Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 189 of 196
Found at i:56038819 original size:13 final size:13
Alignment explanation
Indices: 56038801--56038828 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56038791 CTTGTACAAG
56038801 TAAACTTCATAAA
1 TAAACTTCATAAA
56038814 TAAACTTCATAAA
1 TAAACTTCATAAA
56038827 TA
1 TA
56038829 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:56039311 original size:34 final size:35
Alignment explanation
Indices: 56039248--56039314 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
56039238 CAAACACCAG
*
56039248 AAAATATTTTCCAGTAAATTATTTTACAAAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
56039283 AAAATATTTTCCAG-AAATCATTTTACAAAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAAAAAA
56039315 TATTTTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:56039589 original size:19 final size:20
Alignment explanation
Indices: 56039543--56039589 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56039533 ACCCGATTCT
*
56039543 ATATAAAAATTATTTTAAAA
1 ATATAAAAATTATCTTAAAA
*
56039563 A-ATCAAAATTA-CTTAAAA
1 ATATAAAAATTATCTTAAAA
56039581 ATATAAAAA
1 ATATAAAAA
56039590 ATTGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.30
19 15 0.65
20 1 0.04
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAAAATTATCTTAAAA
Found at i:56039700 original size:23 final size:23
Alignment explanation
Indices: 56039670--56039716 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
56039660 TATTACAGAT
56039670 ACTTGTGAAATAGACTCTGGTGC
1 ACTTGTGAAATAGACTCTGGTGC
56039693 ACTTGTGAAATAGACTCTGGTGC
1 ACTTGTGAAATAGACTCTGGTGC
56039716 A
1 A
56039717 TTTTTCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (23 bp):
ACTTGTGAAATAGACTCTGGTGC
Found at i:56041952 original size:22 final size:23
Alignment explanation
Indices: 56041876--56041958 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 23
56041866 CTTAATATAT
* *
56041876 TTTTAAACTTATCATCAATATTA
1 TTTTAAATTTATCATAAATATTA
* *
56041899 TTTT-AATTTATAATATATTATTA
1 TTTTAAATTTATCATA-AATATTA
*
56041922 TTTTCAATTTATCATAAATA-TA
1 TTTTAAATTTATCATAAATATTA
56041944 TTTTAAATTTATCAT
1 TTTTAAATTTATCAT
56041959 GTATTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 24 0.47
23 17 0.33
24 10 0.20
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTAAATTTATCATAAATATTA
Found at i:56042002 original size:25 final size:23
Alignment explanation
Indices: 56041942--56041999 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
56041932 ATCATAAATA
*
56041942 TATTTTAAATTTATCATGTATTTT
1 TATTTTAAATTCATCATGTA-TTT
*
56041966 TTTATTTAAATTCATCATGTATTAT
1 TAT-TTTAAATTCATCATGTATT-T
56041991 TATTTTAAA
1 TATTTTAAA
56042000 ATTTACCGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (23 bp):
TATTTTAAATTCATCATGTATTT
Found at i:56042292 original size:24 final size:24
Alignment explanation
Indices: 56042265--56042310 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
56042255 ATTTAAATTC
*
56042265 TCTTTTAAATATGTTTATATATCT
1 TCTTTTAAATATATTTATATATCT
*
56042289 TCTTTTAAATCTATTTATATAT
1 TCTTTTAAATATATTTATATAT
56042311 ATAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (24 bp):
TCTTTTAAATATATTTATATATCT
Found at i:56049415 original size:55 final size:57
Alignment explanation
Indices: 56049340--56049454 Score: 180
Period size: 60 Copynumber: 2.0 Consensus size: 57
56049330 TGACTGGGTT
*
56049340 TGGATAAGTACGAGTTTTA-T-TTTATTTTGTTTATTTATTAGGCCCAATTTGTTTC
1 TGGATAAGCACGAGTTTTATTATTTATTTTGTTTATTTATTAGGCCCAATTTGTTTC
56049395 TGGATAAGCACGAGTTTTATTTTACTTTATTTTGTTTATTTATTAGGCCCAATTTGTTTC
1 TGGATAAGCACGAGTTTTA--TTA-TTTATTTTGTTTATTTATTAGGCCCAATTTGTTTC
56049455 CAGACTTTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
55 18 0.33
58 1 0.02
60 35 0.65
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (57 bp):
TGGATAAGCACGAGTTTTATTATTTATTTTGTTTATTTATTAGGCCCAATTTGTTTC
Found at i:56050579 original size:3 final size:3
Alignment explanation
Indices: 56050571--56050595 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56050561 ATTATTGCTA
56050571 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
56050596 TTTTGAGTGT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:56051630 original size:24 final size:24
