Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 200 of 345
Found at i:57231334 original size:28 final size:28
Alignment explanation
Indices: 57231302--57231369 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
57231292 GCGTAGATCA
57231302 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
57231330 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
57231358 CG-AA-TACCCCTA
1 CGAAATTACCCCTA
57231370 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 2 0.05
28 29 0.74
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:57233772 original size:17 final size:19
Alignment explanation
Indices: 57233730--57233773 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57233720 ATGAAATTTT
*
57233730 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
57233749 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
57233767 AA-TATTA
1 AATTATTA
57233774 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:57235591 original size:27 final size:27
Alignment explanation
Indices: 57235560--57235627 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
57235550 AGCGTAGATC
57235560 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
57235587 ACGAAATTACCCCTAAAGAGTAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
57235614 ACCG-AA-TACCCCTA
1 A-CGAAATTACCCCTA
57235628 GGTTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 8 0.21
27 29 0.74
28 2 0.05
ACGTcount: A:0.46, C:0.25, G:0.10, T:0.19
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:57241571 original size:40 final size:40
Alignment explanation
Indices: 57241487--57241690 Score: 256
Period size: 40 Copynumber: 5.1 Consensus size: 40
57241477 TCGAATGATG
* *
57241487 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
57241527 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
57241566 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
57241606 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
57241646 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
57241686 TCCGG
1 TCCGG
57241691 TTAAATTCCG
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
39 37 0.26
40 99 0.69
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:57241623 original size:79 final size:79
Alignment explanation
Indices: 57241487--57241704 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 79
57241477 TCGAATGATG
* * **
57241487 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCATT
57241551 TGTGCGAGTTACTA-A
64 TGTGCGAGTTACTATA
* *
57241566 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGCATT
57241630 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* * * *
57241646 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
57241705 TATGTGATTC
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 73 0.61
80 46 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:57249210 original size:38 final size:38
Alignment explanation
Indices: 57249131--57249276 Score: 136
Period size: 38 Copynumber: 3.7 Consensus size: 38
57249121 CGAATGATAG
* * * *
57249131 TCCGGGCTAAGTCCCGAAGACATTTTGCTAG-TAATATA
1 TCCGGGCTAAGTACCGAAGGCATTGTGCTAGTTACTA-A
57249169 TCCGGGCTAA-TACCGAAGGCATTGTGCTAGTCTACTAA
1 TCCGGGCTAAGTACCGAAGGCATTGTGCTAGT-TACTAA
* * *
57249207 TCCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTGTCTAAA
1 TCCGGGCTAAGTACCGAAGGCATT-GTGCTAGTT-ACT-AA
*
57249247 TCCGGGTTAAGTACCCGAAGGCATTTGTGC
1 TCCGGGCTAAGTA-CCGAAGGCA-TTGTGC
57249277 AGCGTTCTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
37 17 0.19
38 33 0.37
39 13 0.14
40 12 0.13
42 13 0.14
43 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTACCGAAGGCATTGTGCTAGTTACTAA
Found at i:57249265 original size:42 final size:40
Alignment explanation
Indices: 57249131--57249314 Score: 133
Period size: 38 Copynumber: 4.8 Consensus size: 40
57249121 CGAATGATAG
* * * *
57249131 TCCGGGCTAAGT-CCCGAAGACATTTTGCTAG--TAATATA
1 TCCGGGCTAAGTACCCGAAGGCATTGTGCAAGTCTACTA-A
*
57249169 TCCGGGCTAA-TA-CCGAAGGCATTGTGCTAGTCTACTAA
1 TCCGGGCTAAGTACCCGAAGGCATTGTGCAAGTCTACTAA
*
57249207 TCCGGGCTAAG--CCCGAAGGCATTGGTGCAAGT-TGTCTAAA
1 TCCGGGCTAAGTACCCGAAGGCATT-GTGCAAGTCT-ACT-AA
* *
57249247 TCCGGGTTAAGTACCCGAAGGCATTTGTGCAGCGTTCTA-TAA
1 TCCGGGCTAAGTACCCGAAGGCA-TTGTGCA-AG-TCTACTAA
*
57249289 -CCGGGCT-A-TGCCCGAAGGCATT-TGCA
1 TCCGGGCTAAGTACCCGAAGGCATTGTGCA
57249315 TGGAGTGTAT
Statistics
Matches: 122, Mismatches: 10, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
37 21 0.17
38 35 0.29
39 24 0.20
40 13 0.11
41 6 0.05
42 17 0.14
43 4 0.03
44 1 0.01
45 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTACCCGAAGGCATTGTGCAAGTCTACTAA
Found at i:57255463 original size:40 final size:40
Alignment explanation
Indices: 57255404--57255611 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
57255394 CAATTGAATG
* * * *
57255404 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
57255444 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
57255484 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
57255524 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
57255564 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
57255604 ATATCCGG
1 ATATCCGG
57255612 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:57255542 original size:80 final size:80
Alignment explanation
Indices: 57255406--57255611 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
57255396 ATTGAATGAT
* * ** * * *
57255406 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
57255470 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
57255486 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
57255551 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
57255566 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
57255612 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:57263506 original size:40 final size:40
Alignment explanation
Indices: 57263447--57263653 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
57263437 CAATTGAATG
* * * *
57263447 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
57263487 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
57263527 ACAT-CGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
57263566 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
57263606 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
57263646 ATATCCGG
1 ATATCCGG
57263654 ATGTATTCCG
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
38 2 0.01
39 28 0.20
40 106 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:57263584 original size:79 final size:80
Alignment explanation
Indices: 57263449--57263653 Score: 227
Period size: 79 Copynumber: 2.6 Consensus size: 80
57263439 ATTGAATGAT
* * ** * * *
57263449 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
57263513 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
57263529 AT-CGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
57263593 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
57263608 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
57263654 ATGTATTCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 2 0.02
79 59 0.56
80 44 0.42
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:57276837 original size:28 final size:26
Alignment explanation
Indices: 57276773--57276838 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
57276763 AGAAAAGCTG
57276773 CTAATAACAGTAAACGTCGCAAAGCCA
1 CTAAT-ACAGTAAACGTCGCAAAGCCA
* * *
57276800 CCAGA-GCAGTAATTACGTGGCAAAGCCA
1 CTA-ATACAGTAA--ACGTCGCAAAGCCA
57276828 CTAATACAGTA
1 CTAATACAGTA
57276839 CTTCCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
26 6 0.20
27 3 0.10
28 21 0.70
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (26 bp):
CTAATACAGTAAACGTCGCAAAGCCA
Found at i:57277007 original size:27 final size:27
Alignment explanation
Indices: 57276961--57277022 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
57276951 AACTAACCAC
* * * *
57276961 TAGGGGTATAATGGTCATTTCATCGAT
1 TAGGGGTAAAATAGTAATTTCACCGAT
* *
57276988 TAGGGGTAAAATAGTAATTTTACCGTT
1 TAGGGGTAAAATAGTAATTTCACCGAT
57277015 TAGGGGTA
1 TAGGGGTA
57277023 TTTCAGTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (27 bp):
TAGGGGTAAAATAGTAATTTCACCGAT
Found at i:57279360 original size:30 final size:29
Alignment explanation
Indices: 57279326--57279388 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
57279316 ATGAATCGGA
57279326 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
57279356 AGCTTTGGCACTAGGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
57279385 AGCT
1 AGCT
57279389 CTAGCTACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:57284789 original size:46 final size:45
Alignment explanation
Indices: 57284697--57284841 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 45
