTTCAACCTATCCCTTTTCAGTTGTAGGATGTTAGATCCGCCATTACAA
Found at i:10626603 original size:15 final size:15
Alignment explanation
Indices: 10626583--10626616 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
10626573 GCCATTGCTA
10626583 CTTTAACCTATCCCT
1 CTTTAACCTATCCCT
10626598 CTTTAACCTATCCCT
1 CTTTAACCTATCCCT
10626613 CTTT
1 CTTT
10626617 TGTTTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (15 bp):
CTTTAACCTATCCCT
Found at i:10626710 original size:49 final size:49
Alignment explanation
Indices: 10626602--10626910 Score: 228
Period size: 49 Copynumber: 6.3 Consensus size: 49
10626592 ATCCCTCTTT
* * *
10626602 AACCTATCCCTCTTTTG-TTTTAAGGTGTAAGATCCATCATTACGGCTTC
1 AACCTATCCCTC-TTCGATTTTAAGGTGTTAGATCCACCATTACGGCTTC
** * * * *
10626651 AATATTTCCCTATTCGGTTTT-AGAGTGTTAGGTCCACCATTACGGCTTC
1 AACCTATCCCTCTTCGATTTTAAG-GTGTTAGATCCACCATTACGGCTTC
* * * * ** * *
10626700 AACCTATCCCTCTTCTATTTTAAGGTGTCAGATCTACTATTGTGGTTTT
1 AACCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCATTACGGCTTC
* * * * * * * *
10626749 AATCTTTCCTTCTTTGATTTTAGGGTGTTAGGTCTACCATTGCGGCTTC
1 AACCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCATTACGGCTTC
* * * * *
10626798 AACCTATCCCTTTTCGATTTTAAGGTGTAAGATCTACCGTTATGGCTTC
1 AACCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCATTACGGCTTC
* * * * * * * *
10626847 AATCTTTCCCTCTTC-AGTTTTAAGGTGTTAGGTACGCCGTTGCGGTTTC
1 AACCTATCCCTCTTCGA-TTTTAAGGTGTTAGATCCACCATTACGGCTTC
10626896 AACCTATCCCTCTTC
1 AACCTATCCCTCTTC
10626911 AACTCTAGGA
Statistics
Matches: 198, Mismatches: 58, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
48 6 0.03
49 190 0.96
50 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (49 bp):
AACCTATCCCTCTTCGATTTTAAGGTGTTAGATCCACCATTACGGCTTC
Found at i:10626771 original size:98 final size:98
Alignment explanation
Indices: 10626602--10626910 Score: 354
Period size: 98 Copynumber: 3.2 Consensus size: 98
10626592 ATCCCTCTTT
* * * * * *
10626602 AACCTATCCCTCTTTTG-TTTTAAGGTGTAAGATCCATCATTACGGCTTCAATATTTCCCTATTC
1 AACCTATCCCTC-TTCGATTTTAAGGTGTAAGATCTACCATTATGGCTTCAATCTTTCCCTCTTC
* *
10626666 GGTTTTAGAGTGTTAGGTCCACCATTACGGCTTC
65 AGTTTTAGAGTGTTAGGTCCACCATTGCGGCTTC
* * * * * * * *
10626700 AACCTATCCCTCTTCTATTTTAAGGTGTCAGATCTACTATTGTGGTTTTAATCTTTCCTTCTT-T
1 AACCTATCCCTCTTCGATTTTAAGGTGTAAGATCTACCATTATGGCTTCAATCTTTCCCTCTTCA
* *
10626764 GATTTTAGGGTGTTAGGTCTACCATTGCGGCTTC
66 G-TTTTAGAGTGTTAGGTCCACCATTGCGGCTTC
* *
10626798 AACCTATCCCTTTTCGATTTTAAGGTGTAAGATCTACCGTTATGGCTTCAATCTTTCCCTCTTCA
1 AACCTATCCCTCTTCGATTTTAAGGTGTAAGATCTACCATTATGGCTTCAATCTTTCCCTCTTCA
* * * *
10626863 GTTTTA-AGGTGTTAGGTACGCCGTTGCGGTTTC
66 GTTTTAGA-GTGTTAGGTCCACCATTGCGGCTTC
10626896 AACCTATCCCTCTTC
1 AACCTATCCCTCTTC
10626911 AACTCTAGGA
Statistics
Matches: 173, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
97 3 0.02
98 169 0.98
99 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (98 bp):
AACCTATCCCTCTTCGATTTTAAGGTGTAAGATCTACCATTATGGCTTCAATCTTTCCCTCTTCA
GTTTTAGAGTGTTAGGTCCACCATTGCGGCTTC
Found at i:10631207 original size:155 final size:155
Alignment explanation
Indices: 10630922--10631232 Score: 595
Period size: 155 Copynumber: 2.0 Consensus size: 155
10630912 CGGTGCAATT
10630922 TTGCACCAAGAAATTACAGATTGTGCTGCTAGGAAAATTGATATTTTGGTGTTTCACTCCTTGAT
1 TTGCACCAAGAAATTACAGATTGTGCTGCTAGGAAAATTGATATTTTGGTGTTTCACTCCTTGAT
*
10630987 TATGCAGTTGTGCCAGCAATTGGGAGTGCTGCCTCGTGTGGGATAAGAGATTTTGGACAATAAAG
66 TATGCAGTTGTGCCAGCAATTGGGAGTGCTGCCTCGTGTGGGATAAGAGATTTTGGACAACAAAG
10631052 GACCCATCAATGAAGCCTCAATCGA
131 GACCCATCAATGAAGCCTCAATCGA
10631077 TTGCACCAAGAAATTACAGATTGTGCTGCTAGGAAAATTGATATTTTGGTGTTTCACTCCTTGAT
1 TTGCACCAAGAAATTACAGATTGTGCTGCTAGGAAAATTGATATTTTGGTGTTTCACTCCTTGAT
* *
10631142 TATGCAGTTGTGCCAGCAATTGGGAGTGGTGCCTCGTGTGGGATAGGAGATTTTGGACAACAAAG
66 TATGCAGTTGTGCCAGCAATTGGGAGTGCTGCCTCGTGTGGGATAAGAGATTTTGGACAACAAAG
10631207 GACCCATCAATGAAGCCTCAATCGA
131 GACCCATCAATGAAGCCTCAATCGA
10631232 T
1 T
10631233 CGCATGACTC
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 153 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (155 bp):
TTGCACCAAGAAATTACAGATTGTGCTGCTAGGAAAATTGATATTTTGGTGTTTCACTCCTTGAT
TATGCAGTTGTGCCAGCAATTGGGAGTGCTGCCTCGTGTGGGATAAGAGATTTTGGACAACAAAG
GACCCATCAATGAAGCCTCAATCGA
Found at i:10640927 original size:13 final size:13
Alignment explanation
Indices: 10640894--10640919 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10640884 CGATATAATT
10640894 AAATAAAAAATAA
1 AAATAAAAAATAA
10640907 AAATAAAAAATAA
1 AAATAAAAAATAA
10640920 CATAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:10641041 original size:31 final size:31
Alignment explanation
Indices: 10641003--10641116 Score: 149
Period size: 31 Copynumber: 3.6 Consensus size: 31
10640993 AAATATGAGT
10641003 AACAAATAAATAATTAAAATCATGCAAATTA
1 AACAAATAAATAATTAAAATCATGCAAATTA
*
10641034 AACAAATAAAAAATAATTAAAAATCATGCCAATTA
1 AACAAAT---AAATAATT-AAAATCATGCAAATTA
10641069 AACAAA-AAATAATTAAAATCATGCAAATTA
1 AACAAATAAATAATTAAAATCATGCAAATTA
* * *
10641099 AATAAATAGATAAATAAA
1 AACAAATAAATAATTAAA
10641117 TAATATCCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
30 20 0.27
31 24 0.33
34 8 0.11
35 21 0.29
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.24
Consensus pattern (31 bp):
AACAAATAAATAATTAAAATCATGCAAATTA
Found at i:10641068 original size:35 final size:34
Alignment explanation
Indices: 10641010--10641115 Score: 139
Period size: 35 Copynumber: 3.2 Consensus size: 34
10641000 AGTAACAAAT
10641010 AAATAATTAAAATCATGCAAATTAAACAAATAAA
1 AAATAATTAAAATCATGCAAATTAAACAAATAAA
*
10641044 AAATAATTAAAAATCATGCCAATTAAAC----AAA
1 AAATAATT-AAAATCATGCAAATTAAACAAATAAA
* *
10641075 AAATAATTAAAATCATGCAAATTAAATAAATAGAT
1 AAATAATTAAAATCATGCAAATTAAACAAATA-AA
10641110 AAATAA
1 AAATAA
10641116 ATAATATCCT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
30 17 0.27
31 11 0.18
34 9 0.15
35 25 0.40
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (34 bp):
AAATAATTAAAATCATGCAAATTAAACAAATAAA
Found at i:10647326 original size:5 final size:5
Alignment explanation
Indices: 10647316--10647369 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
10647306 TGGAAGAAAA
* * *
10647316 TTTAT TTTAT TCTAT TTTATT TTTATT TTTATT TTTAT TTTCT TTTCT
1 TTTAT TTTAT TTTAT TTTA-T TTTA-T TTTA-T TTTAT TTTAT TTTAT
10647364 TTTAT T
1 TTTAT T