Alignment explanation
Indices: 56051598--56051656 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
56051588 TCCAGTACTT
*
56051598 CTGCCTTCGGTG-CTGCAAGCACTC
1 CTGCCTTCGGTGTC-ACAAGCACTC
*
56051622 CTGCTTTCGGTGTCACAAGCACTC
1 CTGCCTTCGGTGTCACAAGCACTC
56051646 CTGCCTTCGGT
1 CTGCCTTCGGT
56051657 TCAACTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.29
Consensus pattern (24 bp):
CTGCCTTCGGTGTCACAAGCACTC
Found at i:56051808 original size:21 final size:21
Alignment explanation
Indices: 56051782--56051856 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
56051772 CTCTCACTCA
56051782 TGCTTTTGGAGCATCAAATTC
1 TGCTTTTGGAGCATCAAATTC
* *
56051803 TGCTTTTGGCA-CTTCCAAGACTCC
1 TGCTTTTGG-AGCAT-CAA-A-TTC
* **
56051827 TGTTTTTGGAGTGTCAAATTC
1 TGCTTTTGGAGCATCAAATTC
56051848 TGCTTTTGG
1 TGCTTTTGG
56051857 CTTTTCCGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 21 0.50
22 5 0.12
23 5 0.12
24 11 0.26
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (21 bp):
TGCTTTTGGAGCATCAAATTC
Found at i:56051817 original size:45 final size:45
Alignment explanation
Indices: 56051759--56051886 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
56051749 AAGCGCACCA
* *
56051759 GCTTTTGCCACTTCTC-TCACTCATGCTTTTGGAGCATCAAATTCT
1 GCTTTTGGCACTTC-CAACACTCATGCTTTTGGAGCATCAAATTCT
* * * **
56051804 GCTTTTGGCACTTCCAAGACTCCTGTTTTTGGAGTGTCAAATTCT
1 GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATCAAATTCT
** * * * *
56051849 GCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATC
1 GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATC
56051887 TTCTACTCCT
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
44 1 0.02
45 65 0.98
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (45 bp):
GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATCAAATTCT
Found at i:56052699 original size:21 final size:21
Alignment explanation
Indices: 56052673--56052747 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
56052663 CTCTCACTCA
56052673 TGCTTTTGGAGCATCAAATTC
1 TGCTTTTGGAGCATCAAATTC
* *
56052694 TGCTTTTGGCA-CTTCCAAGACTCC
1 TGCTTTTGG-AGCAT-CAA-A-TTC
* **
56052718 TGTTTTTGGAGTGTCAAATTC
1 TGCTTTTGGAGCATCAAATTC
56052739 TGCTTTTGG
1 TGCTTTTGG
56052748 CTTTTCCGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 21 0.50
22 5 0.12
23 5 0.12
24 11 0.26
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (21 bp):
TGCTTTTGGAGCATCAAATTC
Found at i:56052707 original size:45 final size:45
Alignment explanation
Indices: 56052650--56052777 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
56052640 AAGCGCACCA
*
56052650 GCTTTTGGCACTTCTC-TCACTCATGCTTTTGGAGCATCAAATTCT
1 GCTTTTGGCACTTC-CAACACTCATGCTTTTGGAGCATCAAATTCT
* * * **
56052695 GCTTTTGGCACTTCCAAGACTCCTGTTTTTGGAGTGTCAAATTCT
1 GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATCAAATTCT
** * * * *
56052740 GCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATC
1 GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATC
56052778 TTCTACTCCT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 1 0.01
45 66 0.99
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (45 bp):
GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATCAAATTCT
Found at i:56053595 original size:45 final size:45
Alignment explanation
Indices: 56053543--56053641 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
56053533 AAGCGCACCA
*
56053543 GCTTTTGGCACTTCTC-TCACTCATGCTGTTGGAGCATCAAATTCT
1 GCTTTTGGCACTTC-CAACACTCATGCTGTTGGAGCATCAAATTCT
* * * * **
56053588 GCTTTTGGCACTTCCAAGACTCCTGTTTTTGGAGTGTCAAATTCT
1 GCTTTTGGCACTTCCAACACTCATGCTGTTGGAGCATCAAATTCT
56053633 GCTTTTGGC
1 GCTTTTGGC
56053642 GTTTTCGACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.39
Consensus pattern (45 bp):
GCTTTTGGCACTTCCAACACTCATGCTGTTGGAGCATCAAATTCT
Found at i:56053640 original size:21 final size:21
Alignment explanation
Indices: 56053579--56053641 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
56053569 TGTTGGAGCA
56053579 TCAAATTCTGCTTTTGGCACT
1 TCAAATTCTGCTTTTGGCACT
* * *
56053600 TCCAAGACTCCTGTTTTTGG-AGT
1 T-CAA-A-TTCTGCTTTTGGCACT
56053623 GTCAAATTCTGCTTTTGGC
1 -TCAAATTCTGCTTTTGGC
56053642 GTTTTCGACA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