57284687 GGGAAACTCA
* * * * *
57284697 CACACTTAGTGCCAAATA-A-ATAGCCGAAGCTGTAT-GAATCTTG
1 CACACTAAGTGCCAAATATATATAGCCAAAGCTATCTCG-ATCTCG
57284740 CACACTAAGTGCCAATATATATATAGCCAAAGCTATCTCGATCTCG
1 CACACTAAGTGCCAA-ATATATATAGCCAAAGCTATCTCGATCTCG
* * * * *
57284786 CACACTAAGT-ACAAAAATATATAGTCGACA-CTATCTCGATTTCG
1 CACACTAAGTGCCAAATATATATAG-CCAAAGCTATCTCGATCTCG
57284830 CACACTAAGTGC
1 CACACTAAGTGC
57284842 ACATAACTAG
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
43 14 0.16
44 35 0.41
45 7 0.08
46 28 0.33
47 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (45 bp):
CACACTAAGTGCCAAATATATATAGCCAAAGCTATCTCGATCTCG
Found at i:57286197 original size:13 final size:13
Alignment explanation
Indices: 57286179--57286204 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57286169 AGATCATATC
57286179 ACCAAATATTTCA
1 ACCAAATATTTCA
57286192 ACCAAATATTTCA
1 ACCAAATATTTCA
57286205 CATTCATGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
ACCAAATATTTCA
Found at i:57289265 original size:80 final size:80
Alignment explanation
Indices: 57289181--57289329 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
57289171 TATGGTAACC
* * * *
57289181 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57289245 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
57289261 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57289326 CCGG
66 CCGG
57289330 TTATAATTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57289350 original size:40 final size:40
Alignment explanation
Indices: 57289222--57289373 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
57289212 ATCACGATTT
* * **
57289222 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCAC-CA
* *
57289262 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * ***
57289302 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
* * *
57289342 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
57289374 CATTCAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCACCA
Found at i:57291715 original size:43 final size:43
Alignment explanation
Indices: 57291650--57291752 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
57291640 GTACTATTTA
*
57291650 GGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGTTAATATC
1 GGGCTTCGAGCCTAGCAAGCTATAATACCGGTGAGTTAATATC
* ***
57291693 GGGCTTTGAGCCTAGCAAGCTATAATGTTGGTGAGTTAATATC
1 GGGCTTCGAGCCTAGCAAGCTATAATACCGGTGAGTTAATATC
57291736 GGGCTTCGAGCCTAGCA
1 GGGCTTCGAGCCTAGCA
57291753 GGCGTAATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
GGGCTTCGAGCCTAGCAAGCTATAATACCGGTGAGTTAATATC
Found at i:57295925 original size:47 final size:47
Alignment explanation
Indices: 57295857--57296343 Score: 731
Period size: 47 Copynumber: 10.4 Consensus size: 47
57295847 TGATATACAT
*
57295857 ATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* *
57295904 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* * *
57295951 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* *
57295998 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* * *
57296045 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* * *
57296092 ATATGTGTAATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* * **
57296139 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* *
57296186 ATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
*
57296233 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
* * * *
57296280 ATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
**
57296327 ATAAATGTGATAAGGCC
1 ATATGTGTGATAAGGCC
57296344 CGAAGGGCAT
Statistics
Matches: 400, Mismatches: 40, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 400 1.00
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGC
Found at i:57296017 original size:94 final size:94
Alignment explanation
Indices: 57295856--57296343 Score: 841
Period size: 94 Copynumber: 5.2 Consensus size: 94
57295846 ATGATATACA
* *
57295856 TATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
57295921 GAATGGCCAATGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGGATGTGAAAGTG
57295950 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
57296015 GAATGGCCAATGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGGATGTGAAAGTG
*
57296044 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTAATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
57296109 GAATGGCCAATGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGGATGTGAAAGTG
*
57296138 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
* * *
57296203 TAATGGCCGATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGGATGTGAAAGTG
* * * * * *
57296232 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
*
57296297 GAGTGGCCAATGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGGATGTGAAAGTG
*
57296326 TATAAATGTGATAAGGCC
1 TATATATGTGATAAGGCC
57296344 CGAAGGGCAT
Statistics
Matches: 372, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 372 1.00
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCC
GAATGGCCAATGTGATGGATGTGAAAGTG
Found at i:57298747 original size:40 final size:40
Alignment explanation
Indices: 57298682--57299002 Score: 464
Period size: 40 Copynumber: 8.1 Consensus size: 40
57298672 AAGTCTCGAC
57298682 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
** *
57298721 GATGTATCCCAGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
57298761 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
57298801 GATGTATCCGGGCTAAGTGCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
57298841 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
57298881 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
57298921 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
57298961 GTTATGTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
57299001 GA
1 GA
57299003 CGTGTATTCG
Statistics
Matches: 257, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 253 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:57301638 original size:47 final size:47
Alignment explanation
Indices: 57301569--57302100 Score: 803
Period size: 47 Copynumber: 11.3 Consensus size: 47
57301559 ATGATATACA
* * *
57301569 TATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* *
57301616 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* * *
57301663 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* * *
57301710 CATATGTGTGATAAGGCCGAATTGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* * *
57301757 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* *
57301804 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* *
57301851 TATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* * * * *
57301898 CATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
* * *
57301945 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
*
57301992 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
*
57302039 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
*
57302086 TATAAATGTGATAAG
1 TATATATGTGATAAG
57302101 TCCCGAAGGG
Statistics
Matches: 446, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 446 1.00
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
Found at i:57307152 original size:19 final size:19
Alignment explanation
Indices: 57307116--57307154 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57307106 TTTTCATCAT
* *
57307116 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
57307135 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
57307154 A
1 A
57307155 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:57307666 original size:28 final size:28
Alignment explanation
Indices: 57307618--57307708 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
57307608 GTGACAGAGT
*
57307618 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
57307647 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
57307675 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
57307703 CACCAG
1 CACCAG
57307709 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:57307861 original size:28 final size:28
Alignment explanation
Indices: 57307814--57307878 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
57307804 AAATTAACCC
*
57307814 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
57307842 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
57307870 TAGGGGTAT
1 TAGGGGTAT
57307879 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:57314990 original size:19 final size:19
Alignment explanation
Indices: 57314954--57314992 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57314944 TTTTCATCAT
* *
57314954 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
57314973 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
57314992 A
1 A
