Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 198 of 276
Found at i:65676655 original size:50 final size:47
Alignment explanation
Indices: 65676533--65676656 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
65676523 GGTATAATGC
* * *
65676533 CGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCACGTTAAGTT
1 CGATGCCATGT-CCAAACATGGTCTTACACTAACTCCCACGTTAAGTT
**
65676581 -GATGCCATGTTCCAAACATGGTCTTACACTAACTCCCACGTATCTGTGT
1 CGATGCCATG-TCCAAACATGGTCTTACACTAACTCCCACGT-TAAGT-T
* *
65676630 CGATGCCATGTCCTAGACGTGGTCTTA
1 CGATGCCATGTCC-AAACATGGTCTTA
65676657 TACTGACACA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
47 36 0.56
48 4 0.06
49 4 0.06
50 20 0.31
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCAAACATGGTCTTACACTAACTCCCACGTTAAGTT
Found at i:65676739 original size:46 final size:46
Alignment explanation
Indices: 65676677--65676844 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
65676667 TCATGAAGTA
* *
65676677 GATGCATGTCCTAGACATGCCTTACACTGGCT-TGCATCAAGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCAAGTGGCC
* * * *
65676723 GATGCACGTCCCAGACATATCTTACACTAGCTCTCATCTCAA-T-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--TCAAGTGGCC
* *
65676769 GATGCCATGTCCCAGACATGGTCATACACTGGCTCTCAT-AATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCAA-GTGGCC
65676817 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
65676845 AGCACACAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 45 0.45
47 30 0.30
48 24 0.24
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAAGTGGCC
Found at i:65676815 original size:94 final size:92
Alignment explanation
Indices: 65676677--65676847 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
65676667 TCATGAAGTA
* *
65676677 GATGCATGTCCTAGACATGCCTTACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
1 GATGCATGTCCCAGACATGCCATACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
65676742 TCTTACACTAGCTCTCATCTCAATGTC
66 TCTTACACTAGCTCTCATCTCAATGTC
* * *
65676769 GATGCCATGTCCCAGACATGGTCATACACTGGCTCT-CAT-AATGTGGCTGATGCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GCCATACACTGGCT-TGCATCAA-GTGGCCGATGCACGTCCCAGA
*
65676832 CATGTCTTACACTAGC
62 CATATCTTACACTAGC
65676848 ACACAAACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 15 0.22
94 49 0.71
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGCCATACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
TCTTACACTAGCTCTCATCTCAATGTC
Found at i:65678613 original size:30 final size:31
Alignment explanation
Indices: 65678567--65678627 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
65678557 ATCCCGAGCC
65678567 TAGGGGCAAAAATGTAAATATG-CAAAATTT
1 TAGGGGCAAAAATGTAAATATGCCAAAATTT
* * * *
65678597 TAGGGGTAAAATTGTAATTTTGCCAAAATTT
1 TAGGGGCAAAAATGTAAATATGCCAAAATTT
65678628 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAAATATGCCAAAATTT
Found at i:65679096 original size:46 final size:46
Alignment explanation
Indices: 65679046--65679266 Score: 388
Period size: 46 Copynumber: 4.8 Consensus size: 46
65679036 TGGTTGAGCA
65679046 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
65679092 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65679138 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
65679184 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65679230 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65679267 GCGGGTTACA
Statistics
Matches: 166, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65689177 original size:44 final size:42
Alignment explanation
Indices: 65689051--65689199 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 42
65689041 CCAACGTCCC
* * * * * *
65689051 AGACGTGGTCTTCCATGTAATCAAATATCGATGCCACTGT-TCC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCAATGTCT-T
* * * *
65689094 AGACAGGGTCTTACATGAAATCAAATACGATGTCGATGTCTT
1 AGACATGGTCTTACACGAAATCAAATACGATGCCAATGTCTT
*
65689136 AGATATGGTCTTACACGTAAATCATAAGT-CGATGCCAATGTCTT
1 AGACATGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCTT
*
65689180 AGACGTGGTCTTACACGAAA
1 AGACATGGTCTTACACGAAA
65689200 ACACATATCG
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 23 0.26
43 33 0.38
44 30 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCAATGTCTT
Found at i:65696903 original size:24 final size:24
Alignment explanation
Indices: 65696876--65696927 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
65696866 TTAGTAAGTC
*
65696876 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65696900 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65696924 AAAT
1 AAAT
65696928 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65696996 original size:19 final size:19
Alignment explanation
Indices: 65696972--65697009 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65696962 ACTTACAAGC
65696972 AATCTCTTAGAATTTGGGT
1 AATCTCTTAGAATTTGGGT
65696991 AATCTCTTAGAATTTGGGT
1 AATCTCTTAGAATTTGGGT
65697010 CACACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
AATCTCTTAGAATTTGGGT
Found at i:65699303 original size:24 final size:24
Alignment explanation
Indices: 65699276--65699327 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
65699266 TTAGTAAGTC
*
65699276 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65699300 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65699324 AAAT
1 AAAT
65699328 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65699396 original size:19 final size:19
Alignment explanation
Indices: 65699372--65699409 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65699362 ACTTACAAGC
65699372 AATCTCTTAGAATTTGGGT
1 AATCTCTTAGAATTTGGGT
65699391 AATCTCTTAGAATTTGGGT
1 AATCTCTTAGAATTTGGGT
65699410 CACACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
AATCTCTTAGAATTTGGGT
Found at i:65708528 original size:27 final size:27
Alignment explanation
Indices: 65708490--65708543 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
65708480 ATAATCAATG
*
65708490 CATTCTTTCTATGTGTAGTCTTTCCCT
1 CATTCTTTCTATGTGTAGTCCTTCCCT
65708517 CATTCTTTCTATGTGTAGTCCTTCCCT
1 CATTCTTTCTATGTGTAGTCCTTCCCT
65708544 ACAAGTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.11, C:0.28, G:0.11, T:0.50
Consensus pattern (27 bp):
CATTCTTTCTATGTGTAGTCCTTCCCT
Found at i:65711903 original size:50 final size:50
Alignment explanation
Indices: 65711849--65712000 Score: 164
Period size: 49 Copynumber: 3.1 Consensus size: 50
65711839 TGCATGGTTT
* * *
65711849 ATTTAAAATGCAAACTAAATGAACAAATGAGTTACATAATGCATGACATA
1 ATTTAAAATGCAAACTTAATGAACATATGAGTTACTTAATGCATGACATA
* * * *
65711899 ATTTAAGATGC-AACTTAATTAACATAGGAGTTACTTAATACATGACATA
1 ATTTAAAATGCAAACTTAATGAACATATGAGTTACTTAATGCATGACATA
** * * * *
65711948 A-TTAAAACACAAACTTTATGAACATATGAGATGCTTTAATGCATGACTTA
1 ATTTAAAATGCAAACTTAATGAACATATGAGTTAC-TTAATGCATGACATA
65711998 ATT
1 ATT
65712001 AAATGTGGAA
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
48 6 0.07
49 51 0.62
50 24 0.29
51 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (50 bp):
ATTTAAAATGCAAACTTAATGAACATATGAGTTACTTAATGCATGACATA
Found at i:65717364 original size:28 final size:28
Alignment explanation
Indices: 65717324--65717509 Score: 187
Period size: 29 Copynumber: 6.5 Consensus size: 28
65717314 GACTGATTTT
*
65717324 GCACACATAGTGCTCGATTAAAGAACTC
1 GCACACATAGTGCTCAATTAAAGAACTC
* *
65717352 GCACACATAGTGCCTCAATTACCA-ATCTC
1 GCACACATAGTG-CTCAATTA-AAGAACTC
* *
65717381 GCACACATAGTGCTCGATTGAAGAACTC
1 GCACACATAGTGCTCAATTAAAGAACTC
* * *
65717409 GCACACATAGTGCCTCAACTACCA-ATCTC
1 GCACACATAGTG-CTCAATTA-AAGAACTC
*
65717438 GCACACATAGTGCTCAATTGAAGAACTC
1 GCACACATAGTGCTCAATTAAAGAACTC
* ** * *
65717466 GCACACATAGTGCCTCAACTACTGATCTA
1 GCACACATAGTG-CTCAATTAAAGAACTC
65717495 GCACACATAGTGCTC
1 GCACACATAGTGCTC
65717510 GGTTGAAGAG
Statistics
Matches: 129, Mismatches: 22, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
27 2 0.02
28 59 0.46
29 66 0.51
30 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (28 bp):
GCACACATAGTGCTCAATTAAAGAACTC
Found at i:65717385 original size:57 final size:57
Alignment explanation
Indices: 65717324--65717537 Score: 338
Period size: 57 Copynumber: 3.8 Consensus size: 57
65717314 GACTGATTTT
* *
65717324 GCACACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
65717381 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* ** *
65717438 GCACACATAGTGCTCAATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * **
65717495 GCACACATAGTGCTCGGTTGAAGAGCTTACACACATAGTGCCT
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCT
65717538 TATAATTCCA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 146 1.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
Found at i:65717615 original size:40 final size:40
Alignment explanation
Indices: 65717549--65718425 Score: 1389
Period size: 40 Copynumber: 21.9 Consensus size: 40
65717539 ATAATTCCAA
* * *
65717549 CACGAATGC-CTTCGAGG-TTTATCCCGGATATATCACCAG
1 CACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACTAG
65717588 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
65717628 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717668 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717707 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717748 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717787 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717828 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717867 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717908 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717947 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65717988 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718027 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718068 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718107 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718148 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718187 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718228 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718267 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718308 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCAC-CG