10647370 ATTCAGTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 27 0.61
6 17 0.39
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:10647341 original size:6 final size:6
Alignment explanation
Indices: 10647330--10647356 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10647320 TTTTATTCTA
10647330 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
10647357 CTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:10654044 original size:61 final size:61
Alignment explanation
Indices: 10653765--10654206 Score: 503
Period size: 62 Copynumber: 7.3 Consensus size: 61
10653755 AAAAAAAAAA
* **
10653765 TTTGGTGTTGGCCATTGC-ATGGCCGACATCCCTTTTTAATTTGATAAAAAAA--TC-AAATTT
1 TTTGGTGTTGGCCA-TGCAATGGCCGACACCCCTTTTT--TCAGATAAAAAAATTTCAAAATTT
* * ** * * *
10653825 TTGGGTGTTGGTCATGCAATGGTTGATACCTCCTTTTTGTCGGAT-AAAAAA-TTC--TATTT
1 TTTGGTGTTGGCCATGCAATGGCCGACACC-CCTTTTT-TCAGATAAAAAAATTTCAAAATTT
* *
10653884 TTTGGTGTTGACCATGCAATGGCCGACACCCCTATTTATT-TGATAAAAAAA--TC-AAATTT
1 TTTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTT-TTCAGATAAAAAAATTTCAAAATTT
* **
10653943 TTAGGTGTTGGCCATGCAATGGCTAACACCTCCTTTTTTCAGATAAAAAAATTTCAAAATTT
1 TTTGGTGTTGGCCATGCAATGGCCGACACC-CCTTTTTTCAGATAAAAAAATTTCAAAATTT
*
10654005 TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTTTAAAATTT
1 TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTTCAAAATTT
* * *
10654066 TTTGGTGTCGGCCATGCCATGGTCGACACCCCTTTTTTACAGATAAAAAAATTTCAAAATTT
1 TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTT-CAGATAAAAAAATTTCAAAATTT
* * *
10654128 TTTGGTGTTCGCCATGCAATGGCTGACACCTCCTTTTTTCAGATAAAAAAATTTTAAAATTT
1 TTTGGTGTTGGCCATGCAATGGCCGACACC-CCTTTTTTCAGATAAAAAAATTTCAAAATTT
*
10654190 TTAGGTGTTGGCCATGC
1 TTTGGTGTTGGCCATGC
10654207 CCTCTTTTGT
Statistics
Matches: 329, Mismatches: 39, Indels: 26
0.84 0.10 0.07
Matches are distributed among these distances:
58 10 0.03
59 90 0.27
60 30 0.09
61 74 0.22
62 117 0.36
63 8 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (61 bp):
TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTTCAAAATTT
Found at i:10654125 original size:123 final size:120
Alignment explanation
Indices: 10653765--10654206 Score: 522
Period size: 123 Copynumber: 3.6 Consensus size: 120
10653755 AAAAAAAAAA
* ** * *
10653765 TTTGGTGTTGGCCATTGC-ATGGCCGACATCCCTTTTTAATTTGATAAAAAAATCAAATTTTTGG
1 TTTGGTGTTGGCCA-TGCAATGGCCGACACCCCTTTTT--TCAGATAAAAAAATAAAATTTTTAG
* * * * *
10653829 GTGTTGGTCATGCAATGGTTGATACCTCCTTTTTGTCGGAT-AAAAAA-TTC--TATTT
63 GTGTTGGCCATGCAATGGTCGACACCTCCTTTTT-TCAGATAAAAAAATTTCAAAATTT
* * *
10653884 TTTGGTGTTGACCATGCAATGGCCGACACCCCTATTTATT-TGATAAAAAAATCAAATTTTTAGG
1 TTTGGTGTTGGCCATGCAATGGCCGACACCCCT-TTT-TTCAGATAAAAAAATAAAATTTTTAGG
*
10653948 TGTTGGCCATGCAATGG-CTAACACCTCCTTTTTTCAGATAAAAAAATTTCAAAATTT
64 TGTTGGCCATGCAATGGTC-GACACCTCCTTTTTTCAGATAAAAAAATTTCAAAATTT
*
10654005 TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATTTTAAAATTTTTTG
1 TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAA---TAAAATTTTTAG
* *
10654070 GTGTCGGCCATGCCATGGTCGACACC-CCTTTTTTACAGATAAAAAAATTTCAAAATTT
63 GTGTTGGCCATGCAATGGTCGACACCTCCTTTTTT-CAGATAAAAAAATTTCAAAATTT
* *
10654128 TTTGGTGTTCGCCATGCAATGGCTGACACCTCCTTTTTTCAGATAAAAAAATTTTAAAATTTTTA
1 TTTGGTGTTGGCCATGCAATGGCCGACACC-CCTTTTTTCAGATAAAAAAA---TAAAATTTTTA
10654193 GGTGTTGGCCATGC
62 GGTGTTGGCCATGC
10654207 CCTCTTTTGT
Statistics
Matches: 288, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
117 5 0.02
118 60 0.21
119 33 0.11
120 16 0.06
121 37 0.13
122 8 0.03
123 82 0.28
124 47 0.16
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (120 bp):
TTTGGTGTTGGCCATGCAATGGCCGACACCCCTTTTTTCAGATAAAAAAATAAAATTTTTAGGTG
TTGGCCATGCAATGGTCGACACCTCCTTTTTTCAGATAAAAAAATTTCAAAATTT
Found at i:10658097 original size:11 final size:12
Alignment explanation
Indices: 10658057--10658105 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
10658047 TATTTGTGTA
10658057 AAAATTAATTTG
1 AAAATTAATTTG
10658069 AAAATTAATTTAAG
1 AAAATTAATTT--G
*
10658083 TTGAAATTAATTTG
1 --AAAATTAATTTG
10658097 AAAATTAAT
1 AAAATTAAT
10658106 GAACATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (12 bp):
AAAATTAATTTG
Found at i:10658440 original size:83 final size:84
Alignment explanation
Indices: 10658209--10659020 Score: 1256
Period size: 84 Copynumber: 9.6 Consensus size: 84
10658199 ATTTAAAATT
* * *
10658209 AATTTAACATTATTTAAATAAAAAATTATTATTATATTACAATTTATATCAAATATTGTGTTTAT
1 AATTTAA-A-TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGAT
*
10658274 TTGACAATACATTATTTA-TCA
64 TTGACAATATATTATTTACT-A
**
10658295 AATTTTCATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* *
10658360 GAGAATACATTATTTACTA
66 GACAATATATTATTTACTA
* *
10658379 AATTTAAATATTTAAAT-AAAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
10658443 GACAATATATTTTTTA-TCA
66 GACAATATATTATTTACT-A
** *
10658462 AATTTTCATATTTAAATAAAAAAGATTATTATTATATTATAATTTTTATCAAATAATGTGTTGAT
1 AATTTAAATATTTAAAT-AAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGAT
10658527 TTGACAATATATTATTTACTA
64 TTGACAATATATTATTTACTA
*
10658548 AATTTAAATATTTAAAT-AAAAATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
10658612 GATAATATATTATTTACTA
66 GACAATATATTATTTACTA
*
10658631 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATAAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
10658696 GACAATATATTATTTA-TCA
66 GACAATATATTATTTACT-A
** *
10658715 AATTTTCATATTTAAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTATTGAT
1 AATTTAAATATTTAAAT-AAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGAT
*
10658780 TTGACAATACATTATTTACTA
64 TTGACAATATATTATTTACTA
*
10658801 AATTTAAATATTTAAATAAAAAATTATTATTATATTAAAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
10658866 GACAATACATTATTTACTA
66 GACAATATATTATTTACTA
* *
10658885 ATTTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
10658950 GATAATATATTATTTACTA
66 GACAATATATTATTTACTA
* *
10658969 ATTTTAAATATTTAAATCAAAAATTATTATTATATTACAATTTTTATCAAAT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAAT
10659021 TTTAAATTTA
Statistics
Matches: 677, Mismatches: 38, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
82 1 0.00
83 153 0.23
84 355 0.52
85 16 0.02
86 150 0.22
87 2 0.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (84 bp):
AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
GACAATATATTATTTACTA
