Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 183 of 325
Found at i:59501888 original size:21 final size:22
Alignment explanation
Indices: 59501862--59501902 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59501852 GACACGGGCG
59501862 TGTGTCTC-AACCGTGTGTGCC
1 TGTGTCTCTAACCGTGTGTGCC
*
59501883 TGTGTCTCTACCCGTGTGTG
1 TGTGTCTCTAACCGTGTGTG
59501903 ACACACGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.07, C:0.27, G:0.29, T:0.37
Consensus pattern (22 bp):
TGTGTCTCTAACCGTGTGTGCC
Found at i:59504229 original size:26 final size:26
Alignment explanation
Indices: 59504200--59504273 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
59504190 AGCTATGACT
*
59504200 AGTAAGCTCCTCCTTAGCTGATAGAC
1 AGTAAGCTCCTCCTGAGCTGATAGAC
*
59504226 AGTAAGCTCCTCCTGAGCTGATGGAC
1 AGTAAGCTCCTCCTGAGCTGATAGAC
**
59504252 AGTAAGCT-CTATTGAGCTGATA
1 AGTAAGCTCCTCCTGAGCTGATA
59504274 TATTAGTAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AGTAAGCTCCTCCTGAGCTGATAGAC
Found at i:59509704 original size:16 final size:16
Alignment explanation
Indices: 59509683--59509717 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59509673 GACAAAAGAA
*
59509683 AAATGCTGAAAAGCCG
1 AAATGCCGAAAAGCCG
*
59509699 AAATGCCGAAAGGCCG
1 AAATGCCGAAAAGCCG
59509715 AAA
1 AAA
59509718 GTTTGGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.26, T:0.09
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:59509970 original size:29 final size:28
Alignment explanation
Indices: 59509929--59509989 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
59509919 ATGAGCATGA
59509929 ATATAAGGTGATTTGGGCCTAACGGGCC
1 ATATAAGGTGATTTGGGCCTAACGGGCC
*
59509957 ATATCAAGGTGATTTGGGCCTAATGGGCC
1 ATAT-AAGGTGATTTGGGCCTAACGGGCC
59509986 ATAT
1 ATAT
59509990 GAATATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAACGGGCC
Found at i:59510002 original size:29 final size:29
Alignment explanation
Indices: 59509941--59510022 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
59509931 ATAAGGTGAT
* * ** *
59509941 TTGGGCCTAACGGGCCATATCAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
59509970 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
59509999 TTGGGCTTGATAGGCCATATGAAT
1 TTGGGCCTAATGGGCCATATGAAT
59510023 GAGATGGGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:59514799 original size:40 final size:40
Alignment explanation
Indices: 59514725--59514909 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
59514715 AACCCAAGTA
* * *
59514725 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
*
59514764 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
* *
59514804 CCTTCGGGACTTAGCTCGGGTATAGCAACTACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATG
*
59514847 CCTTCGGGACTTCGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
*
59514887 CCTACGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59514910 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
39 13 0.10
40 77 0.61
41 1 0.01
43 35 0.28
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:59514848 original size:83 final size:79
Alignment explanation
Indices: 59514725--59514909 Score: 271
Period size: 83 Copynumber: 2.3 Consensus size: 79
59514715 AACCCAAGTA
* * *
59514725 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACACATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
59514790 CACTAGCACAAATG
66 CACTAGCACAAATG
* *
59514804 CCTTCGGGACTTAGCTCGGGTATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGC-CGGATATAGCAACT-C--GCACAAATGCCTTCGGGACTTAGCCCGGATA
59514869 TAGTCACTAGCACAAATG
62 TAGTCACTAGCACAAATG
*
59514887 CCTACGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATAT
59514910 CATCCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
79 14 0.15
80 13 0.14
81 1 0.01
83 65 0.69
84 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:59520676 original size:33 final size:33
Alignment explanation
Indices: 59520639--59520712 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
59520629 CTTGCTACCG
59520639 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
1 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
59520672 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
1 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
59520705 AAAACCCT
1 AAAACCCT
59520713 TGCTTCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.43, C:0.31, G:0.05, T:0.20
Consensus pattern (33 bp):
AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
Found at i:59521713 original size:28 final size:29
Alignment explanation
Indices: 59521603--59521715 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 29
59521593 GTAAGCACGA
* *
59521603 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
59521631 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
59521660 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
59521689 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATGTGATTTGGGCCTAATGGGC
59521716 TAGATACAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:59523984 original size:22 final size:22
Alignment explanation
Indices: 59523956--59524077 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59523946 TTCCACATCC
59523956 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
59523978 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
59524002 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
59524025 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
59524049 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
59524072 ATCACA
1 ATCACA
59524078 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59523991 original size:47 final size:47
Alignment explanation
Indices: 59523928--59524570 Score: 956
Period size: 47 Copynumber: 13.6 Consensus size: 47
59523918 CCCTTCGGGA
* * *
59523928 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
59523975 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59524022 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59524069 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59524116 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59524163 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59524210 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
59524257 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59524306 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59524353 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59524400 CTTATCACATATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
59524446 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
59524495 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
59524544 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59524571 TATTCAAATA
Statistics
Matches: 567, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
46 42 0.07
47 387 0.68
48 5 0.01
49 132 0.23
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:59524409 original size:22 final size:22
Alignment explanation
Indices: 59524381--59524455 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
59524371 TTTCACATTC
59524381 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** *** *
59524403 ATCACATATAACACTTTCACATT
1 ATCACATCGGCCA-TTAGGCCTT
59524426 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
59524449 ATCACAT
1 ATCACAT
59524456 ATATATACAC
Statistics
Matches: 35, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
22 16 0.46
23 10 0.29
24 9 0.26
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:59526084 original size:56 final size:56
Alignment explanation
Indices: 59526017--59526136 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
59526007 TATTAGTTTA
59526017 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
59526073 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
59526129 TTGCCCAT
1 TTGCCCAT
59526137 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:59527447 original size:40 final size:40
Alignment explanation
Indices: 59527402--59527713 Score: 196
Period size: 40 Copynumber: 7.8 Consensus size: 40
59527392 CGAATACACG
* * * *
59527402 TCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** **
59527442 ACACCAGCACGAATGCTCTTCGGGGTTTAGCATGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
59527482 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
59527522 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** * * *
59527562 GTAACTC-GCAAAAATGC-CTTCGGGACTTAACCTGGATTTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
59527602 GTAACTC-GCACCAATGC-CTTCGGG-CTTAGCCCGGA-ATTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATA-TA
* * * *
59527641 GTAACTC-GCACAAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
59527682 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCC
59527714 AGACATCATT
Statistics
Matches: 222, Mismatches: 41, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 170 0.77
41 19 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:59527583 original size:80 final size:78
Alignment explanation
Indices: 59527429--59527713 Score: 243
Period size: 80 Copynumber: 3.6 Consensus size: 78
59527419 CTTTGGGACC
* * * ** ** * * *
59527429 TAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCATGGATATA-TCACTAGCACG
1 TAGCCCGGATATATCACTAGCACCAATGC-CTTCGGGACTTAGCCCGG-TATAGTAACTCGCACA
59527493 AATGCTCTTCGGAACT
64 AATGC-CTTCGGAACT
* ** *
59527509 TAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAAA
1 TAGCCCGGATATATCACTAGCACCAATGC-CTTCGGGACTTAGCCCGG-TATAGTAACTCGCACA
*
59527574 AATGCCTTCGGGACT
64 AATGCCTTCGGAACT
* * * * * *
59527589 TAACCTGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 TAGCCCGGATATA-TCACTAGCACCAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACA
*
59527653 AATGCCTTCGGATCT
64 AATGCCTTCGGAACT
* * *
59527668 TAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 TAGCCCGGATAT-ATCAC-TAGCACCAATGCCTTCGGGACTTAGCCC
59527714 AGACATCATT
Statistics
Matches: 165, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.36
80 81 0.49
81 24 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
TAGCCCGGATATATCACTAGCACCAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAA
TGCCTTCGGAACT
Found at i:59527651 original size:39 final size:40
Alignment explanation
Indices: 59527488--59527713 Score: 210
Period size: 40 Copynumber: 5.7 Consensus size: 40
59527478 TATATCACTA
* * ** * *
59527488 GCACGAATGCTCTTCGGAACTTAGCCCGGATACA-TCACTA
1 GCACAAATGC-CTTCGGGACTTAGCCCGGATTTAGTAACTC
**
59527528 GCATGAATGCTCTTCGGGACTTAGCCCGG-TTATAGTAACTC
1 GCACAAATGC-CTTCGGGACTTAGCCCGGATT-TAGTAACTC
* * *
59527569 GCAAAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC
* *
59527609 GCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC
* * * * *
59527648 GCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TC
59527689 GCACAAA-GCCTTCGGGACTTAGCCC
1 GCACAAATGCCTTCGGGACTTAGCCC
59527714 AGACATCATT