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718347 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAG
1 -CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
*
65718388 CAGGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
65718426 CTCAATTCTC
Statistics
Matches: 778, Mismatches: 40, Indels: 39
0.91 0.05 0.05
Matches are distributed among these distances:
39 20 0.03
40 749 0.96
41 9 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAG
Found at i:65717691 original size:80 final size:80
Alignment explanation
Indices: 65717548--65718424 Score: 1661
Period size: 80 Copynumber: 11.0 Consensus size: 80
65717538 TATAATTCCA
* * *
65717548 ACACGAATGC-CTTCGAGG-TTTATCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAG
1 ACACGAATGCTCTTC-AGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
*
65717611 CCCGGATATATCA-CT
65 CCCGGATATATCACCG
*
65717626 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
1 A-CACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
65717691 CCCGGATATATCACCG
65 CCCGGATATATCACCG
65717707 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65717772 CCGGATATATCACCG
66 CCGGATATATCACCG
65717787 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65717852 CCGGATATATCACCG
66 CCGGATATATCACCG
65717867 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65717932 CCGGATATATCACCG
66 CCGGATATATCACCG
65717947 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65718012 CCGGATATATCACCG
66 CCGGATATATCACCG
65718027 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65718092 CCGGATATATCACCG
66 CCGGATATATCACCG
65718107 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65718172 CCGGATATATCACCG
66 CCGGATATATCACCG
65718187 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65718252 CCGGATATATCACCG
66 CCGGATATATCACCG
65718267 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65718332 CCGGATATATCACCG
66 CCGGATATATCACCG
*
65718347 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCAGGAATGCTCTTCGGGACTTAGC
1 ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
65718412 CCGGATATATCAC
66 CCGGATATATCAC
65718425 TCTCAATTCT
Statistics
Matches: 788, Mismatches: 7, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
78 1 0.00
79 11 0.01
80 774 0.98
81 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
ACACGAATGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGC
CCGGATATATCACCG
Found at i:65718545 original size:44 final size:43
Alignment explanation
Indices: 65718496--65718585 Score: 162
Period size: 44 Copynumber: 2.1 Consensus size: 43
65718486 CTGAATACAA
*
65718496 ACACAACATGCTTATCGACCATTCAACTTTCAGTTCCATAGCC
1 ACACAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGCC
65718539 NACACAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGCC
1 -ACACAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGCC
65718583 ACA
1 ACA
65718586 TACAAAAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 3 0.07
44 42 0.93
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.26
Consensus pattern (43 bp):
ACACAACATGCTTATCGACCATTCAACTTCCAGTTCCATAGCC
Found at i:65719961 original size:47 final size:47
Alignment explanation
Indices: 65719908--65720003 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
65719898 TCAATATCTA
65719908 ATAAAACACACCTTCCACAGTTTGTCATTTGTCCACAATATATATAC
1 ATAAAACACACCTTCCACAGTTTGTCATTTGTCCACAATATATATAC
65719955 ATAAAACACACCTTCCACAGTTTGTCATTTGTCCACAATATATATAC
1 ATAAAACACACCTTCCACAGTTTGTCATTTGTCCACAATATATATAC
65720002 AT
1 AT
65720004 TTTCACGTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (47 bp):
ATAAAACACACCTTCCACAGTTTGTCATTTGTCCACAATATATATAC
Found at i:65727051 original size:20 final size:20
Alignment explanation
Indices: 65727012--65727051 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65727002 GAACTGTGTG
*
65727012 CATTCCTACATTTGCATAAA
1 CATTCCTACATTGGCATAAA
* *
65727032 CATTCCTGCATTGGCGTAAA
1 CATTCCTACATTGGCATAAA
65727052 AATATAAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
CATTCCTACATTGGCATAAA
Found at i:65728476 original size:28 final size:29
Alignment explanation
Indices: 65728417--65728480 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
65728407 TCTCGCACTC
65728417 TTTTTCAATTTTCTTTTCTTGCTCAATTTT
1 TTTTTCAATTTTCTTTTCTT-CTCAATTTT
*
65728447 TTTTTCAATTTT-TTTCTCTT-TCATTCTTT
1 TTTTTCAATTTTCTTT-TCTTCTCAAT-TTT
65728476 TTTTT
1 TTTTT
65728481 TCCTAAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 4 0.13
29 11 0.35
30 16 0.52
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.72
Consensus pattern (29 bp):
TTTTTCAATTTTCTTTTCTTCTCAATTTT
Found at i:65728565 original size:33 final size:34
Alignment explanation
Indices: 65728528--65728592 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
65728518 ATTTTCTTTT
**
65728528 TTTTCTCTC-TCAATCTCTTTTATTTTTCTTCCA
1 TTTTCTCTCATCAATAACTTTTATTTTTCTTCCA
* *
65728561 TTTTCTTTCATCAATAACTTTTCTTTTTCTTC
1 TTTTCTCTCATCAATAACTTTTATTTTTCTTC
65728593 TCCCTTATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTCTCTCATCAATAACTTTTATTTTTCTTCCA
Found at i:65728567 original size:21 final size:22
Alignment explanation
Indices: 65728518--65728568 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
65728508 TTCTTATTTA
65728518 ATTTTC-TTTTTTTTCTCTCTC
1 ATTTTCTTTTTTTTTCTCTCTC
* *
65728539 AATCTCTTTTATTTTTCT-TC-C
1 ATTTTCTTTT-TTTTTCTCTCTC
65728560 ATTTTCTTT
1 ATTTTCTTT
65728569 CATCAATAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 12 0.50
22 5 0.21
23 7 0.29
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTCTTTTTTTTTCTCTCTC
Found at i:65730571 original size:20 final size:21
Alignment explanation
Indices: 65730546--65730584 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65730536 CATAATTGAC
65730546 CTTTTAATC-AAAATTTTATA
1 CTTTTAATCTAAAATTTTATA
*
65730566 CTTTTACTCTAAAATTTTA
1 CTTTTAATCTAAAATTTTA
65730585 CCTTTTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
CTTTTAATCTAAAATTTTATA
Found at i:65730589 original size:20 final size:19
Alignment explanation
Indices: 65730544--65730596 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
65730534 CACATAATTG
65730544 ACCTTTTAATCAAAATTTT
1 ACCTTTTAATCAAAATTTT
* *
65730563 ATACTTTTACTCTAAAATTTT
1 A-CCTTTTAATC-AAAATTTT
*
65730584 ACCTTTTATTCAA
1 ACCTTTTAATCAA
65730597 TTTAGTCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 16 0.57
21 9 0.32
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (19 bp):
ACCTTTTAATCAAAATTTT
Found at i:65732939 original size:32 final size:32
Alignment explanation
Indices: 65732903--65732967 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65732893 TAAGAATATG
65732903 TTAGAACATAATGCGAATGGGTGAATTAAGTT
1 TTAGAACATAATGCGAATGGGTGAATTAAGTT
*
65732935 TTAGAACATAATGCGAATTGGTGAATTAAGTT
1 TTAGAACATAATGCGAATGGGTGAATTAAGTT
65732967 T
1 T
65732968 GAATTTAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (32 bp):
TTAGAACATAATGCGAATGGGTGAATTAAGTT
Found at i:65735642 original size:33 final size:33
Alignment explanation
Indices: 65735598--65735676 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
65735588 GTGGTGACTA
* * *
65735598 GTGAGTGGTGAGCGGCGCTGGACAAC-GATGGTG
1 GTGATTGGTGAGCGACGCTAGACAACAG-TGGTG
* *
65735631 GTGATTGGTGAGCGACGCTAGATAGCAGTGGTG
1 GTGATTGGTGAGCGACGCTAGACAACAGTGGTG
65735664 GTGATTGGTGAGC
1 GTGATTGGTGAGC
65735677 AACAGGCGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 39 0.98
34 1 0.03
ACGTcount: A:0.19, C:0.13, G:0.46, T:0.23
Consensus pattern (33 bp):
GTGATTGGTGAGCGACGCTAGACAACAGTGGTG
Found at i:65736216 original size:21 final size:21
Alignment explanation
Indices: 65736186--65736261 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
65736176 TTAAAAATAA
65736186 AAAAATATAATAATATGTTTAT
1 AAAAA-ATAATAATATGTTTAT
* * *
65736208 AAAAAATAAAAATATCATTAAT
1 AAAAAATAATAATAT-GTTTAT
* *
65736230 TAAAAATACATTAATATGCTTAT
1 AAAAAATA-A-TAATATGTTTAT
65736253 -AAAAATAAT
1 AAAAAATAAT
65736262 GGAACCTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 10 0.23
22 23 0.53
23 4 0.09
24 5 0.12
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAAAATAATAATATGTTTAT
Found at i:65736235 original size:16 final size:15
Alignment explanation
Indices: 65736214--65736244 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
65736204 TTATAAAAAA
65736214 TAAAAATATCATTAAT
1 TAAAAATA-CATTAAT
65736230 TAAAAATACATTAAT
1 TAAAAATACATTAAT
65736245 ATGCTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAATACATTAAT
Found at i:65739636 original size:42 final size:42
Alignment explanation
Indices: 65739589--65739668 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
65739579 ACTAAGATTA
65739589 CGTGTAAAACCATATCTGGGACATGGCATCAATATGAGGCTT
1 CGTGTAAAACCATATCTGGGACATGGCATCAATATGAGGCTT
* * *
65739631 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAG
1 CGTGTAAAACCATATCTGGGACATGGCATCAATATGAG
65739669 ACATCCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (42 bp):
CGTGTAAAACCATATCTGGGACATGGCATCAATATGAGGCTT
Found at i:65739677 original size:33 final size:33
Alignment explanation
Indices: 65739640--65739706 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
65739630 TCGTGTAAGA
65739640 CCATATCTGGGATATGGCATCGATATGAGACAT
1 CCATATCTGGGATATGGCATCGATATGAGACAT