Found at i:10658685 original size:253 final size:252
Alignment explanation
Indices: 10658219--10659020 Score: 1324
Period size: 253 Copynumber: 3.2 Consensus size: 252
10658209 AATTTAACAT
* * *
10658219 TATTTAAATAAAAAATTATTATTATATTACAATTTATATCAAATATTGTGTTTATTTGACAATAC
1 TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
** *
10658284 ATTATTTA-TCAAATTTTCATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATA
66 ATTATTTACT-AAATTTAAATATTTAAATAAAAAATTATTATTATATTAAAATTTTTATCAAATA
*
10658348 ATGTGTTGATTTGAGAATACATTATTTACTAAATTTAAATATTTAAAT-AAAAATTATTATTATA
130 ATGTGTTGATTTGACAATACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTATA
* *
10658412 TTATAATTTTTATCAAATAATGTATTGATTTGACAATATATTTTTTATCAAATTTTCA
195 TTACAATTTTTATCAAATAATGTATTGATTTGACAATATATTATTTATCAAATTTTCA
*
10658470 TATTTAAATAAAAAAGATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAAT
1 TATTTAAAT-AAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
* *
10658535 ATATTATTTACTAAATTTAAATATTTAAAT-AAAAATTATTATTATATTATAATTTTTATCAAAT
64 ACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTATATTAAAATTTTTATCAAAT
* *
10658599 AATGTGTTGATTTGATAATATATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTAT
129 AATGTGTTGATTTGACAATACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTAT
* *
10658664 ATTACAATTTTTATAAAATAATGTGTTGATTTGACAATATATTATTTATCAAATTTTCA
194 ATTACAATTTTTATCAAATAATGTATTGATTTGACAATATATTATTTATCAAATTTTCA
*
10658723 TATTTAAATAAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTATTGATTTGACAAT
1 TATTTAAAT-AAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
10658788 ACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTATATTAAAATTTTTATCAAAT
64 ACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTATATTAAAATTTTTATCAAAT
*
10658853 AATGTGTTGATTTGACAATACATTATTTACTAATTTTAAATATTTAAATAAAAAATTATTATTAT
129 AATGTGTTGATTTGACAATACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTAT
* * *
10658918 ATTACAATTTTTATCAAATAATGTATTGATTTGATAATATATTATTTA-CTAATTTTAAA
194 ATTACAATTTTTATCAAATAATGTATTGATTTGACAATATATTATTTATCAAATTTT-CA
*
10658977 TATTTAAATCAAAAATTATTATTATATTACAATTTTTATCAAAT
1 TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAAT
10659021 TTTAAATTTA
Statistics
Matches: 517, Mismatches: 28, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
251 9 0.02
252 115 0.22
253 242 0.47
254 151 0.29
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (252 bp):
TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
ATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTATATTAAAATTTTTATCAAATAA
TGTGTTGATTTGACAATACATTATTTACTAAATTTAAATATTTAAATAAAAAATTATTATTATAT
TACAATTTTTATCAAATAATGTATTGATTTGACAATATATTATTTATCAAATTTTCA
Found at i:10659178 original size:10 final size:10
Alignment explanation
Indices: 10659163--10659203 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
10659153 ACCTCAATTT
10659163 CACCGTTGAC
1 CACCGTTGAC
*
10659173 CACCGTTGAT
1 CACCGTTGAC
**
10659183 TGCCGTTGAC
1 CACCGTTGAC
10659193 CACCGTTGAC
1 CACCGTTGAC
10659203 C
1 C
10659204 GACATTGTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.17, C:0.37, G:0.22, T:0.24
Consensus pattern (10 bp):
CACCGTTGAC
Found at i:10660480 original size:29 final size:28
Alignment explanation
Indices: 10660448--10660773 Score: 175
Period size: 29 Copynumber: 11.2 Consensus size: 28
10660438 TTTGGATACC
* *
10660448 CGGGGGCAAAATGGTAATTTTGGTAAAAT
1 CGGGGGTAAAATGGTAATTTTGG-AAATT
* **
10660477 CGGGGTTAAAAATGG-AATTCTT-GAGGCTT
1 CGGGGGT-AAAATGGTAATT-TTGGA-AATT
* *
10660506 CGGGGGTAAAATTGTAATTTTTGGTAAAAT
1 CGGGGGTAAAATGGTAA-TTTTGG-AAATT
* * * *
10660536 CGGGGTTAAAATGG-AGTTTTAGAAGGTT
1 CGGGGGTAAAATGGTAATTTTGGAA-ATT
* * *
10660564 TGGGGGTAAAATGGTAATTTTGGTGAGACT
1 CGGGGGTAAAATGGTAATTTT-G-GAAATT
* *
10660594 -GGGGTTAAAATGG-AATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTGGAAA-TT
* *
10660621 CGGAGGTAAAATGGTAATTTTTGGTGAAA-C
1 CGGGGGTAAAATGGTAA-TTTT-G-GAAATT
* *
10660651 CGGGGTTAAAAATGGT-ATTTTAGAAAGTT
1 CGGGGGT-AAAATGGTAATTTTGGAAA-TT
*
10660680 CGGGGGTAAAATGGTGAATTTTGGAAGTTT
1 CGGGGGTAAAATGGT-AATTTTGGAA-ATT
* *
10660710 C-GGGGTCAAAAATGG-AATTTTAGAAGGTT
1 CGGGGGT--AAAATGGTAATTTTGGAA-ATT
*
10660739 CGGGGGTAAAATGGTAATTTTTGGAAGTTT
1 CGGGGGTAAAATGGTAA-TTTTGGAA-ATT
10660769 CGGGG
1 CGGGG
10660774 TCAGAATGTA
Statistics
Matches: 227, Mismatches: 42, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
26 3 0.01
27 7 0.03
28 57 0.25
29 71 0.31
30 67 0.30
31 18 0.08
32 4 0.02
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.32
Consensus pattern (28 bp):
CGGGGGTAAAATGGTAATTTTGGAAATT
Found at i:10660542 original size:59 final size:58
Alignment explanation
Indices: 10660448--10660759 Score: 384
Period size: 59 Copynumber: 5.4 Consensus size: 58
10660438 TTTGGATACC
*
10660448 CGGGGGCAAAATGGTAATTTTGGTAAAATCGGGGTTAAAAATGGAATTCTT-G-AGGCTT
1 CGGGGGTAAAATGGTAATTTTGGTAAAATCGGGGTTAAAAATGGAATT-TTAGAAGG-TT
* *
10660506 CGGGGGTAAAATTGTAATTTTTGGTAAAATCGGGGTT-AAAATGGAGTTTTAGAAGGTT
1 CGGGGGTAAAATGGTAA-TTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
* * * *
10660564 TGGGGGTAAAATGGTAATTTTGGTGAGA-CTGGGGTT-AAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTGGTAAAATC-GGGGTTAAAAATGGAATTTTAGAAGGTT
* * * * *
10660621 CGGAGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGTATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAA-TTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
** *
10660680 CGGGGGTAAAATGGTGAATTTTGG-AAGTTTCGGGGTCAAAAATGGAATTTTAGAAGGTT
1 CGGGGGTAAAATGGT-AATTTTGGTAA-AATCGGGGTTAAAAATGGAATTTTAGAAGGTT
10660739 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
10660760 TGGAAGTTTC
Statistics
Matches: 224, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
56 1 0.00
57 51 0.23
58 66 0.29
59 104 0.46
60 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.32, T:0.32
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
Found at i:10662816 original size:6 final size:6
Alignment explanation
Indices: 10662799--10662877 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
10662789 TTTGGACTTT
* * * * * *
10662799 AATTTA AA-TTA ATTTTA AATTTA AA-ATA AATTTA GACTCA AATTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
10662845 AATTTA AAGTTT- AATTTA AATTTA AATTTA AAT
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AAT