57314993 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:57315496 original size:55 final size:56
Alignment explanation
Indices: 57315431--57315545 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
57315421 AGCATGGCTG
* *
57315431 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
** * *
57315487 CCAGA-ACAGATATTTGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
57315542 CCAG
1 CCAG
57315546 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:57315508 original size:27 final size:27
Alignment explanation
Indices: 57315456--57315545 Score: 128
Period size: 27 Copynumber: 3.2 Consensus size: 27
57315446 GTGACAGAGT
57315456 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
57315485 CACCAGAACAGATATTTGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
57315512 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
57315540 CACCAG
1 CACCAG
57315546 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 25 0.44
28 25 0.44
29 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:57315698 original size:28 final size:28
Alignment explanation
Indices: 57315651--57315715 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
57315641 AAATTAACCC
*
57315651 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
57315679 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
57315707 TAGGGGTAT
1 TAGGGGTAT
57315716 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:57318531 original size:43 final size:43
Alignment explanation
Indices: 57318470--57318631 Score: 227
Period size: 43 Copynumber: 3.8 Consensus size: 43
57318460 GTACTATTTG
*
57318470 GGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATATC
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATC
* ** *
57318513 GGGCTTCGAGTCTAGCAGGCTATAATGTTGGTGAGTTAATATT
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATC
* **
57318556 GGGCTTCGAGCCTAGCAAGCTATAATGTTGGTGAGTTAATATC
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATC
* *
57318599 GGGCTTCGAGCCTAGTAGGC-GTAATGCCGGTGA
1 GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
57318632 ATGAGTTCAG
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 10 0.09
43 96 0.91
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (43 bp):
GGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATC
Found at i:57319141 original size:47 final size:47
Alignment explanation
Indices: 57319072--57319165 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
57319062 TTTATAATTG
57319072 AATTTAATTATTTGCATTGCTTAAAACTTACTAAGCTTATGGAAGCT
1 AATTTAATTATTTGCATTGCTTAAAACTTACTAAGCTTATGGAAGCT
57319119 AATTTAATTATTTGCATTGCTTAAAACTTACTAAGCTTATGGAAGCT
1 AATTTAATTATTTGCATTGCTTAAAACTTACTAAGCTTATGGAAGCT
57319166 TACTCCGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (47 bp):
AATTTAATTATTTGCATTGCTTAAAACTTACTAAGCTTATGGAAGCT
Found at i:57322534 original size:42 final size:43
Alignment explanation
Indices: 57322376--57322534 Score: 234
Period size: 42 Copynumber: 3.8 Consensus size: 43
57322366 GAACTTCATA
* * *
57322376 GAGCCTCGGACATCATCGGCAACCTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
* * *
57322419 GAGCCTCAGGCACCATCGGCAACCTAGGCCC-TGGTCGTCCGA
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
*
57322461 GAGCCTCGGG-ACCATCGGCAACCTAGTCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
57322503 GAGCCTCGGGCACCATCGGC-ACCTAGGCCCTT
1 GAGCCTCGGGCACCATCGGCAACCTAGGCCCTT
57322535 TGTAACACCC
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
41 19 0.18
42 48 0.46
43 37 0.36
ACGTcount: A:0.16, C:0.36, G:0.31, T:0.16
Consensus pattern (43 bp):
GAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGG
Found at i:57323930 original size:71 final size:71
Alignment explanation
Indices: 57323846--57324075 Score: 416
Period size: 71 Copynumber: 3.3 Consensus size: 71
57323836 CGATTTGTCT
57323846 CGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57323911 CTTTCA
66 CTTTCA
*
57323917 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57323982 CTTTCA
66 CTTTCA
57323988 CGTAGCTCTCTTGTCTACATGGTG-TCTTCACTTGG-ATCACGCATG-GA--TAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57324048 CTTTCA
66 CTTTCA
57324054 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57324076 GATACATCTC
Statistics
Matches: 157, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
66 41 0.26
68 2 0.01
69 10 0.06
70 10 0.06
71 94 0.60
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57329035 original size:68 final size:69
Alignment explanation
Indices: 57328947--57329106 Score: 270
Period size: 68 Copynumber: 2.3 Consensus size: 69
57328937 CGATTTGTCT
57328947 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGC-CTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACA-TTAT
57329011 CTTTCA
64 CTTTCA
*
57329017 CGTAG-CTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTATCT
1 CGTAGCCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTATCT
57329081 TTCA
66 TTCA
57329085 CGTAGCTCTCTTGTCTACATGG
1 CGTAGC-CTCTTGTCTACATGG
57329107 GATACATCTC
Statistics
Matches: 86, Mismatches: 1, Indels: 6
0.92 0.01 0.06
Matches are distributed among these distances:
68 59 0.69
69 7 0.08
70 20 0.23
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (69 bp):
CGTAGCCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTATCT
TTCA
Found at i:57336552 original size:71 final size:71
Alignment explanation
Indices: 57336468--57336631 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
57336458 CGATTTGTCT
57336468 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
57336533 CTTTCA
66 CTTTCA
*
57336539 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
57336604 CTTTCA
66 CTTTCA
57336610 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57336632 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:57336669 original size:71 final size:70
Alignment explanation
Indices: 57336468--57336665 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
57336458 CGATTTGTCT
* * * * *
57336468 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57336533 CTTTCA
65 CTTTCA
* * * *
57336539 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57336604 CTTTCA
65 CTTTCA
* *
57336610 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57336666 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57339714 original size:45 final size:43
Alignment explanation
Indices: 57339613--57339776 Score: 163
Period size: 45 Copynumber: 3.8 Consensus size: 43
57339603 ATGCTATCTC
* * * * *
57339613 ATATCGATGCCACTGTCCTAGAGAGGGTCTTACACGAAT-CA-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACATGAATCCAT
** *
57339654 ATA-CGATGCTGATGTCCCAGACAAGGTCTTACATGTAATCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACATG-AATC-CAT
* *
57339698 ATATCGATGCCAATGTCCCAGACATGTTCTTACATGAAAACTCAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACATG-AATC-CAT
* *
57339743 ATATCGATGCCAACGTCCCAGACGTGGTCTTACA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACA
57339777 CGAAAACACA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 25 0.25
41 6 0.06
43 2 0.02
44 3 0.03
45 65 0.64
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACATGAATCCAT
Found at i:57339782 original size:45 final size:45
Alignment explanation
Indices: 57339667--57339789 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
57339657 CGATGCTGAT
* * * *
57339667 GTCCCAGACAAGGTCTTACATGTAATCACATATATCGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAAACACATATATCGATGCCAAC
* *
57339712 GTCCCAGACATGTTCTTACATGAAAACTCATATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACATGAAAACACATATATCGATGCCAAC
* *
57339757 GTCCCAGACGTGGTCTTACACGAAAACACATAT
1 GTCCCAGACATGGTCTTACATGAAAACACATAT
57339790 CGAAATCCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (45 bp):
GTCCCAGACATGGTCTTACATGAAAACACATATATCGATGCCAAC
Found at i:57348223 original size:45 final size:45
Alignment explanation
Indices: 57348140--57348225 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
57348130 AATCAATACA
* * * *
57348140 ATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACATCGTCTTACACGAAAACACATATATCG
** *
57348185 ATGCCAATGTCCCAGATGTCGTCTTACATGAAAACACATAT
1 ATGCCAATGTCCCAGACATCGTCTTACACGAAAACACATAT
57348226 TGGAAGCCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATCGTCTTACACGAAAACACATATATCG
Found at i:57349108 original size:25 final size:26
Alignment explanation
Indices: 57349080--57349134 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
57349070 TTAATTTTTG
57349080 TTATATT-ATAACATATATTAA-CGTA
1 TTATATTAATAACATAT-TTAATCGTA
* *
57349105 TTAT-TTAATTACATATTTAATCTTA
1 TTATATTAATAACATATTTAATCGTA
57349130 TTATA
1 TTATA
57349135 AAATATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (26 bp):