65739673 CCATATCTGGGATATGGCATCGATATGAGACAT
1 CCATATCTGGGATATGGCATCGATATGAGACAT
65739706 C
1 C
65739707 GTGTAAGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (33 bp):
CCATATCTGGGATATGGCATCGATATGAGACAT
Found at i:65739721 original size:42 final size:41
Alignment explanation
Indices: 65739674--65739815 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 41
65739664 ATGAGACATC
*
65739674 CATATCTGGGATATGGCATCGATATGAGACATCGTGTAAGAT
1 CATATCTGGGATATGGCATCGATATGAGAC-TCATGTAAGAT
* ** *
65739716 CATATCTGAGATATGGCATCGATATGAGACTTTTTGTAAGAC
1 CATATCTGGGATATGGCATCGATATGAGAC-TCATGTAAGAT
* * * *
65739758 CATAGCTGGGCTATTGGCATCGATACGAGATCCCATGTAAGAT
1 CATATCTGGGATA-TGGCATCGATATGAGA-CTCATGTAAGAT
*
65739801 CATATTTGGGATATG
1 CATATCTGGGATATG
65739816 ACATTGGTAT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 49 0.60
43 32 0.39
44 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (41 bp):
CATATCTGGGATATGGCATCGATATGAGACTCATGTAAGAT
Found at i:65739721 original size:75 final size:75
Alignment explanation
Indices: 65739598--65739745 Score: 242
Period size: 75 Copynumber: 2.0 Consensus size: 75
65739588 ACGTGTAAAA
* * *
65739598 CCATATCTGGGACATGGCATCAATATGAGGCTTCGTGTAAGACCATATCTGGGATATGGCATCGA
1 CCATATCTGGGACATGGCATCAATATGAGACATCGTGTAAGACCATATCTGAGATATGGCATCGA
65739663 TATGAGACAT
66 TATGAGACAT
* * *
65739673 CCATATCTGGGATATGGCATCGATATGAGACATCGTGTAAGATCATATCTGAGATATGGCATCGA
1 CCATATCTGGGACATGGCATCAATATGAGACATCGTGTAAGACCATATCTGAGATATGGCATCGA
65739738 TATGAGAC
66 TATGAGAC
65739746 TTTTTGTAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (75 bp):
CCATATCTGGGACATGGCATCAATATGAGACATCGTGTAAGACCATATCTGAGATATGGCATCGA
TATGAGACAT
Found at i:65739970 original size:12 final size:12
Alignment explanation
Indices: 65739953--65739978 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65739943 TATGTAAGTA
65739953 AAACTCATACGT
1 AAACTCATACGT
65739965 AAACTCATACGT
1 AAACTCATACGT
65739977 AA
1 AA
65739979 TGAGCTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (12 bp):
AAACTCATACGT
Found at i:65747915 original size:23 final size:23
Alignment explanation
Indices: 65747870--65747915 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65747860 TTTAACAAGG
65747870 CATCACTCATGAGGATAACGAAT
1 CATCACTCATGAGGATAACGAAT
65747893 CATCACTCATGAGGATAACGAAT
1 CATCACTCATGAGGATAACGAAT
65747916 GTACATGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (23 bp):
CATCACTCATGAGGATAACGAAT
Found at i:65748330 original size:43 final size:43
Alignment explanation
Indices: 65748259--65748380 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
65748249 ATCACATGTA
* * * *
65748259 TCGCATCCATTATGAACTTGGACAACTCAACGAGTTCGGATGC
1 TCGCATCTATAATGAACTCGGACCACTCAACGAGTTCGGATGC
*
65748302 TCGCATCTATAATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCTATAATGAACTCGGACCACTCAACGAGTTCGGATGC
* * * * *
65748345 -CACATATATCACGAACCCGGACCACTCAACGAGTTC
1 TCGCATCTATAATGAACTCGGACCACTCAACGAGTTC
65748381 AGACTTCTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 30 0.44
43 38 0.56
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
TCGCATCTATAATGAACTCGGACCACTCAACGAGTTCGGATGC
Found at i:65751549 original size:40 final size:40
Alignment explanation
Indices: 65751505--65751580 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
65751495 AACCTAGTCC
*
65751505 ATTCAAGGTCGCATCACTGTAAATCACAAACTCTTTGTCT
1 ATTCAAGGACGCATCACTGTAAATCACAAACTCTTTGTCT
* *
65751545 ATTCAATGACGCATCACTGTAAATCACAAATTCTTT
1 ATTCAAGGACGCATCACTGTAAATCACAAACTCTTT
65751581 CCCTGATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (40 bp):
ATTCAAGGACGCATCACTGTAAATCACAAACTCTTTGTCT
Found at i:65753640 original size:12 final size:11
Alignment explanation
Indices: 65753620--65753653 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65753610 TCTCTCCCCC
65753620 AAATAAAATAA
1 AAATAAAATAA
*
65753631 AAACTAAAATAG
1 AAA-TAAAATAA
65753643 AAATAAAATAA
1 AAATAAAATAA
65753654 TTAACAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:65764791 original size:38 final size:38
Alignment explanation
Indices: 65764740--65764815 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
65764730 AGTTCGGCAC
65764740 TTTTAAGGTAAACAACACCC-ATTTAAAACCTTATTTTG
1 TTTTAAGGTAAACAACACCCGA-TTAAAACCTTATTTTG
65764778 TTTTAAGGTAAACAACACCCGATTAAAACCTTATTTTG
1 TTTTAAGGTAAACAACACCCGATTAAAACCTTATTTTG
65764816 ATGAGATTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (38 bp):
TTTTAAGGTAAACAACACCCGATTAAAACCTTATTTTG
Found at i:65775066 original size:13 final size:13
Alignment explanation
Indices: 65775048--65775082 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
65775038 CGGCTAACCT
65775048 ACATAATTAAATA
1 ACATAATTAAATA
65775061 ACATAATTAAATA
1 ACATAATTAAATA
*
65775074 AAATAATTA
1 ACATAATTA
65775083 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:65775320 original size:21 final size:21
Alignment explanation
Indices: 65775296--65775344 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
65775286 AAGAAAAAAT
* *
65775296 GAGCTGAAATGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATTC
*
65775317 GAGCTCAAGCGAGCTAAA-TC
1 GAGCTCAAACGAGCTAAATTC
*
65775337 AAGCTCAA
1 GAGCTCAA
65775345 GTGAGCTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATTC
Found at i:65775343 original size:20 final size:21
Alignment explanation
Indices: 65775306--65775351 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
65775296 GAGCTGAAAT
*
65775306 GAGCTAAATTCGAGCTCAAGC
1 GAGCTAAATTCAAGCTCAAGC
*
65775327 GAGCTAAA-TCAAGCTCAAGT
1 GAGCTAAATTCAAGCTCAAGC
65775347 GAGCT
1 GAGCT
65775352 GATTGGAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
GAGCTAAATTCAAGCTCAAGC
Found at i:65776679 original size:17 final size:19
Alignment explanation
Indices: 65776657--65776693 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
65776647 TATTCCATAA
65776657 TTATATT-T-CTTAATGTT
1 TTATATTATACTTAATGTT
65776674 TTATATTATACTTAATGTT
1 TTATATTATACTTAATGTT
65776693 T
1 T
65776694 GGATTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATATTATACTTAATGTT
Found at i:65785354 original size:3 final size:3
Alignment explanation
Indices: 65785346--65785395 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
65785336 GACTATCTAT
65785346 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
65785394 TT
1 TT
65785396 ATTATTATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:65797232 original size:15 final size:15
Alignment explanation
Indices: 65797212--65797241 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65797202 AACTTGATAA
65797212 ATTTTTGAGTAAGTG
1 ATTTTTGAGTAAGTG
65797227 ATTTTTGAGTAAGTG
1 ATTTTTGAGTAAGTG
65797242 CGCCCTAATC
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:0.00, G:0.27, T:0.47
Consensus pattern (15 bp):
ATTTTTGAGTAAGTG
Found at i:65798512 original size:19 final size:19
Alignment explanation
Indices: 65798459--65798512 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
65798449 AAGTATTACC
*
65798459 ATACAAATTGAAAAAATTA
1 ATACAAATTAAAAAAATTA
65798478 ATTACAAA-TAAAAAAATTA
1 A-TACAAATTAAAAAAATTA
65798497 A-ACAAATTAAATAAAA
1 ATACAAATTAAA-AAAA
65798513 CATTCAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 5 0.16
18 4 0.13
19 16 0.52
20 6 0.19
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (19 bp):
ATACAAATTAAAAAAATTA
Found at i:65804061 original size:18 final size:20
Alignment explanation
Indices: 65804025--65804071 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
65804015 AGTTGTAAGT
65804025 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
65804045 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
65804064 ATGATATA
1 AT-ATATA
65804072 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:65804509 original size:50 final size:50
Alignment explanation
Indices: 65804428--65804661 Score: 229
Period size: 50 Copynumber: 4.7 Consensus size: 50
65804418 AAGTCACGTT
* * *
65804428 TGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATAGGTCACATG
** * * * * * *
65804478 TGTAGTACTAAGTGCAGGCTACTATACGTACCCGTTAGCTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-ATAGGTCACATG
* * * * ** *
65804529 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAATTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATAGGTCACATG
* *
65804579 TGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGATTGATAGGTCGA-ATA
1 TGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGATAGATAGGTC-ACATG
* *
65804629 TGTAGTATTAAGTGCAGGCTACTATGCGTACCA
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCA
65804662 AAGAGCTTCG
Statistics
Matches: 149, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 109 0.73
51 39 0.26
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATAGGTCACATG
Found at i:65804610 original size:101 final size:101
Alignment explanation
Indices: 65804421--65804602 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
65804411 CCATTGTAAG
* * * *
65804421 TCACGTTTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAAGTCACATGTGTAGTAC
65804486 TAAGTGCAGGCTACTATACGTACCCGTTAGCTTCGA
66 TAAGTGCAGGCTACTATACGTACCCGTTAGCTTCGA
* * * * *
65804522 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAATTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAAGTCACATGTGTAGTAC
65804587 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
65804603 CTTGTACCAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATACGTACCCGTTAGCTTCGA
Found at i:65805544 original size:180 final size:180
Alignment explanation
Indices: 65805211--65805544 Score: 422
Period size: 180 Copynumber: 1.9 Consensus size: 180
65805201 AGAGCTGTAT
* * * * * * *
65805211 CATGAGATAAATAATTGTTAGTGAAGAGAGGTCGGAATTTTTAGATAGTGAAACATGGGTATCTT
