Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 5 of 100
Found at i:781342 original size:25 final size:25
Alignment explanation
Indices: 781314--781363 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
781304 AAAATATAGG
*
781314 TAAAATAAAT-AAAATAAAATGAAAA
1 TAAAA-AAATAAAAAGAAAATGAAAA
781339 TAAAAAAATAAAAAGAAAATGAAAA
1 TAAAAAAATAAAAAGAAAATGAAAA
781364 AAGGAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (25 bp):
TAAAAAAATAAAAAGAAAATGAAAA
Found at i:781348 original size:19 final size:19
Alignment explanation
Indices: 781315--781365 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
781305 AAATATAGGT
*
781315 AAAATAAATAAAATAAAATG
1 AAAATAAA-AAAATAAAAAG
781335 AAAATAAAAAAATAAAAAG
1 AAAATAAAAAAATAAAAAG
781354 AAAATGAAAAAA
1 AAAAT-AAAAAA
781366 GGAAAACCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAATAAAAAAATAAAAAG
Found at i:781678 original size:121 final size:121
Alignment explanation
Indices: 781464--781700 Score: 377
Period size: 121 Copynumber: 2.0 Consensus size: 121
781454 TCGTTTCGGC
*
781464 GCTGTATAAAAGGGCCCTTTCAGCATTTTCTTCCAAAATACCAGAAGCTCTCTCTTTCTACCCTT
1 GCTGTATAAAAGGGCCCTTTCAGCATTTTCTTCAAAAATACCAGAAGCTCTCTCTTTCTACCCTT
* *
781529 CCAAAATTCTCTACATTCTCTCTAAAAGCCGCCGAAAAGTTCAACCGAAAATCGAT
66 CCAAAATCCTCTACATTCTCTCTAAAAGCCACCGAAAAGTTCAACCGAAAATCGAT
*
781585 GCTGTATAAAAGGGCCCTTTCAGCATTTTCTTCAAAAAT-CTCAGAAGCTTTCTCTTTCTACCCT
1 GCTGTATAAAAGGGCCCTTTCAGCATTTTCTTCAAAAATAC-CAGAAGCTCTCTCTTTCTACCCT
* * * * *
781649 TTCAAAATCCTCTGCCTTCTCTCTAAAAGCCACCTAAAAGTTCAACTGAAAA
65 TCCAAAATCCTCTACATTCTCTCTAAAAGCCACCGAAAAGTTCAACCGAAAA
781701 CTGGAGATCT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
120 1 0.01
121 105 0.99
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (121 bp):
GCTGTATAAAAGGGCCCTTTCAGCATTTTCTTCAAAAATACCAGAAGCTCTCTCTTTCTACCCTT
CCAAAATCCTCTACATTCTCTCTAAAAGCCACCGAAAAGTTCAACCGAAAATCGAT
Found at i:781900 original size:12 final size:13
Alignment explanation
Indices: 781872--781913 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
781862 CAGAAAGCCC
781872 AAAAAAATTCC--
1 AAAAAAATTCCTA
*
781883 AGAAAAA-TCCTA
1 AAAAAAATTCCTA
781895 AAAAAAATTCCTA
1 AAAAAAATTCCTA
781908 AAAAAA
1 AAAAAA
781914 TTCTTGGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 3 0.12
11 6 0.23
12 6 0.23
13 11 0.42
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAAAATTCCTA
Found at i:781914 original size:12 final size:12
Alignment explanation
Indices: 781872--781916 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
781862 CAGAAAGCCC
781872 AAAAAAATTCC-
1 AAAAAAATTCCT
*
781883 AGAAAAA-TCCT
1 AAAAAAATTCCT
781894 AAAAAAAATTCCT
1 -AAAAAAATTCCT
781907 AAAAAAATTC
1 AAAAAAATTC
781917 TTGGATCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
12 16 0.55
13 4 0.14
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAAATTCCT
Found at i:782324 original size:19 final size:18
Alignment explanation
Indices: 782300--782339 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
782290 ACAACGGAAG
782300 AAAG-AAAGAAAAAGGAAAA
1 AAAGAAAAG-AAAA-GAAAA
782319 AAAGAAAAGAAAAGAAAA
1 AAAGAAAAGAAAAGAAAA
782337 AAA
1 AAA
782340 AATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGAAAAGAAAA
Found at i:782340 original size:19 final size:19
Alignment explanation
Indices: 782300--782340 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
782290 ACAACGGAAG
*
782300 AAAGAAAGAAAAAGGAAAA
1 AAAGAAAGAAAAAGAAAAA
782319 AAAGAAA-AGAAAAGAAAAA
1 AAAGAAAGA-AAAAGAAAAA
782338 AAA
1 AAA
782341 ATAATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAAGAAAAA
Found at i:782341 original size:10 final size:10
Alignment explanation
Indices: 782300--782341 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
782290 ACAACGGAAG
*
782300 AAAGAAAGAA
1 AAAGAAAAAA
*
782310 AAAG-GAAAA
1 AAAGAAAAAA
*
782319 AAAGAAAAGA
1 AAAGAAAAAA
782329 AAAGAAAAAA
1 AAAGAAAAAA
782339 AAA
1 AAA
782342 TAATAAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:782971 original size:89 final size:90
Alignment explanation
Indices: 782855--783600 Score: 694
Period size: 89 Copynumber: 8.4 Consensus size: 90
782845 AGCTGAGTTC
* * * * * * * **
782855 AAAATATATGATCGGGACGAAACCATGAATCACGCGATCGGGACGAAACCAGGAACCAAAATAAG
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
*
782920 GTGACCAAGACT-GAGTCGAGGTAA
66 GTGACCAAGACTCGAGTCGAGGTCA
* ** * *
782944 AAAATAAATGATCGAGACGAAACCATGAATCATGTGATCGAAATGAAACCATGAGTCAAACTAGG
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
* *
783009 GTGACCATGA-TCGAGTCGAGGT-T
66 GTGACCAAGACTCGAGTCGAGGTCA
* * * *
783032 AAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGGGATAAAACTATGAGTCAAACTAAG
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
* * *
783097 GCGATCAAGA-TCGAGTCGAGGTCG
66 GTGACCAAGACTCGAGTCGAGGTCA
* * * ** * *
783121 AGAATAAATGATCGAGATGAAATCATGACTCATGTGATCGAAATGAAATCATAAGTCAAAATAAG
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
*
783186 GTGACCAA-AATCGAGTCGAGGTCA
66 GTGACCAAGACTCGAGTCGAGGTCA
* * * *
783210 AAAATAAATGATCAAGA-GAAATCATGAATCATGTGATCGGGATGAAACCACGAGTCAAACTAAG
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
* * * * *
783274 GCGACCAAGGC-CAAATTGAGGTCA
66 GTGACCAAGACTCGAGTCGAGGTCA
* * * * * * * * *
783298 AAAATAAATAATCGGGATGAAACCACGACTCATGTTACCTGGACGAAACCATGAGTCAAAATAAA
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
* * *
783363 GTGATCAAGACT-GAGTCGAGATAA
66 GTGACCAAGACTCGAGTCGAGGTCA
** *
783387 AAAATAAATGATCGAGATGAAACCATGAATCATGTGA-CTGAGG-TGAAACCACAAGTCAAACTA
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATC-G-GGATGAAACCATGAGTCAAAATA
* *
783450 AGGTAACCAAGA-TCGAGTCAAGGTCA
64 AGGTGACCAAGACTCGAGTCGAGGTCA
* * * ** * * *
783476 AAAATAAATGATCGAGACGAAACCACGACTTGTGCGATCGAGACT-AAACCACGAGTC-AAATAA
1 AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGA-TGAAACCATGAGTCAAAATAA
* * * * *
783539 GGTGACTAGGAC-CGAGTTGGGGTTA
65 GGTGACCAAGACTCGAGTCGAGGTCA
* *
783564 AAAATAAATGATC-AGGATAAAACCACGAATCATGTGA
1 AAAATAAATGATCGA-GATGAAACCATGAATCATGTGA
783601 AATGGTTTGG
Statistics
Matches: 530, Mismatches: 113, Indels: 29
0.79 0.17 0.04
Matches are distributed among these distances:
87 1 0.00
88 204 0.38
89 321 0.61
90 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.18
Consensus pattern (90 bp):
AAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGATGAAACCATGAGTCAAAATAAG
GTGACCAAGACTCGAGTCGAGGTCA
Found at i:783118 original size:177 final size:178
Alignment explanation
Indices: 782855--783600 Score: 772
Period size: 177 Copynumber: 4.2 Consensus size: 178
782845 AGCTGAGTTC
* * * * * * ** *
782855 AAAATATATGATCGGGACGAAACCATGAATCACGCGATCGGGACGAAACCAGGAACCAAAATAAG
1 AAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGGGATGAAACCACGAGTCAAACTAAG
* * * *
782920 GTGACCAAGA-CTGAGTCGAGGTAAAAAATAAATGATCGAGACGAAACCATGAATCATGTGATCG
66 GCGACCAAGATC-GAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCACGACTCATGTGATCG
* * * *
782984 AAATGAAACCATGAGTCAAACTAGGGTGACCATGATCGAGTCGAGGT-T
130 AAATGAAACCATGAGTCAAAATAAGGTGACCAAGATCGAGTCGAGGTAA
* * *
783032 AAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGGGATAAAACTATGAGTCAAACTAAG
1 AAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGGGATGAAACCACGAGTCAAACTAAG
* * * * * *
783097 GCGATCAAGATCGAGTCGAGGTCGAGAATAAATGATCGAGATGAAATCATGACTCATGTGATCGA
66 GCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCACGACTCATGTGATCGA
* * * *
783162 AATGAAATCATAAGTCAAAATAAGGTGACCAAAATCGAGTCGAGGTCA
131 AATGAAACCATGAGTCAAAATAAGGTGACCAAGATCGAGTCGAGGTAA
** *
783210 AAAATAAATGATCAAGA-GAAATCATGAATCATGTGATCGGGATGAAACCACGAGTCAAACTAAG
1 AAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGGGATGAAACCACGAGTCAAACTAAG
** * * * * * * * *
783274 GCGACCAAGGCCAAATTGAGGTCAAAAATAAATAATCGGGATGAAACCACGACTCATGTTACCTG
66 GCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCACGACTCATGTGATC-G
* * * * *
783339 -GACGAAACCATGAGTCAAAATAAAGTGATCAAGA-CTGAGTCGAGATAA
130 AAATGAAACCATGAGTCAAAATAAGGTGACCAAGATC-GAGTCGAGGTAA
* *
783387 AAAATAAATGATCGAGATGAAACCATGAATCATGTGA-CTGAGG-TGAAACCACAAGTCAAACTA
1 AAAATAAATGATCGGGATGAAACCATGAATCATGTGATC-G-GGATGAAACCACGAGTCAAACTA
** * ** *
783450 AGGTAACCAAGATCGAGTCAAGGTCAAAAATAAATGATCGAGACGAAACCACGACTTGTGCGATC
64 AGGCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCACGACTCATGTGATC
* * * * * * * *
783515 GAGACT-AAACCACGAGTC-AAATAAGGTGACTAGGACCGAGTTGGGGTTA
129 GA-AATGAAACCATGAGTCAAAATAAGGTGACCAAGATCGAGTCGAGGTAA
* * *
783564 AAAATAAATGATCAGGATAAAACCACGAATCATGTGA
1 AAAATAAATGATCGGGATGAAACCATGAATCATGTGA
783601 AATGGTTTGG
Statistics
Matches: 469, Mismatches: 90, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
176 1 0.00
177 350 0.75
178 116 0.25
179 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.18
Consensus pattern (178 bp):
AAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGGGATGAAACCACGAGTCAAACTAAG
GCGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCACGACTCATGTGATCGA
AATGAAACCATGAGTCAAAATAAGGTGACCAAGATCGAGTCGAGGTAA
Found at i:783304 original size:266 final size:266
Alignment explanation
Indices: 782911--783600 Score: 818
Period size: 266 Copynumber: 2.6 Consensus size: 266
782901 AACCAGGAAC
*
782911 CAAAATAAGGTGACCAAGA-CTGAGTCGAGGTAAAAAATAAATGATCGAGACGAAACCATGAATC
1 CAAAATAAGGTGACCAAGATC-GAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCATGAATC
* * * * ** * *
782975 ATGTGATCGAAATGAAACCATGAGTCAAACTAGGGTGACCATGATCGAGTCGAGGTTAAAATAAA
65 ATGTGATCGAGATGAAACCACGAGTCAAACTAAGGTGACCAAGGCCGAGTTGAGGTAAAAATAAA
* * * * * *
783040 TGATCGGGATGAAACCATGAATCATGTGATCGGGATAAAACTATGAGTCAAACTAAGGCGATCAA
130 TGATCGGGATGAAACCACGAATCATGTGACCGGGACAAAACCATGAGTCAAAATAAAGCGATCAA
* ** * * *
783105 GA-TCGAGTCGAGGTCGAGAATAAATGATCGAGATGAAATCATGACTCATGTGA-TCGAAATGAA
195 GACT-GAGTCGAGATAAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACT-GAAATGAA
* *
783168 ATCATAAGT
258 ACCACAAGT
* * *
783177 CAAAATAAGGTGACCAAAATCGAGTCGAGGTCAAAAATAAATGATCAAGA-GAAATCATGAATCA
1 CAAAATAAGGTGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCATGAATCA
* * * *
783241 TGTGATCGGGATGAAACCACGAGTCAAACTAAGGCGACCAAGGCCAAATTGAGGTCAAAAATAAA
66 TGTGATCGAGATGAAACCACGAGTCAAACTAAGGTGACCAAGGCCGAGTTGAGGT-AAAAATAAA
* * * * * *
783306 TAATCGGGATGAAACCACGACTCATGTTACCTGGACGAAACCATGAGTCAAAATAAAGTGATCAA
130 TGATCGGGATGAAACCACGAATCATGTGACCGGGACAAAACCATGAGTCAAAATAAAGCGATCAA
**
783371 GACTGAGTCGAGATAAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACTGAGGTGAAAC
195 GACTGAGTCGAGATAAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACTGAAATGAAAC
783436 CACAAGT
260 CACAAGT
* * * * * **
783443 CAAACTAAGGTAACCAAGATCGAGTCAAGGTCAAAAATAAATGATCGAGACGAAACCACGACTTG
1 CAAAATAAGGTGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCATGAATCA
* * *
783508 TGCGATCGAGACT-AAACCACGAGTCAAA-TAAGGTGA-CTAGGACCGAGTTGGGGTTAAAAATA
66 TGTGATCGAGA-TGAAACCACGAGTCAAACTAAGGTGACCAAGG-CCGAGTTGAGG-TAAAAATA
* *
783570 AATGATCAGGATAAAACCACGAATCATGTGA
128 AATGATCGGGATGAAACCACGAATCATGTGA
783601 AATGGTTTGG
Statistics
Matches: 356, Mismatches: 60, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
265 61 0.17
266 257 0.72
267 37 0.10
268 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (266 bp):
CAAAATAAGGTGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGACGAAACCATGAATCA
TGTGATCGAGATGAAACCACGAGTCAAACTAAGGTGACCAAGGCCGAGTTGAGGTAAAAATAAAT
GATCGGGATGAAACCACGAATCATGTGACCGGGACAAAACCATGAGTCAAAATAAAGCGATCAAG
ACTGAGTCGAGATAAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACTGAAATGAAACC
ACAAGT
Found at i:786437 original size:21 final size:21
Alignment explanation
Indices: 786396--786438 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
786386 TTTTTTTAAA
* *
786396 TTTTTTAAATACTATTTTTAT
1 TTTTTTAAAAAATATTTTTAT
786417 TTTTTTAAAAAAT-TTTGTTAT
1 TTTTTTAAAAAATATTT-TTAT
786438 T
1 T
786439 GATATTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTAAAAAATATTTTTAT
Found at i:795271 original size:9 final size:9
Alignment explanation
Indices: 795257--795284 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
795247 TAATTTTGAT
795257 TGCATTACA
1 TGCATTACA
795266 TGCATTACA
1 TGCATTACA
795275 TGCATTACA
1 TGCATTACA
795284 T
1 T
795285 TTAGAGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (9 bp):
TGCATTACA
Found at i:795674 original size:50 final size:50
Alignment explanation
Indices: 795453--795787 Score: 338
Period size: 51 Copynumber: 6.6 Consensus size: 50
795443 TTTTGAGAAT
* *
795453 AGATGAG-ATTTTTAAAATTGTTGAGCCTCTGCTGAGA-GAAGCCATTTTTTA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATG-AG-C-TTTTTCA
* * *
795504 AGATGAGAAATTTTAAAGTTGTTGAGCGTCTGCTGAGATGAGCTCTTTCCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCT-TTTTCA
* * *
795555 AGATAAGAATTTTTAAAGTTGTTGAGCCTCCGCTGAGATGAGCCCTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCA
* * *
795606 AGATGAGAATTTTTAAAGTTGTTAAGCCTCTACTAAGATGAGTCTTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCA
* * *
795657 AGATGAG-ATTTTTAAAGTTGTTGAGCCTCTACTAAGAGGAGCTTTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-TTTTTCA
* * * * *
795707 AGAT-AAAATCTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAGTCTTTTTC-
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCA
* * * *
795756 AGATTTTAAAATTTTAAAAGTTGTCGAGCCTC
1 AGA--TGAGAATTTTTAAAGTTGTTGAGCCTC
795788 AAGTGAGAAG
Statistics
Matches: 244, Mismatches: 30, Indels: 19
0.83 0.10 0.06
Matches are distributed among these distances:
49 5 0.02
50 79 0.32
51 108 0.44
52 51 0.21
53 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (50 bp):
AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCA
Found at i:796054 original size:19 final size:19
Alignment explanation
Indices: 796012--796052 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
796002 AAAATTAAAC
796012 AAAAATAGCAAAATAGCAA
1 AAAAATAGCAAAATAGCAA
796031 AAAAATA-CAAAATA-CAA
1 AAAAATAGCAAAATAGCAA
796048 AAAAA
1 AAAAA
796053 AACCAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.76, C:0.10, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAATAGCAAAATAGCAA
Found at i:796059 original size:18 final size:18
Alignment explanation
Indices: 796020--796060 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
796010 ACAAAAATAG
*
796020 CAAAATAGCAAAAAAATA
1 CAAAATAGCAAAAAAAAA
796038 CAAAATA-CAAAAAAAAA
1 CAAAATAGCAAAAAAAAA
796055 CCAAAA
1 -CAAAA
796061 AAAAAAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.76, C:0.15, G:0.02, T:0.07
Consensus pattern (18 bp):
CAAAATAGCAAAAAAAAA
Found at i:797038 original size:24 final size:24
Alignment explanation
Indices: 796993--797039 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
796983 AATTTTTTGA
*
796993 TTTTTTAAAATATTATTTTTGATT
1 TTTTTTAAAATATTATTATTGATT
* *
797017 TTTTTTAAAATTTTGTTATTGAT
1 TTTTTTAAAATATTATTATTGAT
797040 ATTTATGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
TTTTTTAAAATATTATTATTGATT
Found at i:797106 original size:13 final size:13
Alignment explanation
Indices: 797090--797123 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
797080 AATATTAACA
797090 AATAAAAATAAAT
1 AATAAAAATAAAT
797103 AAT-AAAATAAAT
1 AATAAAAATAAAT
*
797115 AGTAAAAAT
1 AATAAAAAT
797124 TTGTGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AATAAAAATAAAT
Found at i:804899 original size:19 final size:19
Alignment explanation
Indices: 804869--804916 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
804859 TATAGGTAAT
*
804869 ATAAATAAAATAAAATGAAA
1 ATAAA-AAAATAAAAAGAAA
804889 ATAAAAAAATAAAAAGAAA
1 ATAAAAAAATAAAAAGAAA
804908 ATGAAAAAA
1 AT-AAAAAA
804917 GGAAAACCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (19 bp):
ATAAAAAAATAAAAAGAAA
Found at i:804922 original size:19 final size:20
Alignment explanation
Indices: 804880--804922 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
804870 TAAATAAAAT
*
804880 AAAATGAAAATAAAAAAATA
1 AAAATGAAAATAAAAAAAGA
*
804900 AAAA-GAAAATGAAAAAAGGA
1 AAAATGAAAAT-AAAAAAAGA
804920 AAA
1 AAA
804923 CCTACGAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (20 bp):
AAAATGAAAATAAAAAAAGA
Found at i:805281 original size:13 final size:13
Alignment explanation
Indices: 805263--805287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
805253 CAATCTTCGA
805263 CGAAAAATTCAAC
1 CGAAAAATTCAAC
805276 CGAAAAATTCAA
1 CGAAAAATTCAA
805288 ATGTTCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (13 bp):
CGAAAAATTCAAC
Found at i:805331 original size:12 final size:11
Alignment explanation
Indices: 805312--805359 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
805302 CCCAGAAAAC
805312 CCAAAAAAATT
1 CCAAAAAAATT
*
805323 CCAAAAAAATC
1 CCAAAAAAATT
*
805334 CCAAAACATATT
1 CCAAAA-AAATT
805346 CCTAAAAAAATT
1 CC-AAAAAAATT
805358 CC
1 CC
805360 TGGATCATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 16 0.52
12 11 0.35
13 4 0.13
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (11 bp):
CCAAAAAAATT
Found at i:805354 original size:23 final size:21
Alignment explanation
Indices: 805307--805355 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
805297 GGAAACCCAG
805307 AAAACCCAAAAAAATTCCAAA
1 AAAACCCAAAAAAATTCCAAA
*
805328 AAAATCCCAAAACATATTCCTAAA
1 AAAA-CCCAAAA-AAATTCC-AAA
805352 AAAA
1 AAAA
805356 TTCCTGGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 7 0.29
23 6 0.25
24 7 0.29
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAACCCAAAAAAATTCCAAA
Found at i:805778 original size:11 final size:10
Alignment explanation
Indices: 805762--805802 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
805752 ACAACGGAAG
805762 AAAGAAAGAAA
1 AAAGAAA-AAA
805773 AAAG-AAAAA
1 AAAGAAAAAA
805782 AAAGAAAAGAA
1 AAAGAAAA-AA
805793 AAAGAAAAAA
1 AAAGAAAAAA
805803 TAGAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.25
10 7 0.25
11 14 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:805784 original size:9 final size:9
Alignment explanation
Indices: 805770--805808 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
805760 AGAAAGAAAG
805770 AAAAAAGAA
1 AAAAAAGAA
805779 AAAAAAGAAA
1 AAAAAAG-AA
805789 AGAAAAAGAA
1 A-AAAAAGAA
*
805799 AAAATAGAA
1 AAAAAAGAA
805808 A
1 A
805809 TAATAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 15 0.56
10 6 0.22
11 6 0.22
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:805785 original size:20 final size:20
Alignment explanation
Indices: 805762--805808 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
805752 ACAACGGAAG
805762 AAAG-AAAGAAAAAAGAAAAA
1 AAAGAAAAG-AAAAAGAAAAA
805782 AAAGAAAAGAAAAAGAAAAA
1 AAAGAAAAGAAAAAGAAAAA
*
805802 ATAGAAA
1 AAAGAAA
805809 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGAAAAAGAAAAA
Found at i:805800 original size:16 final size:16
Alignment explanation
Indices: 805759--805800 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
805749 GAAACAACGG
805759 AAGAAAG-AAAGAAAA
1 AAGAAAGAAAAGAAAA
*
805774 AAGAAAAAAAAGAAAA
1 AAGAAAGAAAAGAAAA
805790 GAA-AAAGAAAA
1 -AAGAAAGAAAA
805801 AATAGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAAGAAAA
Found at i:805815 original size:3 final size:3
Alignment explanation
Indices: 805807--805853 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
805797 AAAAAATAGA
*
805807 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
805854 AAACACATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:806099 original size:2 final size:2
Alignment explanation
Indices: 806086--806121 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
806076 GGTGCCTACA
* *
806086 AT AT AT AA AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
806122 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:806126 original size:2 final size:2
Alignment explanation
Indices: 806121--806157 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
806111 TTTATATATA
*
806121 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
806158 CCATTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (2 bp):
TG
Found at i:811088 original size:23 final size:23
Alignment explanation
Indices: 811042--811088 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
811032 AACTTTTCAA
* *
811042 ATTAGATAAATTCATGTACCATT
1 ATTAGATAAATTCATGAACAATT
* *
811065 ATTAGATAGATTCATGAATAATT
1 ATTAGATAAATTCATGAACAATT
811088 A
1 A
811089 GGTTCATGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (23 bp):
ATTAGATAAATTCATGAACAATT
Found at i:812242 original size:16 final size:17
Alignment explanation
Indices: 812223--812255 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
812213 TCCTCAAAAA
812223 TATTTTTAA-AAAAATT
1 TATTTTTAAGAAAAATT
812239 TATTTTTAAGAAAAATT
1 TATTTTTAAGAAAAATT
812256 GATACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TATTTTTAAGAAAAATT
Found at i:812255 original size:58 final size:58
Alignment explanation
Indices: 812075--812426 Score: 355
Period size: 58 Copynumber: 6.1 Consensus size: 58
812065 TGCTTTTGTA
* ** * * *
812075 TAAGAAAAATTGATACCTTCAACTTTTCCTCAAAAGCA---TTT-GAGAGTTTCTATTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTAT-TTT
* * * * *
812130 TAAGGAAAATTGATACTTCCAACTTTTTCTC-AAAATATTTTTCTA-AAACTTTAATTTC