10662878 AAATCTAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
5 11 0.19
6 45 0.76
7 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:10662886 original size:16 final size:16
Alignment explanation
Indices: 10662799--10662916 Score: 83
Period size: 17 Copynumber: 6.9 Consensus size: 16
10662789 TTTGGACTTT
*
10662799 AATTTAAATTAATTTTA
1 AATTTAAA-TAAATTTA
10662816 AATTTAAAATAAATTTA
1 AATTT-AAATAAATTTA
* * *
10662833 GACTCAAATTCAAATTTA
1 AATTTAAA-T-AAATTTA
*
10662851 AAGTTTAATTTAAATTTA
1 AA-TTTAA-ATAAATTTA
*
10662869 AATTTAAATAAATCTA
1 AATTTAAATAAATTTA
* *
10662885 AATTCATATCAAATTTA
1 AATTTAAAT-AAATTTA
*
10662902 ATTTTAAAATAAATT
1 AATTT-AAATAAATT
10662917 AAAAAAAAGC
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
16 17 0.22
17 34 0.44
18 23 0.29
19 4 0.05
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (16 bp):
AATTTAAATAAATTTA
Found at i:10665120 original size:30 final size:30
Alignment explanation
Indices: 10665097--10665188 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 30
10665087 TTCGTTTACT
* * *
10665097 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAAATTTAATTTCTAATTTCCTTTATA
* *
10665127 TTTTAAATTTAATTTTTAATTTCCTATATA
1 TTTTAAATTTAATTTCTAATTTCCTTTATA
* *
10665157 TTTTAATTTTATTTTCTAATTTCCTTTATA
1 TTTTAAATTTAATTTCTAATTTCCTTTATA
10665187 TT
1 TT
10665189 CTAATTATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCCTTTATA
Found at i:10665160 original size:17 final size:17
Alignment explanation
Indices: 10665143--10665194 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
10665133 ATTTAATTTT
*
10665143 TAATTTCCTATATATTT
1 TAATTTCCTATATATTC
10665160 TAATTT--TAT-T-TTC
1 TAATTTCCTATATATTC
*
10665173 TAATTTCCTTTATATTC
1 TAATTTCCTATATATTC
10665190 TAATT
1 TAATT
10665195 ATTTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.28
14 1 0.03
15 5 0.17
16 1 0.03
17 14 0.48
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTCCTATATATTC
Found at i:10666283 original size:110 final size:108
Alignment explanation
Indices: 10666061--10666261 Score: 275
Period size: 110 Copynumber: 1.8 Consensus size: 108
10666051 ACCAAATAAA
**
10666061 AAAAATTT-AATTTTTTTATCTGACAAAAAGGGGGTGTCGGTCATGACATGGTTAACACCAAAAA
1 AAAAATTTGAATTTTTTTATCTGA-AAAAAGGGGGTGTCGACCATGACATGGTTAACACCAAAAA
*
10666125 ATTTTGATATCTTTTTATCTGAAAAAAAGGCAATGGTCGACACC
65 ATTTTGAAATCTTTTTATCTGAAAAAAAGGCAATGGTCGACACC
*
10666169 AAAAAATTTTGAAATTTTTTTATCTG-AAAAAGGGGGTGTCGACCATTG-TATGGTTAACACCAA
1 -AAAAA-TTTG-AATTTTTTTATCTGAAAAAAGGGGGTGTCGACCA-TGACATGGTTAACACCAA
*
10666232 AAAATTTAT-AAATTTTTTTATCTGAAAAAA
62 AAAATTT-TGAAATCTTTTTATCTGAAAAAA
10666262 GGGGGTGTCG
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
109 5 0.06
110 60 0.73
111 3 0.04
112 14 0.17
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (108 bp):
AAAAATTTGAATTTTTTTATCTGAAAAAAGGGGGTGTCGACCATGACATGGTTAACACCAAAAAA
TTTTGAAATCTTTTTATCTGAAAAAAAGGCAATGGTCGACACC
Found at i:10666815 original size:40 final size:40
Alignment explanation
Indices: 10666761--10666836 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
10666751 CCTGCAATTT
* * * *
10666761 TTTTTCTTTCATTTTCTCTTTTGCCAAACATCATTTGCCA
1 TTTTTCTCTCATTTTCCCTCTTGCCAAACACCATTTGCCA
10666801 TTTTTCTCTCATTTTCCCTCTTGCCAAACACCATTT
1 TTTTTCTCTCATTTTCCCTCTTGCCAAACACCATTT
10666837 TTCTTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.17, C:0.29, G:0.04, T:0.50
Consensus pattern (40 bp):
TTTTTCTCTCATTTTCCCTCTTGCCAAACACCATTTGCCA
Found at i:10667901 original size:16 final size:16
Alignment explanation
Indices: 10667880--10667917 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
10667870 TTTGGTTCAC
10667880 TGTAATGGAATAAAGT
1 TGTAATGGAATAAAGT
*
10667896 TGTAATGGAATAAGGT
1 TGTAATGGAATAAAGT
10667912 TGTAAT
1 TGTAAT
10667918 CAATAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAAAGT
Found at i:10668151 original size:59 final size:57
Alignment explanation
Indices: 10668088--10668197 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
10668078 TTTTAATAAG
* *
10668088 ATTATTATTAAATATAATTTAATAATAAATAATAAATAATTTAATTATATTTTGACATA
1 ATTATTATTAAATACAATTTAAT-A-AAATAATAAATAATTTAATAATATTTTGACATA
*
10668147 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAATATTTT
1 ATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAATATTTT
10668198 TAATATAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
57 25 0.52
58 1 0.02
59 22 0.46
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAATATTTTGACATA
Found at i:10669680 original size:31 final size:31
Alignment explanation
Indices: 10669640--10669698 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10669630 GTATAATTTA
10669640 TATTCGAGTTAAACCGAAAAACTTGATTTTT
1 TATTCGAGTTAAACCGAAAAACTTGATTTTT
* * * *
10669671 TATTTGAGTTGATCCGAATAACTTGATT
1 TATTCGAGTTAAACCGAAAAACTTGATT
10669699 AACTCCAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTGATTTTT
Found at i:10670084 original size:31 final size:31
Alignment explanation
Indices: 10670049--10670119 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
10670039 AAATTTTCTC
*
10670049 GAATCGAATCGAGTGAGAT-GAAATTCGAATA
1 GAATCGAATCGAGAGAGATAG-AATTCGAATA
* * *
10670080 GAATCGAATTGAGAGAGATAGAATTTGAATC
1 GAATCGAATCGAGAGAGATAGAATTCGAATA
10670111 GAATCGAAT
1 GAATCGAAT
10670120 ATTTTTGTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.24
Consensus pattern (31 bp):
GAATCGAATCGAGAGAGATAGAATTCGAATA
Found at i:10672092 original size:29 final size:30
Alignment explanation
Indices: 10672049--10672129 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
10672039 GAATTGGATC
*
10672049 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATCAAAA-TTCATATATAAAATTACACAT
* *
10672079 AAATCAAAATTCATACATACAATTACACATT
1 AAATCAAAATTCATATATAAAATTACACA-T
*
10672110 AAATCATAATTCATATATAA
1 AAATCAAAATTCATATATAA
10672130 TTTTAATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 17 0.40
30 9 0.21
31 17 0.40
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTCATATATAAAATTACACAT
Found at i:10675734 original size:26 final size:23
Alignment explanation
Indices: 10675686--10675735 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 23
10675676 AACAAATTAA
*
10675686 AAATACATTAAAAATTTATACTT
1 AAATACATTAAAAAATTATACTT
10675709 AAATAACATTAAAATAATTATAACTT
1 AAAT-ACATTAAAA-AATTAT-ACTT
10675735 A
1 A
10675736 GCAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 9 0.39