21 11 0.34
22 4 0.12
23 6 0.19
24 11 0.34
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (21 bp):
TCAAATTCTGCTTTTGGCACT
Found at i:56053904 original size:891 final size:892
Alignment explanation
Indices: 56051694--56055268 Score: 6931
Period size: 893 Copynumber: 4.0 Consensus size: 892
56051684 ACTGGAACTG
*
56051694 CATTTGGTGTGTCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
1 CATTTGGTGTATCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
*
56051759 GCTTTTGCCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
66 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
56051824 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
131 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
56051889 CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
196 CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
56051954 AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
261 AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
56052019 TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
326 TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
56052084 TTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCAT
391 TTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCAT
56052149 GTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAAG
456 GTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAAG
56052214 AAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAGT
521 AAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAGT
56052279 CAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCAA
586 CAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCAA
*
56052344 TTAGGAGATAAAGGTACCCTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCCC
651 TTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCCC
56052409 A-TTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTCAG
716 AGTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTCAG
56052473 CCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCAAC
781 CCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCAAC
56052538 ATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
846 ATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
56052585 CATTTGGTGTATCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
1 CATTTGGTGTATCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
56052650 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
66 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
56052715 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
131 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
56052780 CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
196 CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
56052845 AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
261 AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
56052910 TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
326 TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
56052975 TTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATATTATTTAAAATTCTTTGAGTTCTC
391 TTAAGGTCAAGGGAGTTCGTATACGTATAC--ATATATATATTATTTAAAATTCTTTGAGTTCTC
56053040 ATGTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGA
454 ATGTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGA
*
56053105 AGAAGAGTTGCTTCTTACACACCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGA
519 AGAAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGA
56053170 GTCAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATC
584 GTCAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATC
56053235 AATTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTC
649 AATTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTC
56053300 CCA-TTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTC
714 CCAGTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTC
56053364 AGCCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCA
779 AGCCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCA
56053429 ACATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
844 ACATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
* *
56053478 CATTTGGTGTATCTAATTCCCCAGTATTTGGAACAGTAGGCACATTTGAAGCATCAAGCGCACCA