TTATATTAATAACATATTTAATCGTA
Found at i:57352261 original size:20 final size:20
Alignment explanation
Indices: 57352232--57352284 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
57352222 TGTTATATGG
*
57352232 ATGAAGTACTGTTTAAACGA
1 ATGAATTACTGTTTAAACGA
* *
57352252 ATGAGTTACT-TTT-ATCGA
1 ATGAATTACTGTTTAAACGA
57352270 ATGAATTACTGTTTA
1 ATGAATTACTGTTTA
57352285 TATGATTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 13 0.48
19 6 0.22
20 8 0.30
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (20 bp):
ATGAATTACTGTTTAAACGA
Found at i:57352284 original size:19 final size:19
Alignment explanation
Indices: 57352216--57352285 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
57352206 TACACGGATA
*
57352216 AATTACTGTTATAT-GGATG
1 AATTACTGTT-TATCGAATG
* *
57352235 AAGTACTGTTTAAACGAATG
1 AATTACTGTTT-ATCGAATG
*
57352255 AGTTACT-TTTATCGAATG
1 AATTACTGTTTATCGAATG
57352273 AATTACTGTTTAT
1 AATTACTGTTTAT
57352286 ATGATTGAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.34
19 18 0.44
20 9 0.22
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (19 bp):
AATTACTGTTTATCGAATG
Found at i:57362636 original size:52 final size:50
Alignment explanation
Indices: 57362553--57362651 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 50
57362543 TGCCAAATAA
* *
57362553 ATAGCTGAAGCTATATCAATCTTGCTAACTAAGTGGCAATAAATATATATAT
1 ATAGATGAAGCTATATCAATCTCGCTAACTAAGT-GCAA-AAATATATATAT
* *
57362605 ATAGATGAAGCTATCTCAATCTCGC-ACACTAAGTGTAAAAATATATA
1 ATAGATGAAGCTATATCAATCTCGCTA-ACTAAGTGCAAAAATATATA
57362652 GCCGACATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 9 0.21
51 4 0.10
52 29 0.69
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (50 bp):
ATAGATGAAGCTATATCAATCTCGCTAACTAAGTGCAAAAATATATATAT
Found at i:57366681 original size:68 final size:66
Alignment explanation
Indices: 57366609--57366755 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
57366599 CATCATGTGT
* * * *
57366609 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
57366672 TGTAG
62 TGTAG
** * *
57366677 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
57366742 AG
65 AG
57366744 ACAAGAGAGCTA
1 ACAAGAGAGCTA
57366756 TGAGATAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:57366714 original size:64 final size:64
Alignment explanation
Indices: 57366633--57366814 Score: 190
Period size: 67 Copynumber: 2.8 Consensus size: 64
57366623 AGACATTATG
* * *
57366633 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
57366697 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57366762 AA
63 AA
* * *
57366764 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGA
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGA
57366815 ATCGAACTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.26
66 21 0.22
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57386055 original size:13 final size:13
Alignment explanation
Indices: 57386007--57386061 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
57385997 AAGAATGGAT
57386007 TATGATATGTTTA
1 TATGATATGTTTA
*
57386020 TATTAATAT-TTTA
1 TA-TGATATGTTTA
*
57386033 AATG-TATGTTTA
1 TATGATATGTTTA
* *
57386045 TATGCTATGTTTT
1 TATGATATGTTTA
57386058 TATG
1 TATG
57386062 GTAATGCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 18 0.53
14 5 0.15
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (13 bp):
TATGATATGTTTA
Found at i:57387846 original size:23 final size:23
Alignment explanation
Indices: 57387813--57387894 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
57387803 GAGCTGATGG
* *
57387813 ACAGTAAGCTCTATTAAGTTGAA
1 ACAGTAAGCTCTAATAAGCTGAA
* *
57387836 ACGGTAAGCTCTAATGAGCTGAA
1 ACAGTAAGCTCTAATAAGCTGAA
*
57387859 ACAGTAAGCTCATAA-AAGGTGAGA
1 ACAGTAAGCTC-TAATAAGCTGA-A
57387883 ACAGTAAGCTCT
1 ACAGTAAGCTCT
57387895 TACGAGCTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 35 0.70
24 15 0.30
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTAATAAGCTGAA
Found at i:57395426 original size:27 final size:27
Alignment explanation
Indices: 57395395--57395521 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
57395385 TTCTACCCTA
* *
57395395 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
57395422 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
57395449 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
57395476 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
57395503 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
57395522 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:57395527 original size:54 final size:54
Alignment explanation
Indices: 57395398--57395528 Score: 217
Period size: 54 Copynumber: 2.4 Consensus size: 54
57395388 TACCCTACAA
* *
57395398 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* *
57395452 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
*
57395506 GGGTATTTTGGTAATTCTGTAAA
1 GGGTATTTTGGTAATTTTGTAAA
57395529 TTGAAGGTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:57395778 original size:27 final size:27
Alignment explanation
Indices: 57395516--57395756 Score: 310
Period size: 27 Copynumber: 8.9 Consensus size: 27
57395506 GGGTATTTTG
* * *
57395516 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
57395543 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
57395570 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
57395597 GTAATTCTGTAAA-CTGAGGGGAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
57395624 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
57395651 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
57395678 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
**
57395705 GTAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
57395732 GTAATTCTGTAAATCGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA
57395757 TGGTAATTTT
Statistics
Matches: 189, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.02
27 182 0.96
28 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:57395778 original size:54 final size:54
Alignment explanation
Indices: 57395515--57395764 Score: 401
Period size: 54 Copynumber: 4.6 Consensus size: 54
57395505 GGGGTATTTT
* * **
57395515 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
57395569 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
57395623 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
57395677 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
57395731 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
57395765 TTACAAGTCG
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:57395778 original size:81 final size:81
Alignment explanation
Indices: 57395514--57395764 Score: 364
Period size: 81 Copynumber: 3.1 Consensus size: 81
57395504 AGGGGTATTT
* * * * *
57395514 TGGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
57395579 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * *
57395595 TAGTAATTCTGTAAA-CTGAGGGGAAAACAGTAATTCTGTAAA-TCGAGGATAAAATAGTAATTC
1 TGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAATGGTAATTC
57395658 TGTAAA-CTGAGGGTAAAA
64 TGTAAATC-GAGGGTAAAA
*
57395676 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
57395741 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
57395757 TGGTAATT
1 TGGTAATT
57395765 TTACAAGTCG
Statistics
Matches: 149, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
80 2 0.01
81 144 0.97
82 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:57398224 original size:25 final size:25
Alignment explanation
Indices: 57398195--57398242 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57398185 TTATAATATG
* * *
57398195 AAAATGACCGTTTTGCCCCTAGGCA
1 AAAATGACCATTATACCCCTAGGCA
57398220 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57398243 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGCA
Found at i:57398293 original size:9 final size:9
Alignment explanation
Indices: 57398281--57398337 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57398271 TTTGATAAAC
57398281 ATGATATGT
1 ATGATATGT
*
57398290 ATGATATGCAC
1 ATGATATG--T
*
57398301 ATGACATGT
1 ATGATATGT
*
57398310 ATGATATGCAC
1 ATGATATG--T
57398321 ATGATATGT
1 ATGATATGT
57398330 ATGATATG
1 ATGATATG
57398338 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:57398304 original size:20 final size:20
Alignment explanation
Indices: 57398279--57398341 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
57398269 ATTTTGATAA
57398279 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57398299 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57398319 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
57398339 ACA
1 ACA
57398342 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57398474 original size:23 final size:24
Alignment explanation