25 5 0.22
26 5 0.22
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATACATTAAAAAATTATACTT
Found at i:10675838 original size:22 final size:21
Alignment explanation
Indices: 10675813--10675865 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
10675803 ATAGTAATAT
*
10675813 AATAGAAAAATGACAGCAAAAC
1 AATAGAAAAATGACAAC-AAAC
** *
10675835 AATATTAAAATGACAACAAAT
1 AATAGAAAAATGACAACAAAC
10675856 AATAGAAAAA
1 AATAGAAAAA
10675866 CAACAGTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.15
Consensus pattern (21 bp):
AATAGAAAAATGACAACAAAC
Found at i:10677918 original size:7 final size:7
Alignment explanation
Indices: 10677908--10677950 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
10677898 TTTTGTTTCA
10677908 TCTTCTT
1 TCTTCTT
10677915 TCTTCTT
1 TCTTCTT
10677922 TCTTCTT
1 TCTTCTT
10677929 TCTTCTT
1 TCTTCTT
* *
10677936 CCCTCTT
1 TCTTCTT
10677943 TCTCTCTT
1 TCT-TCTT
10677951 CCTCTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 27 0.87
8 4 0.13
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (7 bp):
TCTTCTT
Found at i:10677954 original size:14 final size:13
Alignment explanation
Indices: 10677911--10677957 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
10677901 TGTTTCATCT
*
10677911 TCTTTCTTCTTTCT
1 TCTTTCTTC-TTCC
10677925 TCTTTCTTCTTCCC
1 TCTTTCTTCTT-CC
10677939 TCTTTCTCTCTTCC
1 TCTTTCT-TCTTCC
10677953 TCTTT
1 TCTTT
10677958 TTTTTTCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.80
15 4 0.13
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:10689735 original size:28 final size:29
Alignment explanation
Indices: 10689699--10689755 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
10689689 CAAAAAGTCT
*
10689699 ACCGAATAACGAATAATGCGATAGAGATA
1 ACCGAATAACAAATAATGCGATAGAGATA
*
10689728 ACCG-ATAACAAATAATGTGATAGAGATA
1 ACCGAATAACAAATAATGCGATAGAGATA
10689756 GCCAATCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.19
Consensus pattern (29 bp):
ACCGAATAACAAATAATGCGATAGAGATA
Found at i:10689997 original size:43 final size:43
Alignment explanation
Indices: 10689949--10690073 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
10689939 CATCATGCTA
*
10689949 TCAATCAATCACATACTATCAATATTAGGAAACAGTGTTCCAC
1 TCAATCAATCACATACTTTCAATATTAGGAAACAGTGTTCCAC
* * *
10689992 TCAATCGATCACATACTTTCACTATTAGGAAACAGTGTTCCTC
1 TCAATCAATCACATACTTTCAATATTAGGAAACAGTGTTCCAC
* * *
10690035 TCTATCAGTCACATACTTTCAATATTAGGAAACAATGTT
1 TCAATCAATCACATACTTTCAATATTAGGAAACAGTGTT
10690074 TCAACTTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (43 bp):
TCAATCAATCACATACTTTCAATATTAGGAAACAGTGTTCCAC
Found at i:10693838 original size:22 final size:22
Alignment explanation
Indices: 10693771--10693838 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
10693761 TTAGCATGCA
*
10693771 TTATAAGCATTTCACACTTAGT
1 TTATAAGCATTTCATACTTAGT
*
10693793 TAATAAGCATTTCATACTTAGT
1 TTATAAGCATTTCATACTTAGT
10693815 TTATAAGCATTTCATACTTAGT
1 TTATAAGCATTTCATACTTAGT
10693837 TT
1 TT
10693839 TTATATTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATAAGCATTTCATACTTAGT
Found at i:10731837 original size:20 final size:20
Alignment explanation
Indices: 10731800--10731838 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10731790 TTGGCCTAGG
*
10731800 ACTTCTACCTGTAGAACTTC
1 ACTTCTACCTGTACAACTTC
10731820 ACTTCTACC-GATACAACTT
1 ACTTCTACCTG-TACAACTT
10731839 TTGTTCTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (20 bp):
ACTTCTACCTGTACAACTTC
Found at i:10732067 original size:20 final size:20
Alignment explanation
Indices: 10732039--10732099 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
10732029 CTACCTTGGG
*
10732039 ACTTTTACCGATAGAACTTC
1 ACTTCTACCGATAGAACTTC
10732059 ACTTCTACCGATAGAACTTC
1 ACTTCTACCGATAGAACTTC
*
10732079 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATAGAACTTC
10732099 A
1 A
10732100 GTTATACCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (20 bp):
ACTTCTACCGATAGAACTTC
Found at i:10732107 original size:20 final size:20
Alignment explanation
Indices: 10732039--10732114 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
10732029 CTACCTTGGG
* *
10732039 ACTTTTACCGATAGAACTTC
1 ACTTCTACCGATACAACTTC
*
10732059 ACTTCTACCGATAGAACTTC
1 ACTTCTACCGATACAACTTC
10732079 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
* * *
10732099 AGTTATACCAATACAA
1 ACTTCTACCGATACAA
10732115 GTTTTCTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:10733024 original size:16 final size:17
Alignment explanation
Indices: 10733003--10733035 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10732993 TTTCTCTTGC
*
10733003 TTTA-TTTCTTTTATTT
1 TTTATTTTCTTTAATTT
10733019 TTTATTTTCTTTAATTT
1 TTTATTTTCTTTAATTT
10733036 AAACCCCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTCTTTAATTT
Found at i:10736328 original size:18 final size:16
Alignment explanation
Indices: 10736296--10736337 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10736286 GCAATTGATC
10736296 CCTAAATGAAATTAAA
1 CCTAAATGAAATTAAA
10736312 CCTAATATGATAATT-AA
1 CCTAA-ATGA-AATTAAA
10736329 -CTAAATGAA
1 CCTAAATGAA
10736338 TGAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 4 0.17
16 9 0.38
17 6 0.25
18 4 0.17
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (16 bp):
CCTAAATGAAATTAAA
Found at i:10741403 original size:45 final size:45
Alignment explanation
Indices: 10741304--10741420 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
10741294 CGTTCCAAAG
* *
10741304 GATGCCATGGTATCTTCCAACCATGGTCTTATTCATTCCTGAAGT
1 GATGCCATAGTATCTTTCAACCATGGTCTTATTCATTCCTGAAGT
* * * * *
10741349 GGTGTCATAGTATCTTTCAACCATGGTCTTGA-TCGTT-ATCGATGT
1 GATGCCATAGTATCTTTCAACCATGGTCTT-ATTCATTCCT-GAAGT
*
10741394 GATGCCATAGTATCTTTCAACTATGGT
1 GATGCCATAGTATCTTTCAACCATGGT
10741421 TTTACTTGTG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.02
45 58 0.97
46 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (45 bp):
GATGCCATAGTATCTTTCAACCATGGTCTTATTCATTCCTGAAGT
Found at i:10741547 original size:43 final size:43
Alignment explanation
Indices: 10741354--10741599 Score: 215
Period size: 45 Copynumber: 5.6 Consensus size: 43
10741344 GAAGTGGTGT
* * * * *
10741354 CATAGTATCTTTCAACCATGGTCTTGATCGTTATCGATGTGATGC
1 CATAGTATCTTTCAACTATGGTCTT-ATCATT-TCGGTCTAATGC
* * * *
10741399 CATAGTATCTTTCAACTATGGTTTTA-CTTGTGTCGGATTTAAAGC