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAATTT-ATTTT
* * *
812188 GAA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAAATTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* * *
812245 TAAGAAAAATTGATACTTTTACCTTCTCCTCAAAAATATTTTTTAGAAAA-TTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* * * *
812302 CAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
* * * *
812360 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTAG-AATTTTA-TTT
1 TAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAA-ATA-TTTTTTAGAAAATTTATTTT
812419 TAAGAAAA
1 TAAGAAAA
812427 TCATTAAAAA
Statistics
Matches: 251, Mismatches: 33, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
54 4 0.02
55 27 0.11
57 86 0.34
58 103 0.41
59 15 0.06
60 8 0.03
61 8 0.03
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (58 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTT
Found at i:812314 original size:115 final size:115
Alignment explanation
Indices: 812127--812404 Score: 364
Period size: 115 Copynumber: 2.4 Consensus size: 115
812117 AGAGTTTCTA
* * *
812127 TTTTAAGGAAAATTGATACTTCCAACTTTTTCTC-AAAATATTTTTCTAAAACTTTAATTTCGAA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAAAACATTAATTTCGAA
*
812191 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAAATTTAT
65 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAAACTTAT
* * * * *
812242 TTTTAAGAAAAATTGATACTTTTACCTTCTCCTCAAAAATATTTTTTAGAAA-ATTATTTTC-AA
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-AAACATTAATTTCGAA
* * * *
812305 GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAACTTAT
65 -AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAAACTTAT
* *
812357 TTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
812405 TTAGAATTTT
Statistics
Matches: 140, Mismatches: 19, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
114 2 0.01
115 119 0.85
116 19 0.14
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (115 bp):
TTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAACATTAATTTCGAAA
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAAAAAAACTTAT
Found at i:812445 original size:5 final size:5
Alignment explanation
Indices: 812435--812480 Score: 56
Period size: 5 Copynumber: 8.4 Consensus size: 5
812425 AATCATTAAA
812435 AAAAT AAAAT AAAAT AAAAAT AAGAAT AAGAAT AAAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AA-AAT AA-AAT -AAAAT AAAAT AA
812481 GGAATACCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 19 0.50
6 17 0.45
7 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:812454 original size:6 final size:6
Alignment explanation
Indices: 812434--812477 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
812424 AAATCATTAA
* *
812434 AAAAAT -AAAAT -AAAAT AAAAAT AAGAAT AAGAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
812478 TAAGGAATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:812486 original size:12 final size:11
Alignment explanation
Indices: 812437--812486 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
812427 TCATTAAAAA
812437 AATAAAATAA-
1 AATAAAATAAG
812447 AATAAAAATAAG
1 AAT-AAAATAAG
*
812459 AATAAGAATAAA
1 AATAA-AATAAG
812471 AATAAAATAAGG
1 AATAAAATAA-G
812483 AATA
1 AATA
812487 CCAAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 3 0.09
11 14 0.41
12 17 0.50
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (11 bp):
AATAAAATAAG
Found at i:812524 original size:3 final size:3
Alignment explanation
Indices: 812516--812580 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
812506 TAAATAAATA
*
812516 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAGA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
812564 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
812581 ATAAGGAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.93
4 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:812589 original size:24 final size:23
Alignment explanation
Indices: 812503--812589 Score: 104
Period size: 24 Copynumber: 3.6 Consensus size: 23
812493 TATTCTAATC
*
812503 TAATAAATAAATAAATAATAATAA
1 TAAT-AATAAAGAAATAATAATAA
812527 TAATAATAATA-ATAATAATAATAA
1 TAATAATAA-AGA-AATAATAATAA
812551 TAATAATAAAAGAAATAATAATAA
1 TAATAAT-AAAGAAATAATAATAA
*
812575 TAATAAATAAGGAAA
1 TAAT-AATAAAGAAA
812590 AAAAAAGAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
23 6 0.11
24 45 0.79
25 6 0.11
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
TAATAATAAAGAAATAATAATAA
Found at i:812990 original size:11 final size:11
Alignment explanation
Indices: 812974--813005 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
812964 TTTCGTCGGA
812974 TTCTAGAAAAT
1 TTCTAGAAAAT
*
812985 TTCTAGAAATT
1 TTCTAGAAAAT
812996 TTCTAGAAAA
1 TTCTAGAAAA
813006 AAAAACTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (11 bp):
TTCTAGAAAAT
Found at i:813372 original size:14 final size:14
Alignment explanation
Indices: 813314--813369 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 14
813304 TTAATAGATA
*
813314 AATAATAAAAAATAT
1 AATAATACAAAA-AT
*
813329 ATATTAATA-AATAAT
1 A-A-TAATACAAAAAT
813344 AATAATACAAAAAT
1 AATAATACAAAAAT
813358 AA-AATACAAAAA
1 AATAATACAAAAA
813370 ATACAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 15 0.42
14 8 0.22
15 4 0.11
16 4 0.11
17 5 0.14
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAATACAAAAAT
Found at i:825225 original size:15 final size:16
Alignment explanation
Indices: 825205--825243 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
825195 CTAAAACCCC
825205 TAAAATCCAAAA-TCT
1 TAAAATCCAAAATTCT
*
825220 TAAAATCTAAAATTCT
1 TAAAATCCAAAATTCT
*
825236 AAAAATCC
1 TAAAATCC
825244 TAAGGACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATCCAAAATTCT
Found at i:833802 original size:128 final size:119
Alignment explanation
Indices: 833512--833855 Score: 395
Period size: 119 Copynumber: 2.8 Consensus size: 119
833502 AAGCCATGTT
* * *
833512 TTAAAAGATTTTTAAATTTTTAAAGTTTTATTACCTCTGATTATGAGGAGCATTCAAAGATTTTG
1 TTAAAAGA-TTTTCAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
* ** * *
833577 AGATTTGTAAGACCTCTGGGCATAATCTCTAAAAGTCTATGCACGACTTTCAAGA
65 AGATTTGTAAGACCTCCGAACATAATCTCTAAAAGCCTATGCACAACTTTCAAGA
* *
833632 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATG-GAGAGCATTCAAAGATTTTA
1 TTAAAAGATTTTCAATTTTTAAAGTTTCATTGCCTCTGATTATGAG-GAGCATTCAAAGATTTTG
* *
833696 AGATTTGTAAGACCTCCGAACATAATCT-TTAAAGCCTTTGGGCACAACTTTCAAGA
65 AGATTTGTAAGACCTCCGAACATAATCTCTAAAAGCCTAT--GCACAACTTTCAAGA
* * *
833752 TTTTTGGGTCAAAGATTTTCACATTTTTAAAGTGTCATTGCCTCTTATTATGAGGAGCATTCAAA
1 ----T---TAAAAGATTTTCA-ATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAA
* * **
833817 GATTTTGATATTTGTAAGACCTACGGGCATAATCTCTAA
58 GATTTTGAGATTTGTAAGACCTCCGAACATAATCTCTAA
833856 GACCTCCAGG
Statistics
Matches: 189, Mismatches: 22, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
118 9 0.05
119 74 0.39
120 22 0.12
124 1 0.01
127 12 0.06
128 68 0.36
129 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (119 bp):
TTAAAAGATTTTCAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
GATTTGTAAGACCTCCGAACATAATCTCTAAAAGCCTATGCACAACTTTCAAGA
Found at i:833876 original size:128 final size:118
Alignment explanation
Indices: 833512--833879 Score: 414
Period size: 128 Copynumber: 3.0 Consensus size: 118
833502 AAGCCATGTT
* * *
833512 TTAAAAGATTTTTAAATTTTTAAAGTTTTATTACCTCTGATTATGAGGAGCATTCAAAGATTTTG
1 TTAAAAGA-TTTTCAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTG
** * *
833577 AGATTTGTAAGACCTCTGGGCATAATCTCTAAAAGTCTATGCACGACTTTCAAGA
65 AGATTTGTAAGACCTC-GGGCATAATCTCTAAACCTCTAGGCACAACTTTCAAGA
* *
833632 TTAAAAGATTTTCAAATTTTAAAGTTTCATTGCCTCTGATTATG-GAGAGCATTCAAAGATTTTA
1 TTAAAAGATTTTCAATTTTTAAAGTTTCATTGCCTCTGATTATGAG-GAGCATTCAAAGATTTTG
** * * *
833696 AGATTTGTAAGACCTCCGAACATAATCTTTAAAGCCTTTGGGCACAACTTTCAAGA
65 AGATTTGTAAGACCT-CGGGCATAATCTCTAAA-CCTCTAGGCACAACTTTCAAGA
* * *
833752 TTTTTGGGTCAAAGATTTTCACATTTTTAAAGTGTCATTGCCTCTTATTATGAGGAGCATTCAAA
1 ----T---TAAAAGATTTTCA-ATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAA
* * *
833817 GATTTTGATATTTGTAAGACCTACGGGCATAATCTCTAAGACCTCCAGGCATAACTTTCAAGA
58 GATTTTGAGATTTGTAAGACCT-CGGGCATAATCTCTAA-ACCTCTAGGCACAACTTTCAAGA
833880 CCTTTAGGCA
Statistics
Matches: 207, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
118 1 0.00
119 77 0.37
120 25 0.12
124 1 0.00
127 12 0.06
128 89 0.43
129 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (118 bp):
TTAAAAGATTTTCAATTTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCATTCAAAGATTTTGA
GATTTGTAAGACCTCGGGCATAATCTCTAAACCTCTAGGCACAACTTTCAAGA
Found at i:833879 original size:22 final size:22
Alignment explanation
Indices: 833831--833893 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
833821 TTGATATTTG
*
833831 TAAGACCTACGGGCATAATCTC
1 TAAGACCTACAGGCATAATCTC
* *
833853 TAAGACCTCCAGGCATAA-CTT
1 TAAGACCTACAGGCATAATCTC
**
833874 TCAAGACCTTTAGGCATAAT
1 T-AAGACCTACAGGCATAAT
833894 TTTGATTCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 3 0.09
22 31 0.91
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (22 bp):
TAAGACCTACAGGCATAATCTC
Found at i:834049 original size:110 final size:112
Alignment explanation
Indices: 833853--834312 Score: 435
Period size: 110 Copynumber: 4.2 Consensus size: 112
833843 GCATAATCTC
* * *** ** *
833853 TAAGACCTCCAGGCATAACTTTC-AAGACCTTTAGGCATAATTTTGATTC-ACGATGTTATCCCA
1 TAAGACCTCCGGGCATGA-TTTCTAAGACCTCCGGGCATAATTTTGATTCTACGATGTTATTTCG
* * **
833916 ATCGATTCTTTATCTTTC-AACTTGTGATGTTATCTCGGTCAATTCTG
65 ATCGATTCTTTATCTTTCTGACTTGCGATGTTATCTCAATCAATTCTG
** *
833963 TAAGACCTCCGGGCATGATTTCTTTGACCTCCGGGCATAATTTCGATTCGTA-G-TGTTATTTCG
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTTGATTC-TACGATGTTATTTCG
*
834026 ATCGATTCTTTATCTTTC-GACTTGTGATGTTATCTCAATCAATTCTG
65 ATCGATTCTTTATCTTTCTGACTTGCGATGTTATCTCAATCAATTCTG
* * * * *
834073 TAAGACCTTCGGG-ATGATTTCTAAGACCTCCGAGCATAATTTTGATTC-ACGATATTGTCTCGA
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTTGATTCTACGATGTTATTTCGA
* * * *
834136 TTGATTCTTTA--TTTCTGACTTGCGGTGCTATCCCAATCAATTCTG
66 TCGATTCTTTATCTTTCTGACTTGCGATGTTATCTCAATCAATTCTG
** * * * * *
834181 TAAGACCTCTAGGCCTGATTTCTAAAACCTCCAGGCATAATTTTGATT-TATGACGTTATCTT-G
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTTGATTCTACGATGTTAT-TTCG
* * * ** *
834244 ATCGATT-TTTTTATTTCTGACTTGCGGTGTTATC-CTGGTCAATTCTA
65 ATCGATTCTTTATCTTTCTGACTTGCGATGTTATCTC-AATCAATTCTG
*
834291 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATGATTTC
834313 GATTCGCGAT
Statistics
Matches: 289, Mismatches: 49, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
107 5 0.02
108 39 0.13
109 97 0.34
110 146 0.51
111 1 0.00
112 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (112 bp):
TAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTTGATTCTACGATGTTATTTCGA
TCGATTCTTTATCTTTCTGACTTGCGATGTTATCTCAATCAATTCTG
Found at i:834277 original size:218 final size:219
Alignment explanation
Indices: 833853--834312 Score: 479
Period size: 218 Copynumber: 2.1 Consensus size: 219
833843 GCATAATCTC
* ** *
833853 TAAGACCTCCAGGCATAACTTTC-AAGACCT-TTAGGCATAATTTTGATTCACGATGTTATCCCA
1 TAAGACCTCCGGGCATAA-TTTCTAAGACCTCCGA-GCATAATTTTGATTCACGATATTATCCCA
* * * ** *
833916 ATCGATTCTTTATCTTTCAACTTGTGATGTTATCTCGGTCAATTCTGTAAGACCTCCGGGCATGA
64 ATCGATTCTTTATCTTTCAACTTGCGATGCTATCCCAATCAATTCTGTAAGACCTCCAGGCATGA
*** * * *
833981 TTTCTTTGACCTCCGGGCATAATTTCGATTCGTAGTGTTATTTCGATCGATTCTTTATCTTTCGA
129 TTTCTAAAACCTCCAGGCATAATTTCGATTC-TAGCGTTATTTCGATCGATTCTTTATATTTCGA
* *
834046 CTTGTGATGTTAT-CTCAATCAATTCTG
193 CTTGCGATGTTATCCT-AATCAATTCTA
* * * * *
834073 TAAGACCTTCGGG-ATGATTTCTAAGACCTCCGAGCATAATTTTGATTCACGATATTGTCTCGAT
1 TAAGACCTCCGGGCATAATTTCTAAGACCTCCGAGCATAATTTTGATTCACGATATTATCCCAAT
* * * * *
834137 TGATTCTTTA--TTTCTGACTTGCGGTGCTATCCCAATCAATTCTGTAAGACCTCTAGGCCTGAT
66 CGATTCTTTATCTTTC-AACTTGCGATGCTATCCCAATCAATTCTGTAAGACCTCCAGGCATGAT
* *
834200 TTCTAAAACCTCCAGGCATAATTTTGATT-TATGACGTTATCTT-GATCGATT-TTTTTATTTCT
130 TTCTAAAACCTCCAGGCATAATTTCGATTCTA-G-CGTTAT-TTCGATCGATTCTTTATATTTC-
* **
834262 GACTTGCGGTGTTATCCTGGTCAATTCTA
191 GACTTGCGATGTTATCCTAATCAATTCTA
834291 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATAATTTC
834313 GATTCGCGAT
Statistics
Matches: 196, Mismatches: 35, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
216 2 0.01
217 13 0.07
218 112 0.57
219 57 0.29
220 12 0.06
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (219 bp):
TAAGACCTCCGGGCATAATTTCTAAGACCTCCGAGCATAATTTTGATTCACGATATTATCCCAAT
CGATTCTTTATCTTTCAACTTGCGATGCTATCCCAATCAATTCTGTAAGACCTCCAGGCATGATT
TCTAAAACCTCCAGGCATAATTTCGATTCTAGCGTTATTTCGATCGATTCTTTATATTTCGACTT
GCGATGTTATCCTAATCAATTCTA
Found at i:834307 original size:88 final size:87
Alignment explanation
Indices: 834200--834388 Score: 220
Period size: 87 Copynumber: 2.2 Consensus size: 87
834190 TAGGCCTGAT
* * * * * * *
834200 TTCTA-AA-ACCTCCAGGCATAATTTTGATTTATGACGTTATCTTGATCGATTTTTTTATTTCTG
1 TTCTATAAGACCTCCGGGCATAATTTCGATTCACGACATTATCTCGATCGA-TTCTTTATTTCTG
* *
834263 ACTTGCGGTGTTATCCTGGTCAA
65 ACTTGCGATGTTATCCTGATCAA
* * *
834286 TTCTATAAGACCTCCGGGCATAATTTCGATTCGCGATATTGTCTCGATCGATTCTTTATTTCTGA
1 TTCTATAAGACCTCCGGGCATAATTTCGATTCACGACATTATCTCGATCGATTCTTTATTTCTGA
834351 CTTGCGATGTTATCCTGATCAA
66 CTTGCGATGTTATCCTGATCAA
* * *
834373 TTTTGTAAGATCTCCG
1 TTCTATAAGACCTCCG
834389 AACATGATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
86 5 0.06
87 48 0.56
88 33 0.38
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (87 bp):
TTCTATAAGACCTCCGGGCATAATTTCGATTCACGACATTATCTCGATCGATTCTTTATTTCTGA
CTTGCGATGTTATCCTGATCAA
Found at i:834446 original size:197 final size:196
Alignment explanation
Indices: 834094--834508 Score: 492
Period size: 197 Copynumber: 2.1 Consensus size: 196
834084 GGATGATTTC
* * *
834094 TAAGACCTCCGAGCATAATTTTGATTCACGATATTGTCTCGATTGATTCTTTATTTCTGACTTGC
1 TAAGACCTCCGGGCATAATTTCGATTCACGATATTGTCTCGATCGATTCTTTATTTCTGACTTGC
* * * * *
834159 GGTGCTATCCCAATCAATTCTGTAAGACCTCTAGGCCTGATTTCTAAAACCTCCAGGCATAATTT
66 GATGCTATCCCAATCAATTCTGTAAGACCTCGAGACATGATTTCTAAAACCTCCAGGCATAAATT
* * * ** * * *
834224 TGATTTATGACGTTATCTTGATCGATTTTTTTAT-TTCTGACTTGCGGTGTTATCCTGGTCAATT
131 CGATTCACGACGTTATCCCGATCGA-TTCTTTATCTTC-GACTTGCGATGTTATCCTAGTCAATT
834288 CTA
194 CTA
*
834291 TAAGACCTCCGGGCATAATTTCGATTCGCGATATTGTCTCGATCGATTCTTTATTTCTGACTTGC
1 TAAGACCTCCGGGCATAATTTCGATTCACGATATTGTCTCGATCGATTCTTTATTTCTGACTTGC
* ** * * * ** *
834356 GATGTTATCCTGATCAATTTTGTAAGATCTCCGA-ACATGATTTCTAAGATTTCTAGGCATAAAT
66 GATGCTATCCCAATCAATTCTGTAAGACCT-CGAGACATGATTTCTAAAACCTCCAGGCATAAAT
* * *
834420 TCGATTCACGATGTTATCCCGATCGATTCTTTATCTTCGACTTGCTATGTTATTCTAGTCAATTC
130 TCGATTCACGACGTTATCCCGATCGATTCTTTATCTTCGACTTGCGATGTTATCCTAGTCAATTC
*
834485 TG
195 TA
* * *
834487 TAAGACTTTCGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
834509 TAAGACCTCT
Statistics
Matches: 183, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
196 50 0.27
197 131 0.72
198 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (196 bp):
TAAGACCTCCGGGCATAATTTCGATTCACGATATTGTCTCGATCGATTCTTTATTTCTGACTTGC
GATGCTATCCCAATCAATTCTGTAAGACCTCGAGACATGATTTCTAAAACCTCCAGGCATAAATT
CGATTCACGACGTTATCCCGATCGATTCTTTATCTTCGACTTGCGATGTTATCCTAGTCAATTCT
A
Found at i:834573 original size:306 final size:306
Alignment explanation
Indices: 833988--834607 Score: 693
Period size: 306 Copynumber: 2.0 Consensus size: 306
833978 TGATTTCTTT
* * * *
833988 GACCTCCGGGCATAATTTCGATTCGTAGTGTTATTTCGATCGATTCTTTATCTTTCGACTTGTGA
1 GACCTCCGGGCATAATTTCGATTCGGAGTATTATCTCGATCGATTCTTTATCTTTCGACTTGCGA
* ** * * *
834053 TGTTATCTCAATCAATTCTGTAAGACCTTCGGGATGATTTCTAAGACCTCCGAGCATAATTTTGA
66 TGTTATCTCAATCAATTCTGTAAGACCTCCGACATGATTTCTAAGACCTCAGAGCATAAATTCGA
* * * *
834118 TTCACGATATTGTCTCGATTGATTCTTTATTTCTGACTTGCGGTGCTATCCCAATCAATTCTGTA
131 TTCACGATATTATCCCGATCGATTCTTTATTTCTGACTTGCGATGCTATCCCAATCAATTCTGTA
* * * **
834183 AGACCTCTAGGCCTGATTTCTAAAACCTCCAGGCATAATTTTGATTTATGACGTTATCTTGATCG
196 AGACCTCTAGGCATGATTTCTAAAACCTCCAGACATAATTTTGATTTACGACGTTATCCCGATCG
* * * *
834248 ATTTTTTTATTTCTGACTTGCGGTGTTA-TCCTGGTCA-ATTCTATAA
261 AATTATTTATTTCTGACTTGCGATGTTATTCC-AGT-AGATTCTATAA
*
834294 GACCTCCGGGCATAATTTCGATTCGCGA-TATTGTCTCGATCGATTCTTTA--TTTCTGACTTGC
1 GACCTCCGGGCATAATTTCGATTCG-GAGTATTATCTCGATCGATTCTTTATCTTTC-GACTTGC
* * * **
834356 GATGTTATC-CTGATCAATTTTGTAAGATCTCCGAACATGATTTCTAAGATTTCTAG-GCATAAA
64 GATGTTATCTC-AATCAATTCTGTAAGACCTCCG-ACATGATTTCTAAGACCTC-AGAGCATAAA
* * * * * *
834419 TTCGATTCACGATGTTATCCCGATCGATTCTTTATCTTC-GACTTGCTATGTTATTCTAGTCAAT
126 TTCGATTCACGATATTATCCCGATCGATTCTTTAT-TTCTGACTTGCGATGCTATCCCAATCAAT
* * * * * *
834483 TCTGTAAGA-CTTTCGGGCATGATTTCTAAGACCTCTAGACATAATTTTGATTTACGATGTTGTC
190 TCTGTAAGACCTCT-AGGCATGATTTCTAAAACCTCCAGACATAATTTTGATTTACGACGTTATC
* *
834547 CCGATC-AATTATTTATCTTTTGACTTGCGATGTTATTCCAGTAGATTCTGTAA
254 CCGATCGAATTATTTAT-TTCTGACTTGCGATGTTATTCCAGTAGATTCTATAA
834600 GACCTCCG
1 GACCTCCG
834608 AACATGATTT
Statistics
Matches: 261, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
304 5 0.02
305 45 0.17
306 203 0.78
307 8 0.03
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (306 bp):
GACCTCCGGGCATAATTTCGATTCGGAGTATTATCTCGATCGATTCTTTATCTTTCGACTTGCGA
TGTTATCTCAATCAATTCTGTAAGACCTCCGACATGATTTCTAAGACCTCAGAGCATAAATTCGA
TTCACGATATTATCCCGATCGATTCTTTATTTCTGACTTGCGATGCTATCCCAATCAATTCTGTA
AGACCTCTAGGCATGATTTCTAAAACCTCCAGACATAATTTTGATTTACGACGTTATCCCGATCG
AATTATTTATTTCTGACTTGCGATGTTATTCCAGTAGATTCTATAA
Found at i:834613 original size:219 final size:218
Alignment explanation
Indices: 834304--834736 Score: 507
Period size: 219 Copynumber: 2.0 Consensus size: 218
834294 GACCTCCGGG
* * * * *
834304 CATAATTTCGATTCGCGATATTGTCTCGATCGATTCTTTATTTCTGACTTGCGATGTTATCCTGA
1 CATAATTTCGATTCACGATATTGTCCCGATCAATTATTTATTTCTGACTTGCGATGTTATCCAGA
* * **
834369 TCAATTTTGTAAGATCTCCGAACATGATTTCTAAGATTTCTAGG-CATAAATTCGATTCACGATG
66 TCAATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTC-AGGACATAAATTCGATTCACGATG
* *
834433 TTATCCCGATCGATTCTTTATCTTCGACTTGCT-ATGTTATTCTAG-TCAATTCTGTAAGACTTT
130 TTATCCCGATCGATTCTTTATCTTCGACTT-ATGATGTTA-TCTAGATCAATTCTGTAAGACCTT
*
834496 CGGGCATGATTTCTAAGACCTCTAGA
193 CGGACATGATTTCTAAGACCTCTAGA
* * * *
834522 CATAATTTTGATTTACGATGTTGTCCCGATCAATTATTTATCTTTTGACTTGCGATGTTATTCCA
1 CATAATTTCGATTCACGATATTGTCCCGATCAATTATTTAT-TTCTGACTTGCGATGTTA-TCCA
* * * ***
834587 G-T-AGATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCCGGACATAATTTTGATTTGTGA
64 GATCA-ATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCAGGACATAAATTCGATTCACGA
* * * * * * *
834650 TGTTGTCTCGATCGATTTTTTATTTTTGACTTATGGTGTTATCTCGATCAATTCTGTAAGACCTT
128 TGTTATCCCGATCGATTCTTTATCTTCGACTTATGATGTTATCTAGATCAATTCTGTAAGACCTT
*
834715 CGGACATGATTTTTAAGACCTC
193 CGGACATGATTTCTAAGACCTC
834737 CAAGCATGAT
Statistics
Matches: 179, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
218 42 0.23
219 133 0.74
220 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (218 bp):
CATAATTTCGATTCACGATATTGTCCCGATCAATTATTTATTTCTGACTTGCGATGTTATCCAGA
TCAATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCAGGACATAAATTCGATTCACGATGT
TATCCCGATCGATTCTTTATCTTCGACTTATGATGTTATCTAGATCAATTCTGTAAGACCTTCGG
ACATGATTTCTAAGACCTCTAGA
Found at i:834622 original size:22 final size:22
Alignment explanation
Indices: 834597--834639 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
834587 GTAGATTCTG
*
834597 TAAGACCTCCGAACATGATTTC
1 TAAGACCTCCGAACATAATTTC
*
834619 TAAGACCTCCGGACATAATTT
1 TAAGACCTCCGAACATAATTT
834640 TGATTTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCGAACATAATTTC
Found at i:834734 original size:22 final size:22
Alignment explanation
Indices: 834706--834794 Score: 108
Period size: 22 Copynumber: 4.0 Consensus size: 22
834696 ATCAATTCTG
*
834706 TAAGACCTTCG-GACATGATTTT
1 TAAGACCTCCGAG-CATGATTTT
* *
834728 TAAGACCTCCAAGCATGATTCTG
1 TAAGACCTCCGAGCATGATT-TT
834751 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTCCGAGCATGATTTT
* *
834773 TAAGCCCTCCGAGCATAATTTT
1 TAAGACCTCCGAGCATGATTTT
834795 GATTCACGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
22 37 0.64
23 21 0.36
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (22 bp):
TAAGACCTCCGAGCATGATTTT
Found at i:834737 original size:109 final size:109
Alignment explanation
Indices: 834291--834737 Score: 461
Period size: 109 Copynumber: 4.1 Consensus size: 109
834281 GTCAATTCTA
* * * * *
834291 TAAGACCTCCGGGCATAATTTCGATTCGCGATATTGTCTCGATCGATTCTTTATTTCTGACTTGC
1 TAAGACCTCCGGACATAATTTCGATTCACGATGTTGTCCCGATCGATTCTTTATTTTTGACTTGC
* * *
834356 GATGTTATCCTGA-TCAATTTTGTAAGATCTCCGAACATGATTTC
66 GATGTTATTC-GAGTCAATTCTGTAAGACCTCCGAACATGATTTC
** * * * * *
834400 TAAGATTTCTAGG-CATAAATTCGATTCACGATGTTATCCCGATCGATTCTTTATCTTCGACTTG
1 TAAGACCTC-CGGACATAATTTCGATTCACGATGTTGTCCCGATCGATTCTTTATTTTTGACTTG
* * * * **
834464 CTATGTTATTCTAGTCAATTCTGTAAGACTTTCGGGCATGATTTC
65 CGATGTTATTCGAGTCAATTCTGTAAGACCTCCGAACATGATTTC
** * * * *
834509 TAAGACCTCTAGACATAATTTTGATTTACGATGTTGTCCCGATCAATTATTTATCTTTTGACTTG