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.21
40 96 0.62
41 25 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC
Found at i:59527700 original size:79 final size:80
Alignment explanation
Indices: 59527539--59527713 Score: 207
Period size: 79 Copynumber: 2.2 Consensus size: 80
59527529 CATGAATGCT
* *
59527539 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGACTTAACCTGGATTTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAACCTGGATATAGT
* *
59527604 AACTCGCACCAATGC
66 AACTAGCACCAAAGC
* *
59527619 CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-GGATAT
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAAAAATGCCTTCGGGA-CTTA-ACCTGGATAT
* *
59527680 GGTCACTTAGCA-CAAAGC
63 AGTAAC-TAGCACCAAAGC
59527698 CTTCGGGACTTAGCCC
1 CTTCGGGACTTAGCCC
59527714 AGACATCATT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.05
79 57 0.70
80 21 0.26
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAACCTGGATATAGT
AACTAGCACCAAAGC
Found at i:59530051 original size:22 final size:22
Alignment explanation
Indices: 59530023--59530144 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59530013 TTCCACATCC
59530023 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
59530045 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
59530069 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
59530092 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
59530116 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
59530139 ATCACA
1 ATCACA
59530145 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59530058 original size:47 final size:47
Alignment explanation
Indices: 59529995--59530638 Score: 956
Period size: 47 Copynumber: 13.6 Consensus size: 47
59529985 CCCTTCGGGA
* * *
59529995 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
59530042 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59530089 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59530136 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59530183 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59530230 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
59530277 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
59530324 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59530373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
59530420 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
59530469 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
59530516 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
59530563 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
59530612 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59530639 TATTCAAATA
Statistics
Matches: 565, Mismatches: 24, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 426 0.75
49 137 0.24
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:59532181 original size:56 final size:56
Alignment explanation
Indices: 59532095--59532214 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
59532085 TATTAGTTTA
59532095 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
59532151 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
59532207 TTGCCCAT
1 TTGCCCAT
59532215 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:59536676 original size:28 final size:29
Alignment explanation
Indices: 59536566--59536680 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
59536556 GTGAGCATGA
* *
59536566 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
59536594 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
59536623 AT-TTACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
59536652 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
59536680 A
1 A
59536681 AATACAGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 29 0.39
29 44 0.59
30 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:59536689 original size:57 final size:58
Alignment explanation
Indices: 59536579--59536689 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
59536569 TGAATGTGAC
* **
59536579 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATTTACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATT
* * *
59536637 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGT
59536690 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:59542207 original size:33 final size:33
Alignment explanation
Indices: 59542161--59542227 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
59542151 ATTTGAAAAG
59542161 TTATCAAAGTATGAAAATTTTTCCATGGATGAA
1 TTATCAAAGTATGAAAATTTTTCCATGGATGAA
*
59542194 TTATCAAATTATGAAAATTTTTCCATGGATGAA
1 TTATCAAAGTATGAAAATTTTTCCATGGATGAA
59542227 T
1 T
59542228 ATGCTGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (33 bp):
TTATCAAAGTATGAAAATTTTTCCATGGATGAA
Found at i:59549168 original size:29 final size:29
Alignment explanation
Indices: 59549133--59549206 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
59549123 GTTGTGAGAT
* *
59549133 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
59549162 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
59549191 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59549207 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:59559965 original size:15 final size:17
Alignment explanation
Indices: 59559947--59559978 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59559937 TAGCATAATT
59559947 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
59559962 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
59559979 CAAGTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:59562536 original size:15 final size:15
Alignment explanation
Indices: 59562516--59562546 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59562506 CACAACATCT
59562516 GCAACAATTATTATG
1 GCAACAATTATTATG
*
59562531 GCAACAATTGTTATG
1 GCAACAATTATTATG
59562546 G
1 G
59562547 TAACTCTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (15 bp):
GCAACAATTATTATG
Found at i:59564696 original size:48 final size:47
Alignment explanation
Indices: 59564500--59565389 Score: 1075
Period size: 48 Copynumber: 18.7 Consensus size: 47
59564490 AGAAGAGATT
*
59564500 CGATGTGATGAATGT--AAGTGTAAATATATGCGAT-AGGCCCTAAATGGC
1 CGATGTGATGAATGTGAAAGTGT--ATATATGTGATAAGG-CCT-AATGGC
*
59564548 CGAAAGTGAT-AATGTG-AAGT-TATATATGTGAAATAA-GCC-AATGGC
1 CG-ATGTGATGAATGTGAAAGTGTATATATGTG--ATAAGGCCTAATGGC
59564593 CGATGTGATGGAATGTGAAAGTGTAATATATGTGAATAAGGGCCTAAATGGC
1 CGATGTGAT-GAATGTGAAAGTGT-ATATATGTG-ATAA-GGCCT-AATGGC
*
59564645 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG-GC
59564693 CGATGTGATGGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GC
1 CGATGTGAT-GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
59564740 CGA-GTGATGAATGTAAAAG-GTATATATTGATGATAAGGCCTAATATGGC
1 CGATGTGATGAATGTGAAAGTGTATATA-TG-TGATAAGGCCT-A-ATGGC
*
59564789 C-ATGTGATGAATGTGAAAGCGTATATATGTGATAATGGCCTAAT-GC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTAATGGC
*
59564835 CGATGTGAATGAAATGTGAAAG-GTA-ATTATCTGATATAGG-CTAATGGC
1 CGATGTG-ATG-AATGTGAAAGTGTATA-TATGTGATA-AGGCCTAATGGC
59564883 CGATGTAGATGAATGTGAAAGTGTATATATGTGATAAGGCC-AAT-GC
1 CGATGT-GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
59564929 TGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
59564977 CGATGTGATGAATGTGAAAGT-TATATATGTGGATAAGGCCTAATGAC
1 CGATGTGATGAATGTGAAAGTGTATATATGT-GATAAGGCCTAATGGC
59565024 CGATGTGATGAATGTGAAAGTGT-TATATGTGA-ATA-GCCATAATGG-
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATA-AGGCC-TAATGGC
*
59565069 CGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCCT-ATGGC
1 CGATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGCCTAATGGC
*
59565116 CGATGTGATGAATGTGATAAGTGATATATATGATGATAAGGCCTAAATAGC
1 CGATGTGATGAATGTGA-AAGTG-TATATATG-TGATAAGGCCT-AATGGC
59565167 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* *
59565214 CGATTGTGATGAATGTGAAAGTGTATATATGTGATAAAGG-TTAATAGC
1 CGA-TGTGATGAATGTGAAAGTGTATATATGTGAT-AAGGCCTAATGGC
*
59565262 CGATTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATTGCC
1 CGA-TGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA-TGGC
59565313 CGATGTGATGAATGTGAAA--GTATAT-TGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
59565357 CGATGTGATGAAT-TGAAAGTGAATATTATGTGA
1 CGATGTGATGAATGTGAAAGTGTATA-TATGTGA
59565390 CAGGGGCGAG
Statistics
Matches: 756, Mismatches: 24, Indels: 125
0.84 0.03 0.14
Matches are distributed among these distances:
43 5 0.01
44 29 0.04
45 87 0.12
46 74 0.10
47 134 0.18
48 193 0.26
49 124 0.16
50 55 0.07
51 40 0.05
52 15 0.02
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:59565275 original size:379 final size:386
Alignment explanation
Indices: 59564500--59565389 Score: 1145
Period size: 379 Copynumber: 2.3 Consensus size: 386
59564490 AGAAGAGATT
* * * * *
59564500 CGATGT-GATGAATGT--AAGTGTAAATATATGCGAT-AGGCCCTAAATGGCCGAAAGTGAT-AA
1 CGATGTAGATGAATGTGAAAGTG-ATATATATGTGATAAGG-CCTAATTGCCCG-ATGTGATGAA
59564560 TGTG-AAGT-TATATA-TGTGAAATAA-GCC-AATGGCCGATGTGATGGAATGTGAAAGTGTAAT
63 TGTGAAAGTGTATATATTGTG--ATAAGGCCTAATGGCCGATGTGAT-GAATGTGAAAGTGTAAT
*
59564620 ATATGTGAATAAGGGCCTAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
125 ATATGTGAATAAGGGCCTAAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
59564685 TAATGACCCGATGTGATGGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGAGTGATGA
190 TAATGA-CCGATGTGATGGAATGTGAAAGTATATATATGTGATAAGGCCTAATGCCGAGTGATGA
*
59564750 ATGTAAAAGGTATATATTGATGATAAGGCCTAATATGGCCATGTGATGAATGTGAAAGCGTATAT
254 ATGTAAAAGGTATATATTGATGATAAGGCCTAATATAGCCATGTGATGAATGTGAAAGCGTATAT
*
59564815 ATGTGATAATGGCCTAATGCCGATGTGAATGAAATGTGAAAGGTAATTATCTGATATAGGCTAAT
319 ATGTGATAATGGCCTAATGCCGATGTGAATGAAATGTGAAAGGTAATTATCTGATAAAGGCTAAT
*
59564880 GGC
384 AGC
*
59564883 CGATGTAGATGAATGTGAAAGTG-TATATATGTGATAAGGCC-AA-TG-CTGATGTGATGAATGT
1 CGATGTAGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATTGCCCGATGTGATGAATGT
59564944 GAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGT-T-ATATATG
66 GAAAGTGTATATAT-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAATATATG
*
59565006 TGGATAA-GGCCT-AATGACCGATGTGATGAATGTGAAAGTGT-TATATGTGA-ATA-GCCATAA
130 TGAATAAGGGCCTAAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATA-AGGCC-TAA
*
59565066 TG-GCGATGTGAT-GAATGTGAAATGTATATATATGTGATAAGGCCT-ATGGCCGATGTGATGAA
193 TGACCGATGTGATGGAATGTGAAA-GTATATATATGTGATAAGGCCTAAT-GCCGA-GTGATGAA
* *
59565128 TGTGATAA-GTGATATATATGATGATAAGGCCTAA-ATAGCCGATGTGATGAATGTGAAAGTGTA
255 TGT-AAAAGGT-ATATAT-TGATGATAAGGCCTAATATAGCC-ATGTGATGAATGTGAAAGCGTA
*
59565191 TATATGTGATAA-GGCCTAATGGCCGATTGTG-ATG-AATGTGAAAGTGT-ATATATGTGATAAA
316 TATATGTGATAATGGCCTAAT-GCCGA-TGTGAATGAAATGTGAAAG-GTAAT-TATCTGATAAA
*
59565252 GGTTAATAGC
377 GGCTAATAGC
59565262 CGATTGT-GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATTGCCCGATGTGATGAAT
1 CGA-TGTAGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATTGCCCGATGTGATGAAT
59565326 GTGAAA--G--TATATTGTGATAAGGCCTAATGGCCGATGTGATGAAT-TGAAAGTG-AATATTA
64 GTGAAAGTGTATATATTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAATA-TA
59565385 TGTGA
128 TGTGA
59565390 CAGGGGCGAG
Statistics
Matches: 456, Mismatches: 17, Indels: 70
0.84 0.03 0.13
Matches are distributed among these distances:
375 12 0.03
376 35 0.08
377 17 0.04
378 49 0.11
379 146 0.32
380 41 0.09
381 45 0.10
382 10 0.02
383 32 0.07
384 54 0.12
385 10 0.02
386 5 0.01
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (386 bp):
CGATGTAGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATTGCCCGATGTGATGAATGT
GAAAGTGTATATATTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAATATATGT
GAATAAGGGCCTAAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGA
CCGATGTGATGGAATGTGAAAGTATATATATGTGATAAGGCCTAATGCCGAGTGATGAATGTAAA
AGGTATATATTGATGATAAGGCCTAATATAGCCATGTGATGAATGTGAAAGCGTATATATGTGAT
AATGGCCTAATGCCGATGTGAATGAAATGTGAAAGGTAATTATCTGATAAAGGCTAATAGC
Found at i:59565431 original size:143 final size:141
Alignment explanation
Indices: 59564500--59565389 Score: 975
Period size: 143 Copynumber: 6.2 Consensus size: 141
59564490 AGAAGAGATT
* *
59564500 CGATGTGATGAATGT--AAGTGTAAATATATGCGAT-AGGCCCTAAATG-GCCGAAAGTGAT-AA
1 CGATGTGATGAATGTGAAAGTGT--ATATATGTGATAAGG-CCT--ATGTGCCG-ATGTGATGAA
* **
59564560 TGTG-AAGT-TATATATGTGAAATAA-GCC-AATGGCCGATGTGATGGAATGTGAAAGTGTAATA
60 TGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGAT-GAATGTGAAAG-GT-ATA
59564621 TATGTGAATAAGGGCCTAAATGGC
121 TATGTG-ATAA-GGCCT-AATGGC
**
59564645 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCCGATGTGATGGAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-ATGTGCCGATGTGAT-GAATGTG
*
59564710 AAAGTG--TATATATGTGATAAGGCCTAATGCCGA-GTGATGAATGTAAAAGGTATATATTGATG
64 AAAGTGTATATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGGTATATA-TG-TG
59564772 ATAAGGCCTAATATGGC
127 ATAAGGCCT-A-ATGGC
* *
59564789 C-ATGTGATGAATGTGAAAGCGTATATATGTGATAATGGCCTA-ATGCCGATGTGAATGAAATGT
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTATGTGCCGATGTG-ATG-AATGT
*
59564852 GAAAG-GTA-AT-TATCTGATATAGG-CTAATGGCCGATGTAGATGAATGTGAAAGTGTATATAT
63 GAAAGTGTATATATATGTGATA-AGGCCTAAT-GCCGATGT-GATGAATGTGAAAG-GTATATAT
59564913 GTGATAAGGCC-AAT-GC
124 GTGATAAGGCCTAATGGC
* *
59564929 TGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA-ATGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTATGTGCCGATGTGATGAATGTG
*
59564993 AAAGT-TATATATGTG-GATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGT-TATATGTG
64 AAAGTGTATATATATGTGATAAGGCCTAATG-CCGATGTGATGAATGTGAAAG-GTATATATGTG
59565055 A-ATA-GCCATAATGG-
127 ATA-AGGCC-TAATGGC
*
59565069 CGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCCTATG-GCCGATGTGATGAATGTGA
1 CGATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGCCTATGTGCCGATGTGATGAATGTGA
59565133 TAAGTG-ATATATATGATGATAAGGCCTAAATAGCCGATGTGATGAATGTGAAAGTGTATATATG
65 -AAGTGTATATATATG-TGATAAGGCCT-AAT-GCCGATGTGATGAATGTGAAAG-GTATATATG
59565197 TGATAAGGCCTAATGGC
125 TGATAAGGCCTAATGGC
* *
59565214 CGATTGTGATGAATGTGAAAGTGTATATATGTGATAAAGG-TTAAT-AGCCGATTGTGATGAATG
1 CGA-TGTGATGAATGTGAAAGTGTATATATGTGAT-AAGGCCT-ATGTGCCGA-TGTGATGAATG
59565277 TGAAAGTGTATATATATGTGATAAGGCCTAATTGCCCGATGTGATGAATGTGAAA-GTATAT-TG
62 TGAAAGTGTATATATATGTGATAAGGCCTAA-TG-CCGATGTGATGAATGTGAAAGGTATATATG
59565340 TGATAAGGCCTAATGGC
125 TGATAAGGCCTAATGGC
*
59565357 CGATGTGATGAAT-TGAAAGTGAATATTATGTGA
1 CGATGTGATGAATGTGAAAGTGTATA-TATGTGA
59565390 CAGGGGCGAG
Statistics
Matches: 665, Mismatches: 24, Indels: 115
0.83 0.03 0.14
Matches are distributed among these distances:
138 4 0.01
139 49 0.07
140 68 0.10
141 56 0.08
142 70 0.11
143 131 0.20
144 64 0.10
145 83 0.12
146 96 0.14
147 41 0.06
148 3 0.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (141 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTATGTGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGGTATATATGTGATAA
GGCCTAATGGC
Found at i:59578078 original size:27 final size:27
Alignment explanation
Indices: 59578048--59578116 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
59578038 ATATTGAGTC
* * *
59578048 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
59578075 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
59578102 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59578117 GTCCAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:59578878 original size:2 final size:2
Alignment explanation
Indices: 59578871--59578905 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
59578861 ATGGGCTCAC
* *
59578871 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59578906 CCGAATATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59586185 original size:27 final size:27
Alignment explanation
Indices: 59586155--59586223 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
59586145 ATATTGAGTC
* * *
59586155 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
59586182 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
59586209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59586224 GTCCAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:59586987 original size:2 final size:2
Alignment explanation
Indices: 59586980--59587018 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
59586970 ATGGGCTCAC
* *
59586980 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59587019 GCCGAATATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59587771 original size:23 final size:24
Alignment explanation
Indices: 59587740--59587786 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59587730 TCCTCCCTTA
59587740 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
59587762 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
59587787 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:59591969 original size:21 final size:21
Alignment explanation
Indices: 59591945--59591992 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
59591935 GTTGAGAACA
* *
59591945 AAGTTGTTGCTGCAGAAGAGG
1 AAGTTGTTGCTGAAGAAGAAG
59591966 AAGTTGTTGCTGAAGAAGAAG
1 AAGTTGTTGCTGAAGAAGAAG
59591987 AAGTTG
1 AAGTTG
59591993 CTGAAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.35, T:0.25
Consensus pattern (21 bp):
AAGTTGTTGCTGAAGAAGAAG
Found at i:59591980 original size:18 final size:18
Alignment explanation
Indices: 59591945--59591999 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
59591935 GTTGAGAACA
*
59591945 AAGTTGTTGCTGCAGAAGAGG
1 AAGTTGTTGCT---GAAGAAG
59591966 AAGTTGTTGCTGAAGAAG
1 AAGTTGTTGCTGAAGAAG
**
59591984 AAGAAGTTGCTGAAGA
1 AAGTTGTTGCTGAAGA
59592000 TGAAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.65
21 11 0.35
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.24
Consensus pattern (18 bp):
AAGTTGTTGCTGAAGAAG
Found at i:59595270 original size:64 final size:64
Alignment explanation
Indices: 59595195--59595315 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
59595185 CATTAATTAT
* * *
59595195 ATATGTACTTACCATACA-TACAATATTAAATCATTTAAAATATG-GTACATATTGCATAATTTG
1 ATATGAACTTACCATACACT-CAATATTAAAGCATTAAAAATA-GAGTACATATTGCATAATTTG
59595258 C
64 C
*
59595259 ATATGAACTTACCATACACTCAATATTTAAGCATTAAAAATAGAGTACATATTGCAT
1 ATATGAACTTACCATACACTCAATATTAAAGCATTAAAAATAGAGTACATATTGCAT
59595316 TCCTCACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.02
64 49 0.96
65 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (64 bp):
ATATGAACTTACCATACACTCAATATTAAAGCATTAAAAATAGAGTACATATTGCATAATTTGC
Found at i:59595331 original size:64 final size:64
Alignment explanation
Indices: 59595201--59595335 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 64
59595191 TTATATATGT
* * * ** *
59595201 ACTTACCATACATACAATATTAAATCATTTAAAATATGGTACATATTGCATAATTTGCATATGA
1 ACTTACCATACATACAATATTAAAGCATTAAAAATATGGTACATATTGCATAACTCACATACGA
* **
59595265 ACTTACCATACACT-CAATATTTAAGCATTAAAAATA-GAGTACATATTGCATTCCTCACATACG
1 ACTTACCATACA-TACAATATTAAAGCATTAAAAATATG-GTACATATTGCATAACTCACATACG
59595328 A
64 A
59595329 ACTTACC
1 ACTTACC
59595336 TCGATACCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 1 0.02
64 58 0.97
65 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (64 bp):
ACTTACCATACATACAATATTAAAGCATTAAAAATATGGTACATATTGCATAACTCACATACGA
Found at i:59599951 original size:40 final size:40
Alignment explanation
Indices: 59599901--59599979 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
59599891 TTACACATGC
*
59599901 TTAGCCGAATTTTCATGGAGTTCATGTAAGTCCACATATG
1 TTAGCCGAATTTTCATGGAGTTCATGTAAGCCCACATATG
*
59599941 TTAGCTGAATTTTCATGGAGTTCATGTAAGCCCACATAT
1 TTAGCCGAATTTTCATGGAGTTCATGTAAGCCCACATAT
59599980 TTCATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (40 bp):
TTAGCCGAATTTTCATGGAGTTCATGTAAGCCCACATATG
Found at i:59600669 original size:15 final size:15
Alignment explanation
Indices: 59600649--59600677 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59600639 ATAATATTAA
59600649 AATATTTTTAACTCG
1 AATATTTTTAACTCG
59600664 AATATTTTTAACTC
1 AATATTTTTAACTC
59600678 AAACTTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.48
Consensus pattern (15 bp):
AATATTTTTAACTCG
Found at i:59602882 original size:39 final size:40
Alignment explanation
Indices: 59602727--59602883 Score: 153
Period size: 42 Copynumber: 3.9 Consensus size: 40
59602717 TTAAGCTTAC
*
59602727 TGAGATTACGTGTAAGACCATATCTACGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCT-GGATATGGCATCGATA
* * *
59602769 TGATAATTCGTGTAAGACCATATCTGGGATATGGCATTGACA
1 TGA-GATTCGTGTAAGACCATATCT-GGATATGGCATCGATA
* *
59602811 TTAGACTTCGTGTAAGACCATA---GGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGATA-TGGCATCGATA
*
59602850 TGAGATTACATGTAAGACCATATCT-G-TATGGCAT
1 TGAGATT-CGTGTAAGACCATATCTGGATATGGCAT
59602884 GGTATGGTAC
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
38 6 0.06
39 32 0.33
40 2 0.02
41 2 0.02
42 51 0.53
43 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (40 bp):
TGAGATTCGTGTAAGACCATATCTGGATATGGCATCGATA
Found at i:59605631 original size:29 final size:28
Alignment explanation
Indices: 59605566--59605651 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 28
59605556 GCATGACTGC
*
59605566 AAATGTGTTTTGGGCCTAATGGCCATAT
1 AAATGTGATTTGGGCCTAATGGCCATAT
* *
59605594 AAATATGATTTGGGCCTAATGGGTCATAT
1 AAATGTGATTTGGGCCTAAT-GGCCATAT
*
59605623 AAATGTGATTTGGGCCTCATTGGCCATAT
1 AAATGTGATTTGGGCCT-AATGGCCATAT
59605652 GAAAGAGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 18 0.36
29 30 0.60
30 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (28 bp):
AAATGTGATTTGGGCCTAATGGCCATAT
Found at i:59605661 original size:29 final size:27
Alignment explanation
Indices: 59605574--59605661 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 27
59605564 GCAAATGTGT
* *
59605574 TTTGGGCCTAATGGCCATATAAATATGA
1 TTTGGGCCTATTGGCCATATAAAGA-GA
* * *