1 CATAGTATCTTTCAACTATGGTCTTATCAT-T-TCGG-TCTAATGC
* * * * * * *
10741444 CATGGTATCTTTCAACTATGGTCTAACTCGTTTTTGGTATAGTCC
1 CATAGTATCTTTCAACTATGGTCTTA-TC-ATTTCGGTCTAATGC
* *
10741489 CATAGTATCTATCAACTATGGTCTTATCATTCCGGTCTAATGC
1 CATAGTATCTTTCAACTATGGTCTTATCATTTCGGTCTAATGC
* * * * *
10741532 CATAGTAACTTTCAACTATTGTCTTATCATTCCGATCTAATGT
1 CATAGTATCTTTCAACTATGGTCTTATCATTTCGGTCTAATGC
10741575 CATAGTATCTTTCAACTATGGTCTT
1 CATAGTATCTTTCAACTATGGTCTT
10741600 TCTCACTTTG
Statistics
Matches: 164, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
43 72 0.44
44 7 0.04
45 78 0.48
46 3 0.02
47 2 0.01
48 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (43 bp):
CATAGTATCTTTCAACTATGGTCTTATCATTTCGGTCTAATGC
Found at i:10741718 original size:16 final size:18
Alignment explanation
Indices: 10741686--10741719 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
10741676 CCAAAACATA
10741686 TATAAATAAACATCAAAT
1 TATAAATAAACATCAAAT
10741704 TATAAA-AAA-ATCAAAT
1 TATAAATAAACATCAAAT
10741720 ATCTACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
TATAAATAAACATCAAAT
Found at i:10747420 original size:4 final size:4
Alignment explanation
Indices: 10747401--10748226 Score: 624
Period size: 4 Copynumber: 206.5 Consensus size: 4
10747391 TTTTCTATTT
*
10747401 TACA TACA TTAAA TACA TACA TACA TACA TACA TACA TACA TACA -ACA
1 TACA TACA -TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
10747449 TACA TACA TACA TACA TCCA TTCA TCCA TCCA TCCA TCCA TCCA TCCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
10747497 TCCA T-CAA TACA TACA TACA TACA TACA TACA TCCA TCCA TCCA TACA
1 TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * * * * *
10747545 TACA TACA TATG TACA T-CTA TACA TCCA TCCA TCCA TCCA TCCA TACA
1 TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * *
10747593 TACG TACA T-CTA TACA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA
1 TACA TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
10747641 T-CTA TCCA TCCA TCCA TCCA TACA TACA TACA TACA TACA TACA TACA
1 TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * ** * *
10747689 TACA TACA TCCA TACA TACA AACA TATG TACA T-CTA TACA TCCA TCCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA
* * * * * *
10747737 TCCA TACA TGCA TACA TACG TACA T-CTA TACA TCCA TCCA TCCA TACA
1 TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA
* * * *
10747785 TACA TGCA AACA TACA TGCA TACA TACA TCCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
10747833 TACA TACA TACA TCCA TACA TGCA TCCT TGCA TACA TACG TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * ** *
10747881 TACT TACA TACA TACA TTCA TACA TACA TACA TGCT TACA TGGA TCCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
10747929 TGCA TCCA TCCA TCCA TCCA TCCA TACA TACA TACA TAAA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
10747977 TACA TACA TACA TGCA TACA TTCT TGCA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* ***
10748025 TACA TACA TACA TACA TACA TACA TACA TACA TCCA TGTT TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
10748073 TACA TGCA TACA TGCA TCCA T-CTA TCCA TACA TACA TACA TACA AACA
1 TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA TACA
* * * * * ** * * * * * *
10748121 TCCG TCCA TCCA TTCA TTTA TCCA TCCA TCCA TCCA TCCA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * **
10748169 TACA TACA TACA TACA TACA TACT TACT TAGT TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
10748217 TACA TACA TA
1 TACA TACA TA
10748227 TCCTTATTCC
Statistics
Matches: 701, Mismatches: 105, Indels: 32
0.84 0.13 0.04
Matches are distributed among these distances:
3 10 0.01
4 681 0.97
5 10 0.01
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:10758631 original size:17 final size:17
Alignment explanation
Indices: 10758592--10758631 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10758582 TAAATCGCAT
*
10758592 AAAAAAGAGAAAATAAA
1 AAAAAAGAGAAAAGAAA
* *
10758609 GAAAAAGATAAAAGAAA
1 AAAAAAGAGAAAAGAAA
10758626 AAAAAA
1 AAAAAA
10758632 TATAGAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAAAGAGAAAAGAAA
Found at i:10800583 original size:24 final size:24
Alignment explanation
Indices: 10800555--10800606 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10800545 TAGCCTTCAG
* * * *
10800555 GTTGCACTAAAGATCTGTCTGCAA
1 GTTGCAATAAAAATCTATCCGCAA
10800579 GTTGCAATAAAAATCTATCCGCAA
1 GTTGCAATAAAAATCTATCCGCAA
10800603 GTTG
1 GTTG
10800607 TAATGTCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (24 bp):
GTTGCAATAAAAATCTATCCGCAA
Found at i:10823117 original size:3 final size:3
Alignment explanation
Indices: 10823094--10823153 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
10823084 GTATTGAGGC
*
10823094 AGA AGA AGG AGAA AGA A-A AGA AGA AGA AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
10823138 AGGA AGA AAA AGA AGA
1 A-GA AGA AGA AGA AGA
10823154 TCCTCGATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10823585 original size:17 final size:17
Alignment explanation
Indices: 10823554--10823595 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
10823544 TAATTGCTAT
*
10823554 TGCATTTTTTATTGTCTC
1 TGCATTTTATATTGT-TC
10823572 TGCATTTTAT-TTGTTC
1 TGCATTTTATATTGTTC
10823588 TAGCATTT
1 T-GCATTT
10823596 GCATTGTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (17 bp):
TGCATTTTATATTGTTC
Found at i:10827310 original size:20 final size:20
Alignment explanation
Indices: 10827287--10827372 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
10827277 AAAATGTCAT
10827287 TTCTACCGATACAATGCAGG
1 TTCTACCGATACAATGCAGG
10827307 TTCTACCGATAC-A---A-G
1 TTCTACCGATACAATGCAGG
10827322 TTCTACCGATACAATGCAGG
1 TTCTACCGATACAATGCAGG
* *
10827342 TTC-A--AAAACAATGCAGG
1 TTCTACCGATACAATGCAGG
10827359 TTCTACCGATACAA
1 TTCTACCGATACAA
10827373 GTGTCTCTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
15 13 0.24
16 2 0.04
17 14 0.26
18 1 0.02
19 3 0.06
20 21 0.39
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
TTCTACCGATACAATGCAGG
Found at i:10827326 original size:15 final size:15
Alignment explanation
Indices: 10827306--10827335 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10827296 TACAATGCAG
10827306 GTTCTACCGATACAA
1 GTTCTACCGATACAA
10827321 GTTCTACCGATACAA
1 GTTCTACCGATACAA
10827336 TGCAGGTTCA