1 TAAGACCTCCGGACATAATTTCGATTCACGATGTTGTCCCGATCGATTCTTTAT-TTTTGACTTG
*
834574 CGATGTTATTCCAGT-AGATTCTGTAAGACCTCCGAACATGATTTC
65 CGATGTTATTCGAGTCA-ATTCTGTAAGACCTCCGAACATGATTTC
* *** * * **
834619 TAAGACCTCCGGACATAATTTTGATTTGTGATGTTGTCTCGATCGATTTTTTATTTTTGACTTAT
1 TAAGACCTCCGGACATAATTTCGATTCACGATGTTGTCCCGATCGATTCTTTATTTTTGACTTGC
* * * *
834684 GGTGTTATCTCGA-TCAATTCTGTAAGACCTTCGGACATGATTTT
66 GATGTTAT-TCGAGTCAATTCTGTAAGACCTCCGAACATGATTTC
834728 TAAGACCTCC
1 TAAGACCTCC
834738 AAGCATGATT
Statistics
Matches: 279, Mismatches: 52, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
108 2 0.01
109 179 0.64
110 98 0.35
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (109 bp):
TAAGACCTCCGGACATAATTTCGATTCACGATGTTGTCCCGATCGATTCTTTATTTTTGACTTGC
GATGTTATTCGAGTCAATTCTGTAAGACCTCCGAACATGATTTC
Found at i:834768 original size:45 final size:45
Alignment explanation
Indices: 834700--834788 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
834690 ATCTCGATCA
*
834700 ATTCTGTAAGACCTTCGGACATGATTTTTAAGACCTCCAAGCATG
1 ATTCTGTAAGACCTCCGGACATGATTTTTAAGACCTCCAAGCATG
* *
834745 ATTCTGTAAGACCTCC-GAGCATGATTTTTAAGCCCTCCGAGCAT
1 ATTCTGTAAGACCTCCGGA-CATGATTTTTAAGACCTCCAAGCAT
834789 AATTTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
ATTCTGTAAGACCTCCGGACATGATTTTTAAGACCTCCAAGCATG
Found at i:834865 original size:132 final size:132
Alignment explanation
Indices: 834723--835035 Score: 386
Period size: 132 Copynumber: 2.4 Consensus size: 132
834713 TTCGGACATG
* * *
834723 ATTTT-TAAGACCTCCAAGCATGATTCTGTAAGACCTCCGAGCATGATTTTTAAGCCCTCC-GAG
1 ATTTTGTAAGACCTCCAAGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCGGA-
** *
834786 CATAATTTTGATTCACGATGTTATCCCGATCGATTCTTTA-TTCTTGACTTGCGGTGTTATCTC-
65 CATAATTTCAATTCACGATGTTATCCCGATCGATTCTTTACTT-TTGACTTGCGGTGTTATCCCA
834849 GATCA
129 G-TCA
*
834854 ATTTTGTAAGACCTCCGAGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCGGAC
1 ATTTTGTAAGACCTCCAAGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCGGAC
* * * *
834919 ATAATTTCAATTCGCGGTGTTATCTCGATCGATTCTTTACCTTTTGACTTGTGGTGTTATCCCAG
66 ATAATTTCAATTCACGATGTTATCCCGATCGATTCTTTA-CTTTTGACTTGCGGTGTTATCCCAG
*
834984 TCG
130 TCA
* ** * * *
834987 ATTCTGTAAGACCT-CTGGCATGATT-TTTAAGAGCTCCGAGCATAATTTC
1 ATTTTGTAAGACCTCCAAGCATGATTCTATAAGACCTCCGAGCATGATTTC
835036 AATTTGTGGT
Statistics
Matches: 159, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
131 26 0.16
132 95 0.60
133 35 0.22
134 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (132 bp):
ATTTTGTAAGACCTCCAAGCATGATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCGGAC
ATAATTTCAATTCACGATGTTATCCCGATCGATTCTTTACTTTTGACTTGCGGTGTTATCCCAGT
CA
Found at i:834877 original size:154 final size:155
Alignment explanation
Indices: 834590--834926 Score: 457
Period size: 154 Copynumber: 2.2 Consensus size: 155
834580 TATTCCAGTA
*** *
834590 GATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCCGGACATAATTTTGATTTGTGATGTTG
1 GATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCCGGACATAATTTTGATTCACGATGTTA
* * * * *
834655 TCTCGATCGATTTTTTATTTTTGACTTATGGTGTTATCTCGATCAATTCTGTAAGACCTTCGGAC
66 TCCCGATCGATTCTTTATTCTTGACTTACGGTGTTATCTCGATCAATTCTGTAAGACCTCCGGAC
*
834720 ATGATT-TTTAAGACCTCCAAGCAT
131 ATGATTCTATAAGACCTCCAAGCAT
* * *
834744 GATTCTGTAAGACCTCCGAGCATGATTTTTAAGCCCTCC-GAGCATAATTTTGATTCACGATGTT
1 GATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCCGGA-CATAATTTTGATTCACGATGTT
* *
834808 ATCCCGATCGATTCTTTATTCTTGACTTGCGGTGTTATCTCGATCAATTTTGTAAGACCTCC-GA
65 ATCCCGATCGATTCTTTATTCTTGACTTACGGTGTTATCTCGATCAATTCTGTAAGACCTCCGGA
*
834872 GCATGATTCTATAAGACCTCCGAGCAT
130 -CATGATTCTATAAGACCTCCAAGCAT
* * *
834899 GATT-TCTAAGACCTCCGGACATAATTTC
1 GATTCTGTAAGACCTCCGAACATGATTTC
834927 AATTCGCGGT
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
153 4 0.03
154 135 0.85
155 20 0.13
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (155 bp):
GATTCTGTAAGACCTCCGAACATGATTTCTAAGACCTCCGGACATAATTTTGATTCACGATGTTA
TCCCGATCGATTCTTTATTCTTGACTTACGGTGTTATCTCGATCAATTCTGTAAGACCTCCGGAC
ATGATTCTATAAGACCTCCAAGCAT
Found at i:834911 original size:22 final size:23
Alignment explanation
Indices: 834860--834915 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
834850 ATCAATTTTG
834860 TAAGACCTCCGAGCATGATTCTA
1 TAAGACCTCCGAGCATGATTCTA
*
834883 TAAGACCTCCGAGCATGATT-TC
1 TAAGACCTCCGAGCATGATTCTA
834905 TAAGACCTCCG
1 TAAGACCTCCG
834916 GACATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (23 bp):
TAAGACCTCCGAGCATGATTCTA
Found at i:835119 original size:109 final size:109
Alignment explanation
Indices: 834876--835226 Score: 420
Period size: 110 Copynumber: 3.2 Consensus size: 109
834866 CTCCGAGCAT
* *
834876 GATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCG-GACATAATTTCAATTCGCGGTGTT
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAG-CATAATTTCAATTCGCGGTGTT
* * *
834940 ATCTCGATCGATTCTTTACCTTTTGACTTGTGGTGTTATCCCAGTC
65 ATC-CGATCGATTCTTTATCTTTCGACTTATGGTGTTATCCCAGTC
* * * * *
834986 GATTCTGTAAGACCT-CTGGCATGATTTTTAAGAGCTCCGAGCATAATTTCAATTTGTGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAATTTCAATTCGCGGTGTTA
* * *
835050 TCCAATTGATTCTTTATCTTTCGACTTATGGTGTTATCCGAGTC
66 TCCGATCGATTCTTTATCTTTCGACTTATGGTGTTATCCCAGTC
* * * * * *
835094 GATTCTGTAAGACCTCCGGGTATGATGTCTAAGATCTCCAAGCATAAATTT-GATTCGCGATGTT
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCAT-AATTTCAATTCGCGGTGTT
* * * * * *
835158 ATTCGGATCGATTCTTTATTTTTCAACTTACGATGTTATCCCAATC
65 A-TCCGATCGATTCTTTATCTTTCGACTTATGGTGTTATCCCAGTC
835204 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
835227 AAATTTGATT
Statistics
Matches: 204, Mismatches: 33, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
108 51 0.25
109 76 0.37
110 77 0.38
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (109 bp):
GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAATTTCAATTCGCGGTGTTA
TCCGATCGATTCTTTATCTTTCGACTTATGGTGTTATCCCAGTC
Found at i:835196 original size:110 final size:108
Alignment explanation
Indices: 834876--835226 Score: 402
Period size: 109 Copynumber: 3.2 Consensus size: 108
834866 CTCCGAGCAT
* * *
834876 GATTCTATAAGACCTCCGAGCATGATTTCTAAGACCTCCGGACATAATTTCAATTCGCGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAG-CATAATTTCAATTCGCGGTGTTA
* *
834941 TCTCGATCGATTCTTTACCTTTT-GACTTGTGGTGTTATCCCAGTC
65 T-TCGATCGATTCTTTA-TTTTTCGACTTATGGTGTTATCCCAGTC
* * * * *
834986 GATTCTGTAAGACCT-CTGGCATGATTTTTAAGAGCTCCGAGCATAATTTCAATTTGTGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCC-AGCATAATTTCAATTCGCGGTGTTA
* * * * *
835050 TCCAATTGATTCTTTATCTTTCGACTTATGGTGTTATCCGAGTC
65 TTCGATCGATTCTTTATTTTTCGACTTATGGTGTTATCCCAGTC
* * * * *
835094 GATTCTGTAAGACCTCCGGGTATGATGTCTAAGATCTCCAAGCATAAATTT-GATTCGCGATGTT
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCC-AGCAT-AATTTCAATTCGCGGTGTT
* * * *
835158 ATTCGGATCGATTCTTTATTTTTCAACTTACGATGTTATCCCAATC
64 ATTC-GATCGATTCTTTATTTTTCGACTTATGGTGTTATCCCAGTC
835204 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
835227 AAATTTGATT
Statistics
Matches: 201, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
107 3 0.01
108 47 0.23
109 76 0.38
110 75 0.37
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (108 bp):
GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAGCATAATTTCAATTCGCGGTGTTAT
TCGATCGATTCTTTATTTTTCGACTTATGGTGTTATCCCAGTC
Found at i:835462 original size:15 final size:15
Alignment explanation
Indices: 835438--835500 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
835428 CATTTTAGTA
*
835438 TAATATTAATAATT-T
1 TAATAATAAT-ATTAT
*
835453 TAATAATAATATTAA
1 TAATAATAATATTAT
*
835468 CAATAATAATATT-T
1 TAATAATAATATTAT
*
835482 TAA-AAAAATAATTAT
1 TAATAATAAT-ATTAT
835497 TAAT
1 TAAT
835501 TATATAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 5 0.13
14 8 0.21
15 25 0.66
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAATAATATTAT
Found at i:835463 original size:21 final size:20
Alignment explanation
Indices: 835429--835467 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
835419 TACTGTTTTC
*
835429 ATTTTAGTATAATATTAATA
1 ATTTTAATATAATATTAATA
835449 ATTTTAATAATAATATTAA
1 ATTTTAAT-ATAATATTAA
835468 CAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTTTAATATAATATTAATA
Found at i:835536 original size:17 final size:16
Alignment explanation
Indices: 835504--835561 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
835494 TATTAATTAT
*
835504 ATAAAAAATAAGAAAAA
1 ATAAAAAA-AAAAAAAA
*
835521 ATAAGAAAACAAAAAAA
1 ATAA-AAAAAAAAAAAA
*
835538 TTAAAAAAAAAAGAAAA
1 ATAAAAAAAAAA-AAAA
835555 ATAAAAA
1 ATAAAAA
835562 GTAGGGTGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.21
17 23 0.68
18 4 0.12
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (16 bp):
ATAAAAAAAAAAAAAA
Found at i:835560 original size:25 final size:27
Alignment explanation
Indices: 835504--835561 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
835494 TATTAATTAT
835504 ATAAAAAATAAGAAAAAATAAGAAAAC
1 ATAAAAAATAAGAAAAAATAAGAAAAC
835531 A-AAAAAATTAA-AAAAAA-AAGAAAA-
1 ATAAAAAA-TAAGAAAAAATAAGAAAAC
835555 ATAAAAA
1 ATAAAAA
835562 GTAGGGTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 1 0.03
25 12 0.41
26 12 0.41
27 4 0.14
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (27 bp):
ATAAAAAATAAGAAAAAATAAGAAAAC
Found at i:835561 original size:26 final size:26
Alignment explanation
Indices: 835506--835554 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
835496 TTAATTATAT
835506 AAAAAATAAGAAAAAATAAGAAAACA
1 AAAAAATAAGAAAAAATAAGAAAACA
835532 AAAAAATTAA-AAAAAA-AAGAAAA
1 AAAAAA-TAAGAAAAAATAAGAAAA
835555 ATAAAAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.32
26 12 0.55
27 3 0.14
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (26 bp):
AAAAAATAAGAAAAAATAAGAAAACA
Found at i:835617 original size:23 final size:23
Alignment explanation
Indices: 835586--835648 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
835576 GCTGCTGTCG
835586 CCCCC-GACCAGCCACCCTACAA
1 CCCCCTGACCAGCCACCCTACAA
* *
835608 CCCCTTGACCAGCCACCCTACAG
1 CCCCCTGACCAGCCACCCTACAA
835631 CCCCCTGACCAGCC-CCCT
1 CCCCCTGACCAGCCACCCT
835649 GTTCAGCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 8 0.22
23 29 0.78
ACGTcount: A:0.21, C:0.59, G:0.11, T:0.10
Consensus pattern (23 bp):
CCCCCTGACCAGCCACCCTACAA
Found at i:835657 original size:12 final size:12
Alignment explanation
Indices: 835585--835649 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
835575 CGCTGCTGTC