59605602 TTTGGGCCTAATGGGTCATATAAATGTGA
1 TTTGGGCCT-ATTGGCCATATAAA-GAGA
59605631 TTTGGGCCTCATTGGCCATATGAAAGAGA
1 TTTGGGCCT-ATTGGCCATAT-AAAGAGA
59605660 TT
1 TT
59605662 AGGCCTAGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 9 0.19
29 36 0.75
30 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
TTTGGGCCTATTGGCCATATAAAGAGA
Found at i:59605680 original size:57 final size:57
Alignment explanation
Indices: 59605566--59605673 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
59605556 GCATGACTGC
* * *
59605566 AAATGTGTTTTGGGCCTAATGGCCATATAAATATGATTTGGGCCTAATGGGTCATAT
1 AAATGTGATTTGGGCCTAATGGCCATATAAAGATGATTTAGGCCTAATGGGTCATAT
* *
59605623 AAATGTGATTTGGGCCTCATTGGCCATATGAAAGA-GA-TTAGGCCTAGTGGG
1 AAATGTGATTTGGGCCT-AATGGCCATAT-AAAGATGATTTAGGCCTAATGGG
59605674 CTATATATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
57 28 0.64
58 12 0.27
59 4 0.09
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (57 bp):
AAATGTGATTTGGGCCTAATGGCCATATAAAGATGATTTAGGCCTAATGGGTCATAT
Found at i:59608389 original size:27 final size:27
Alignment explanation
Indices: 59608357--59608605 Score: 313
Period size: 27 Copynumber: 9.2 Consensus size: 27
59608347 TTACTTTAGG
* * **
59608357 AAATTA-CAAAACTACCCTTGGTTTACA
1 AAATTACCAAAA-TACCCCTAGTTTGTA
*
59608384 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * ** * *
59608411 AAATTACTAGAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
59608438 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
59608465 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
59608492 CAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
59608519 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
59608546 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
59608573 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
59608600 AAATTA
1 AAATTA
59608606 TTGAAATACC
Statistics
Matches: 195, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 189 0.97
28 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:59608598 original size:54 final size:54
Alignment explanation
Indices: 59608357--59608670 Score: 321
Period size: 54 Copynumber: 5.8 Consensus size: 54
59608347 TTACTTTAGG
* * ** *
59608357 AAATTA-CAAAACTACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAA-TACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * ** * * *
59608411 AAATTACTAGAATACCTTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * *
59608465 AAATTACCAAAATACCCCTGGTTTGTACAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
*
59608519 AAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* *** * *
59608573 AAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
*** * *
59608627 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCC
59608671 TTGATTTATA
Statistics
Matches: 224, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
53 9 0.04
54 209 0.93
55 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:59608598 original size:81 final size:81
Alignment explanation
Indices: 59608357--59608686 Score: 326
Period size: 81 Copynumber: 4.1 Consensus size: 81
59608347 TTACTTTAGG
* * ** * *
59608357 AAATTA-CAAAACTACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAG
1 AAATTACCAAAA-TACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
** *
59608421 AATACCTTTGGTTTATA
65 AATACCCCTGATTTATA
* * *
59608438 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTACAATTATCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
*
59608503 ATACCCCT-AGTTTGTA
66 ATACCCCTGA-TTTATA
* *
59608519 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
59608584 ATACCCCTGATTTGTG
66 ATACCCCTGATTTATA
*** * * *** **
59608600 AAATTATTGAAATA-CCCTCGACTTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCA
* *
59608663 AAGTACCCTTGATTTATA
64 AAATACCCCTGATTTATA
*
59608681 GAATTA
1 AAATTA
59608687 TCGTTTTACC
Statistics
Matches: 210, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
80 9 0.04
81 195 0.93
82 6 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCCTGATTTATA
Found at i:59608612 original size:27 final size:27
Alignment explanation
Indices: 59608357--59608670 Score: 287
Period size: 27 Copynumber: 11.6 Consensus size: 27
59608347 TTACTTTAGG
* * **
59608357 AAATTA-CAAAACTACCCTTGGTTTACA
1 AAATTATCAAAA-TACCCCTAGTTTGTA
* *
59608384 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
* ** * *
59608411 AAATTA-CTAGAATACCTTTGGTTTATA
1 AAATTATC-AAAATACCCCTAGTTTGTA
* *
59608438 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
* *
59608465 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
*
59608492 CAATTATCAAAATACCCCTAGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
*
59608519 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
59608546 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTATCAAAATACCCCTAGTTTGTA
* *
59608573 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTATCAAAATACCCCTAG-TTTGTA
** * *
59608600 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTATCAAAATACCCCTAG-TTTGTA
** * *
59608627 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTATCAAAATACCCCTAG-TTTGTA
* *
59608654 AAATTACCAAAGTACCC
1 AAATTATCAAAATACCC
59608671 TTGATTTATA
Statistics
Matches: 249, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.02
27 235 0.94
28 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTATCAAAATACCCCTAGTTTGTA
Found at i:59608687 original size:81 final size:81
Alignment explanation
Indices: 59608460--59608725 Score: 227
Period size: 81 Copynumber: 3.3 Consensus size: 81
59608450 TACCCCTAGT
** * * * * *
59608460 TTGTAAAATTACCAAAATACCCCTG-GTTTGTACAATTATCAAAATACCCCT-AGTTTGTAAAAT
1 TTGTAAAATTATTAAAATACCCC-GAGCTTGTAAAATTACCAAAATACCCCTGA-TTTATGAAAT
* * * *
59608523 TACCAAAATACCC-CTAGT
64 TATCGAAATACCCTCGA-C
* * * *
59608541 TTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTA
1 TTGTAAAATTATTAAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTA
*
59608606 TTGAAATACCCTCGAC
66 TCGAAATACCCTCGAC
* * *
59608622 TTGTAAAATTATTGAAATACCCTCGA-CTTGTAAAATTACCAAAGTACCCTTGATTTAT-AGAAT
1 TTGTAAAATTATTAAAATACCC-CGAGCTTGTAAAATTACCAAAATACCCCTGATTTATGA-AAT
*** *
59608685 TATCGTTTTACCCTCGAT
64 TATCGAAATACCCTCGAC
**
59608703 TTACAAAATTATTAAAATACCCC
1 TTGTAAAATTATTAAAATACCCC
59608726 TGTAGGGTAG
Statistics
Matches: 155, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
80 2 0.01
81 148 0.95
82 5 0.03
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (81 bp):
TTGTAAAATTATTAAAATACCCCGAGCTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTA
TCGAAATACCCTCGAC
Found at i:59608723 original size:27 final size:27
Alignment explanation
Indices: 59608600--59608724 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
59608590 CTGATTTGTG
*
59608600 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTATTGAAATACCCTCGACTTATA
*
59608627 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTATTGAAATACCCTCGACTTATA
** * *
59608654 AAATTA-CCAAAGTACCCTTGATTTATA
1 AAATTATTGAAA-TACCCTCGACTTATA
* * *** * *
59608681 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTATTGAAATACCCTCGACTTATA
*
59608708 AAATTATTAAAATACCC
1 AAATTATTGAAATACCC
59608725 CTGTAGGGTA
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.04
27 74 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGACTTATA
Found at i:59608739 original size:27 final size:27
Alignment explanation
Indices: 59608717--59609201 Score: 610
Period size: 27 Copynumber: 18.0 Consensus size: 27
59608707 AAAATTATTA
*
59608717 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
59608744 AAATACCCTTGTAGCGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
59608771 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
59608798 AAATACCCTTGTAGGGTAGAAATATCT
1 AAATACCCCTGTAGGGTAGAATTACCG
* ** *
59608825 AAATATCGTTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
59608852 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
59608879 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
59608906 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
59608933 AAATACCCCTGTAGGATAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
59608960 AAATACCCCTATAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
59608987 AAATACCCCTATAGAGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
59609014 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
59609041 AAATACCCTTGTAAGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
59609068 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
59609095 AAATACCCTTGTAAGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
59609122 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
59609149 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
59609176 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
59609202 ATTTTACCCC
Statistics
Matches: 401, Mismatches: 57, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 401 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:59609486 original size:31 final size:30
Alignment explanation
Indices: 59609446--59609527 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 30
59609436 CCTCGCTGCA
59609446 ATCTGGTGGCTTCGCCACATATATATATCTG
1 ATCTGGTGGCTTCGCCACATATAT-TATCTG
59609477 -TCCTGGTGGCTAT-GCCAC---TATTATCTG
1 AT-CTGGTGGCT-TCGCCACATATATTATCTG
59609504 ATCTGGTGGC-TCTGCCACATATAT
1 ATCTGGTGGCTTC-GCCACATATAT
59609528 CTGTTCTGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
25 1 0.02
27 19 0.44
28 4 0.09
30 4 0.09
31 14 0.33
32 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (30 bp):
ATCTGGTGGCTTCGCCACATATATTATCTG
Found at i:59609509 original size:27 final size:26
Alignment explanation
Indices: 59609471--59609589 Score: 157
Period size: 27 Copynumber: 4.5 Consensus size: 26
59609461 CACATATATA
* *
59609471 TATCTGTCCTGGTGGCTATGCCACTAT
1 TATCTGTTCTGGTGGCTCTGCCAC-AT
*
59609498 TATCTGATCTGGTGGCTCTGCCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
59609524 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGGCTCTGCCAC-AT
* * *
59609552 TATCTGTTCTGGTGACTTTGTCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
59609578 TATCTGTTCTGG
1 TATCTGTTCTGG
59609590 CAGCCATGCT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
26 16 0.19
27 65 0.78
28 2 0.02
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (26 bp):
TATCTGTTCTGGTGGCTCTGCCACAT
Found at i:59609547 original size:54 final size:54
Alignment explanation
Indices: 59609468--59609589 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
59609458 CGCCACATAT
* * *
59609468 ATATATCTGTCCTGGTGGCTATGCCACTATTATCTGATCTGGTGGCTCTGCCAC
1 ATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGACTCTGCCAC
* * * *
59609522 ATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTTCTGGTGACTTTGTCAC
1 ATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGACTCTGCCAC
59609576 AT-TATCTGTTCTGG
1 ATATATCTGTTCTGG