1 CATTTGGTGTATCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
*
56053543 GCTTTTGGCACTTCTCTCACTCATGCTGTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
66 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
*
56053608 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCGTTTT-CGACAGTCCTACTTTTGGATCATCT
131 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGC-TTTTCCGACACTCCTACTTTTGGATCATCT
56053672 TCTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAG
195 TCTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAG
56053737 TAGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTG
260 TAGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTG
*
56053802 ATCATAGACTTCGAAACTACTTGTACGGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGA
325 ATCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGA
56053867 TTTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCA
390 TTTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCA
*
56053932 TGTAGGACCCCGATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAA
455 TGTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAA
56053997 GAAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAG
520 GAAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAG
56054062 TCAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCA
585 TCAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCA
56054127 ATTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCC
650 ATTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCC
*
56054192 CATGTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGATTGCAGCCAACCGCTC
715 CA-GTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTC
*
56054257 AGCCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGTTCTTCTCCA
779 AGCCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCA
56054322 ACATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
844 ACATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
*
56054371 CATTTGGTGTGTCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
1 CATTTGGTGTATCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
56054436 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
66 GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
56054501 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
131 TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
56054566 CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
196 CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
56054631 AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
261 AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
56054696 TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
326 TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
*
56054761 TTAAGGTCAAGGGAATTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCAT
391 TTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCAT
**
56054826 GTAGGACCCTGATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAAG
456 GTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAAG
56054891 AAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAGT
521 AAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAGT
56054956 CAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCAA
586 CAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCAA
56055021 TTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCCC
651 TTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCCC
56055086 ATGTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTCA
716 A-GTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTCA
*
56055151 GCCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGTTCTTCTCCAA
780 GCCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCAA
56055216 CATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
845 CATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
56055264 CATTT
1 CATTT
56055269 AGTCTAAAAT
Statistics
Matches: 2656, Mismatches: 22, Indels: 10
0.99 0.01 0.00
Matches are distributed among these distances:
891 712 0.27
892 4 0.00
893 1936 0.73
894 4 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (892 bp):
CATTTGGTGTATCTAATTCCCCGGTATTTGGAACAGTAGGCACATTTGGAGCATCAAGCGCACCA
GCTTTTGGCACTTCTCTCACTCATGCTTTTGGAGCATCAAATTCTGCTTTTGGCACTTCCAAGAC