835585 GCCCCC-GACCA
1 GCCCCCTGACCA
835596 GCCACCCT-A-CA
1 GCC-CCCTGACCA
* *
835607 ACCCCTTGACCA
1 GCCCCCTGACCA
835619 GCCACCCT-A-CA
1 GCC-CCCTGACCA
835630 GCCCCCTGACCA
1 GCCCCCTGACCA
835642 GCCCCCTG
1 GCCCCCTG
835650 TTCAGCCCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
10 7 0.16
11 14 0.33
12 19 0.44
13 3 0.07
ACGTcount: A:0.20, C:0.57, G:0.14, T:0.09
Consensus pattern (12 bp):
GCCCCCTGACCA
Found at i:838964 original size:52 final size:52
Alignment explanation
Indices: 838878--839022 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
838868 GAAGACTTGT
* * * * * *
838878 AAAATAAGAATTCTAAAAGAAAAAAAATTTTTAATAGGTAAGTTTGACTTAC
1 AAAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAAGTTTAACTTAC
*
838930 AAAAGAAGAATTTTAAAATG-AAAGAGATTCTTAATAGGCAAGTTTAACTTAC
1 AAAAGAAGAATTCTAAAA-GAAAAGAGATTCTTAATAGGCAAGTTTAACTTAC
** * *
838982 AGGAGAAGAATTCTAAGAGAAAAGAGATTCTTAATGGGCAA
1 AAAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAA
839023 ATTTGTATGG
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.01
52 77 0.97
53 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (52 bp):
AAAAGAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAAGTTTAACTTAC
Found at i:841974 original size:19 final size:20
Alignment explanation
Indices: 841939--841976 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
841929 CTCTGGCTAG
841939 TTTTCGATAGAAAATCCCAA
1 TTTTCGATAGAAAATCCCAA
*
841959 TTTTCGAT-GGAAATCCCA
1 TTTTCGATAGAAAATCCCA
841977 GCTCTGGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (20 bp):
TTTTCGATAGAAAATCCCAA
Found at i:842446 original size:28 final size:27
Alignment explanation
Indices: 842386--842447 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
842376 GCCAAGCCAC
*
842386 TTTTATTTTGGTATTTTGTTTATTTTT
1 TTTTATTTTGGTATTTTATTTATTTTT
*
842413 TGTTTATTTT-GTGGTTTTATTTATTTTT
1 T-TTTATTTTGGT-ATTTTATTTATTTTT
842441 GTTTTAT
1 -TTTTAT
842448 GCTATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.10
28 26 0.87
29 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.76
Consensus pattern (27 bp):
TTTTATTTTGGTATTTTATTTATTTTT
Found at i:842680 original size:3 final size:3
Alignment explanation
Indices: 842672--842696 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
842662 CATAAAGTTT
842672 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
842697 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:847627 original size:2 final size:2
Alignment explanation
Indices: 847620--847645 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
847610 GAGTTTCAAA
847620 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
847646 CCACATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:849649 original size:24 final size:24
Alignment explanation
Indices: 849620--849668 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
849610 TTTCTCTGCG
849620 ATACTTTCTGATTTCTCAAAACTT
1 ATACTTTCTGATTTCTCAAAACTT
849644 ATACTTTCTGATTTCTCAAAACTT
1 ATACTTTCTGATTTCTCAAAACTT
849668 A
1 A
849669 AGCTAGAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (24 bp):
ATACTTTCTGATTTCTCAAAACTT
Found at i:852959 original size:2 final size:2
Alignment explanation
Indices: 852952--852987 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
852942 TTCTGCTATT
852952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
852988 AATAAATGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:853200 original size:2 final size:2
Alignment explanation
Indices: 853193--853247 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
853183 ACGTTGATTC
853193 AT AT AT AT AT AT AT 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 AT AT AT AT
853235 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
853248 CACACATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:853575 original size:24 final size:24
Alignment explanation
Indices: 853502--853575 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
853492 TTAAAGAAAG
* *
853502 AATTAT-ATATCATATCATATTC-
1 AATTATAATATTATATAATATTCT
* * *
853524 ATATCATAATTTTATATATTATTCT
1 A-ATTATAATATTATATAATATTCT
853549 AATTATAATATTATATAAT-TTCGT
1 AATTATAATATTATATAATATTC-T
853573 AAT
1 AAT
853576 ATTGCATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 1 0.03
23 7 0.17
24 31 0.77
25 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (24 bp):
AATTATAATATTATATAATATTCT
Found at i:853823 original size:21 final size:22
Alignment explanation
Indices: 853788--853844 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
853778 ATTCAATAAA
*
853788 AAATTAAAATATTAAAATATAATT
1 AAATT-AAAT-TTAAAATAAAATT
*
853812 AAA-TAAATTTAACATAAAATT
1 AAATTAAATTTAAAATAAAATT
853833 AAATTAAATTTA
1 AAATTAAATTTA
853845 TACACTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 14 0.47
22 12 0.40
23 1 0.03
24 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTAAATTTAAAATAAAATT
Found at i:856158 original size:13 final size:13
Alignment explanation
Indices: 856140--856166 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
856130 AAAATTTGTT
856140 TTTTCAAATTTTA
1 TTTTCAAATTTTA
856153 TTTTCAAATTTTA
1 TTTTCAAATTTTA
856166 T
1 T
856167 ATGCTCATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTCAAATTTTA
Found at i:860058 original size:26 final size:26
Alignment explanation
Indices: 860005--860059 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
859995 ACCTTAAAAT
* *
860005 AATAGATACATATATATATATATATA
1 AATAGATACATAGATATATACATATA
* * *
860031 AATAGATAGATAGATATGTACATTTA
1 AATAGATACATAGATATATACATATA
860057 AAT
1 AAT
860060 TGACTTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (26 bp):
AATAGATACATAGATATATACATATA
Found at i:863654 original size:38 final size:38
Alignment explanation
Indices: 863599--863691 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
863589 ATTACCTGCA
*
863599 GCCTCTACCCCTGTAGGGAATATGTTCCACTTGCCAAAT
1 GCCTCTA-CCCTGTAGGGAATATGTTCCACTTGCAAAAT
863638 GCCTCTACCCTGTAGGGAATATGTTCCACTTGCAAAAT
1 GCCTCTACCCTGTAGGGAATATGTTCCACTTGCAAAAT
863676 GCCTCTACCCTGTAGG
1 GCCTCTACCCTGTAGG
863692 AAATTCAGCT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 46 0.87
39 7 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (38 bp):
GCCTCTACCCTGTAGGGAATATGTTCCACTTGCAAAAT
Found at i:864643 original size:15 final size:16
Alignment explanation
Indices: 864619--864681 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 16
864609 CACTTCAGTA
*
864619 TAATATTAATAATT-T
1 TAATAATAATAATTAT
*
864634 TAATAATAAT-ATTAA
1 TAATAATAATAATTAT
* *
864649 CAATAATAAT-ATTTT
1 TAATAATAATAATTAT
864664 TAA-AA-AATAATTAT
1 TAATAATAATAATTAT
864678 TAAT
1 TAAT
864682 TATATAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 23 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAATAATAATTAT
Found at i:866175 original size:15 final size:15
Alignment explanation
Indices: 866153--866189 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
866143 TTCTAAAACC
866153 CCTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
*
866168 CTTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
866183 CCTAAAA
1 CCTAAAA
866190 ATCCTAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTAAAATCCAAAAT
Found at i:866192 original size:16 final size:15
Alignment explanation
Indices: 866156--866193 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
866146 TAAAACCCCT
*
866156 AAAATCCAAAATCTT
1 AAAATCCAAAATCTA
866171 AAAATCCAAAATCCTA
1 AAAATCCAAAAT-CTA
866187 AAAATCC
1 AAAATCC
866194 TAAGGACACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATCCAAAATCTA
Found at i:870010 original size:25 final size:25
Alignment explanation
Indices: 869976--870024 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
869966 TTTTGAAAAG
869976 GAAATAATGTCTTTAAATAACCCAA
1 GAAATAATGTCTTTAAATAACCCAA
*
870001 GAAATAATGTCTTTAAATAGCCCA
1 GAAATAATGTCTTTAAATAACCCA
870025 GTCATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (25 bp):
GAAATAATGTCTTTAAATAACCCAA
Found at i:872756 original size:9 final size:9
Alignment explanation
Indices: 872742--872787 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
872732 AGGATGAGGC
872742 ATAAAAAAA
1 ATAAAAAAA
872751 AT-AAAAAA
1 ATAAAAAAA
*
872759 ATAAACAAA
1 ATAAAAAAA
872768 ATAAAAAAA
1 ATAAAAAAA
872777 ATAAACAAAA
1 ATAAA-AAAA
872787 A
1 A
872788 GGACATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 8 0.24
9 20 0.61
10 5 0.15
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:874532 original size:41 final size:41
Alignment explanation
Indices: 874477--874572 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
874467 TTAAAGTTTT
* *
874477 AAAGTCTCTGTTTAAAAAGAACC-GTTCTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAAAAGAACCAATT-TCAATCAAGATTTC
* * *
874518 AAAGCCTCTATTTAAGAGGAACCAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
874559 AAAGCCTCTGTTTA
1 AAAGCCTCTGTTTA
874573 GAGGGAACCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 46 0.96
42 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
Found at i:874580 original size:41 final size:41
Alignment explanation
Indices: 874504--874581 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
874494 AGAACCGTTC
874504 TCAATCAAGATTTCAAAGCCTCTATTTAAGAGGAACCAATT
1 TCAATCAAGATTTCAAAGCCTCTATTTAAGAGGAACCAATT
*
874545 TCAATCAAGATTTCAAAGCCTCTGTTT-AGAGGGAACC
1 TCAATCAAGATTTCAAAGCCTCTATTTAAGA-GGAACC
874582 TTCCTCAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 3 0.09
41 32 0.91
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (41 bp):
TCAATCAAGATTTCAAAGCCTCTATTTAAGAGGAACCAATT
Found at i:875173 original size:110 final size:109
Alignment explanation
Indices: 874980--875440 Score: 426
Period size: 110 Copynumber: 4.2 Consensus size: 109
874970 ACAAAATCTC
* ** * * * *
874980 TAAGACCTTCGAGCACAACTTTC-AAGACCTCTGGGCATAATTTCGATTCACGATGTTATCCTAA
1 TAAGACCTCCGAGCATGA-TTTCTAAGACCTCCGAGCATAATTTTGATTCACGATGTTATCCCAA
* *
875044 TCAATTCTTTATCTTTCGACTTATGATGTTATCCCAGTCAATTCTG
65 TCGATTCTTTAT-TTTCGACTTATGATGTTATCCCAGTCAATTCTA
** ** *
875090 TAAGACCTCCGAGCATGATTTCTATTACCTCCGAGCATAATTTTGATTCGTGGTGTTATCCCAAT
1 TAAGACCTCCGAGCATGATTTCTAAGACCTCCGAGCATAATTTTGATTCACGATGTTATCCCAAT
* * * *
875155 CGATTCTTTATCTTTCGACTTGTGATATTATCTCAGTCGATTCTA
66 CGATTCTTTAT-TTTCGACTTATGATGTTATCCCAGTCAATTCTA
* * * * * *** * *
875200 TAAGACCTTCGGGCATGATTTTTAAGACCTTCGAGTATAATTTTGATTTGTGGTATTATCCCAAT
1 TAAGACCTCCGAGCATGATTTCTAAGACCTCCGAGCATAATTTTGATTCACGATGTTATCCCAAT
* * * *
875265 CGATTCTTTATTTTTGACTTACGGTGTTATCCC-GATCAATTCTG
66 CGATTCTTTATTTTCGACTTATGATGTTATCCCAG-TCAATTCTA