59609590 CAGCCATGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 12 0.20
54 49 0.80
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (54 bp):
ATATATCTGTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGACTCTGCCAC
Found at i:59609739 original size:6 final size:6
Alignment explanation
Indices: 59609708--59609792 Score: 84
Period size: 6 Copynumber: 13.8 Consensus size: 6
59609698 TTGTATTCAC
* *
59609708 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
59609757 ATTTTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
59609793 AGTTTTGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 3 0.05
6 55 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:59609799 original size:37 final size:37
Alignment explanation
Indices: 59609708--59609792 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
59609698 TTGTATTCAC
* * *
59609708 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTCTGATTTTGTCACCTGATACTGATTCTG
*
59609745 ATTCTGATTCTGATTTTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTTTGTCACCTGATACTGATTCTG
59609782 ATTCTGATTCT
1 ATTCTGATTCT
59609793 AGTTTTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGATTTTGTCACCTGATACTGATTCTG
Found at i:59609801 original size:18 final size:18
Alignment explanation
Indices: 59609708--59609792 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 18
59609698 TTGTATTCAC
*
59609708 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
59609726 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
*
59609745 ATTCTGATTCTGATTTTG
1 ATTCTGATTCTGATTCTG
*
59609763 -TCACCTGATTCTGATTCTG
1 AT--TCTGATTCTGATTCTG
59609782 ATTCTGATTCT
1 ATTCTGATTCT
59609793 AGTTTTGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
17 3 0.06
18 21 0.39
19 27 0.50
20 3 0.06
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:59612563 original size:27 final size:27
Alignment explanation
Indices: 59612529--59612706 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
59612519 TAAATTGTAC
59612529 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59612556 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59612582 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* * *
59612610 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59612638 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59612665 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59612692 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59612707 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 104 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59612646 original size:82 final size:81
Alignment explanation
Indices: 59612530--59612685 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
59612520 AAATTGTACA
* * * *
59612530 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59612594 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59612611 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59612676 TGCGAGTTGA
65 TGCGAATTGA
59612686 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59612697 original size:82 final size:81
Alignment explanation
Indices: 59612526--59612706 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
59612516 GAGTAAATTG
* * * *
59612526 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59612591 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59612607 TGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59612671 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59612689 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59612707 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59612717 original size:27 final size:27
Alignment explanation
Indices: 59612611--59612717 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
59612601 TGACCATGCG
*
59612611 GCACTAAGTGTGCGAG-TCTAACTATGTA
1 GCACTAAGTGTGCGAGCTC-AA-TATATA
** * * **
59612639 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
59612666 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
59612693 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
59612718 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 49 0.74
28 16 0.24
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:59615069 original size:27 final size:27
Alignment explanation
Indices: 59615045--59615266 Score: 239
Period size: 27 Copynumber: 8.2 Consensus size: 27
59615035 TTAGTTTACG
* **
59615045 AAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
59615072 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
59615099 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
59615126 AAATCACCAAAATACCAC-TAGTTTGTA
1 AAATTACCAAAATACC-CTTGGTTTGTA
*
59615153 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
59615180 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* ** *
59615207 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * **
59615234 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
59615261 AAATTA
1 AAATTA
59615267 TTGAAATACC
Statistics
Matches: 168, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 166 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:59615292 original size:81 final size:81
Alignment explanation
Indices: 59615045--59615322 Score: 206
Period size: 81 Copynumber: 3.4 Consensus size: 81
59615035 TTAGTTTACG
** ** * **
59615045 AAATTACCAAAATACC-CTTTGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CTA
1 AAATTACCAAAATACCAC-TAATTTGTAAAATTACCAAAATACCCCTGACTTGTAAAATTATC-A
* * * *
59615108 GAATACCCTTG-GTTTATA
64 AAATACCC-CGAGCTTGTA
* * **
59615126 AAATCACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCACTAATTTGTAAAATTACCAAAATACCCCTGACTTGTAAAATTATCAAA
* *
59615191 ATACCCCTAGTTTGTA
66 ATACCCCGAGCTTGTA
* * ** **
59615207 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATA-CCCTCGACTTGTAAAATTATTGA
1 AAATTACCAAAATACCACTAATTTGTAAAATTACCAAAATACCCCT-GACTTGTAAAATTATCAA
*
59615271 AATACCCTCGA-CTTGTT
65 AATACCC-CGAGCTTGTA
* * * * * *
59615288 AAATTATCAAAGTACCATTGATTTATAGAATTACC
1 AAATTACCAAAATACCACTAATTTGTAAAATTACC
59615323 GTTTTACCCT
Statistics
Matches: 161, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
80 4 0.02
81 153 0.95
82 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCACTAATTTGTAAAATTACCAAAATACCCCTGACTTGTAAAATTATCAAA
ATACCCCGAGCTTGTA
Found at i:59615303 original size:27 final size:27
Alignment explanation
Indices: 59615202--59615293 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
59615192 TACCCCTAGT
** * *
59615202 TTGTAAAATTACCAAAATACCC-CTAAT
1 TTGTAAAATTACTGAAATACCCTC-GAC
*
59615229 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
59615256 TTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
59615283 TTGTTAAATTA
1 TTGTAAAATTA
59615294 TCAAAGTACC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:59615357 original size:27 final size:27
Alignment explanation
Indices: 59615234--59615358 Score: 90
Period size: 27 Copynumber: 4.6 Consensus size: 27
59615224 CTAATTTGTG
*
59615234 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* * *
59615261 AAATTATTGAAATACCCTCGACTTGTT
1 AAATTACTGAAATACCCTCGACTTATA
* * * *
59615288 AAATTA-TCAAAGTACCATTGATTTATA
1 AAATTACTGAAA-TACCCTCGACTTATA
* * *** * *
59615315 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGACTTATA
*
59615342 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
59615359 CTGTAGGGTA
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
26 4 0.05
27 69 0.95
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTATA
Found at i:59615373 original size:27 final size:27
Alignment explanation
Indices: 59615350--59615619 Score: 315
Period size: 27 Copynumber: 10.0 Consensus size: 27
59615340 CAAAATTATT
* *
59615350 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
59615377 AAAATACCCTTGTAGGGTAGAAATGCC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
59615404 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
59615431 GAAATACCCCTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
59615458 GAAATACCCTTATAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
59615485 AAAATGCCCATGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
59615512 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* * **
59615539 GAAATACCCCTGTAGAGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
59615566 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
59615593 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
59615620 ATTTTACCCC
Statistics
Matches: 208, Mismatches: 35, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 208 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:59615921 original size:27 final size:26
Alignment explanation
Indices: 59615890--59616009 Score: 159
Period size: 27 Copynumber: 4.5 Consensus size: 26
59615880 CATATATATA
* *
59615890 TATCTGTCCTGGTGGCTATGCCACAAT
1 TATCTGTTCTGGTGGCTCTGCCAC-AT
*
59615917 TATCTGATCTGGTGGCTCTGCCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
59615943 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGGCTCTGCCAC-AT
* * *
59615971 TATCTGTTTTGGTGACTCTGTCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
59615997 TATCTGTTCTGGT
1 TATCTGTTCTGGT
59616010 AGCCATGCTG
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
26 16 0.19
27 65 0.78
28 2 0.02
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
TATCTGTTCTGGTGGCTCTGCCACAT
Found at i:59615946 original size:54 final size:54
Alignment explanation
Indices: 59615887--59616009 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
59615877 CCACATATAT
* *
59615887 ATATATCTGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCAC
1 ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
* * * * *
59615941 ATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTTTTGGTGACTCTGTCAC
1 ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
59615995 AT-TATCTGTTCTGGT
1 ATATATCTGTTCTGGT
59616010 AGCCATGCTG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 13 0.21
54 49 0.79
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (54 bp):
ATATATCTGTTCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCAC
Found at i:59616166 original size:6 final size:6
Alignment explanation
Indices: 59616155--59616214 Score: 70
Period size: 6 Copynumber: 9.8 Consensus size: 6
59616145 TTACCTAATA
*
59616155 CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
59616204 CT-AGTT CTGAT
1 CTGA-TT CTGAT
59616215 AATGTTTCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
5 2 0.04
6 40 0.85
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:59616204 original size:31 final size:31
Alignment explanation
Indices: 59616127--59616205 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
59616117 TTGCATTCAC
* * *
59616127 ATTCTGATTTTGATTATGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
59616158 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
59616189 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