TCCTGTTTTTGGAGTGTCAAATTCTGCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATCTT
CTACTCCTTCATTCAGCTCTGGGTCTAGCCCTGCTTTTGGCCAATCAACACCAGCATTTGCCAGT
AGTCCTTTTGGAACAACTACAATTGGAGCACAGAGTTCTTTTGGTGAGTAACCAAGCCTACTTGA
TCATAGACTTCGAAACTACTTGTACAGTTAGGCAGAAATATATATTTTCATGGGCCTTACATGAT
TTAAGGTCAAGGGAGTTCGTATACGTATACATATATATATTATTTAAAATTCTTTGAGTTCTCAT
GTAGGACCCCAATCTTCTGCACCAGCATTTGGACAGTCAACTTTTGGGGCTCAACGTGGGGGAAG
AAGAGTTGCTTCTTACACGCCTACAATTGACGCTGATAGTAGCATTGGTACACAGATGTTCGAGT
CAATTTCAGCTATGCCTGTTTACAAAGATAAAAGTCATGAGGAGCTGAGATGGGAGGATTATCAA
TTAGGAGATAAAGGTACCTTTGTAAAATATTAAGAAAACCTGGAAGTTATTCATTATTCTTTCCC
AGTTCATTATCGACTAACTTGCTGTAATAATTTGACTGTCAGTTGGACTGCAGCCAACCGCTCAG
CCTTCTGGAGAGATTTGCTCTGGTGTGTCAACTGCACCTACAAGTCCTTGTGGCTCTTCTCCAAC
ATTTGGCCAAACATCTGTAAATCCTCATTCCATCACAAGTACCAATC
Found at i:56054485 original size:21 final size:21
Alignment explanation
Indices: 56054459--56054533 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
56054449 CTCTCACTCA
56054459 TGCTTTTGGAGCATCAAATTC
1 TGCTTTTGGAGCATCAAATTC
* *
56054480 TGCTTTTGGCA-CTTCCAAGACTCC
1 TGCTTTTGG-AGCAT-CAA-A-TTC
* **
56054504 TGTTTTTGGAGTGTCAAATTC
1 TGCTTTTGGAGCATCAAATTC
56054525 TGCTTTTGG
1 TGCTTTTGG
56054534 CTTTTCCGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 21 0.50
22 5 0.12
23 5 0.12
24 11 0.26
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (21 bp):
TGCTTTTGGAGCATCAAATTC
Found at i:56054493 original size:45 final size:45
Alignment explanation
Indices: 56054436--56054563 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
56054426 AAGCGCACCA
*
56054436 GCTTTTGGCACTTCTC-TCACTCATGCTTTTGGAGCATCAAATTCT
1 GCTTTTGGCACTTC-CAACACTCATGCTTTTGGAGCATCAAATTCT
* * * **
56054481 GCTTTTGGCACTTCCAAGACTCCTGTTTTTGGAGTGTCAAATTCT
1 GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATCAAATTCT
** * * * *
56054526 GCTTTTGGCTTTTCCGACACTCCTACTTTTGGATCATC
1 GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATC
56054564 TTCTACTCCT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 1 0.01
45 66 0.99
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (45 bp):
GCTTTTGGCACTTCCAACACTCATGCTTTTGGAGCATCAAATTCT
Found at i:56060565 original size:81 final size:81
Alignment explanation
Indices: 56060471--56060637 Score: 325
Period size: 81 Copynumber: 2.1 Consensus size: 81
56060461 AGAAAGTAAA
*
56060471 TCAACTTATTTTACTAATTATTACCACCAAAAAGATTACTACAAAGAGCAACAAAGAACGTAAAG
1 TCAACTTATTTTACTAATTATTACCACCAAAAAGACTACTACAAAGAGCAACAAAGAACGTAAAG
56060536 GAAAAGGTCTAAAATT
66 GAAAAGGTCTAAAATT
56060552 TCAACTTATTTTACTAATTATTACCACCAAAAAGACTACTACAAAGAGCAACAAAGAACGTAAAG
1 TCAACTTATTTTACTAATTATTACCACCAAAAAGACTACTACAAAGAGCAACAAAGAACGTAAAG
56060617 GAAAAGGTCTAAAATT
66 GAAAAGGTCTAAAATT
56060633 TCAAC
1 TCAAC
56060638 AAATATGCCT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (81 bp):
TCAACTTATTTTACTAATTATTACCACCAAAAAGACTACTACAAAGAGCAACAAAGAACGTAAAG
GAAAAGGTCTAAAATT
Found at i:56064945 original size:37 final size:38
Alignment explanation
Indices: 56064890--56064962 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
56064880 CCGAATATAA
*
56064890 TAAATATATATTTTTTA-TTTTTATTTTTAAAATACTT
1 TAAAAATATATTTTTTATTTTTTATTTTTAAAATACTT
*
56064927 TAAAAATATTTTTTTTATTTTTTTATTTTTAAAATA
1 TAAAAATATATTTTTTA-TTTTTTATTTTTAAAATA
56064963 TTTTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 15 0.47
39 17 0.53
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (38 bp):
TAAAAATATATTTTTTATTTTTTATTTTTAAAATACTT
Found at i:56073231 original size:16 final size:16
Alignment explanation
Indices: 56073210--56073250 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
56073200 ATATTTTATA
*
56073210 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
56073226 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
56073242 TAATTTTAA
1 TAATTTTAA
56073251 ATTTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:56087667 original size:3 final size:3
Alignment explanation
Indices: 56087659--56087700 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
56087649 AATAAGATAT
56087659 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
56087701 AGATGGTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:56089525 original size:27 final size:27