1 CATGAGATAAATAATTGTTAGTGAAGAGAGATCAGAACTGTCAGATAGTGAAACAAGGGTATATT
* * * * *
65805276 TAACGAATAAAATGTACTAATTGGATAAACAAAAAATTCTTAAAATTTTATGGTAAGAATATATG
66 TAACGAATAAAATGTACTAATTGCATAAACAAAAAATTCTAAAAATTTTATAGTAAGAAGATATA
* *
65805341 TGAGTTTAGTTTTTAGTAAAATTAGTGTTTCTCAATTTGGAGTCCAGTAC
131 TGAGTCTAGTTTATAGTAAAATTAGTGTTTCTCAATTTGGAGTCCAGTAC
* * *
65805391 CATGATATAAATAATTTTTAGTGAAGAGAGATCAGAACTGTCAGATAGTGAAATAAGGGTATATT
1 CATGAGATAAATAATTGTTAGTGAAGAGAGATCAGAACTGTCAGATAGTGAAACAAGGGTATATT
* * * * *
65805456 TAATGAATAAACTGTACTTATT-CACTAGACCAAAAATTC-AAATAATTTTATAGTAAGAAGATA
66 TAACGAATAAAATGTACTAATTGCA-TAAACAAAAAATTCTAAA-AATTTTATAGTAAGAAGATA
65805519 TATGAGTCTAGTTTCATAG-AAAATTA
129 TATGAGTCTAGTTT-ATAGTAAAATTA
65805545 ACGGATCTTA
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
179 3 0.02
180 123 0.95
181 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (180 bp):
CATGAGATAAATAATTGTTAGTGAAGAGAGATCAGAACTGTCAGATAGTGAAACAAGGGTATATT
TAACGAATAAAATGTACTAATTGCATAAACAAAAAATTCTAAAAATTTTATAGTAAGAAGATATA
TGAGTCTAGTTTATAGTAAAATTAGTGTTTCTCAATTTGGAGTCCAGTAC
Found at i:65808001 original size:24 final size:23
Alignment explanation
Indices: 65807976--65808073 Score: 65
Period size: 24 Copynumber: 4.1 Consensus size: 23
65807966 AATCCTAGCT
*
65807976 TTTTCTCCTTTCTTTCTTTTTTC
1 TTTTCTACTTTCTTTCTTTTTTC
* * *
65807999 TTTTCTTTCTTTCCTTCTCTGTTTC
1 TTTTC-TACTTTCTTTCT-TTTTTC
*
65808024 GTTTCTACTTTAGCTTTC-TTTTTC
1 TTTTCTACTTT--CTTTCTTTTTTC
* * *
65808048 TTTTTCTA-TTTATTTATTCTTTC
1 -TTTTCTACTTTCTTTCTTTTTTC
65808071 TTT
1 TTT
65808074 ATTTGTTTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
22 6 0.10
23 10 0.17
24 23 0.40
25 15 0.26
26 4 0.07
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.70
Consensus pattern (23 bp):
TTTTCTACTTTCTTTCTTTTTTC
Found at i:65808003 original size:16 final size:17
Alignment explanation
Indices: 65807974--65808010 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
65807964 AAAATCCTAG
65807974 CTTTTTCTCCTTTCTTT
1 CTTTTTCTCCTTTCTTT
*
65807991 CTTTTT-TCTTTTCTTT
1 CTTTTTCTCCTTTCTTT
65808007 CTTT
1 CTTT
65808011 CCTTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTCCTTTCTTT
Found at i:65809015 original size:40 final size:38
Alignment explanation
Indices: 65808906--65809018 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 38
65808896 ACATAATAGG
* *
65808906 GCACAAATGTGTATTCAGGGCATCGTAATGCCAACAAGA
1 GCACAAATGTGT-TTCAGGGCATCGTAGTGCTAACAAGA
* ** * * *
65808945 ACATGAATATGTTATCAGGAGCACCATAGTGCTAACAAGA
1 GCACAAATGTGTT-TCAGG-GCATCGTAGTGCTAACAAGA
65808985 GCACAAATGTGTTGTCAAGGGCATCGTAGTGCTA
1 GCACAAATGTGTT-TC-AGGGCATCGTAGTGCTA
65809019 TCTGGAGTAC
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
38 1 0.02
39 13 0.23
40 39 0.70
41 3 0.05
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (38 bp):
GCACAAATGTGTTTCAGGGCATCGTAGTGCTAACAAGA
Found at i:65816918 original size:27 final size:27
Alignment explanation
Indices: 65816872--65816988 Score: 137
Period size: 27 Copynumber: 4.3 Consensus size: 27
65816862 TCATACACAT
* * *
65816872 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTTCA
65816899 GTCATTTTACCCTACAGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTTCA
* * * *
65816926 ATCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTTCA
* *
65816953 GTCATTTTACCCTA-TGAGGGTATTTCG
1 GTCATTTTACCCTACAG-GGGTATTTCA
65816980 GTCATTTTA
1 GTCATTTTA
65816989 TCATATAAGG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 78 0.99
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTTCA
Found at i:65817013 original size:27 final size:27
Alignment explanation
Indices: 65816980--65817107 Score: 186
Period size: 27 Copynumber: 4.7 Consensus size: 27
65816970 GGGTATTTCG
*
65816980 GTCATTTTATCATATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
* * *
65817007 ATTATTTTATCATATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
65817034 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGAAAAATC
*
65817061 GTCATTTTATCACATAA-GTACAAAATC
1 GTCATTTTATCACATAAGGGA-AAAATC
*
65817088 GTCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
65817108 TTCAGGTATG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 2 0.02
27 88 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGAAAAATC
Found at i:65825983 original size:21 final size:21
Alignment explanation
Indices: 65825959--65826039 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
65825949 AGTGCTAACG
65825959 GAAACCCATAGGAGTTGAACA
1 GAAACCCATAGGAGTTGAACA
*
65825980 GAAACTCATAGGAGTTGAACTA
1 GAAACCCATAGGAGTTGAAC-A
* * *
65826002 -AAACCCAGAAGG-GTTAAACT
1 GAAACCCA-TAGGAGTTGAACA
* *
65826022 GAAACTCATATGAGTTGA
1 GAAACCCATAGGAGTTGA
65826040 CTAAAACTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
20 2 0.04
21 41 0.87
22 4 0.09
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (21 bp):
GAAACCCATAGGAGTTGAACA
Found at i:65826048 original size:20 final size:20
Alignment explanation
Indices: 65825981--65826055 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
65825971 AGTTGAACAG
*
65825981 AAACTCATAGGAGTTGAACTA
1 AAACTCATAAGAGTTG-ACTA
* * * * *
65826002 AAACCCAGAAGGGTTAAACTG
1 AAACTCATAAGAGTT-GACTA
*
65826023 AAACTCATATGAGTTGACTA
1 AAACTCATAAGAGTTGACTA
*
65826043 AAACTCATGAGAG
1 AAACTCATAAGAG
65826056 CTAAATGGAA
Statistics
Matches: 39, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (20 bp):
AAACTCATAAGAGTTGACTA
Found at i:65831028 original size:42 final size:42
Alignment explanation
Indices: 65830981--65831134 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
65830971 ATGAGTTTAT
* * *
65830981 GTGTAAGACCATATCTAGGATATGACATC-ATTATAAGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCGA-TATGAGATATC
*
65831023 GTGTAAGACCATATCT-GTGACATGGCATCGATATGAGA-ATC
1 GTGTAAGACCATATCTAG-GATATGGCATCGATATGAGATATC
* * **
65831064 GTGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCATATCTAGGATA-TGGCATCGATATGAGATATC
*
65831107 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
65831135 TGGTATGATT
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
41 20 0.21
42 54 0.57
43 21 0.22
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCGATATGAGATATC
Found at i:65832700 original size:43 final size:42
Alignment explanation
Indices: 65832609--65832722 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
65832599 GTTGAGATTA
* * *
65832609 CATGTAAGACTATATCTGGGATATGGCATCGATATGAGACTT
1 CATGTAAGACAATATCTGGGATATGGCATAGATATGAGACTC
* *
65832651 CGTGTAAGACAATAGCTGGGATATTGGCATAGATATGAGA-TCC
1 CATGTAAGACAATATCTGGGATA-TGGCATAGATATGAGACT-C
* *
65832694 CATGTAAGACCATATCTAGGATATGGCAT
1 CATGTAAGACAATATCTGGGATATGGCAT
65832723 TGGTATGGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
CATGTAAGACAATATCTGGGATATGGCATAGATATGAGACTC
Found at i:65848465 original size:27 final size:26
Alignment explanation
Indices: 65848409--65848465 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
65848399 TAACCTTAAC
* *
65848409 CCTAGAGGTATATCAGTAATTTTACT
1 CCTAGAGGTAAATCAGTAATTTTACA
* * *
65848435 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGAGGTAAATCAGT-AATTTTACA
65848462 CCTA
1 CCTA
65848466 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAGAGGTAAATCAGTAATTTTACA
Found at i:65858270 original size:42 final size:42
Alignment explanation
Indices: 65858214--65858298 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
65858204 AAATAGGGTT
65858214 TTAATAGGGTGTTTTTTTACCTTAAAAGTGCTGAACTTGGGG
1 TTAATAGGGTGTTTTTTTACCTTAAAAGTGCTGAACTTGGGG
65858256 TTAATAGGGTGTTTTTTTACCTTAAAAGTGCTGAACTTGGGG
1 TTAATAGGGTGTTTTTTTACCTTAAAAGTGCTGAACTTGGGG
65858298 T
1 T
65858299 GACTCACCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (42 bp):
TTAATAGGGTGTTTTTTTACCTTAAAAGTGCTGAACTTGGGG
Found at i:65865313 original size:6 final size:6
Alignment explanation
Indices: 65865302--65865333 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
65865292 CCTGATATTC
*
65865302 CCCTTT CCCTTT CCCTTT CCCTTT CTCTTT CC
1 CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CC
65865334 AGTCCCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CCCTTT
Found at i:65866162 original size:13 final size:13
Alignment explanation
Indices: 65866144--65866180 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
65866134 GGTATGGTAT
*
65866144 GTTAATTAATTGA
1 GTTAATTAATTCA
*
65866157 GTTAATTAATACA
1 GTTAATTAATTCA
65866170 GTTAATTAATT
1 GTTAATTAATT
65866181 TTTCATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (13 bp):
GTTAATTAATTCA
Found at i:65868189 original size:107 final size:108
Alignment explanation
Indices: 65868034--65868232 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 108
65868024 GGGCAAAATG
* * * * *
65868034 ATAATTTTACCCCACATGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACC
1 ATAATTCTACCCCACATGGGTATCTCGGCAATTCTACCCTACAAGGGTATTTTAGTAATTCTACC
*
65868099 CTGCA-AGGGTATTTCGGTAATTCTACCCTATAGTGGTATTTCA
66 CTACAGA-GGTATTTCGGTAATTCTACCCTATAGTGGTATTTCA
* * *
65868142 ATAATTCTACCCTACA-GGGTATTTCGGCAATTCTACCTTACAAGGGTATTTTAGTAATTCTACC
1 ATAATTCTACCCCACATGGGTATCTCGGCAATTCTACCCTACAAGGGTATTTTAGTAATTCTACC
*
65868206 CTACAGAGGTATTTCGGTATTTCTACC
66 CTACAGAGGTATTTCGGTAATTCTACC
65868233 TTACAAGGGT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
107 65 0.81
108 15 0.19
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (108 bp):
ATAATTCTACCCCACATGGGTATCTCGGCAATTCTACCCTACAAGGGTATTTTAGTAATTCTACC
CTACAGAGGTATTTCGGTAATTCTACCCTATAGTGGTATTTCA
Found at i:65868201 original size:80 final size:80
Alignment explanation
Indices: 65868062--65868247 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 80
65868052 GGTATCTCGG
* * * * *