Indices: 57398395--57398538 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
57398385 GAGGAAGTGC
*
57398395 AAAAGAGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57398419 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57398443 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57398467 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57398490 AAAAAAGGGCTT-TGCCCTAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
57398515 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57398539 ATGATAAAGT
Statistics
Matches: 110, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
23 29 0.26
24 53 0.48
25 19 0.17
26 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:57398766 original size:31 final size:31
Alignment explanation
Indices: 57398731--57398794 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
57398721 CGTTTACAGT
*
57398731 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
** *
57398762 AAAGGCTTCAGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
57398793 AA
1 AA
57398795 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:57402969 original size:93 final size:93
Alignment explanation
Indices: 57402857--57403028 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57402847 CGCCCATAAG
* *
57402857 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57402922 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57402950 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57403015 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57403029 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57403025 original size:46 final size:46
Alignment explanation
Indices: 57402850--57403025 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57402840 TGTAACCCGC
* * *
57402850 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57402896 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57402946 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57402989 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57403026 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57410546 original size:93 final size:93
Alignment explanation
Indices: 57410434--57410605 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57410424 CGCCCATAAG
* *
57410434 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57410499 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57410527 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57410592 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57410606 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57410602 original size:46 final size:46
Alignment explanation
Indices: 57410427--57410602 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57410417 TGTAACCCGC
* * *
57410427 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57410473 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57410523 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57410566 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57410603 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57416663 original size:25 final size:25
Alignment explanation
Indices: 57416634--57416681 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57416624 TTATAATATG
* * *
57416634 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57416659 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57416682 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57416731 original size:9 final size:9
Alignment explanation
Indices: 57416719--57416775 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57416709 TTTGATAAAC
57416719 ATGATATGT
1 ATGATATGT
*
57416728 ATGATATGCAC
1 ATGATATG--T
*
57416739 ATGACATGT
1 ATGATATGT
*
57416748 ATGATATGCAC
1 ATGATATG--T
57416759 ATGATATGT
1 ATGATATGT
57416768 ATGATATG
1 ATGATATG
57416776 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:57416742 original size:20 final size:20
Alignment explanation
Indices: 57416717--57416779 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
57416707 ATTTTGATAA
57416717 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
57416737 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
57416757 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
57416777 ACA
1 ACA
57416780 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:57416859 original size:24 final size:24
Alignment explanation
Indices: 57416832--57416950 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
57416822 GAGGAAGTGC
57416832 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57416856 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57416880 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57416904 AAAAAAGGGCTT-TG--CCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
57416927 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57416951 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 1, Indels: 13
0.86 0.01 0.13
Matches are distributed among these distances:
21 6 0.07
22 4 0.05
23 9 0.10
24 48 0.55
25 10 0.11
26 10 0.11
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:57417188 original size:30 final size:31
Alignment explanation
Indices: 57417142--57417204 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
57417132 CGTTTACAGT
57417142 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
57417173 AAAGGCTTC-GCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57417203 AA
1 AA
57417205 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:57419337 original size:29 final size:29
Alignment explanation
Indices: 57419295--57419352 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
57419285 AATTCCTCAG
57419295 CCCATTTCACCTAATCCTTAAAATTTTTT
1 CCCATTTCACCTAATCCTTAAAATTTTTT
57419324 CCCATTTCACCTAATCCTTAAAATTTTTT
1 CCCATTTCACCTAATCCTTAAAATTTTTT
57419353 TACCACATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (29 bp):
CCCATTTCACCTAATCCTTAAAATTTTTT
Found at i:57430092 original size:12 final size:12
Alignment explanation
Indices: 57430075--57430101 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57430065 TTATGGAAAA
57430075 TGACATATAAGT
1 TGACATATAAGT
57430087 TGACATATAAGT
1 TGACATATAAGT
57430099 TGA
1 TGA
57430102 TTAAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (12 bp):
TGACATATAAGT
Found at i:57448529 original size:27 final size:28
Alignment explanation
Indices: 57448499--57448598 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
57448489 ATAGTGAGTC
57448499 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
57448526 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
57448554 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
57448585 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57448599 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:57449447 original size:7 final size:7
Alignment explanation
Indices: 57449437--57449461 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57449427 TCATCACCAC
57449437 AACATCA
1 AACATCA
57449444 AACATCA
1 AACATCA
57449451 AACATCA
1 AACATCA
57449458 AACA
1 AACA
57449462 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:57450554 original size:40 final size:40
Alignment explanation
Indices: 57450517--57450700 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
57450507 GCTACTCGTT
*
57450517 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57450557 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
57450597 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
57450636 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
57450677 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
57450701 ACATCATTCG
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57450628 original size:79 final size:81
Alignment explanation
Indices: 57450519--57450701 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
57450509 TACTCGTTCA
* *
57450519 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
57450582 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
57450599 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
57450662 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
57450678 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57450702 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:57452719 original size:2 final size:2
Alignment explanation
Indices: 57452707--57452740 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
57452697 ACTTTAATAC
*
57452707 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57452741 CCCTTTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:57460549 original size:79 final size:79
Alignment explanation
Indices: 57460405--57460552 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
57460395 GTCCAACTAT