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:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
GTTCTACCGATACAA
Found at i:10827521 original size:21 final size:22
Alignment explanation
Indices: 10827472--10827528 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
10827462 CAAGTATCCA
10827472 AACTACCGATACTACTATGAATAG
1 AACTACCGATACTACTAT--ATAG
*
10827496 AACTACCGATACTTCTAT-TAG
1 AACTACCGATACTACTATATAG
*
10827517 TACTACCGATAC
1 AACTACCGATAC
10827529 AATGCAAGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 14 0.45
24 17 0.55
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (22 bp):
AACTACCGATACTACTATATAG
Found at i:10828158 original size:53 final size:53
Alignment explanation
Indices: 10828082--10828486 Score: 542
Period size: 53 Copynumber: 7.6 Consensus size: 53
10828072 TTCACCTTTG
* ** *
10828082 ATAACTCACGAGGACACGGAGTCATCGGACCTTTAATCCATAATAGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * * *
10828135 ATAAATCACGTTGACATAGAGTCATCGGACCTTTAATCTGCAATAGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * * * *
10828188 ATAATTCACGATGACATAGAGTTATCAGACCTTTAATCTGTAATGGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * *
10828241 ATAGCTCAAGATGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * * *
10828294 ATAACTCACGATGACACAAAGTCATCGGACCTTTCATCCGCAATAGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * * *
10828347 ATAAATTCATGATGACACAGAGTCATCGGACCTTTAATACGTAATAGGATTCAT
1 AT-AACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* *
10828401 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCTGTAATAAGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* *
10828454 ATAACTCACGATGACATA-AATCATCAGACCTTT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTT
10828487 TTGCATTTAC
Statistics
Matches: 310, Mismatches: 41, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
52 13 0.04
53 250 0.81
54 47 0.15
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (53 bp):
ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
Found at i:10833800 original size:20 final size:20
Alignment explanation
Indices: 10833766--10833806 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10833756 TCAAAGCACT
*
10833766 TATAATCAAAGACAAGAGAA
1 TATAATCAAAGACAACAGAA
10833786 TATAATCAACA-ACAACAGAA
1 TATAATCAA-AGACAACAGAA
10833806 T
1 T
10833807 TACAATCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.17
Consensus pattern (20 bp):
TATAATCAAAGACAACAGAA
Found at i:10833867 original size:21 final size:21
Alignment explanation
Indices: 10833823--10833881 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
10833813 CAGCATAATC
*
10833823 AGATGCATCCACAACACACCT
1 AGATGCATCCACAACACAACT
* * *
10833844 AGATGCATCCACACCAGAATT
1 AGATGCATCCACAACACAACT
10833865 AGATGCAGT-CACAACAC
1 AGATGCA-TCCACAACAC
10833882 TCTTCAATGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.32, G:0.14, T:0.15
Consensus pattern (21 bp):
AGATGCATCCACAACACAACT
Found at i:10847973 original size:15 final size:14
Alignment explanation
Indices: 10847953--10848004 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 14
10847943 ATTGAGGGAG
10847953 AAGAAGAAGAAAGAA
1 AAGAAGAAGAAA-AA
10847968 AAGAAGAAGAAAAA
1 AAGAAGAAGAAAAA
10847982 GAAG-AGAATGAAAAAA
1 -AAGAAGAA-G-AAAAA
10847998 AAGAAGA
1 AAGAAGA
10848005 TGTTGCCCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 6 0.18
15 19 0.58
16 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (14 bp):
AAGAAGAAGAAAAA
Found at i:10847974 original size:18 final size:17
Alignment explanation
Indices: 10847951--10848002 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
10847941 GTATTGAGGG
10847951 AGAAGAAGAAGAAAGAAA
1 AGAAGAAGAA-AAAGAAA
*
10847969 AGAAGAAGAAAAAGAAG
1 AGAAGAAGAAAAAGAAA
*
10847986 AGAATGAAAAAAAAGAA
1 AGAA-GAAGAAAAAGAA
10848003 GATGTTGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (17 bp):
AGAAGAAGAAAAAGAAA
Found at i:10867890 original size:12 final size:12
Alignment explanation
Indices: 10867875--10867907 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
10867865 AAATTCATTC
10867875 ATAAATATTAAT
1 ATAAATATTAAT
10867887 ATAAATATTAAT
1 ATAAATATTAAT
10867899 ATATAATAT
1 ATA-AATAT
10867908 AGAGTATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:10875021 original size:24 final size:22
Alignment explanation
Indices: 10874994--10875044 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
10874984 GAAAAATAGT
10874994 GAAAAACAAAAAGAAAATGAGTAA
1 GAAAAACAAAAAG-AAA-GAGTAA
** *
10875018 GAAACGCAAAAAGAGAGAGTAA
1 GAAAAACAAAAAGAAAGAGTAA
10875040 GAAAA
1 GAAAA
10875045 TATGCAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 10 0.43
23 2 0.09
24 11 0.48
ACGTcount: A:0.67, C:0.06, G:0.22, T:0.06
Consensus pattern (22 bp):
GAAAAACAAAAAGAAAGAGTAA
Found at i:10875022 original size:22 final size:21
Alignment explanation
Indices: 10875000--10875043 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
10874990 TAGTGAAAAA
10875000 CAAAAAGAAAATGAGTAAGAAAC
1 CAAAAAG-AAA-GAGTAAGAAAC
*
10875023 GCAAAAAGAGAGAGTAAGAAA
1 -CAAAAAGAAAGAGTAAGAAA
10875044 ATATGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 2 0.11
24 7 0.37
ACGTcount: A:0.64, C:0.07, G:0.23, T:0.07
Consensus pattern (21 bp):
CAAAAAGAAAGAGTAAGAAAC
Found at i:10878264 original size:53 final size:53
Alignment explanation
Indices: 10878188--10878434 Score: 377
Period size: 53 Copynumber: 4.6 Consensus size: 53
10878178 TTCACCTTTG
* * *
10878188 ATAACTCATGATGACACGAAGTCATCGGACCTTTAATCCGAAATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
** *
10878241 ATAACTCACGATGACACGGAGTCATCGGACCTTTAATCCGTAATAAGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
*
10878294 ATAACTCACGATGACACAAAAGTCATTGGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACAC-AAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* * *
10878348 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
* *
10878401 ATAACTCACAATGACACAAAGTCATCGAACCTTT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTT
10878435 TTGCATTTAC
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 129 0.73
54 48 0.27
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCAT
Found at i:10878373 original size:107 final size:106
Alignment explanation
Indices: 10878188--10878434 Score: 395
Period size: 107 Copynumber: 2.3 Consensus size: 106
10878178 TTCACCTTTG
* *