59616206 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:59620532 original size:15 final size:15
Alignment explanation
Indices: 59620512--59620541 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59620502 AACCTATGAG
59620512 TATTTGCACAATTTC
1 TATTTGCACAATTTC
59620527 TATTTGCACAATTTC
1 TATTTGCACAATTTC
59620542 AATCCATATA
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:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TATTTGCACAATTTC
Found at i:59620858 original size:30 final size:29
Alignment explanation
Indices: 59620815--59620878 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
59620805 CAAGTAGCCG
* *
59620815 AAGCTAGTTAAATCGCATACTTAGTACCA
1 AAGCTAGTTAAATCGCACACTTAATACCA
59620844 AAGCTAGTTTAAATCGCACACTTAATACCA
1 AAGCTAG-TTAAATCGCACACTTAATACCA
59620874 AAGCT
1 AAGCT
59620879 TCCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAATACCA
Found at i:59631522 original size:21 final size:20
Alignment explanation
Indices: 59631494--59631535 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
59631484 AATCGATCCA
59631494 TTTAAAATCTTGAT-AAATCT
1 TTTAAAATCTTG-TCAAATCT
*
59631514 TTTATAAATTTTGTCAAATCT
1 TTTA-AAATCTTGTCAAATCT
59631535 T
1 T
59631536 GAAATCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAAAATCTTGTCAAATCT
Found at i:59632513 original size:90 final size:91
Alignment explanation
Indices: 59632261--59632496 Score: 307
Period size: 90 Copynumber: 2.6 Consensus size: 91
59632251 CTGGAAGCTT
*
59632261 TCATTTGCAAATATGTTGTGTATTCACAACCATCTGCTAGCGTATTAACCTGCAACACTGGTGGT
1 TCATCTGCAAATATGTTGTGTATTCACAACCATCTGCTAGCGTATTAACCTGCAACACTGGTGGT
* * *
59632326 TCCTCCACCCCTTTTTTGGCAACTCA
66 TCATCCACCCCTATTCTGGCAACTCA
* * * *
59632352 T-ATCTGCAAATATGTTGTGTATTCAAAACCATCTGGTAGTGTATTCACCTGCAACACTGGTGGT
1 TCATCTGCAAATATGTTGTGTATTCACAACCATCTGCTAGCGTATTAACCTGCAACACTGGTGGT
* **
59632416 TCATCCACCCAC-ATTCTGGTAGTTC-
66 TCATCCACCC-CTATTCTGGCAACTCA
* * * *
59632441 TCATCTGCAAATATGTTGTGCATTCACAACCATCTGCTAACATATTAACTTGCAAC
1 TCATCTGCAAATATGTTGTGTATTCACAACCATCTGCTAGCGTATTAACCTGCAAC
59632497 TTTTGTGGTT
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
89 1 0.01
90 121 0.98
91 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (91 bp):
TCATCTGCAAATATGTTGTGTATTCACAACCATCTGCTAGCGTATTAACCTGCAACACTGGTGGT
TCATCCACCCCTATTCTGGCAACTCA
Found at i:59633542 original size:16 final size:18
Alignment explanation
Indices: 59633521--59633561 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
59633511 TAAGGACTAA
59633521 ATTAAAAG-TCA-AAATT
1 ATTAAAAGATCATAAATT
*
59633537 ATTAAAAGATGATAAATT
1 ATTAAAAGATCATAAATT
59633555 ATTAAAA
1 ATTAAAA
59633562 AGAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (18 bp):
ATTAAAAGATCATAAATT
Found at i:59635372 original size:28 final size:28
Alignment explanation
Indices: 59635324--59635414 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
59635314 GTGACAGAGT
* * *
59635324 CACCAGATACAGATATTTTGTGGTAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
59635353 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
* **
59635381 CACCAGAACAGATAATTTGTAGCATAGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
59635409 CACCAG
1 CACCAG
59635415 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:59635567 original size:28 final size:28
Alignment explanation
Indices: 59635520--59635584 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
59635510 AAATTAACCC
*
59635520 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
59635548 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
59635576 TAGGGGTAT
1 TAGGGGTAT
59635585 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:59642330 original size:29 final size:27
Alignment explanation
Indices: 59642312--59642374 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
59642302 ATATTAAGTC
59642312 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTCAATGCTATATAATCAACT
* *
59642339 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAATGCTATATAATC-AACT
59642367 CGCACACT
1 CGCACACT
59642375 TAGTGCTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (27 bp):
CGCACACTCAATGCTATATAATCAACT
Found at i:59642375 original size:28 final size:28
Alignment explanation
Indices: 59642312--59642407 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
59642302 ATATTAAGTC
* *
59642312 CGCACACTCAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
59642339 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59642367 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
59642396 CGCACACTTAGT
1 CGCACACTTAGT
59642408 ACCAATCTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 21 0.34
28 23 0.38
29 17 0.28
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59646405 original size:14 final size:14
Alignment explanation
Indices: 59646386--59646413 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59646376 GTGAATAAAC
59646386 TAAAATATCATCAA
1 TAAAATATCATCAA
59646400 TAAAATATCATCAA
1 TAAAATATCATCAA
59646414 ATGCAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATATCATCAA
Found at i:59648510 original size:16 final size:17
Alignment explanation
Indices: 59648478--59648510 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59648468 GTTATACGAA
59648478 CTTACTAAGAATTTTATG
1 CTTACTAAG-ATTTTATG
59648496 CTTACTAAG-TTTTAT
1 CTTACTAAGATTTTAT
59648511 TTCCCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (17 bp):
CTTACTAAGATTTTATG
Found at i:59648682 original size:32 final size:32
Alignment explanation
Indices: 59648644--59648710 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
59648634 GATATATTGG
59648644 CATGTAAATGTAAATGATGCTTATAATCTAAC
1 CATGTAAATGTAAATGATGCTTATAATCTAAC
59648676 CATGTAAATGTAAATGATGCTTATAATCTAAC
1 CATGTAAATGTAAATGATGCTTATAATCTAAC
59648708 CAT
1 CAT
59648711 TAGAATGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (32 bp):
CATGTAAATGTAAATGATGCTTATAATCTAAC
Found at i:59650262 original size:48 final size:48
Alignment explanation
Indices: 59650187--59650414 Score: 227
Period size: 48 Copynumber: 4.9 Consensus size: 48
59650177 GGTTATGTGT
* * *
59650187 GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTGGTATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* ** *
59650235 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACGTGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * *
59650283 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * *
59650331 GA-CATCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATTTGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGA
* *
59650374 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
59650415 TTACTATGTT
Statistics
Matches: 142, Mismatches: 29, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 108 0.76
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:59650330 original size:96 final size:91
Alignment explanation
Indices: 59650183--59650414 Score: 270
Period size: 96 Copynumber: 2.5 Consensus size: 91
59650173 TTAGGGTTAT
* * * ***
59650183 GTGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTGGTATGAGATC-CCATGTAA
1 GTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGA-CACCATGTAA
*
59650247 GACCAT-GTCTGGGACATGGCATTGGCACCGAC
65 GACCATAG-CTGGG-C-T---ATCGGCACCGAC
* *
59650279 GTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGACATCGTGTAAG
1 GTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGACACCATGTAAG
** *
59650344 ACCATAGCTGGGCTATCGGCTTCGAT
66 ACCATAGCTGGGCTATCGGCACCGAC
*
59650370 TTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 GTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
59650415 TTACTATGTT
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
91 52 0.43
94 1 0.01
95 2 0.02
96 65 0.54
97 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (91 bp):
GTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGACACCATGTAAG
ACCATAGCTGGGCTATCGGCACCGAC
Found at i:59662475 original size:96 final size:97
Alignment explanation
Indices: 59662351--59662530 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 97
59662341 TATTTATTTA
* * *
59662351 TTTATTGTTGCTTAAGAATATATTGAACCTTTTGACGCGAAAAGAGATGACAGCCAAGCA-CTCC
1 TTTATTGTTGCTTAAGAACATATCGAACCTTTTGACACGAAAAGAGATGACAGCCAAGCACCT-C
59662415 ACCCCGGTTAATCAGCCCAACATACTCCTAATT
65 ACCCCGGTTAATCAGCCCAACATACTCCTAATT
* *
59662448 TTTATT-TTTCTTAAGAACATATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTGTTGCTTAAGAACATATCGAACCTTTTGACACGAAAAGAGATGACAGCCAAGCACCTCA
*
59662512 CCCCGGTTACTCAGCCCAA
66 CCCCGGTTAATCAGCCCAA
59662531 TACATTCTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
96 68 0.89
97 8 0.11
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTGTTGCTTAAGAACATATCGAACCTTTTGACACGAAAAGAGATGACAGCCAAGCACCTCA
CCCCGGTTAATCAGCCCAACATACTCCTAATT
Found at i:59668655 original size:81 final size:81
Alignment explanation
Indices: 59668518--59668676 Score: 291
Period size: 81 Copynumber: 2.0 Consensus size: 81
59668508 CACTCCACAG
* *
59668518 TTGCAGCATTGCTGCTCAGTTATCAGTAAGTTGAGGCAAAGCCTCCAGTACTTGGACAAGCCACT
1 TTGCAGCATTGCTGCTCAGTTATCAGTAAGTTGAGGCAAAGCCTCCAATACGTGGACAAGCCACT
59668583 TTCAGTACTTCCTCCA
66 TTCAGTACTTCCTCCA
*
59668599 TTGCAGTATTGCTGCTCAGTTATCAGTAAGTTGAGGCAAAGCCTCCAATACGTGGACAAGCCACT
1 TTGCAGCATTGCTGCTCAGTTATCAGTAAGTTGAGGCAAAGCCTCCAATACGTGGACAAGCCACT
59668664 TTCAGTACTTCCT
66 TTCAGTACTTCCT
59668677 TCATCAGTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (81 bp):
TTGCAGCATTGCTGCTCAGTTATCAGTAAGTTGAGGCAAAGCCTCCAATACGTGGACAAGCCACT
TTCAGTACTTCCTCCA
Found at i:59672479 original size:38 final size:38
Alignment explanation
Indices: 59672425--59672497 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
59672415 CATACCTGGA
59672425 AAAGAAATAAAAAAAATAGAATTAAAAGTTTTGATCTG
1 AAAGAAATAAAAAAAATAGAATTAAAAGTTTTGATCTG
59672463 AAAG-AATAAAATAAAATAGAATTAAAAGTTTTGAT
1 AAAGAAATAAAA-AAAATAGAATTAAAAGTTTTGAT
59672498 TGGGATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 7 0.21
38 27 0.79
ACGTcount: A:0.59, C:0.01, G:0.12, T:0.27
Consensus pattern (38 bp):
AAAGAAATAAAAAAAATAGAATTAAAAGTTTTGATCTG
Found at i:59673228 original size:10 final size:10
Alignment explanation
Indices: 59673208--59673257 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
59673198 TTAAATTCTA
*
59673208 AAAGGTAAAT
1 AAAGATAAAT
59673218 ACAA-ATAAAT
1 A-AAGATAAAT
*
59673228 AAAGATAATT
1 AAAGATAAAT
59673238 AAAGATAAAT
1 AAAGATAAAT
59673248 GAAA-ATAAAT
1 -AAAGATAAAT
59673258 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:59678822 original size:28 final size:29
Alignment explanation
Indices: 59678757--59678822 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
59678747 AAGTCTACAT
*
59678757 ACATGCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
59678786 ACATTCATATGGCCCATTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
59678814 ACATTCATA
1 ACATTCATA