** * * * * *
57460405 GGTCTTACACAAAGTCTCACATGGATGCCATGTCCCTGAGATGGTCTTATACGAAATCACTTATC
1 GGTCTTACACAAAGTCTCACACCGAAGCCATATCCCAGAGATGGTCTTACACGAAATCACATATC
57460470 GATGCTGCATACAC
66 GATGCTGCATACAC
* * * *
57460484 GGTCTTACACGAAA-TCTCATACCGAAGCCATATCCCAGATATGGTCTTACACGTAATCTCATAT
1 GGTCTTACAC-AAAGTCTCACACCGAAGCCATATCCCAGAGATGGTCTTACACGAAATCACATAT
57460548 CGATG
65 CGATG
57460553 TCGATGTCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 54 0.95
80 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (79 bp):
GGTCTTACACAAAGTCTCACACCGAAGCCATATCCCAGAGATGGTCTTACACGAAATCACATATC
GATGCTGCATACAC
Found at i:57460567 original size:48 final size:48
Alignment explanation
Indices: 57460512--57460793 Score: 433
Period size: 48 Copynumber: 5.9 Consensus size: 48
57460502 ATACCGAAGC
*
57460512 CATATCCCAGATATGGTCTTACACGTA-ATCTCATATCGATG-TCGATGT
1 CATATCCCAGATATGGTCTTACAC-AAGATCTCATATCGATGCT-GATGT
*
57460560 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
* * * * *
57460608 CATATCCCAAATATGGTTTTACATAAGATCTCATATTGCTGCTGATGT
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
* *
57460656 CATACCCCAGATATGATCTTACACAAGATCTCATATCGATGCTGATGT
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
*
57460704 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
*
57460752 CATATCCCAGATATGGTCTTACACATGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGC
57460794 CATGTCCCAG
Statistics
Matches: 213, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.00
48 211 0.99
49 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGATGT
Found at i:57460881 original size:37 final size:37
Alignment explanation
Indices: 57460746--57460926 Score: 142
Period size: 37 Copynumber: 4.8 Consensus size: 37
57460736 ATATCGATGC
* *
57460746 TGATGCCATATCCCAGATATGGTCTTACACATGATC-TCATA
1 TGATGCCATAGCCCAGCTATGGTCTT--ACAT-ATCATC--A
57460787 TCGATGCCAT-GTCCCAGAC-ATGGTCTTACACGTATCA-CA
1 T-GATGCCATAG-CCCAG-CTATGGTCTTACA--TATCATCA
57460826 --ATGCCATAGCCCAGCTATGGTCTTACATATCATCA
1 TGATGCCATAGCCCAGCTATGGTCTTACATATCATCA
* * * * *
57460861 TGATGCCCTAGTCCAACTATGGTCTTACAT-GCTATTA
1 TGATGCCATAGCCCAGCTATGGTCTTACATATC-ATCA
*
57460898 TGATGCCATAGCCCAGCTGTGGTCTTACA
1 TGATGCCATAGCCCAGCTATGGTCTTACA
57460927 CGTACCACAT
Statistics
Matches: 117, Mismatches: 11, Indels: 28
0.75 0.07 0.18
Matches are distributed among these distances:
34 5 0.04
35 3 0.03
36 24 0.21
37 54 0.46
39 1 0.01
40 3 0.03
41 5 0.04
42 22 0.19
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (37 bp):
TGATGCCATAGCCCAGCTATGGTCTTACATATCATCA
Found at i:57469521 original size:71 final size:71
Alignment explanation
Indices: 57469433--57469596 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
57469423 GAGATGTATC
57469433 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57469498 AGGACA
66 AGGACA
*
57469504 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
57469569 CGGACA
66 AGGACA
57469575 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57469597 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57477116 original size:70 final size:71
Alignment explanation
Indices: 57476965--57477127 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
57476955 GAGATGTATC
57476965 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57477030 AGGACA
66 AGGACA
57477036 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
57477100 CGGACA
66 AGGACA
57477106 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57477128 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:57480432 original size:80 final size:80
Alignment explanation
Indices: 57480348--57480496 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
57480338 TATGGTAACC
* * * *
57480348 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
57480412 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
57480428 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
57480493 CCGG
66 CCGG
57480497 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:57480438 original size:40 final size:38
Alignment explanation
Indices: 57480389--57480496 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
57480379 ATCACGATTT
*
57480389 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
57480429 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
57480469 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
57480497 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:57483994 original size:18 final size:19
Alignment explanation
Indices: 57483971--57484013 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
57483961 CAACTAAAAT
57483971 TTTTAATATTT-TTAT-ACA
1 TTTTAAT-TTTATTATCACA
57483989 TTTTAATTTTATTATGCACA
1 TTTTAATTTTATTAT-CACA
57484009 TTTTA
1 TTTTA
57484014 TTATCTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
20 8 0.36
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAATTTTATTATCACA
Found at i:57486367 original size:11 final size:9
Alignment explanation
Indices: 57486325--57486384 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
57486315 GCCATCCTTC
57486325 TTTT-GTTT
1 TTTTAGTTT
57486333 TTTTAG-TT
1 TTTTAGTTT
* *
57486341 TTTAACTTT
1 TTTTAGTTT
57486350 TTTTAGTTT
1 TTTTAGTTT
57486359 TATTATAGTTAT
1 T-TT-TAGTT-T
57486371 TTTTAGTTT
1 TTTTAGTTT
57486380 TTTTA
1 TTTTA
57486385 AAAATTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 10 0.23
9 17 0.40
10 7 0.16
11 7 0.16
12 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (9 bp):
TTTTAGTTT
Found at i:57491026 original size:2 final size:2
Alignment explanation
Indices: 57491019--57491051 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57491009 ATGATTTGTG
57491019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57491052 AGTTAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57492726 original size:88 final size:91
Alignment explanation
Indices: 57492528--57492739 Score: 277
Period size: 88 Copynumber: 2.3 Consensus size: 91
57492518 CGCTAAAAAG
57492528 AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAGTTTACAAAAAAA
1 AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAG-TT--AAAAAAA
* **
57492593 ATGTACAATACACTTGTGGCACCATTCTT
63 AGGTACAATACACCAGTGGCACCATTCTT
* * **
57492622 AATGTCTCCACAAAATAAAATATTATTTTTATATTTAAATTAAAAATCAC-A-TT-AAAAAAAGG
1 AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAGTTAAAAAAAAGG
**
57492684 TACAATACACCAGTGGTGCCATTCTT
66 TACAATACACCAGTGGCACCATTCTT
* *
57492710 AATGGCTTCACCAAATAAAATATGATTTTT
1 AATGGCTCCACCAAATAAAATATTATTTTT
57492740 TTTAATTTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
88 56 0.53
91 2 0.02
93 1 0.01
94 46 0.44
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (91 bp):
AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAGTTAAAAAAAAGG
TACAATACACCAGTGGCACCATTCTT
Found at i:57499517 original size:40 final size:41
Alignment explanation
Indices: 57499473--57499567 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
57499463 TTATAAATAG
*
57499473 CACTATGTGTGCAA-AATG-GAATAGCTTCAGCTATATGAGA
1 CACTAAGTGTGCAATAATGAG-ATAGCTTCAGCTATATGAGA
* * *
57499513 CACTAAGTGTGCAATACTGAGGTAGCTTCAGCTATTTGAGA
1 CACTAAGTGTGCAATAATGAGATAGCTTCAGCTATATGAGA
57499554 TGTCACTAAGTGTG
1 ---CACTAAGTGTG
57499568 TGGAATCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 13 0.28
41 21 0.46
42 1 0.02
44 11 0.24
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (41 bp):
CACTAAGTGTGCAATAATGAGATAGCTTCAGCTATATGAGA
Found at i:57511432 original size:30 final size:30
Alignment explanation
Indices: 57511398--57511458 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57511388 TCCTTAACTC
*
57511398 AAACTTTGGCAAAATTATAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
57511428 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
57511458 A
1 A
57511459 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:57514880 original size:42 final size:41
Alignment explanation
Indices: 57514726--57514884 Score: 129
Period size: 42 Copynumber: 3.8 Consensus size: 41
57514716 ACACATAGAA
* * * *
57514726 TCATACCAATGCCATATCCCAGATATGGTCTTATATGGGATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACA-AGAATC
* * * * * *
57514768 TCATATCGATGCCAATAGCCTAGCTATAGTCTTACAAGATTC
1 TCATATCAATGCC-ATATCCCAGATATGGTCTTACAAGAATC
* * * * * *
57514810 TCATATCGACGCCATGTCCCAGACATGGTCCTACACAAAATC
1 TCATATCAATGCCATATCCCAGATATGGTCTTACA-AGAATC
* *
57514852 TCATAGCAATGCCATATCCTAGATATGGTCTTA
1 TCATATCAATGCCATATCCCAGATATGGTCTTA
57514885 TACGTAAACT
Statistics
Matches: 88, Mismatches: 27, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
41 15 0.17
42 56 0.64
43 17 0.19
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (41 bp):
TCATATCAATGCCATATCCCAGATATGGTCTTACAAGAATC
Found at i:57516769 original size:13 final size:13
Alignment explanation