10878188 ATAACTCATGATGACACGAAGTCATCGGACCTTTAATCCGAAATAGGATTCATATAACTCACGAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGAAATAGGATTCATATAACTCACGAT
* *
10878253 GACACGGAGTCATCGGACCTTTAATCCGTAATAAGATTCAT
66 GACACAGAGTCATCGGACCTTTAATCCGCAATAAGATTCAT
* *
10878294 ATAACTCACGATGACACAAAAGTCATTGGACCTTTAATCCGTAATAGGATTCATATAACTCACGA
1 ATAACTCACGATGACAC-AAAGTCATCGGACCTTTAATCCGAAATAGGATTCATATAACTCACGA
* *
10878359 TGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
65 TGACACAGAGTCATCGGACCTTTAATCCGCAATAAGATTCAT
* *
10878401 ATAACTCACAATGACACAAAGTCATCGAACCTTT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTT
10878435 TTGCATTTAC
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
106 31 0.24
107 98 0.76
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (106 bp):
ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGAAATAGGATTCATATAACTCACGAT
GACACAGAGTCATCGGACCTTTAATCCGCAATAAGATTCAT
Found at i:10878917 original size:16 final size:16
Alignment explanation
Indices: 10878896--10878926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10878886 TAGTTACAAA
*
10878896 TTTATTCTTTTAACAT
1 TTTATTCCTTTAACAT
10878912 TTTATTCCTTTAACA
1 TTTATTCCTTTAACA
10878927 CAAAAATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATTCCTTTAACAT
Found at i:10885842 original size:53 final size:53
Alignment explanation
Indices: 10885759--10885949 Score: 296
Period size: 53 Copynumber: 3.6 Consensus size: 53
10885749 TTCACCTTTG
* *
10885759 ATAACTCACGATAACATAGAGTTATCGGACCTTTAATCCGCAATAGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
* * *
10885812 ATAACTCACGATGACATATAGTCATTGGACCTTTAATCCGTAATAGGATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
* *
10885865 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCGCAATAGAATTCAT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
*
10885918 ATAACTCACGATGACAT--AGTCATCAGACCTTT
1 ATAACTCACGATGACATAGAGTCATCGGACCTTT
10885950 TTGCATATAT
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
51 14 0.11
53 112 0.89
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (53 bp):
ATAACTCACGATGACATAGAGTCATCGGACCTTTAATCCGCAATAGGATTCAT
Found at i:10888776 original size:17 final size:17
Alignment explanation
Indices: 10888756--10888809 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10888746 ACTAAAATGC
* *
10888756 AAATGTATTAACAACTA
1 AAATGTAATGACAACTA
* * *
10888773 AAATGCAGTGACAATTAA
1 AAATGTAATGACAACT-A
10888791 AAATGTAATGACAACTA
1 AAATGTAATGACAACTA
10888808 AA
1 AA
10888810 TGGTATTCAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (17 bp):
AAATGTAATGACAACTA
Found at i:10888795 original size:18 final size:18
Alignment explanation
Indices: 10888766--10888809 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
10888756 AAATGTATTA
*
10888766 ACAACT-AAAATGCAGTG
1 ACAACTAAAAATGCAATG
* *
10888783 ACAATTAAAAATGTAATG
1 ACAACTAAAAATGCAATG
10888801 ACAACTAAA
1 ACAACTAAA
10888810 TGGTATTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (18 bp):
ACAACTAAAAATGCAATG
Found at i:10894547 original size:21 final size:21
Alignment explanation
Indices: 10894521--10894571 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
10894511 GTGCTAGTTT
10894521 TACCGATACAAGTATGATTTC
1 TACCGATACAAGTATGATTTC
10894542 TACCGATACAAGTATGATTTC
1 TACCGATACAAGTATGATTTC
10894563 TACCGATAC
1 TACCGATAC
10894572 CAAAAACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (21 bp):
TACCGATACAAGTATGATTTC
Found at i:10896576 original size:186 final size:187
Alignment explanation
Indices: 10896253--10896626 Score: 687
Period size: 186 Copynumber: 2.0 Consensus size: 187
10896243 CCCTCAATTC
*
10896253 CTTCTTCTTGGCCGTGTGAAGAAGATGAAAAAGAAGGAAAATATGTTTTCTTTCTTCTTTTAATT
1 CTTCTTCTTGGCCATGTGAAGAAGATGAAAAAGAAGGAAAATATGTTTTCTTTCTTCTTTTAATT
10896318 TCATATATATATATTAATGGCAAACTTGTAGTTTTCATGACTTTCATCATTAAGCTTAACTAATC
66 TCATATATATATATTAATGGCAAACTTGTAGTTTTCATGACTTTCATCATTAAGCTTAACTAATC
10896383 -CTTTTTTTTCTTTAACTTAATTAATACACTATTTTCACTTAAAATATCATATCATT
131 TCTTTTTTTTCTTTAACTTAATTAATACACTATTTTCACTTAAAATATCATATCATT
10896439 CTTCTTCTTGGCCATGTGAAGAAGATGAAAAAGAAGGAAAATATGTTTTCTTTCTTCTTTTAATT
1 CTTCTTCTTGGCCATGTGAAGAAGATGAAAAAGAAGGAAAATATGTTTTCTTTCTTCTTTTAATT
* * *
10896504 TCATATATTTATATTAATGGCAAACTTGTAGTTTTCATGACTTTCATCATTAAGCTTCATTAATC
66 TCATATATATATATTAATGGCAAACTTGTAGTTTTCATGACTTTCATCATTAAGCTTAACTAATC
* *
10896569 TTTTTTTTTTCTTTAACTTAATTAATACACTATTTTCACTTAAAATATTATATCATT
131 TCTTTTTTTTCTTTAACTTAATTAATACACTATTTTCACTTAAAATATCATATCATT
10896626 C
1 C
10896627 CACTAACTAA
Statistics
Matches: 181, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
186 126 0.70
187 55 0.30
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.45
Consensus pattern (187 bp):
CTTCTTCTTGGCCATGTGAAGAAGATGAAAAAGAAGGAAAATATGTTTTCTTTCTTCTTTTAATT
TCATATATATATATTAATGGCAAACTTGTAGTTTTCATGACTTTCATCATTAAGCTTAACTAATC
TCTTTTTTTTCTTTAACTTAATTAATACACTATTTTCACTTAAAATATCATATCATT
Found at i:10903137 original size:20 final size:20
Alignment explanation
Indices: 10903072--10903137 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
10903062 GTCCATTCAC
10903072 ACATTTATTTTCACAACAAT
1 ACATTTATTTTCACAACAAT
* * *
10903092 ACATGTAATTTCAC--CATTT
1 ACATTTATTTTCACAACA-AT
*
10903111 TCATTTATTTTCACAACAAT
1 ACATTTATTTTCACAACAAT
10903131 ACATTTA
1 ACATTTA
10903138 ACCCAAGTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 19 0.54
21 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (20 bp):
ACATTTATTTTCACAACAAT
Found at i:10918234 original size:18 final size:19
Alignment explanation
Indices: 10918213--10918260 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
10918203 AGGAGGACCC
10918213 TGAGGAGAAGAAGGAA-AA
1 TGAGGAGAAGAAGGAAGAA
10918231 TGAGGA-AGAGAAGGAAGAA
1 TGAGGAGA-AGAAGGAAGAA
10918250 -GAGGAGAAGAA
1 TGAGGAGAAGAA
10918261 TAAAGAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.42, T:0.04
Consensus pattern (19 bp):
TGAGGAGAAGAAGGAAGAA
Found at i:10924958 original size:18 final size:19
Alignment explanation
Indices: 10924935--10924981 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
10924925 GATTTTCTTC
10924935 AGGATCTTCTTCTTCCTT-
1 AGGATCTTCTTCTTCCTTA
* *
10924953 AGGATCCTCTTCTTCTTTA
1 AGGATCTTCTTCTTCCTTA
10924972 AGG-TCTTCTT
1 AGGATCTTCTT
10924982 TTTCTTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.49
Consensus pattern (19 bp):
AGGATCTTCTTCTTCCTTA
Done.