65868062 TAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTGCAAGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACA-GGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
65868127 TATAGTGGTATTTCAA
65 TACAGAGGTATTTCAA
* *
65868143 TAATTCTACCCTACAGGGTATTTCGGCAATTCTACCTTACAAGGGTATTTTAGTAATTCTACCCT
1 TAATTCTACCCTACAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
**
65868208 ACAGAGGTATTTCGG
66 ACAGAGGTATTTCAA
* *
65868223 TATTTCTACCTTACAAGGGTATTTC
1 TAATTCTACCCTAC-AGGGTATTTC
65868248 AGTATTTTAC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 66 0.73
81 25 0.27
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAGAGGTATTTCAA
Found at i:65868254 original size:27 final size:27
Alignment explanation
Indices: 65868035--65868247 Score: 234
Period size: 27 Copynumber: 7.9 Consensus size: 27
65868025 GGCAAAATGA
* * * *
65868035 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
65868062 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
65868089 TATTTCTACCCTGCAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* **
65868116 TAATTCTACCCTA-TAGTGGTATTTCAA
1 TAATTCTACCCTACAAG-GGTATTTCGG
65868143 TAATTCTACCCTAC-AGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* * **
65868169 CAATTCTACCTTACAAGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCGG
65868196 TAATTCTACCCTAC-AGAGGTATTTCGG
1 TAATTCTACCCTACAAG-GGTATTTCGG
* *
65868223 TATTTCTACCTTACAAGGGTATTTC
1 TAATTCTACCCTACAAGGGTATTTC
65868248 AGTATTTTAC
Statistics
Matches: 155, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
26 24 0.15
27 129 0.83
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGG
Found at i:65868269 original size:107 final size:107
Alignment explanation
Indices: 65868051--65868311 Score: 273
Period size: 107 Copynumber: 2.4 Consensus size: 107
65868041 TACCCCACAT
* * * * *
65868051 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTGCAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGG
* **
65868116 TAATTCTACCCTATAGTGGTATTTCAATAATTCTACCCTACA
66 TAATTCTACCCTAAAGTGGTATTTCAATAATTCTACAATACA
* *
65868158 GGGTATTTCGGCAATTCTACCTTACAAGGGTATTTTAGTAATTCTACCCTAC-AGAGGTATTTCG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAAG-GGTATTTCG
* * * *
65868222 GTATTTCTACCTTACAAG-GGTATTTCAGT-ATTTTACAA-ATCA
65 GTAATTCTACCCTA-AAGTGGTATTTCAATAATTCTACAATA-CA
* * *
65868264 GGGGTATTTTGGTAATTTTA--TAAACCAGGGGTATTTTAGTAATTCTAC
1 -GGGTATTTCGGTAATTCTACCT-TA-CAGGGGTATTTTAGTAATTCTAC
65868312 AAACCAGGGG
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
105 2 0.02
106 11 0.09
107 114 0.88
108 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (107 bp):
GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGG
TAATTCTACCCTAAAGTGGTATTTCAATAATTCTACAATACA
Found at i:65868292 original size:27 final size:27
Alignment explanation
Indices: 65868251--65868361 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
65868241 GTATTTCAGT
*
65868251 ATTTTACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
* *
65868278 ATTTTATAAACCAGGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
* **
65868305 ATTCTACAAACCAGGGGTATTTTTATA
1 ATTTTACAAACCAGGGGTATTTTGGTA
** *
65868332 ATTTTACTGATC-GAGGGTATTTTGGTA
1 ATTTTACAAACCAG-GGGTATTTTGGTA
65868359 ATT
1 ATT
65868362 CTGTAAATCG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 69 0.99
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACAAACCAGGGGTATTTTGGTA
Found at i:65868324 original size:54 final size:54
Alignment explanation
Indices: 65868238--65868363 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
65868228 CTACCTTACA
* * * *
65868238 AGGGTATTTCAGT-ATTTTACAAATCAGGGGTATTTTGGTAATTTTA-TAAACC
1 AGGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTGATAATTTTACTAAACC
* * * *
65868290 AGGGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTTATAATTTTACTGATCG
1 A-GGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTGATAATTTTACTAAACC
*
65868345 AGGGTATTTTGGTAATTCT
1 AGGGTATTTTAGTAATTCT
65868364 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.02
53 11 0.18
54 46 0.74
55 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTGATAATTTTACTAAACC
Found at i:65868371 original size:27 final size:27
Alignment explanation
Indices: 65868355--65868536 Score: 274
Period size: 27 Copynumber: 6.7 Consensus size: 27
65868345 AGGGTATTTT
*
65868355 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
* * *
65868382 GATAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
65868409 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
* * *
65868436 GATAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
65868463 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
*
65868490 GATAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAAC
65868517 GGTAATTCTATAAATCGAGG
1 GGTAATTCTATAAATCGAGG
65868537 ATATTTGGGT
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GGTAATTCTATAAATCGAGGGTAAAAC
Found at i:65868557 original size:54 final size:54
Alignment explanation
Indices: 65868354--65868536 Score: 330
Period size: 54 Copynumber: 3.4 Consensus size: 54
65868344 GAGGGTATTT
*
65868354 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
*
65868408 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
65868462 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
* *
65868516 CGGTAATTCTATAAATCGAGG
1 TGGTAATTCTGTAAATCGAGG
65868537 ATATTTGGGT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
Found at i:65876072 original size:28 final size:28
Alignment explanation
Indices: 65876032--65876087 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
65876022 CATAAACACA
*
65876032 CAGAATTTTCACCCTTTTACCAATCAGT
1 CAGAATTTTCACCCTTTTACAAATCAGT
65876060 CAGAATTTTCACCCTTTTACAAATCAGT
1 CAGAATTTTCACCCTTTTACAAATCAGT
65876088 TTCTAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (28 bp):
CAGAATTTTCACCCTTTTACAAATCAGT
Found at i:65880140 original size:49 final size:49
Alignment explanation
Indices: 65880068--65880166 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
65880058 AAGTATAAAC
*
65880068 ACAAAAATTAACCATATGTGTTCCTGTCATCCACAATCTCAATCGGAGA
1 ACAAAAATTAACCATATGTGTTCCTGTCATCCACAATCTCAATAGGAGA
65880117 ACAAAAATTAACCATATGTGTTCCTGTCATCCACAATCTCAATAGGAGA
1 ACAAAAATTAACCATATGTGTTCCTGTCATCCACAATCTCAATAGGAGA
65880166 A
1 A
65880167 TTGAAACATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (49 bp):
ACAAAAATTAACCATATGTGTTCCTGTCATCCACAATCTCAATAGGAGA
Found at i:65880437 original size:40 final size:40
Alignment explanation
Indices: 65880375--65880791 Score: 577
Period size: 40 Copynumber: 10.4 Consensus size: 40
65880365 ATCATCAGAT
* * *
65880375 CAACC-AAACACACCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
65880414 CAACCAAAACACGCCACAA-AGAAGCTCATAAAAGCTTATC
1 CAACCAAAACACGCCA-AACAGAAGCTCATAAGAGCTGATC
*
65880454 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGTTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
65880494 CAATCAAAACACGCTAAACAGAAGCTCATAAGAGCTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
** *
65880534 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGTTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
65880574 CAATCAAAACACGCTAAACAGAAGCTCATAAGAGCTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
** *
65880614 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGTTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
65880654 CAATCAAAACACGCTAAACAGAAGCTCATAAGAGCTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
** *
65880694 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGTTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * *
65880734 CAATCAAAACATGCCAAACAGAAGCTTATAAGAGCTGATC
1 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
65880774 CAACCGAAACACTCCAAA
1 CAACCAAAACACGCCAAA
65880792 TAAAAAGTAT
Statistics
Matches: 330, Mismatches: 45, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
39 7 0.02
40 322 0.98
41 1 0.00
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.14
Consensus pattern (40 bp):
CAACCAAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
Found at i:65880475 original size:80 final size:80
Alignment explanation
Indices: 65880375--65880791 Score: 667
Period size: 80 Copynumber: 5.2 Consensus size: 80
65880365 ATCATCAGAT
* * * * * *
65880375 CAACC-AAACACACCAGACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCACAA-AGAAG
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTA-AACAGAAG
* *
65880438 CTCATAAAAGCTTATC
65 CTCATAAGAGCTGATC
*
65880454 CAACCAAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
65880519 TCATAAGAGCTGATC
66 TCATAAGAGCTGATC
*
65880534 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
65880599 TCATAAGAGCTGATC
66 TCATAAGAGCTGATC
*
65880614 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
65880679 TCATAAGAGCTGATC
66 TCATAAGAGCTGATC
* * *
65880694 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACATGCCAAACAGAAGC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
*
65880759 TTATAAGAGCTGATC
66 TCATAAGAGCTGATC
*
65880774 CAACCGAAACACTCCAAA
1 CAACCGAAACACGCCAAA
65880792 TAAAAAGTAT
Statistics
Matches: 321, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
79 7 0.02
80 314 0.98
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.14
Consensus pattern (80 bp):
CAACCGAAACACGCCAAACAGAAGCTCATAAGAGTTGATCCAATCAAAACACGCTAAACAGAAGC
TCATAAGAGCTGATC
Found at i:65881793 original size:23 final size:23
Alignment explanation
Indices: 65881763--65881808 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65881753 TACTTATTAA
65881763 TTAATTTATTAATATTAAAATAT
1 TTAATTTATTAATATTAAAATAT
65881786 TTAATTTATTAATATTAAAATAT
1 TTAATTTATTAATATTAAAATAT
65881809 ATCATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATTTATTAATATTAAAATAT
Found at i:65883223 original size:21 final size:21
Alignment explanation
Indices: 65883199--65883246 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
65883189 TATTTTGTTT
65883199 ATTTTGTTCATTTGTAACTTG
1 ATTTTGTTCATTTGTAACTTG
* * *
65883220 ATTTAGTTCTTTTGTAATTTG
1 ATTTTGTTCATTTGTAACTTG
65883241 ACTTTT
1 A-TTTT
65883247 AGAGTTAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.08, G:0.12, T:0.60
Consensus pattern (21 bp):
ATTTTGTTCATTTGTAACTTG
Found at i:65895333 original size:32 final size:32
Alignment explanation
Indices: 65895296--65895363 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
65895286 GCTAAATTTC
* * * *
65895296 TAATCAATTCTAATTTCTTTAAGGGTTTGTAT
1 TAATCAATCCTAATTTCTTCAAGGATTTATAT
*
65895328 TAATCAATCCTATTTTCTTCAAGGATTTATAT
1 TAATCAATCCTAATTTCTTCAAGGATTTATAT
65895360 TAAT
1 TAAT
65895364 TATCTTCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (32 bp):
TAATCAATCCTAATTTCTTCAAGGATTTATAT
Found at i:65920193 original size:77 final size:77
Alignment explanation
Indices: 65920066--65920380 Score: 567
Period size: 77 Copynumber: 4.1 Consensus size: 77
65920056 TGATCAAAAA
65920066 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
1 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
65920131 AGTTAGTGGAAC
66 AGTTAGTGGAAC
65920143 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
1 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
65920208 AGTTAGTGGAAC
66 AGTTAGTGGAAC
65920220 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
1 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
65920285 AGTTAGTGGAAC
66 AGTTAGTGGAAC
* * * * *
65920297 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAATTGCACTCATTCATTTAT
1 ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
*
65920362 AGTTATTGGAAC
66 AGTTAGTGGAAC
*
65920374 ACTATAA
1 ATTATAA
65920381 ATATTTGAAA
Statistics
Matches: 231, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 231 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (77 bp):
ATTATAATTCTTTTTCAAAAAATCAAGTAGTATAATCTTTTGATTAAGTACACCCATTGATTTTT
AGTTAGTGGAAC
Found at i:65923657 original size:16 final size:17
Alignment explanation
Indices: 65923631--65923662 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65923621 GATTCTCTTG
65923631 TTTTGTTCTTTTTTTTA
1 TTTTGTTCTTTTTTTTA
65923648 TTTT-TTCTTTTTTTT
1 TTTTGTTCTTTTTTTT
65923663 TTCGATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTGTTCTTTTTTTTA
Found at i:65923792 original size:2 final size:2
Alignment explanation
Indices: 65923785--65923809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65923775 ACCCACAAAT
65923785 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
65923810 TATATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65934212 original size:20 final size:20
Alignment explanation
Indices: 65934146--65934212 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
65934136 ATTTTAGTAA
* *
65934146 ACATGGTATGTATGATATGT
1 ACATGATATGTATGATATGC
* *
65934166 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
65934186 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65934206 ACATGAT
1 ACATGAT
65934213 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65934293 original size:23 final size:23
Alignment explanation
Indices: 65934263--65934311 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
65934253 AGGAAATGCA
* *
65934263 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATACCCCAGTTATT
65934286 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATACCCCAGTTATT
65934309 AAA
1 AAA
65934312 AGAGGCTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATACCCCAGTTATT
Found at i:65935376 original size:13 final size:13
Alignment explanation
Indices: 65935346--65935370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65935336 TAAGAAGGGT
65935346 ATTTTTGGAAATG
1 ATTTTTGGAAATG
65935359 ATTTTTGGAAAT
1 ATTTTTGGAAAT
65935371 TCTTTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
ATTTTTGGAAATG
Found at i:65942238 original size:20 final size:20
Alignment explanation
Indices: 65942172--65942238 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
65942162 ATTTTAGTAA
*
65942172 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
65942192 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
65942212 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65942232 ACATGAT
1 ACATGAT
65942239 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65942319 original size:23 final size:23
Alignment explanation
Indices: 65942289--65942361 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
65942279 AGGAAGTGCA
65942289 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
65942312 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
65942335 AAAAGGGCTTTTGCCCCGGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
65942359 AAA
1 AAA
65942362 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:65942381 original size:25 final size:24
Alignment explanation
Indices: 65942288--65942382 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
65942278 GAGGAAGTGC
65942288 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
65942312 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
65942335 AAAAGGGCTTTTGCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
65942359 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
65942383 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 30 0.48
25 10 0.16
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:65942612 original size:31 final size:31
Alignment explanation
Indices: 65942576--65942639 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
65942566 CGGTTACAGT
*
65942576 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
65942607 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65942638 AA
1 AA
65942640 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65943639 original size:35 final size:35
Alignment explanation
Indices: 65943588--65943657 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
65943578 TTTTTCTTCC
* *
65943588 TGTGTGAAAAATCCAACAGGAATGAGGAATAAAAA
1 TGTGTGAAAAACCCAACAGAAATGAGGAATAAAAA
65943623 TGTGTGAAAAACCCAACAGAAATGAGGAATAAAAA
1 TGTGTGAAAAACCCAACAGAAATGAGGAATAAAAA
65943658 CTATGTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.16
Consensus pattern (35 bp):
TGTGTGAAAAACCCAACAGAAATGAGGAATAAAAA
Found at i:65945225 original size:49 final size:49
Alignment explanation
Indices: 65945156--65945752 Score: 1030
Period size: 49 Copynumber: 12.3 Consensus size: 49
65945146 NNNNNNNNNG
65945156 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945205 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945254 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945303 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945352 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945401 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945450 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * *
65945499 TATATATGTGCCTAATGGCC-GAT-G-TGATG-GATGAATGTGAAAGTGTA
1 TATATATGTG-ATAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
65945546 TATATATGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
65945595 TATATATGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
65945644 TATATATGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * *
65945691 TATATATGTGATAAGGCCTAATAGCCAACGTGATGGATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
65945740 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
65945753 TCCCGAAGGG
Statistics
Matches: 530, Mismatches: 10, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
45 4 0.01
46 5 0.01
47 82 0.15
48 9 0.02
49 421 0.79
50 5 0.01
51 4 0.01
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:65945927 original size:37 final size:37
Alignment explanation
Indices: 65945871--65945949 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
65945861 CCGAGCTCTA
* * *
65945871 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* * *
65945908 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGTGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65945945 AAGAC
1 AAGAC
65945950 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65947367 original size:40 final size:40
Alignment explanation
Indices: 65947164--65947355 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
65947154 GAGAATTGAG
65947164 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
65947204 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
65947244 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
65947284 AGTGATATATCCGTGCTAAACCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
65947324 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
65947356 ATCATGCTGG
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:65951509 original size:18 final size:18
Alignment explanation
Indices: 65951486--65951527 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
65951476 AATGAATTGT
65951486 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
65951504 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
65951522 ATTAAA
1 ATTAAA
65951528 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:65952719 original size:47 final size:47
Alignment explanation
Indices: 65952666--65953076 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
65952656 TTAGGATTCT
65952666 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65952713 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65952760 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65952807 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65952854 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65952901 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65952948 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