Indices: 57516751--57516776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57516741 TTAATACTTG
57516751 ACTGAAAATTGTT
1 ACTGAAAATTGTT
57516764 ACTGAAAATTGTT
1 ACTGAAAATTGTT
57516777 GTTATAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
ACTGAAAATTGTT
Found at i:57528255 original size:66 final size:68
Alignment explanation
Indices: 57528179--57528365 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
57528169 TAGTACCACT
*
57528179 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
57528241 CACG
65 CACG
57528245 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
57528310 ATCACG
63 ATCACG
57528316 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
57528366 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:57528290 original size:71 final size:71
Alignment explanation
Indices: 57528202--57528365 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57528192 CGATTTGTCT
57528202 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57528267 CTTTCA
66 CTTTCA
57528273 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57528338 CTTTCA
66 CTTTCA
57528344 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57528366 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57528403 original size:71 final size:70
Alignment explanation
Indices: 57528202--57528399 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
57528192 CGATTTGTCT
* * *
57528202 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57528267 CTTTCA
65 CTTTCA
* * *
57528273 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57528338 CTTTCA
65 CTTTCA
* *
57528344 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
57528400 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57535824 original size:66 final size:68
Alignment explanation
Indices: 57535748--57535934 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
57535738 TAGTACCACT
*
57535748 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
57535810 CACG
65 CACG
57535814 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
57535879 ATCACG
63 ATCACG
57535885 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
57535935 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:57535859 original size:71 final size:71
Alignment explanation
Indices: 57535771--57535934 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57535761 CGATTTGTCT
57535771 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57535836 CTTTCA
66 CTTTCA
57535842 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57535907 CTTTCA
66 CTTTCA
57535913 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57535935 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57535972 original size:71 final size:70
Alignment explanation
Indices: 57535771--57535968 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
57535761 CGATTTGTCT
* * *
57535771 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57535836 CTTTCA
65 CTTTCA
* * *
57535842 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57535907 CTTTCA
65 CTTTCA
* *
57535913 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
57535969 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57538706 original size:40 final size:39
Alignment explanation
Indices: 57538567--57538720 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
57538557 TGTGAATGAA
* *
57538567 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
57538606 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
57538645 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
57538685 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
57538721 TGTTTTGAAC
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:57538706 original size:79 final size:79
Alignment explanation
Indices: 57538567--57538720 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 79
57538557 TGTGAATGAA
** *
57538567 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
57538632 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * *
57538645 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
57538710 TGTCCCGAAGG
65 AGTCCCGAAGG
57538721 TGTTTTGAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.38
79 32 0.49
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:57553480 original size:11 final size:11
Alignment explanation
Indices: 57553464--57553493 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57553454 CGAGATAGAA
57553464 ATAATTATTTT
1 ATAATTATTTT
57553475 ATAATTATTTT
1 ATAATTATTTT
*
57553486 ATGATTAT
1 ATAATTAT
57553494 GATATGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
ATAATTATTTT
Found at i:57554724 original size:46 final size:46
Alignment explanation
Indices: 57554674--57554846 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
57554664 TGGTTGAGCA
*
57554674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
57554720 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
57554767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
57554813 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57554847 GGGGCGGTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:57554830 original size:93 final size:93
Alignment explanation
Indices: 57554671--57554841 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
57554661 GGATGGTTGA
* *
57554671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
57554736 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
57554764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
57554829 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57554842 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57562273 original size:45 final size:45
Alignment explanation
Indices: 57562224--57562392 Score: 191
Period size: 45 Copynumber: 3.7 Consensus size: 45
57562214 GTTGAGCATC
*
57562224 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGT
* * * *
57562269 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGT
* * *
57562315 CCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGT
*
57562361 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57562393 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
44 3 0.03
45 57 0.55
46 2 0.02
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGT
Found at i:57562376 original size:92 final size:92
Alignment explanation
Indices: 57562219--57562387 Score: 293
Period size: 92 Copynumber: 1.8 Consensus size: 92
57562209 GGATGGTTGA
* *
57562219 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
57562284 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
57562311 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCGAGCTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
57562376 GAGTCCGAGTTC
66 GAGTCCGAGTTC
57562388 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57571776 original size:11 final size:11
Alignment explanation
Indices: 57571760--57571784 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57571750 GCCATATACA
57571760 AAAAAAAAAAG
1 AAAAAAAAAAG
57571771 AAAAAAAAAAG
1 AAAAAAAAAAG
57571782 AAA
1 AAA
57571785 GAAAGATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:57571779 original size:15 final size:15
Alignment explanation
Indices: 57571759--57571788 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57571749 GGCCATATAC
57571759 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
*
57571774 AAAAAAAGAAAGAAA
1 AAAAAAAAAAAGAAA
57571789 GATAGATACA
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:57575268 original size:78 final size:81
Alignment explanation
Indices: 57575148--57575329 Score: 257
Period size: 78 Copynumber: 2.3 Consensus size: 81
57575138 TACTCGTTCA
* *
57575148 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
57575211 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
57575227 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
57575290 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
57575306 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57575330 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 3 0.03
78 49 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:57575329 original size:40 final size:40
Alignment explanation
Indices: 57575146--57575329 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
57575136 GCTACTCGTT
*
57575146 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
57575186 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
57575226 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
57575264 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57575305 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57575330 CATCATTCGA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 21 0.16
40 69 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57583210 original size:40 final size:40