Alignment explanation
Indices: 56089495--56089552 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56089485 AAATTAGTTC
* *
56089495 TTTT-ATTTTATAATAATCTATAATATA
1 TTTTAATTTTATAAAAATAT-TAATATA
*
56089522 TTTTAATTTTATAAAAATATTTATATA
1 TTTTAATTTTATAAAAATATTAATATA
56089549 TTTT
1 TTTT
56089553 GTTATATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTAATTTTATAAAAATATTAATATA
Found at i:56097292 original size:46 final size:46
Alignment explanation
Indices: 56097225--56097314 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
56097215 GTTCCATTAC
56097225 CTTCATATATTGTATATGCTAATCTTGTTTTTCAACCAAACAGTTA
1 CTTCATATATTGTATATGCTAATCTTGTTTTTCAACCAAACAGTTA
56097271 CTTCATATATTGTATATGCTAATCTTGTTTTTCAACCAAACAGT
1 CTTCATATATTGTATATGCTAATCTTGTTTTTCAACCAAACAGT
56097315 GTATCAACGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (46 bp):
CTTCATATATTGTATATGCTAATCTTGTTTTTCAACCAAACAGTTA
Found at i:56106093 original size:16 final size:16
Alignment explanation
Indices: 56106051--56106093 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
56106041 AAATTTAACC
*
56106051 ATTTTATTGAAATAAT
1 ATTTTATTTAAATAAT
*
56106067 ATTTTAATTAAGATAAT
1 ATTTTATTTAA-ATAAT
56106084 -TTTTATTTAA
1 ATTTTATTTAA
56106094 TAAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
ATTTTATTTAAATAAT
Found at i:56107077 original size:38 final size:37
Alignment explanation
Indices: 56107034--56107143 Score: 139
Period size: 38 Copynumber: 2.8 Consensus size: 37
56107024 GACCCATTTT
56107034 TATTTTAAAAATATTTTAAAATTAAAAAATTAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAATT-AAAAAG
*
56107072 TATTTTTAAAATATTTTAAAATTAAAAAAAAAATTAAAAAG
1 TATTTTAAAAATATTTTAAAATT----AAAAAATTAAAAAG
* *
56107113 TATGTAAAAAATATTTTAAAATTTAAAAAAT
1 TATTTTAAAAATATTTTAAAA-TTAAAAAAT
56107144 AAATATATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
38 29 0.46
41 24 0.38
42 10 0.16
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (37 bp):
TATTTTAAAAATATTTTAAAATTAAAAAATTAAAAAG
Found at i:56107114 original size:41 final size:42
Alignment explanation
Indices: 56107034--56107147 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
56107024 GACCCATTTT
56107034 TATTTTAAAAATATTTTAAAATT----AAAAAATTAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAAAATTAAAAAAG
*
56107072 TATTTTTAAAATATTTTAAAATTAAAAAAAAAATT-AAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAAAATTAAAAAAG
* * *
56107113 TATGTAAAAAATATTTTAAAATTTAAAAAATAAAT
1 TATTTTAAAAATATTTTAAAA-TTAAAAAAAAAAT
56107148 ATATTTATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 22 0.33
41 24 0.36
42 20 0.30
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (42 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAAAATTAAAAAAG
Found at i:56115023 original size:24 final size:24
Alignment explanation
Indices: 56114964--56115023 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
56114954 ATAATCAATT
*
56114964 AATATTTTTATATTTGAAATTATTT
1 AATATTTTT-TATTTGAAATTATTA
* **
56114989 AATCTAATTTATTTG-AATATATTA
1 AATATTTTTTATTTGAAAT-TATTA
56115013 AATATTTTTTA
1 AATATTTTTTA
56115024 AAAATATCGA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (24 bp):
AATATTTTTTATTTGAAATTATTA
Found at i:56121246 original size:108 final size:108
Alignment explanation
Indices: 56121094--56121335 Score: 324
Period size: 108 Copynumber: 2.2 Consensus size: 108
56121084 ATTTTCATTG
* * * * * *
56121094 CGGCTTATCTTTTGAGGACTCTGTGTATCTTCATTCCGGTTTATATCTCGAGCTTTTTGTGCATC
1 CGGCTTCTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTCGAGCTTTTTGTGCATC
** *
56121159 TTCATTA-GGATTTATATGTTGAGGACTACTCATGTTTGCATCG
66 TTCATTATGG-TTTATACATTGAGGACTACTCATGTTTGCATCA
* * * *
56121202 CGGTTTTTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTTGAGGTTTTTGTGCATC
1 CGGCTTCTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTCGAGCTTTTTGTGCATC
*
56121267 TTCATTATTGTTTATACATTGAGGACTACTCATGTTTGCATCA
66 TTCATTATGGTTTATACATTGAGGACTACTCATGTTTGCATCA
* *
56121310 TGGCTTCTCTTCTGAGGACTTTGTGT
1 CGGCTTCTCTTTTGAGGACTTTGTGT
56121336 GTCATCATTG
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
108 115 0.99
109 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (108 bp):