65952995 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
65953042 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65953077 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:65953251 original size:37 final size:37
Alignment explanation
Indices: 65953195--65953273 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65953185 CCGAGCTCTA
* * *
65953195 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
65953232 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65953269 AAGAC
1 AAGAC
65953274 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65954116 original size:59 final size:59
Alignment explanation
Indices: 65954053--65954167 Score: 221
Period size: 59 Copynumber: 1.9 Consensus size: 59
65954043 TCTTTCTTGA
65954053 TTCTACCTTAGATCCATGAAGTATATTTTTATTTGGTGTTGTTGGAAGTATCGGCCAGG
1 TTCTACCTTAGATCCATGAAGTATATTTTTATTTGGTGTTGTTGGAAGTATCGGCCAGG
*
65954112 TTCTACCTTAGATCCATGAAGTATATTTTTATTTGGTGTTGTTGGAAGTGTCGGCC
1 TTCTACCTTAGATCCATGAAGTATATTTTTATTTGGTGTTGTTGGAAGTATCGGCC
65954168 GTGGTATATC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (59 bp):
TTCTACCTTAGATCCATGAAGTATATTTTTATTTGGTGTTGTTGGAAGTATCGGCCAGG
Found at i:65955258 original size:79 final size:81
Alignment explanation
Indices: 65955122--65955304 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
65955112 TCAAATGATG
* *
65955122 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65955186 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
65955201 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
65955263 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
65955281 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65955305 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:65955320 original size:40 final size:40
Alignment explanation
Indices: 65955123--65955306 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
65955113 CAAATGATGT
* * * *
65955123 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
65955163 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
65955203 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65955241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65955282 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65955307 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:65955328 original size:79 final size:79
Alignment explanation
Indices: 65955175--65955339 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
65955165 GGACTAAGAT
* **
65955175 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
65955240 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
65955254 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
65955317 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
65955333 CCGAAGG
1 CCGAAGG
65955340 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:65960039 original size:26 final size:27
Alignment explanation
Indices: 65960008--65960059 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
65959998 TCTCAAATAT
* *
65960008 AATCA-TATATCTCATAGGGGCATAAC
1 AATCATTATATCACACAGGGGCATAAC
*
65960034 AATCATTTTATCACACAGGGGCATAA
1 AATCATTATATCACACAGGGGCATAA
65960060 TAGTCATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (27 bp):
AATCATTATATCACACAGGGGCATAAC
Found at i:65965164 original size:41 final size:42
Alignment explanation
Indices: 65965096--65965216 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 42
65965086 TCTGGGATGT
* * *
65965096 TGGCATCTATATGTGATTACGTGTAAGACCATGTTTGAGACA-
1 TGGCATCGATATATGATT-CGTGTAAGACCATGTCTGAGACAG
* * *
65965138 TCGGCATCG-TATTTGATTCGTGTAAGACCCTGTCTGGGACAG
1 T-GGCATCGATATATGATTCGTGTAAGACCATGTCTGAGACAG
* *
65965180 TGGCATCGATATATGATAGCATGTAAGACCATGTCTG
1 TGGCATCGATATATGAT-TCGTGTAAGACCATGTCTG
65965217 GGATGTTGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 27 0.41
42 17 0.26
43 22 0.33
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATATGATTCGTGTAAGACCATGTCTGAGACAG
Found at i:65967617 original size:27 final size:27
Alignment explanation
Indices: 65967560--65967618 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
65967550 TTTACGCATG
* *
65967560 AAGGGCAAAATAGTCATTTAACACCCT
1 AAGGGCAAAATAGTAATTTAACACCCC
* *
65967587 AAGGGCAAAATGGTAATTTTAC-CCCAC
1 AAGGGCAAAATAGTAATTTAACACCC-C
65967614 AAGGG
1 AAGGG
65967619 TATCTCGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
AAGGGCAAAATAGTAATTTAACACCCC
Found at i:65967628 original size:27 final size:27
Alignment explanation
Indices: 65967598--65967797 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
65967588 AGGGCAAAAT
* * *
65967598 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65967625 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
65967652 GGTATTTCTACCTTACAAGGATATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65967679 GATAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65967706 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
65967733 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65967760 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65967787 GATAATTCTAC
1 GGTAATTCTAC
65967798 AACTTATCCA
Statistics
Matches: 149, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:65967670 original size:54 final size:54
Alignment explanation
Indices: 65967598--65967797 Score: 256
Period size: 54 Copynumber: 3.7 Consensus size: 54
65967588 AGGGCAAAAT
* ** * *
65967598 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * * *
65967652 GGTATTTCTACCTTACAAGGATATTTTGATAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
65967706 GGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
65967760 GATAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTAC
65967798 AACTTATCCA
Statistics
Matches: 123, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCTTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:65967742 original size:81 final size:81
Alignment explanation
Indices: 65967612--65967797 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 81
65967602 ATTTTACCCC
* ** * *
65967612 ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCTTACAAGGATATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGATATT
*
65967677 TTGATAATTCTATCC-T
66 TCGATAATTCTA-CCTT
* * *
65967693 ACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGATATT
65967758 TCGATAATTCTACCTT
66 TCGATAATTCTACCTT
* *
65967774 ACAGGGGTATTTCGATAATTCTAC
1 ACAAGGGTATTTCGGTAATTCTAC
65967798 AACTTATCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 2 0.02
81 91 0.98
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGATATT
TCGATAATTCTACCTT
Found at i:65979404 original size:15 final size:15
Alignment explanation
Indices: 65979384--65979413 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65979374 TATTAGTATC
*
65979384 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
65979399 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
65979414 ACATAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:65985683 original size:27 final size:27
Alignment explanation
Indices: 65985661--65986021 Score: 252
Period size: 27 Copynumber: 13.4 Consensus size: 27
65985651 AGAATTACTG
* *
65985661 AAATACCCTTAGTTTACAAAATTA-CT
1 AAATACCCTTAGTTTGCAAAATTACCA
* * *
65985687 GAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACCA
* *
65985714 AAATACCCTTAATTAGCAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACCA
* *
65985741 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACCA
* ** *
65985768 AAATACCCTTAATTTGTGAAATTACCT
1 AAATACCCTTAGTTTGCAAAATTACCA
* * * * *
65985795 AAATGCTCTTGACTTT-TAAAATTACCG
1 AAATACCCTT-AGTTTGCAAAATTACCA
* * * *
65985822 AAATACCC-TCGACTTGTAAAATTGCCA
1 AAATACCCTTAG-TTTGCAAAATTACCA
*
65985849 AAATACCCTCTA-TTTGTAAAATTACCA
1 AAATACCCT-TAGTTTGCAAAATTACCA
* *
65985876 AAATACCCTT-GATTTGGAAAATTACAA
1 AAATACCCTTAG-TTTGCAAAATTACCA
* * *
65985903 AAATACCCCT-GATTTACAAAATTACAA
1 AAATACCCTTAG-TTTGCAAAATTACCA
*
65985930 AAATACCCTTAACTTT-CAAAAATTA-CA
1 AAATACCCTT-AGTTTGC-AAAATTACCA
* * **
65985957 GAAATACCATTGGTTTGCAAAATTACTG
1 -AAATACCCTTAGTTTGCAAAATTACCA
* * * *
65985985 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTTAGTTTGCAAAATTACCA
*
65986012 AAACACCCTT
1 AAATACCCTT
65986022 GTAAGGTGAA
Statistics
Matches: 270, Mismatches: 51, Indels: 27
0.78 0.15 0.08
Matches are distributed among these distances:
26 26 0.10
27 219 0.81
28 24 0.09
29 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATACCCTTAGTTTGCAAAATTACCA
Found at i:65985818 original size:81 final size:81
Alignment explanation
Indices: 65985704--65986021 Score: 304
Period size: 81 Copynumber: 3.9 Consensus size: 81
65985694 CTTGGTTTAC
* * *
65985704 AAAATTACCAAAATACCCTTAATTAGCAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCA
65985768 AAATACCCTTAATTTGT
65 AAATACCCTTAATTTGT
* * * * * * * *
65985785 GAAATTACCTAAATGCTCTTGACTTT-TAAAATTACCGAAATA-CCCTCGACTTGTAAAATTGCC
1 AAAATTACCAAAATACCCTTGA-TTTGGAAAATTACCAAAATACCCCT-GATTTGTAAAATTACC
65985848 AAAATACCCTCT-ATTTGT
64 AAAATACCCT-TAATTTGT
* ** *
65985866 AAAATTACCAAAATACCCTTGATTTGGAAAATTACAAAAATACCCCTGATTTACAAAATTACAAA
1 AAAATTACCAAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
**
65985931 AATACCCTTAACTTTCA
66 AATACCCTTAA-TTTGT
* * * ** * * * *
65985948 AAAATTA-CAGAAATACCATTGGTTTGCAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCA
1 AAAATTACCA-AAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
*
65986012 AAACACCCTT
65 AAATACCCTT
65986022 GTAAGGTGAA
Statistics
Matches: 191, Mismatches: 37, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
80 8 0.04
81 114 0.60
82 69 0.36
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