Alignment explanation
Indices: 57583173--57583353 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
57583163 GCTACTCGTT
*
57583173 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57583213 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
57583253 C-AATGCCTTCGGG-CTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
57583291 CAAATGCCTTC-TGATCTTAGTCCGGATT-TAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAAC-TCGCA
57583332 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
57583354 AGACATCATT
Statistics
Matches: 118, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
38 22 0.19
39 21 0.18
40 63 0.53
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57583272 original size:78 final size:80
Alignment explanation
Indices: 57583175--57583356 Score: 237
Period size: 78 Copynumber: 2.3 Consensus size: 80
57583165 TACTCGTTCA
* **
57583175 AATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
57583238 ATTTAGTAAC-TCGCAC
64 ATTTAGTAACTTAGCAC
* **
57583254 AATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCTGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
57583318 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
57583333 AAAGCCTTCGGGACTTAGCCCAGA
1 AATGCCTTCGGGACTTAGCCCAGA
57583357 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
77 2 0.02
78 47 0.52
79 30 0.33
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAGTAACTTAGCAC
Found at i:57592862 original size:4 final size:4
Alignment explanation
Indices: 57592853--57592877 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
57592843 CCATATACAA
57592853 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
57592878 TAGATACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:57592907 original size:20 final size:20
Alignment explanation
Indices: 57592882--57592922 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
57592872 GAAAGATAGA
*
57592882 TACATCTTTACATGTCTTTG
1 TACATCTTTACATGCCTTTG
57592902 TACATCTTTACATGCCTTTG
1 TACATCTTTACATGCCTTTG
57592922 T
1 T
57592923 TTGGCGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.49
Consensus pattern (20 bp):
TACATCTTTACATGCCTTTG
Found at i:57599647 original size:40 final size:40
Alignment explanation
Indices: 57599581--57599731 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
57599571 AAATTGAATG
* *
57599581 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
57599620 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
**
57599660 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
57599700 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
57599732 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:57599745 original size:40 final size:39
Alignment explanation
Indices: 57599618--57599747 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
57599608 ATGCTGGAAA
* * *
57599618 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
57599659 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
57599697 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
57599738 TTATATCCGG
1 TTATATCCGG
57599748 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:57603925 original size:26 final size:26
Alignment explanation
Indices: 57603889--57603941 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
57603879 AATGTCTTTA
57603889 TACCAAAGCTGGTCAAGTTGATAGTG
1 TACCAAAGCTGGTCAAGTTGATAGTG
57603915 TACCAAAGCTGGTCAAGTTGATAGTG
1 TACCAAAGCTGGTCAAGTTGATAGTG
57603941 T
1 T
57603942 GCTAACTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (26 bp):
TACCAAAGCTGGTCAAGTTGATAGTG
Found at i:57607801 original size:40 final size:39
Alignment explanation
Indices: 57607720--57607863 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
57607710 CCGCACCAAG
* * * * * * *
57607720 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
57607760 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
57607800 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAA-T
*
57607840 GCCTTCGGGTCTTAACCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
57607864 CATTTTCAGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 87 0.98
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAT
Found at i:57607880 original size:40 final size:41
Alignment explanation
Indices: 57607752--57607907 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 41
57607742 ATCACGATTT
* * *** *
57607752 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-TTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
**
57607792 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-AGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* *
57607832 GCACAATTGCCTTCGGGTCTTAACCCGGATATCATTTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* * *
57607872 GCATAATTGTCTTCGGGGCTTAGCCCGGATATCATT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATT
57607908 CAATTTCTCA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 93 0.92
41 6 0.06
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
Found at i:57614670 original size:40 final size:41
Alignment explanation
Indices: 57614542--57614697 Score: 149
Period size: 40 Copynumber: 3.9 Consensus size: 41
57614532 ATCACGATTT
* * * *** *
57614542 GCACAAATGCCTTCGGGTCTTAGCCCAGAT-TTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
**
57614582 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-AGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* *
57614622 GCACAATTGCCTTCGGGTCTTAACCCGGATATCATTTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* * *
57614662 GCATAATTGTCTTCGGGGCTTAGCCCGGATATCATT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATT
57614698 CAATTTCTCA
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 92 0.92
41 6 0.06
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
Found at i:57616554 original size:67 final size:70
Alignment explanation
Indices: 57616475--57616634 Score: 290
Period size: 71 Copynumber: 2.3 Consensus size: 70
57616465 GAGATGTATC
57616475 CCATGTAGACAAGAGAGCTACGTGAAAGATAAA-T-G-TAGGTCGCATGCGTGATTCCAAGTGAA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAAGTAGCTAGGTCGCATGCGTGATTCCAAGTGAA
57616537 GGACA
66 GGACA
57616542 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAA-GTAGCTAGGTCGCATGCGTGATTCCAAGTGA
57616607 AGGACA
65 AGGACA
57616613 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
57616635 AGACAAATCG
Statistics
Matches: 89, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
67 33 0.37
69 1 0.01
70 1 0.01
71 54 0.61
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAAGTAGCTAGGTCGCATGCGTGATTCCAAGTGAA
GGACA
Found at i:57638879 original size:5 final size:5
Alignment explanation
Indices: 57638869--57638896 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
57638859 TATAACTCGT
57638869 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
57638897 GATATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTAC
Found at i:57639160 original size:55 final size:55
Alignment explanation
Indices: 57639001--57639209 Score: 173
Period size: 55 Copynumber: 3.8 Consensus size: 55
57638991 TATCCTTTTG
** * *
57639001 AAACTTACCGTTGCCATGTCTCT-ACATGGTCTTACATGGTATCCTTGCCTTAT--
1 AAACTTACCAATGCCATGCCT-TGACATGATCTTACATGGTATCCTTGCCTTATAA
* * * *
57639054 GAACTCACCAATGCCATGCCTTGGA-AT-AGTCTTACATGGGA-CCTTTTCCTTATAA
1 AAACTTACCAATGCCATGCCTT-GACATGA-TCTTACATGGTATCC-TTGCCTTATAA
* ** *
57639109 AAACTTATCAATGCCATTTCTTGACATGATCTTACATGATATCCTTGCC-T-TAA
1 AAACTTACCAATGCCATGCCTTGACATGATCTTACATGGTATCCTTGCCTTATAA
* * *
57639162 AAACATTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AAAC-TTACCAA-TGCCATGCCTTGACATGATCTTACATGGTATCCTT
57639210 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
52 3 0.02
53 44 0.36
54 10 0.08
55 62 0.51
56 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (55 bp):
AAACTTACCAATGCCATGCCTTGACATGATCTTACATGGTATCCTTGCCTTATAA
Found at i:57645690 original size:55 final size:54
Alignment explanation
Indices: 57645582--57645766 Score: 216
Period size: 55 Copynumber: 3.4 Consensus size: 54
57645572 ATTAGGGTTT
* *
57645582 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-ATTTCATAAGGC
* * * *
57645637 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAATTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAATTTC-ATAAGGC
* * *
57645692 AAAGG-T-CTCATGTAAGACTATGCCAAGGCATGGCATTGGT-GAGTTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGGCATGGCATTGGTAAATTTCATAAGGC
57645745 AAGGATACCATGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
57645767 TTGAGACATA
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
52 4 0.04
53 25 0.23
54 12 0.11
55 65 0.59
56 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAATTTCATAAGGC
Done.