59678823 GTCATGCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 13 0.37
29 22 0.63
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:59681835 original size:29 final size:29
Alignment explanation
Indices: 59681794--59681881 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
59681784 TGGTCCATCT
* *
59681794 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* *
59681823 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
59681852 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
59681881 C
1 C
59681882 CTTATATTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:59685832 original size:146 final size:146
Alignment explanation
Indices: 59685639--59685917 Score: 389
Period size: 146 Copynumber: 1.9 Consensus size: 146
59685629 GTAAAGGCAT
* * *
59685639 AACATCTGTTTCCTTCAAGTTTGTTGCAATCGATTTCAATTCCTAAATGGAAGAGGGAAAAGATC
1 AACATCTGTTTCCTTCAAGTTTGTTGCAACCGATTCCAATTCCTAAATGGAAGAGGGAAAAGAGC
* * * * * *
59685704 ACTATGTACTTTGTTT-TGAGTTTATCTTTGACTCTGAAAAAGACAGATTCAATGTGGGTAATAG
66 ACTATGGACTTTGTTTCAG-GTTTACCCTCGACTCCGAAAAAGACAGATTCAATGTGGGTAATAG
59685768 TTGATCGATTCTCAAAA
130 TTGATCGATTCTCAAAA
* * * *
59685785 AACATTTGTTTCCTTCAAGTTTGTTGCAACCGGTTCCAATTCCTAAATGGAAGTGGGAAAGGAGC
1 AACATCTGTTTCCTTCAAGTTTGTTGCAACCGATTCCAATTCCTAAATGGAAGAGGGAAAAGAGC
* * * *
59685850 ACTATGGACTTTGTTTCAGGTTTGCCCTCGACTCCGACAAAGGCAGATTCAGTGTGGGTAATAGT
66 ACTATGGACTTTGTTTCAGGTTTACCCTCGACTCCGAAAAAGACAGATTCAATGTGGGTAATAGT
59685915 TGA
131 TGA
59685918 CCAATTCACA
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
146 114 0.99
147 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (146 bp):
AACATCTGTTTCCTTCAAGTTTGTTGCAACCGATTCCAATTCCTAAATGGAAGAGGGAAAAGAGC
ACTATGGACTTTGTTTCAGGTTTACCCTCGACTCCGAAAAAGACAGATTCAATGTGGGTAATAGT
TGATCGATTCTCAAAA
Found at i:59700276 original size:31 final size:32
Alignment explanation
Indices: 59700218--59700277 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
59700208 TGGTCAAATA
* *
59700218 TAACCGAACATAAGCAAAATGATCAAGCCTTG
1 TAACCGAACATAAGCAAAATAAACAAGCCTTG
*
59700250 TAACCGAACTTAA-CAAAATAAACAAGCC
1 TAACCGAACATAAGCAAAATAAACAAGCC
59700278 ATTTTCGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (32 bp):
TAACCGAACATAAGCAAAATAAACAAGCCTTG
Found at i:59701822 original size:22 final size:21
Alignment explanation
Indices: 59701780--59701823 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
59701770 ATGCATATTG
*
59701780 AGTTATAATATGTAATGCATT
1 AGTTATAAAATGTAATGCATT
59701801 AGTTAGTAAAATGT-ATGTCATT
1 AGTTA-TAAAATGTAATG-CATT
59701823 A
1 A
59701824 TATGTGGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (21 bp):
AGTTATAAAATGTAATGCATT
Found at i:59702489 original size:39 final size:40
Alignment explanation
Indices: 59702388--59702611 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
59702378 TTGAATGATG
*
59702388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
59702427 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
59702468 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
59702507 TCCGGGCTAAG-CCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59702546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59702585 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59702612 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59702563 original size:79 final size:81
Alignment explanation
Indices: 59702388--59702617 Score: 276
Period size: 79 Copynumber: 2.9 Consensus size: 81
59702378 TTGAATGATG
* * *
59702388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
59702450 TTTGTACGAGATACTAAT
64 TTTGTACGAGATACTAAA
*
59702468 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGACATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
* *
59702530 TGTGCGAGTTACTAAA
66 TGTACGAGATACTAAA
* * * * *
59702546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
59702610 TGAACGAG
66 TGTACGAG
59702618 GAGCTATATC
Statistics
Matches: 130, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 35 0.27
79 54 0.42
80 40 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTACGAGATACTAAA
Found at i:59702633 original size:79 final size:78
Alignment explanation
Indices: 59702388--59702644 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 78
59702378 TTGAATGATG
* * * * *
59702388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCAT
*
59702451 TTGTACGAGATACTAA
64 TTGTACGAG-GACTAA
* * *
59702467 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGACAT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
* *
59702529 TTGTGCGAGTTACTAAA
64 TTGTACGAG-GACT-AA
* *
59702546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
*
59702611 GAACGAGGAGCTATA
66 GTACGAGGA-CTA-A
* *
59702626 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59702645 TACGTGATTC
Statistics
Matches: 150, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
78 32 0.21
79 76 0.51
80 42 0.28
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTACGAGGACTAA
Found at i:59705900 original size:49 final size:49
Alignment explanation
Indices: 59705679--59706184 Score: 793
Period size: 49 Copynumber: 10.6 Consensus size: 49
59705669 CCCTTCGGGA
* * * * *
59705679 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59705726 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59705773 CTCATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59705820 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59705867 CTTATCACATATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59705916 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59705965 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59706012 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59706061 CTTATCACATATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59706110 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59706159 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
59706185 CACAATTATC
Statistics
Matches: 431, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 186 0.43
49 244 0.57
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59705975 original size:145 final size:145
Alignment explanation
Indices: 59705679--59706184 Score: 808
Period size: 145 Copynumber: 3.5 Consensus size: 145
59705669 CCCTTCGGGA
* * * * * * * *
59705679 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
59705742 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
59705805 CATCAGCCATTAGGC
131 CATCGGCCATTAGGC
*
59705820 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
59705885 ACTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
59705950 CATCGGCCATTCGGC
131 CATCGGCCATTAGGC
59705965 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
59706030 ACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
59706095 TATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
59706110 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
59706175 ACA--TTCACAT
64 ACACTTTCACAT
59706185 CACAATTATC
Statistics
Matches: 340, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 46 0.14
143 45 0.13
145 192 0.56
147 57 0.17
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:59708954 original size:56 final size:56
Alignment explanation
Indices: 59708893--59709182 Score: 454
Period size: 56 Copynumber: 5.2 Consensus size: 56
59708883 TCCCAAACAG
* * *
59708893 GGTCTTACTCGCACACATATATCAGAATCACATATCTATGCCAATGTATTAAATGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
59708949 GGTCTTACTCGCACATATATATTAGAATCAAATATCGATGCCAACGTTTTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
59709005 GGTCTTACTCACACACATATATCAGAAGCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * *
59709061 GGTCTTACTCGCACACATATATCAAAATCACATATCGATGCCAATGTATTAAACAT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
59709117 GGTTTTACTTGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
59709173 GGTCTTACTC
1 GGTCTTACTC
59709183 ATGATCACAA
Statistics
Matches: 209, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 209 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:59715004 original size:47 final size:46
Alignment explanation
Indices: 59714892--59715005 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 46
59714882 GGGTTATTAT
* *
59714892 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGAAATGCATCAGCTACATGATGA
* *
59714938 GAGCCACTGTAAGACCATGTCTGGGAAATGGCATCAGC-ATCGA-GATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGAAAT-GCATCAGCTA-C-ATGATGA
*
59714986 GTGCTAGTGTAAGACATGTC
1 GAGCTAGTGTAAGACATGTC
59715006 CAGGACATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
46 12 0.21
47 20 0.35
48 24 0.42
49 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGAAATGCATCAGCTACATGATGA
Found at i:59716278 original size:22 final size:22
Alignment explanation
Indices: 59716252--59716294 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59716242 AAATTATCAC
59716252 ACGGGCATGTTGCCCCTTCCAT
1 ACGGGCATGTTGCCCCTTCCAT
*
59716274 ACGGGCGTGTTGCCCCTTCCA
1 ACGGGCATGTTGCCCCTTCCA
59716295 CATGAGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.37, G:0.26, T:0.26
Consensus pattern (22 bp):
ACGGGCATGTTGCCCCTTCCAT
Found at i:59718409 original size:42 final size:43
Alignment explanation
Indices: 59718316--59718409 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
59718306 TGTCCCAAGC
* * **
59718316 ATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGAAATCAAATATCGACACCACTGTCCCAGAT
*
59718359 AAGGTCTTACACGAAATCAAATAT-GACACCAAC-GTCCCAGAT
1 ATGGTCTTACACGAAATCAAATATCGACACC-ACTGTCCCAGAT
*
59718401 GTGGTCTTA
1 ATGGTCTTA
59718410 TACGTAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 20 0.47
43 23 0.53
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATATCGACACCACTGTCCCAGAT
Found at i:59721337 original size:23 final size:24
Alignment explanation
Indices: 59721296--59721342 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59721286 TAAGTAGATT
59721296 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
*
59721321 AGAAAA-AAAAGGA-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
59721343 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 6 0.29
25 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:59722886 original size:27 final size:27
Alignment explanation
Indices: 59722852--59723029 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59722842 TAAATTGGAC
59722852 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59722879 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59722905 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59722933 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59722961 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59722988 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59723015 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59723030 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59722966 original size:82 final size:81