AATACCCTTAATTTGT
Found at i:65986321 original size:41 final size:41
Alignment explanation
Indices: 65986264--65986382 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
65986254 GAAGAAATTG
65986264 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACTGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACTGATTA
* *
65986305 AGGATCGCATGGTTGCTTGATGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACTGATTA
* *
65986346 AGGATCACATGGTTGCTTGACGATCGTGGATCCACTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
65986383 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACTGATTA
Found at i:65986507 original size:25 final size:25
Alignment explanation
Indices: 65986469--65986722 Score: 203
Period size: 25 Copynumber: 10.1 Consensus size: 25
65986459 ATTACCGTCG
65986469 TTGATGGCTATGTGCCGATCTATTA
1 TTGATGGCTATGTGCCGATCTATTA
* * ** *
65986494 TCGATGGCTTTGTGTTGATATGA-TA
1 TTGATGGCTATGTGCCGATCT-ATTA
* * *
65986519 TTAATGGCTATGTACCAATCTATTA
1 TTGATGGCTATGTGCCGATCTATTA
* * *
65986544 TCGATGGCTTTGTGCCGATATGA-TA
1 TTGATGGCTATGTGCCGATCT-ATTA
*
65986569 TTGATGGCTATGTGCCGATCTGTTA
1 TTGATGGCTATGTGCCGATCTATTA
* *
65986594 TTGATGGCTTTGTACCG--CTATGATA
1 TTGATGGCTATGTGCCGATCTAT--TA
*
65986619 TTGATGGCTATGTGCCGATCTGTTA
1 TTGATGGCTATGTGCCGATCTATTA
* * *
65986644 TCGATGGCTTTGTGCCGATATGA-TA
1 TTGATGGCTATGTGCCGATCT-ATTA
* *
65986669 TTGATGGCTATGTGTCGATCTGTTA
1 TTGATGGCTATGTGCCGATCTATTA
** * *
65986694 TCAATGGCTTTGTGTCGATCGTATTA
1 TTGATGGCTATGTGCCGATC-TATTA
65986720 TTG
1 TTG
65986723 TAATAATGGC
Statistics
Matches: 174, Mismatches: 44, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.02
24 1 0.01
25 160 0.92
26 7 0.04
27 3 0.02
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.41
Consensus pattern (25 bp):
TTGATGGCTATGTGCCGATCTATTA
Found at i:65986547 original size:50 final size:50
Alignment explanation
Indices: 65986469--65986712 Score: 371
Period size: 50 Copynumber: 4.9 Consensus size: 50
65986459 ATTACCGTCG
* **
65986469 TTGATGGCTATGTGCCGATCTATTATCGATGGCTTTGTGTTGATATGATA
1 TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATA
* * * *
65986519 TTAATGGCTATGTACCAATCTATTATCGATGGCTTTGTGCCGATATGATA
1 TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATA
* * *
65986569 TTGATGGCTATGTGCCGATCTGTTATTGATGGCTTTGTACCGCTATGATA
1 TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATA
65986619 TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATA
1 TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATA
* * *
65986669 TTGATGGCTATGTGTCGATCTGTTATCAATGGCTTTGTGTCGAT
1 TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGAT
65986713 CGTATTATTG
Statistics
Matches: 176, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 176 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (50 bp):
TTGATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATA
Found at i:65988924 original size:84 final size:86
Alignment explanation
Indices: 65988852--65989078 Score: 273
Period size: 89 Copynumber: 2.6 Consensus size: 86
65988842 CTAATCAGAT
* * *
65988852 TTTA-TTTAATTTTAATTTCTCGTTTTTGGTAACAAAATCAAAA-TGTAAT-AAATCCATTAAAC
1 TTTATTTTAATTTTAA-TACTCGTTTTTGGAAACAAAATCAAAATTGGAATAAAATCCATTAAAC
65988914 GACGGGAAATCCTAAAACAAAA
65 GACGGGAAATCCTAAAACAAAA
* **
65988936 TTTATTTTAATTTTAATACTTGTTTTTGGAAATTAAATCAAAATTGGAATAAAATCCATTAAACG
1 TTTATTTTAATTTTAATACTCGTTTTTGGAAACAAAATCAAAATTGGAATAAAATCCATTAAACG
* * **
65989001 GCAGGAATAAATCCCGAAACAAAA
66 AC-GG--GAAATCCTAAAACAAAA
* * *
65989025 TTTATTTTAATTTTAATACTTG-TTTTGGAAATAAAATCAAAATTTGAATAAAAT
1 TTTATTTTAATTTTAATACTCGTTTTTGGAAACAAAATCAAAATTGGAATAAAAT
65989079 TTGTTAAATG
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
84 26 0.21
85 16 0.13
86 15 0.12
87 2 0.02
88 30 0.24
89 36 0.29
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (86 bp):
TTTATTTTAATTTTAATACTCGTTTTTGGAAACAAAATCAAAATTGGAATAAAATCCATTAAACG
ACGGGAAATCCTAAAACAAAA
Found at i:65989026 original size:89 final size:88
Alignment explanation
Indices: 65988727--65989107 Score: 338
Period size: 88 Copynumber: 4.4 Consensus size: 88
65988717 ATTAAATCAA
* * * *
65988727 AATAAAATCTATTAAACGACAGGAATAAATTCTGAAACATAA-TTATTTGA--TT-ATGACTT-T
1 AATAAAATCTATTAAACGACAGGAATAAATCCCGAAACAAAATTTATTTAATTTTAAT-ACTTGT
* * *
65988787 GTTTGGAAATAAAA-CAATATT-A
65 TTTTGGAAATAAAATCAAAATTGG
* * * * * * * *
65988809 AATAAAATCTTGTTAAACGACAAGAATAAATCCCTAATCAGATTTTATTTAATTTTAATTTCTCG
1 AATAAAATC-TATTAAACGACAGGAATAAATCCCGAAACAAAATTTATTTAATTTTAA-TACTTG
* * *
65988874 TTTTTGGTAACAAAATCAAAA-TGT
64 TTTTTGGAAATAAAATCAAAATTGG
* * **
65988898 AAT-AAATCCATTAAACGAC-GG--GAAATCCTAAAACAAAATTTATTTTAATTTTAATACTTGT
1 AATAAAATCTATTAAACGACAGGAATAAATCCCGAAACAAAATTTA-TTTAATTTTAATACTTGT
*
65988959 TTTTGGAAATTAAATCAAAATTGG
65 TTTTGGAAATAAAATCAAAATTGG
* *
65988983 AATAAAATCCATTAAACGGCAGGAATAAATCCCGAAACAAAATTTATTTTAATTTTAATACTTG-
1 AATAAAATCTATTAAACGACAGGAATAAATCCCGAAACAAAATTTA-TTTAATTTTAATACTTGT
*
65989047 TTTTGGAAATAAAATCAAAATTTG
65 TTTTGGAAATAAAATCAAAATTGG
* * * ***
65989071 AATAAAATTTGTTAAATGGTGGGAATAAATCCCGAAA
1 AATAAAATCTATTAAACGACAGGAATAAATCCCGAAA
65989108 TGGATTTTAT
Statistics
Matches: 241, Mismatches: 43, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
82 9 0.04
83 25 0.10
84 44 0.18
85 16 0.07
86 18 0.07
87 14 0.06
88 72 0.30
89 43 0.18
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (88 bp):
AATAAAATCTATTAAACGACAGGAATAAATCCCGAAACAAAATTTATTTAATTTTAATACTTGTT
TTTGGAAATAAAATCAAAATTGG
Found at i:65991977 original size:14 final size:14
Alignment explanation
Indices: 65991954--65991990 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
65991944 AAGAGAGAAT
*
65991954 GATGATGGATGATG
1 GATGAGGGATGATG
65991968 GATGAGGGATGATG
1 GATGAGGGATGATG
*
65991982 AATGAGGGA
1 GATGAGGGA
65991991 ATAAAGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.22
Consensus pattern (14 bp):
GATGAGGGATGATG
Found at i:65992419 original size:18 final size:17
Alignment explanation
Indices: 65992388--65992430 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
65992378 ACATCATTTT
*
65992388 TTTTCAAAAGTTATTCA
1 TTTTCAAAAATTATTCA
*
65992405 TTTTCAAAACATTATTTA
1 TTTTCAAAA-ATTATTCA
*
65992423 ATTTCAAA
1 TTTTCAAA
65992431 TCGTTATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTTCAAAAATTATTCA
Found at i:65992921 original size:18 final size:17
Alignment explanation
Indices: 65992893--65992943 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
65992883 GGCCCATTAC
65992893 AGTAAAGTAAACAGTGT
1 AGTAAAGTAAACAGTGT
*
65992910 AGTAATAGTAAATAGTGT
1 AGTAA-AGTAAACAGTGT
*
65992928 GGTAACAGTAAACAGT
1 AGTAA-AGTAAACAGT
65992944 ATGCGAGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (17 bp):
AGTAAAGTAAACAGTGT
Found at i:66005876 original size:40 final size:40
Alignment explanation
Indices: 66005832--66005950 Score: 96
Period size: 40 Copynumber: 3.2 Consensus size: 40
66005822 ATTAAATATA
66005832 ATTTTATATTTTATTATTTTAATTTAATCATGCATGACCC
1 ATTTTATATTTTATTATTTTAATTTAATCATGCATGACCC
* * * *
66005872 ATTTTATGTCTTA--A---AAATATAAT-ATGTCCAT-A---
1 ATTTTATATTTTATTATTTTAATTTAATCATG--CATGACCC
* *
66005904 AATTTATATTTTATTATTTTAATTTAATCATGCATGCCCC
1 ATTTTATATTTTATTATTTTAATTTAATCATGCATGACCC
66005944 ATTTTAT
1 ATTTTAT
66005951 GTCTTAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 24
0.62 0.12 0.26
Matches are distributed among these distances:
32 10 0.18
34 4 0.07
35 8 0.14
36 6 0.11
37 7 0.12
38 4 0.07
40 17 0.30
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (40 bp):
ATTTTATATTTTATTATTTTAATTTAATCATGCATGACCC
Found at i:66005971 original size:72 final size:72
Alignment explanation
Indices: 66005829--66005973 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
66005819 TTTATTAAAT
*
66005829 ATAATTTTATATTTTATTATTTTAATTTAATCATGCATGACCCATTTTATGTCTTAAAAATATAA
1 ATAAATTTATATTTTATTATTTTAATTTAATCATGCATGACCCATTTTATGTCTTAAAAATATAA
66005894 TATGTCC
66 TATGTCC
*
66005901 ATAAATTTATATTTTATTATTTTAATTTAATCATGCATGCCCCATTTTATGTCTTAAAAATATAA
1 ATAAATTTATATTTTATTATTTTAATTTAATCATGCATGACCCATTTTATGTCTTAAAAATATAA
66005966 TATGTCC
66 TATGTCC
66005973 A
1 A
66005974 AATAAGTATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (72 bp):
ATAAATTTATATTTTATTATTTTAATTTAATCATGCATGACCCATTTTATGTCTTAAAAATATAA
TATGTCC
Found at i:66006597 original size:20 final size:20
Alignment explanation
Indices: 66006559--66006599 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
66006549 GTTGACTTTC
66006559 TTGGCAAACTAAGATAAAAA
1 TTGGCAAACTAAGATAAAAA
66006579 TTGG-AAACTAAGATAAAAA
1 TTGGCAAACTAAGATAAAAA
66006598 TT
1 TT
66006600 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (20 bp):
TTGGCAAACTAAGATAAAAA
Found at i:66007093 original size:41 final size:41
Alignment explanation
Indices: 66007048--66007132 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
66007038 GTTTGTGCTA
66007048 TGTGACATGAAAATTTGGGTTCAATCTTTAGTATCCTTACT
1 TGTGACATGAAAATTTGGGTTCAATCTTTAGTATCCTTACT
*
66007089 TGTGACATGAAAATTTGGGTTCAATCTTTAGTATCCTTATT
1 TGTGACATGAAAATTTGGGTTCAATCTTTAGTATCCTTACT
66007130 TGT
1 TGT
66007133 ACTTCTAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (41 bp):
TGTGACATGAAAATTTGGGTTCAATCTTTAGTATCCTTACT
Found at i:66007935 original size:33 final size:33
Alignment explanation
Indices: 66007898--66007993 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
66007888 AAACAGAATA
*
66007898 ATGAAGCTGCCCCGATAGATGTTCCAATCAATG
1 ATGAAGCTGCCCCAATAGATGTTCCAATCAATG
* *
66007931 ATGAAGCTGCCCCAATAGATCTTCCAATCATTG
1 ATGAAGCTGCCCCAATAGATGTTCCAATCAATG
* *
66007964 ATGATGCTGCCCTAATAGATGTTCCAATCA
1 ATGAAGCTGCCCCAATAGATGTTCCAATCA
66007994 CTTATGTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (33 bp):
ATGAAGCTGCCCCAATAGATGTTCCAATCAATG
Done.