** * * * *
875309 TAAGACCT-TTAGGCCTGATTTTTAAGACCTCC-AGGCATAATTTTGATTTACGATGTTATCTCA
1 TAAGACCTCCGA-GCATGATTTCTAAGACCTCCGA-GCATAATTTTGATTCACGATGTTATCCCA
* * * * **
875372 ATCGATTTTTTTATTTTTGACTTGTGGTGTTATCCTGGTCAATTCTA
64 ATCGA-TTCTTTATTTTCGACTTATGATGTTATCCCAGTCAATTCTA
*
875419 TAAGACCTCCGAGCATAATTTC
1 TAAGACCTCCGAGCATGATTTC
875441 GATTCGCGGT
Statistics
Matches: 288, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
108 2 0.01
109 81 0.28
110 203 0.70
111 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (109 bp):
TAAGACCTCCGAGCATGATTTCTAAGACCTCCGAGCATAATTTTGATTCACGATGTTATCCCAAT
CGATTCTTTATTTTCGACTTATGATGTTATCCCAGTCAATTCTA
Found at i:875242 original size:22 final size:22
Alignment explanation
Indices: 875200--875243 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
875190 GTCGATTCTA
* *
875200 TAAGACCTTCGGGCATGATTTT
1 TAAGACCTTCGAGCATAATTTT
*
875222 TAAGACCTTCGAGTATAATTTT
1 TAAGACCTTCGAGCATAATTTT
875244 GATTTGTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (22 bp):
TAAGACCTTCGAGCATAATTTT
Found at i:875502 original size:87 final size:88
Alignment explanation
Indices: 875331--875527 Score: 236
Period size: 87 Copynumber: 2.2 Consensus size: 88
875321 GCCTGATTTT
* * * *
875331 TAAGACCTCC-AGGCATAATTTTGATTTACGATGTTATCTCAATCGATTTTTTTATTTTTGACTT
1 TAAGACCTCCGA-GCATAATTTCGATTCACGATGTTATCCCAATCGATTTTTTTATTTCTGACTT
** * *
875395 GTGGTGTTATCCTGGTCAATTCTA
65 ACGGTGTTATCCCGATCAATTCTA
* * *
875419 TAAGACCTCCGAGCATAATTTCGATTCGCGGTGTTGTCCCAATCGA-TTTTTTATTTCTGACTTA
1 TAAGACCTCCGAGCATAATTTCGATTCACGATGTTATCCCAATCGATTTTTTTATTTCTGACTTA
*
875483 CGGTGTTATCCCGATCAATTCTG
66 CGGTGTTATCCCGATCAATTCTA
* * *
875506 TAAGACTTCCGGGCATGATTTC
1 TAAGACCTCCGAGCATAATTTC
875528 TAAGACCTCT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
87 54 0.58
88 38 0.41
89 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (88 bp):
TAAGACCTCCGAGCATAATTTCGATTCACGATGTTATCCCAATCGATTTTTTTATTTCTGACTTA
CGGTGTTATCCCGATCAATTCTA
Found at i:875726 original size:109 final size:109
Alignment explanation
Indices: 875419--875978 Score: 541
Period size: 109 Copynumber: 5.1 Consensus size: 109
875409 GTCAATTCTA
* ** * * * * *
875419 TAAGACCTCC-GAGCATAATTTCGATTCGCGGTGTTGTCCCAATCGATTTTTTATTTCTGACTTA
1 TAAGACCTCCGGA-TATAATTTCGATTTACGATGTTGTCCCGATCGATTCTTTATTTTTAACTTA
*
875483 CGGTGTTATCCC-GATCAATTCTGTAAGACTTCCGGGCATGATTTC
65 CGGTGTTATCCCAG-TCAATTCTGTAAGACCTCCGGGCATGATTTC
* *
875528 TAAGACCTCTAGGCATA-AA-TTCGA-TT-CGCA-G-TGTCCCGATCAATTCTTTATCTTTTGAA
1 TAAGACCTC-CGG-ATATAATTTCGATTTACG-ATGTTGTCCCGATCGATTCTTTAT-TTTT-AA
* * *
875587 -TTACGGTGTTATTCCAGTCGATTCTGTAAGACCTTCGGGCATGATTTC
61 CTTACGGTGTTATCCCAGTCAATTCTGTAAGACCTCCGGGCATGATTTC
* * *
875635 TAAGACCTCCGGATATAATTTTGATTTACGATGTTGTCTCGATCGATTCTTTATTTCTAACTTAC
1 TAAGACCTCCGGATATAATTTCGATTTACGATGTTGTCCCGATCGATTCTTTATTTTTAACTTAC
* *
875700 GGTGTTATCCC-GATCAATTCTATAAGATCTCCGGGCATGATTTC
66 GGTGTTATCCCAG-TCAATTCTGTAAGACCTCCGGGCATGATTTC
* * * * *
875744 TAAGACCTCTAGGCATA-AA-TTCGATTCACGGTGTTATCCCGATAGATTCTTTATCTTTTAACT
1 TAAGACCTC-CGG-ATATAATTTCGATTTACGATGTTGTCCCGATCGATTCTTTAT-TTTTAACT
* * * * * * *
875807 TGCGATGTTATTCCATTCGATTTTGTAAGACCTCCGAGCATGATTTC
63 TACGGTGTTATCCCAGTCAATTCTGTAAGACCTCCGGGCATGATTTC
* * * * *** * *
875854 TAAGACTTCCGAACATAATTTCAATTTTTTATGTTGTCCCGATCAATTCTTTATTTTTGACTTAC
1 TAAGACCTCCGGATATAATTTCGATTTACGATGTTGTCCCGATCGATTCTTTATTTTTAACTTAC
* * *
875919 GGTGTTATCCCAGTAAATTCTATAAGACCTCCGGGCATGATTTT
66 GGTGTTATCCCAGTCAATTCTGTAAGACCTCCGGGCATGATTTC
*
875963 TAAAACCTCCGGATAT
1 TAAGACCTCCGGATAT
875979 GACTCTGTAA
Statistics
Matches: 362, Mismatches: 68, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
105 3 0.01
106 21 0.06
107 61 0.17
108 11 0.03
109 158 0.44
110 102 0.28
111 5 0.01
112 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (109 bp):
TAAGACCTCCGGATATAATTTCGATTTACGATGTTGTCCCGATCGATTCTTTATTTTTAACTTAC
GGTGTTATCCCAGTCAATTCTGTAAGACCTCCGGGCATGATTTC
Found at i:875858 original size:22 final size:22
Alignment explanation
Indices: 875832--875875 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
875822 TTCGATTTTG
* *
875832 TAAGACCTCCGAGCATGATTTC
1 TAAGACCTCCGAACATAATTTC
*
875854 TAAGACTTCCGAACATAATTTC
1 TAAGACCTCCGAACATAATTTC
875876 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGAACATAATTTC
Found at i:875905 original size:219 final size:215
Alignment explanation
Indices: 875419--875971 Score: 725
Period size: 219 Copynumber: 2.5 Consensus size: 215
875409 GTCAATTCTA
* * ** * * *
875419 TAAGACCTCCGAGCATAATTTCGATTCGCGGTGTTGTCCCAATCGATTTTTTATTTCTGACTTAC
1 TAAGACCTCCGAACATAATTTCAATTTACGATGTTGTCCCGATCGATTCTTTATTTCTGACTTAC
*
875484 GGTGTTATCCCGATCAATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCTAGGCATAAATT
66 GGTGTTATCCCGATCAATTCTATAAGAC-TCCGGGCATGATTTCTAAGACCTCTAGGCATAAATT
* *
875549 CGATTCGCAGTGTCCCGATCAATTCTTTATCTTTTGAATTACGGTGTTATTCCAGTCGATTCTGT
130 CGATTCACAGTGTCCCGATCAATTCTTTATCTTTTGAATTACGATGTTATTCCAGTCGATTCTGT
* *
875614 AAGACCTTCGGGCATGATTTC
195 AAGACCTCCGAGCATGATTTC
* * ** * *
875635 TAAGACCTCCGGATATAATTTTGATTTACGATGTTGTCTCGATCGATTCTTTATTTCTAACTTAC
1 TAAGACCTCCGAACATAATTTCAATTTACGATGTTGTCCCGATCGATTCTTTATTTCTGACTTAC
875700 GGTGTTATCCCGATCAATTCTATAAGATCTCCGGGCATGATTTCTAAGACCTCTAGGCATAAATT
66 GGTGTTATCCCGATCAATTCTATAAGA-CTCCGGGCATGATTTCTAAGACCTCTAGGCATAAATT
* * *
875765 CGATTCACGGTGTTATCCCGAT-AGATTCTTTATCTTTT-AACTTGCGATGTTATTCCATTCGAT
130 CGATTCACAGTG---TCCCGATCA-ATTCTTTATCTTTTGAA-TTACGATGTTATTCCAGTCGAT
*
875828 TTTGTAAGACCTCCGAGCATGATTTC
190 TCTGTAAGACCTCCGAGCATGATTTC
* *** * *
875854 TAAGACTTCCGAACATAATTTCAATTTTTTATGTTGTCCCGATCAATTCTTTATTTTTGACTTAC
1 TAAGACCTCCGAACATAATTTCAATTTACGATGTTGTCCCGATCGATTCTTTATTTCTGACTTAC
* * *
875919 GGTGTTATCCC-AGTAAATTCTATAAGACCTCCGGGCATGATTTTTAAAACCTC
66 GGTGTTATCCCGA-TCAATTCTATAAGA-CTCCGGGCATGATTTCTAAGACCTC
875972 CGGATATGAC
Statistics
Matches: 294, Mismatches: 36, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
216 126 0.43
217 1 0.00
218 4 0.01
219 163 0.55
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (215 bp):
TAAGACCTCCGAACATAATTTCAATTTACGATGTTGTCCCGATCGATTCTTTATTTCTGACTTAC
GGTGTTATCCCGATCAATTCTATAAGACTCCGGGCATGATTTCTAAGACCTCTAGGCATAAATTC
GATTCACAGTGTCCCGATCAATTCTTTATCTTTTGAATTACGATGTTATTCCAGTCGATTCTGTA
AGACCTCCGAGCATGATTTC
Found at i:875996 original size:23 final size:22
Alignment explanation
Indices: 875939--876019 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
875929 CAGTAAATTC
*
875939 TATAAGACCTCCGGGCATGATT
1 TATAAGACCTCCGGACATGATT
* * * *
875961 TTTAAAACCTCCGGATATGACTC
1 TATAAGACCTCCGGACATGA-TT
*
875984 TGTAAGACCTCCGGACATGATT
1 TATAAGACCTCCGGACATGATT
876006 TATAAGACCTCCGG
1 TATAAGACCTCCGG
876020 GTATAATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 30 0.62
23 18 0.38
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (22 bp):
TATAAGACCTCCGGACATGATT
Found at i:876028 original size:22 final size:22
Alignment explanation
Indices: 875934--876028 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
875924 TATCCCAGTA
*
875934 AATTCTATAAGACCTCCGGGCAT
1 AATT-TATAAGACCTCCGGACAT
* * * *
875957 GATTTTTAAAACCTCCGGATAT
1 AATTTATAAGACCTCCGGACAT
* * *
875979 GACTCTGTAAGACCTCCGGACAT
1 -AATTTATAAGACCTCCGGACAT
* **
876002 GATTTATAAGACCTCCGGGTAT
1 AATTTATAAGACCTCCGGACAT
876024 AATTT
1 AATTT
876029 TGATTCGCGG
Statistics
Matches: 53, Mismatches: 18, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
22 34 0.64
23 19 0.36
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (22 bp):
AATTTATAAGACCTCCGGACAT
Found at i:876144 original size:22 final size:23
Alignment explanation
Indices: 876088--876155 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
876078 TATCCTGATC
* *
876088 GATTCTGTAAGACCTTCGGACAT
1 GATTCTCTAAGACCTCCGGACAT
876111 GATTCTCTAAGACCTCC-GAGCAT
1 GATTCTCTAAGACCTCCGGA-CAT
876134 GATT-TCTAAGACCTCCGGACAT
1 GATTCTCTAAGACCTCCGGACAT
876156 AATTTCGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
22 17 0.41
23 24 0.59
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (23 bp):
GATTCTCTAAGACCTCCGGACAT
Found at i:876160 original size:22 final size:22
Alignment explanation
Indices: 876095--876161 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
876085 ATCGATTCTG
*
876095 TAAGACCTTCGGACATGATTCTC
1 TAAGACCTCCGGACATGATT-TC
876118 TAAGACCTCC-GAGCATGATTTC
1 TAAGACCTCCGGA-CATGATTTC
*
876140 TAAGACCTCCGGACATAATTTC
1 TAAGACCTCCGGACATGATTTC
876162 GATTCGTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 22 0.55
23 18 0.45
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCGGACATGATTTC
Found at i:876252 original size:132 final size:131
Alignment explanation
Indices: 875967--876271 Score: 380
Period size: 132 Copynumber: 2.3 Consensus size: 131
875957 GATTTTTAAA
* * * * * ** *
875967 ACCTCCGGATATGACTCTGTAAGACCTCCGGACATGATTTATAAGACCTCCGGGTATAATTTTGA
1 ACCTTCGGACATGATTCTCTAAGACCTCCGG-CATGATTTCTAAGACCTCCGGACATAATTTCGA
* * **
876032 TTCGCGGTGTTATCCCGATCGCTTCTTTATTCTTGACTTACGGTGTTATCCTGATCGATTCTGTA
65 TTCGCGATGTTATCCCGATCGATTCTTTATTCTTGACTTACGGTGTTATCCCAATCGATTCTGTA
876097 AG
130 AG
876099 ACCTTCGGACATGATTCTCTAAGACCTCCGAGCATGATTTCTAAGACCTCCGGACATAATTTCGA
1 ACCTTCGGACATGATTCTCTAAGACCTCCG-GCATGATTTCTAAGACCTCCGGACATAATTTCGA
* * * **
876164 TTCGTGATGTTATCCCGATTGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATCGATTCTGT
65 TTCGCGATGTTATCCCGATCGATTCTTTAT-TCTTGACTTACGGTGTTATCCCAATCGATTCTGT
876229 AAG
129 AAG
* *
876232 ACC-TCTGGGCATGATT-TCTAAGACCTCCGGGCATAATTTC
1 ACCTTC-GGACATGATTCTCTAAGACCTCC-GGCATGATTTC
876272 GATTCGTGGT
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
132 104 0.69
133 46 0.31
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (131 bp):
ACCTTCGGACATGATTCTCTAAGACCTCCGGCATGATTTCTAAGACCTCCGGACATAATTTCGAT
TCGCGATGTTATCCCGATCGATTCTTTATTCTTGACTTACGGTGTTATCCCAATCGATTCTGTAA
G
Found at i:876253 original size:22 final size:22
Alignment explanation
Indices: 876228--876271 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
876218 ATCGATTCTG
* *
876228 TAAGACCTCTGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
876250 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATAATTTC
876272 GATTCGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTC
Found at i:876304 original size:110 final size:110
Alignment explanation
Indices: 876111--876463 Score: 449
Period size: 110 Copynumber: 3.2 Consensus size: 110
876101 CTTCGGACAT
* * *
876111 GATTCTCTAAGACCTCCGAGCATGATTTCTAAGACCTCCGGACATAATTTCGATTCGTGATGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGTGATGTTA
* * *
876176 TCCCGATTGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATC
66 TCCCAATCGATTCTTTATCTTTTAACTTGTGGTGTTATCCCAATC
* *
876221 GATTCTGTAAGACCTCTGGGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGTGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGTGATGTTA
* * * * *
876286 TCCCAATCGATTCTTTATCTTTCAACTTATGGTGTTATCCGAGTA
66 TCCCAATCGATTCTTTATCTTTTAACTTGTGGTGTTATCCCAATC
* * *** * *
876331 GATTTTGTAAGACCTCCGGGCATGATGTCTAAGACCTCTAAGCATAAATTT-GCTTCATGATGTT
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCAT-AATTTCGATTCGTGATGTT
* * * *
876395 AT-CCAGATCAATTCCTTATTTTTTAACTTGCGGTGTTATCCCAATC
65 ATCCCA-ATCGATTCTTTATCTTTTAACTTGTGGTGTTATCCCAATC
*
876441 GATTCTGTAAGACCTCTGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
876464 AAATTTGATT
Statistics
Matches: 208, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
109 3 0.01
110 200 0.96
111 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (110 bp):
GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGTGATGTTA
TCCCAATCGATTCTTTATCTTTTAACTTGTGGTGTTATCCCAATC
Found at i:876485 original size:88 final size:88
Alignment explanation
Indices: 876360--876529 Score: 207
Period size: 88 Copynumber: 1.9 Consensus size: 88
876350 GCATGATGTC
* * * * *
876360 TAAGACCTCTAAGCATAAATTTGCTTCATGATGTTATC-CAGATCAATTCCTTATTTTTTAACTT
1 TAAGACCTCTAAGCATAAATTTGATTCACGATATTATCTC-GATCAATTCATTATTTTTCAACTT
*
876424 GCGGTGTTATCCCAATCGATTCTG
65 GCGGTGTCATCCCAATCGATTCTG
** ** * *
876448 TAAGACCTCTGGGCATAAATTTGATTTGCGATATTATCTCGATCGATTCATTATTTTTCGACTTG
1 TAAGACCTCTAAGCATAAATTTGATTCACGATATTATCTCGATCAATTCATTATTTTTCAACTTG
*
876513 CGGTGTCATCCTAATCG
66 CGGTGTCATCCCAATCG
876530 TTTTGTGTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 67 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (88 bp):
TAAGACCTCTAAGCATAAATTTGATTCACGATATTATCTCGATCAATTCATTATTTTTCAACTTG
CGGTGTCATCCCAATCGATTCTG
Found at i:876697 original size:15 final size:16
Alignment explanation
Indices: 876673--876735 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 16
876663 CATTACAGTA
*
876673 TAATATTAATAATT-T
1 TAATAATAATAATTAT
*
876688 TAATAATAAT-ATTAA
1 TAATAATAATAATTAT
* *
876703 CAATAATAAT-ATTTT
1 TAATAATAATAATTAT
876718 TAA-AA-AATAATTAT
1 TAATAATAATAATTAT
876732 TAAT
1 TAAT
876736 TATATAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 23 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAATAATAATTAT
Found at i:877754 original size:12 final size:12
Alignment explanation
Indices: 877737--877761 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
877727 CGAATCGTCA
877737 TTTTTTGAATTT
1 TTTTTTGAATTT
877749 TTTTTTGAATTT
1 TTTTTTGAATTT
877761 T
1 T
877762 ATATTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTGAATTT
Found at i:877783 original size:20 final size:19
Alignment explanation
Indices: 877760--877816 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
877750 TTTTTGAATT
877760 TTATATTTTTTTATATATTA
1 TTATATTTTTTTATAT-TTA
*
877780 TTAT-TTTTGTTAT-TTTAA
1 TTATATTTTTTTATATTT-A
*
877798 GTATA-TTTTTTATATTTA
1 TTATATTTTTTTATATTTA
877816 T
1 T
877817 GCATGATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.07
18 13 0.43
19 11 0.37
20 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
TTATATTTTTTTATATTTA
Found at i:878237 original size:15 final size:15
Alignment explanation
Indices: 878215--878251 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
878205 TTCTAAAACC
878215 CCTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
*
878230 CTTAAAATCCAAAAT
1 CCTAAAATCCAAAAT
878245 CCTAAAA
1 CCTAAAA
878252 ATCCTAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (15 bp):
CCTAAAATCCAAAAT
Found at i:878254 original size:16 final size:15
Alignment explanation
Indices: 878218--878255 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
878208 TAAAACCCCT
*
878218 AAAATCCAAAATCTT
1 AAAATCCAAAATCTA
878233 AAAATCCAAAATCCTA
1 AAAATCCAAAAT-CTA
878249 AAAATCC
1 AAAATCC
878256 TAAAGACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATCCAAAATCTA
Found at i:879661 original size:25 final size:25
Alignment explanation
Indices: 879628--879695 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
879618 AAGTGGTATC
*
879628 AGAGCTGAAGGTTCAAAATGTGAAA
1 AGAGTTGAAGGTTCAAAATGTGAAA
* * *
879653 AGAGTTGAAGATTCAAGATGTGGAA
1 AGAGTTGAAGGTTCAAAATGTGAAA
879678 AGAGTCT-AAGGTTCAAAA
1 AGAGT-TGAAGGTTCAAAA
879696 CATGAAAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.22
Consensus pattern (25 bp):
AGAGTTGAAGGTTCAAAATGTGAAA
Found at i:880152 original size:52 final size:50
Alignment explanation
Indices: 880061--880217 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 50
880051 TGGACAAGAA
* * *
880061 GACTTGCAAAAAAAGAATTTTAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAAAAGAA-TTTAA-AGGAAAAGGATTCTTAATAGGCAAGTTT
*
880113 GACTTGCAAAAAAAGAATTCTAAACGGAAAAGGACTCTTAATAGGCAAGTTT
1 GACTTGCAAAAAAAGAATT-TAAA-GGAAAAGGATTCTTAATAGGCAAGTTT
* * * * *
880165 AACTTACAGAAAAAGAATTTTAAGAGAAGAAGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAAAAAAGAATTTAAAG-GAA-AAGGATTCTTAATAGGCAAGTTT
880217 G
1 G
880218 TATGGTTATA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.01
51 9 0.10
52 80 0.89
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (50 bp):
GACTTGCAAAAAAAGAATTTAAAGGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:887932 original size:2 final size:2
Alignment explanation
Indices: 887925--887952 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
887915 GGAGTTTCAA
887925 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
887953 CCACATTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:893232 original size:2 final size:2
Alignment explanation
Indices: 893225--893264 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
893215 TGGTTATGCG
893225 AT AT AT AT AT AT 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 AT AT AT
893265 GCAGATAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:893824 original size:24 final size:24
Alignment explanation
Indices: 893751--893824 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
893741 TTAAAGAAAG
* *
893751 AATTAT-ATATCATATCATATTC-
1 AATTATAATATTATATAATATTCT
* * *
893773 ATATCATAATTTTATATATTATTCT
1 A-ATTATAATATTATATAATATTCT
893798 AATTATAATATTATATAAT-TTCGT
1 AATTATAATATTATATAATATTC-T
893822 AAT
1 AAT
893825 ATTGCATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 1 0.03
23 7 0.17
24 31 0.77
25 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (24 bp):
AATTATAATATTATATAATATTCT
Found at i:894085 original size:21 final size:21
Alignment explanation
Indices: 894049--894106 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
894039 TATTCAATAA
894049 AAAATTAAA-AAA-TTAAAAT
1 AAAATTAAATAAATTTAAAAT
* *
894068 ATAATTAAATAAATTTAACAT
1 AAAATTAAATAAATTTAAAAT
894089 AAAATTAAATTAAATTTA
1 AAAATTAAA-TAAATTTA
894107 TACACTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.24
20 3 0.09
21 14 0.42
22 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATTAAATAAATTTAAAAT
Found at i:895213 original size:1 final size:1
Alignment explanation
Indices: 895207--895236 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
895197 GCATAAAATT
895207 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
895237 GCCCTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:900190 original size:24 final size:24
Alignment explanation
Indices: 900145--900190 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
900135 GACCCTCAGC
* *
900145 TTGCTGTGCAACTCTCTGTGCTCT
1 TTGCTGTGCAACACTCTCTGCTCT
900169 TTGCTGTGCTAACACT-TCTGCT
1 TTGCTGTGC-AACACTCTCTGCT
900191 TGAATGTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (24 bp):
TTGCTGTGCAACACTCTCTGCTCT
Found at i:910556 original size:9 final size:9
Alignment explanation
Indices: 910537--910584 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
910527 TTCGATTAGT
910537 TTTTTACTTA
1 TTTTTA-TTA
910547 TTTTTATTA
1 TTTTTATTA
**
910556 TTACTATTA
1 TTTTTATTA
910565 TTTATTA-TA
1 TTT-TTATTA
910574 TTTTTATTA
1 TTTTTATTA
910583 TT
1 TT
910585 AAAAATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 3 0.09
9 21 0.66
10 8 0.25
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTATTA
Found at i:910568 original size:16 final size:16
Alignment explanation
Indices: 910540--910572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
910530 GATTAGTTTT
910540 TTACTTATTTTTATTA
1 TTACTTATTTTTATTA
910556 TTAC-TATTATTTATTA
1 TTACTTATT-TTTATTA
910572 T
1 T
910573 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TTACTTATTTTTATTA
Found at i:911549 original size:23 final size:22
Alignment explanation
Indices: 911510--911588 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
911500 AAGTTTATAC
911510 AAAAATAAAATTAAAATAATAA
1 AAAAATAAAATTAAAATAATAA
911532 AAAAATCATAAATT-AAATAATAGA
1 AAAAAT-A-AAATTAAAATAATA-A
* *
911556 AATATATAAAA--AAAATTAAGCAA
1 AA-AAATAAAATTAAAA-TAA-TAA
911579 AAAAATAAAA
1 AAAAATAAAA
911589 AAATAAAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
22 16 0.34
23 18 0.38
24 10 0.21
25 3 0.06
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (22 bp):
AAAAATAAAATTAAAATAATAA
Found at i:912130 original size:20 final size:19
Alignment explanation
Indices: 912100--912148 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
912090 TCAACCAAAA
912100 GTTTT-TTTTTTAATTTTG
1 GTTTTATTTTTTAATTTTG
*
912118 GTTTTAATTTTTTATTTTTG
1 GTTTT-ATTTTTTAATTTTG
912138 GTTTTATTTTT
1 GTTTTATTTTT
912149 ATTTAGCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 17 0.61
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (19 bp):
GTTTTATTTTTTAATTTTG
Found at i:912493 original size:13 final size:13
Alignment explanation
Indices: 912475--912534 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 13
912465 AAAAAAGACC
912475 ATAAAAGAAA-AAA
1 ATAAAA-AAATAAA
912488 ATAAAAAAATAAA
1 ATAAAAAAATAAA
912501 ATAAAGATAAATAATA
1 ATAAA-A-AAATAA-A
*
912517 ATAATAATAATAATA
1 ATAA-AAAAATAA-A
912532 ATA
1 ATA
912535 TTTGGATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
12 3 0.07
13 14 0.34
14 1 0.02
15 16 0.39
16 6 0.15
17 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:912518 original size:3 final size:3
Alignment explanation
Indices: 912510--912534 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
912500 AATAAAGATA
912510 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
912535 TTTGGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.