Alignment explanation
Indices: 59722853--59723008 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59722843 AAATTGGACA
* *
59722853 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59722917 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59722934 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59722999 TGCGAGTTGA
65 TGCGAATTGA
59723009 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59723020 original size:82 final size:81
Alignment explanation
Indices: 59722850--59723029 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
59722840 AGTAAATTGG
* *
59722850 ACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
59722915 TGTGCGAATTGACCAT
66 TGTGCGAATTGACCAT
* * ** *
59722931 GCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 ACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
59722995 AGTGTGCGAGTTGATTAT
64 AGTGTGCGAATTGACCAT
* *
59723013 ATAGCACTGAGTGTGCG
1 ACAGCACTAAGTGTGCG
59723030 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCAT
Found at i:59729573 original size:23 final size:24
Alignment explanation
Indices: 59729532--59729578 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59729522 TAAGTAGATT
59729532 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
*
59729557 AGAAAA-AAAAGGA-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
59729579 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 6 0.29
25 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:59731122 original size:27 final size:27
Alignment explanation
Indices: 59731088--59731266 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
59731078 TAAATTGGAC
59731088 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59731115 TGCACTAAGTGTGCGGAAATGAATATG-
1 AGCACTAAGTGTGC-GATTTGACTATGT
* * *
59731142 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59731170 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59731198 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59731225 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59731252 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59731267 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 84 0.65
28 45 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59731150 original size:55 final size:56
Alignment explanation
Indices: 59731088--59731266 Score: 188
Period size: 55 Copynumber: 3.3 Consensus size: 56
59731078 TAAATTGGAC
*
59731088 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGGA-AATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAGAATGAATATGT
* * ** ** *
59731142 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGC-GAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAGAATGAATATGT
* * * * *
59731198 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC-GAG-TTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAGAATGAATATGT
*
59731252 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59731267 GACTCAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 25 0.24
55 80 0.75
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (56 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAGAATGAATATGT
Found at i:59731257 original size:82 final size:82
Alignment explanation
Indices: 59731086--59731266 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 82
59731076 AGTAAATTGG
* *
59731086 ACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGGAAATGAATATGATGCACTAA
1 ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAAATGAATACGATGCACTAA
59731151 GTGTGCGAATTGACCAT
66 GTGTGCGAATTGACCAT
* * ** *
59731168 GCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGC-GATTTGATTACG-TAGCACT
1 ACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGGAAATGAATACGAT-GCACT
* **
59731231 AAGTGTGCGAGTTGATTAT
64 AAGTGTGCGAATTGACCAT
* *
59731250 ATAGCACTGAGTGTGCG
1 ACAGCACTAAGTGTGCG
59731267 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 1 0.01
82 58 0.70
83 24 0.29
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (82 bp):
ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCAT
Found at i:59740032 original size:40 final size:40
Alignment explanation
Indices: 59739909--59740132 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
59739899 TATTCGAATG
** * *
59739909 ATATCCGGGCTAAG-TTCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GAGACT
* * * * * * * *
59739949 ATAACCGGACTAAGATCCGAAGGCGTTCGTACGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-AGACT
*
59739989 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGAGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGAGACT
* * * *
59740029 ATATCTGGGCTAAAACCCGAATGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGAGACT
* * *
59740069 ATATCCGGGCTAAGTCCCGAAGGCATTTAG-GCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTT-GTGCTAGAGACT
*
59740109 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
59740133 CTTGCGCAAG
Statistics
Matches: 151, Mismatches: 29, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 133 0.88
41 17 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGAGACT
Found at i:59748133 original size:43 final size:43
Alignment explanation
Indices: 59748063--59748146 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
59748053 AGGAAGACCA
*
59748063 TGGCATCGATATGTGCTTACGAGTAAGACC-CTGTCTGGGACAG
1 TGGCATCGATATGTGCTTACGAATAAGACCAC-GTCTGGGACAG
* *
59748106 TGGCATCGATATGTGGTTA-TATATAAGACCACGTCTGGGAC
1 TGGCATCGATATGTGCTTACGA-ATAAGACCACGTCTGGGAC
59748147 GTTGGAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATGTGCTTACGAATAAGACCACGTCTGGGACAG
Found at i:59748716 original size:52 final size:52
Alignment explanation
Indices: 59748654--59748755 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
59748644 AAGATTGAGC
*
59748654 ATGGATAATGATAATATAATTTGGCTAGTTTAATCAATTTGCTTATATTAGA
1 ATGGATAATGATAATATAATTCGGCTAGTTTAATCAATTTGCTTATATTAGA
*
59748706 ATGGATAATGATAATATAATTCGGCTAGTTTAATTAATTTGCTTATATTA
1 ATGGATAATGATAATATAATTCGGCTAGTTTAATCAATTTGCTTATATTA
59748756 CTAAGTTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (52 bp):
ATGGATAATGATAATATAATTCGGCTAGTTTAATCAATTTGCTTATATTAGA
Found at i:59750174 original size:61 final size:61
Alignment explanation
Indices: 59750079--59750204 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 61
59750069 TATGTCTGCT
*
59750079 CAGAAATGTTTGAGAAAAGGATATAAAGCTTATCTTGCTTTTGTGTTGAATACTAAAGATC
1 CAGAAATGTTTGAGAAAAGGATATAAAGCTTATCTTGCTTTTGTGTTGAATAATAAAGATC
59750140 CAGAAATGTTTGAGAAAAGGATATAAAGCTTATCTTGCTTTTGTGTTGAATAATAAAGATC
1 CAGAAATGTTTGAGAAAAGGATATAAAGCTTATCTTGCTTTTGTGTTGAATAATAAAGATC
59750201 CAGA
1 CAGA
59750205 GTTGAAAATT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (61 bp):
CAGAAATGTTTGAGAAAAGGATATAAAGCTTATCTTGCTTTTGTGTTGAATAATAAAGATC
Found at i:59753427 original size:46 final size:46
Alignment explanation
Indices: 59753369--59753539 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
59753359 ACATCTCGTA
* *
59753369 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTTTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTATCGAG
* * * * *
59753415 GCCGATGCATGTCCCAGAGATGTCTTACACTAGCAC-T-CGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACT-G-ACTTACGTATCGAG
* * *
59753461 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAC-AAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGACT-T-ACGTATCGAG
*
59753509 GCTGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
59753540 AGCCCACACA
Statistics
Matches: 104, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
46 54 0.52
47 29 0.28
48 19 0.18
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTATCGAG
Found at i:59753924 original size:30 final size:30
Alignment explanation
Indices: 59753884--59753940 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
59753874 AATTCATATC
* * *
59753884 TTTGATAAAATGACCATTTTGCCCCTAAAT
1 TTTGACAAAATAACCATTTTACCCCTAAAT
59753914 TTTGACAAAATAACCATTTTACCCCTA
1 TTTGACAAAATAACCATTTTACCCCTA
59753941 GGCCAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (30 bp):
TTTGACAAAATAACCATTTTACCCCTAAAT
Found at i:59754939 original size:43 final size:42
Alignment explanation
Indices: 59754866--59754979 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
59754856 GAAAAGATCG
* * * *
59754866 TACAATGCCAC-ATCCCAGACGTGGTGTTACATGTAATCAAA
1 TACAATGCCACTGTCCCAGACGTGGTCTTACACGAAATCAAA
59754907 TATCAATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAA
1 TA-CAATGCCACTGTCCCAGAC-GTGGTCTTACACGAAATCAAA
* * *
59754950 TACGATGCCAATGTCCCTGACGTGGTCTTA
1 TACAATGCCACTGTCCCAGACGTGGTCTTA
59754980 TACGTAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.05
42 32 0.52
43 26 0.42
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCACTGTCCCAGACGTGGTCTTACACGAAATCAAA
Found at i:59757224 original size:122 final size:121
Alignment explanation
Indices: 59757064--59757306 Score: 434
Period size: 122 Copynumber: 2.0 Consensus size: 121
59757054 TTTAAGCGCC
*
59757064 GCTAAAACTATTTCGCAAAAAACGCCACTATAGATAACGCCACTAAAGTTTGTGGCGTTTATTTT
1 GCTAAAACTATTTCGCAAAAAACGCCACTATAGATAACGCCACTAAAGTTTGTGGCGTTTATTTG
*
59757129 AAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-CTCATAAATGCCGCT
66 AAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCT-ACAAATGCCGCT
*
59757185 GCTAAAACTATTTCGCAAAAAAACGCCGCTATAGATAACGCCACTAAAGTTTGTGGCGTTTATTT
1 GCTAAAACTATTTCGC-AAAAAACGCCACTATAGATAACGCCACTAAAGTTTGTGGCGTTTATTT
59757250 GAAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCTACAAATGCCGCT
65 GAAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCTACAAATGCCGCT
59757307 AAAAGTTATA
Statistics
Matches: 117, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
121 16 0.14
122 99 0.85
123 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (121 bp):
GCTAAAACTATTTCGCAAAAAACGCCACTATAGATAACGCCACTAAAGTTTGTGGCGTTTATTTG
AAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCTACAAATGCCGCT
Found at i:59757566 original size:26 final size:25
Alignment explanation
Indices: 59757508--59757566 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
59757498 TTAAATATTA
59757508 AAATA-AAAATAAAAATTTAGAATC
1 AAATATAAAATAAAAATTTAGAATC
*
59757532 AAA-ACTAAAATAAATAATATTAG-ATT
1 AAATA-TAAAATAAA-AAT-TTAGAATC
59757558 AAATATAAA
1 AAATATAAA
59757567 GATATCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 8 0.28
26 12 0.41
27 5 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (25 bp):
AAATATAAAATAAAAATTTAGAATC
Found at i:59758772 original size:20 final size:20
Alignment explanation
Indices: 59758747--59758786 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
59758737 AGTGGAAAAA
59758747 AAAGAAGGAAAGAAATACGT
1 AAAGAAGGAAAGAAATACGT
59758767 AAAGAAGGAAAGAAATACGT
1 AAAGAAGGAAAGAAATACGT
59758787 TTTCTACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.25, T:0.10
Consensus pattern (20 bp):
AAAGAAGGAAAGAAATACGT
Done.