CGGCTTCTCTTTTGAGGACTTTGTGTACCTCCATTCCAGATTATATCTCGAGCTTTTTGTGCATC
TTCATTATGGTTTATACATTGAGGACTACTCATGTTTGCATCA
Found at i:56121442 original size:36 final size:35
Alignment explanation
Indices: 56121394--56121479 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 35
56121384 GCTAATACCT
*
56121394 TGAGGACTTTGTGTTTTCCCCTCCGGGCTT-ATCTC
1 TGAGGACTTTGTGTTTTCCCCTCCGAG-TTAATCTC
*
56121429 TAGAGGACTTTGTGTTTTTCCCTCCGAGTTAATCTC
1 T-GAGGACTTTGTGTTTTCCCCTCCGAGTTAATCTC
*
56121465 TGAAGGACTTGGTGT
1 TG-AGGACTTTGTGT
56121480 GTTCTCACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 4 0.09
36 41 0.91
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (35 bp):
TGAGGACTTTGTGTTTTCCCCTCCGAGTTAATCTC
Found at i:56124086 original size:6 final size:6
Alignment explanation
Indices: 56124077--56124102 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
56124067 GAGACAGGGA
56124077 CAGGCT CAGGCT CAGGCT CAGGCT CA
1 CAGGCT CAGGCT CAGGCT CAGGCT CA
56124103 AACTCATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.15
Consensus pattern (6 bp):
CAGGCT
Found at i:56146828 original size:13 final size:14
Alignment explanation
Indices: 56146804--56146837 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
56146794 TATTATGAAT
56146804 TTTTTATATTTTCA
1 TTTTTATATTTTCA
56146818 TTTTTAT-TTTTCA
1 TTTTTATATTTTCA
56146831 TATTTTA
1 T-TTTTA
56146838 ATGTGTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATATTTTCA
Found at i:56153709 original size:9 final size:9
Alignment explanation
Indices: 56153695--56153725 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56153685 GTTAAACGAA
56153695 TCGAGTTAT
1 TCGAGTTAT
*
56153704 TCGAGTTAA
1 TCGAGTTAT
56153713 TCGAGTTAT
1 TCGAGTTAT
56153722 TCGA
1 TCGA
56153726 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56153795 original size:9 final size:9
Alignment explanation
Indices: 56153778--56153814 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56153768 TGAGTTTTCG
56153778 AATTCGAAT
1 AATTCGAAT
*
56153787 AACTCGAAT
1 AATTCGAAT
56153796 AATTCGAAT
1 AATTCGAAT
56153805 AATTCGAAT
1 AATTCGAAT
56153814 A
1 A
56153815 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:56158087 original size:18 final size:18
Alignment explanation
Indices: 56158063--56158110 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
56158053 ATCATTGTTA
56158063 AAAAATTAATATTTTTATT
1 AAAAATTAATATTTTT-TT
56158082 -AAAATTATATATTTTTTT
1 AAAAATTA-ATATTTTTTT
56158100 AAAAATTAATA
1 AAAAATTAATA
56158111 ATTAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAAATTAATATTTTTTT
Found at i:56164311 original size:9 final size:9
Alignment explanation
Indices: 56164294--56164330 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56164284 TGAGTTTTCG
56164294 AATTCGAAT
1 AATTCGAAT
*
56164303 AACTCGAAT
1 AATTCGAAT
56164312 AATTCGAAT
1 AATTCGAAT
56164321 AATTCGAAT
1 AATTCGAAT
56164330 A
1 A
56164331 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:56164572 original size:19 final size:20
Alignment explanation
Indices: 56164532--56164572 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
56164522 CATAAACCCT
*
56164532 CAAAATCTTTTATTTTCCCC
1 CAAAATCTTTTATCTTCCCC
56164552 CAAAAT-TTTTA-CTTCCTCC
1 CAAAATCTTTTATCTTCC-CC
56164571 CA
1 CA
56164573 CTTTTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (20 bp):
CAAAATCTTTTATCTTCCCC
Found at i:56170225 original size:2 final size:2
Alignment explanation
Indices: 56170212--56170243 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
56170202 AATGAATGCC
*
56170212 TA TA TT 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
56170244 AAGTTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:56192578 original size:40 final size:42
Alignment explanation
Indices: 56192504--56192586 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 42
56192494 TGAGATTGAT
*
56192504 TCTTAAGAAATAAAAAAGGAATGAATAAGTAAATAAATGGAGA
1 TCTTAAGAAATAAAAAA-GAATAAATAAGTAAATAAATGGAGA
*
56192547 TCTTGAGAAAT-AAAAA-AATAAATAAGTAAATAAATGGAGA
1 TCTTAAGAAATAAAAAAGAATAAATAAGTAAATAAATGGAGA
56192587 GCAAGCAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 23 0.61
42 5 0.13
43 10 0.26
ACGTcount: A:0.59, C:0.02, G:0.17, T:0.22
Consensus pattern (42 bp):
TCTTAAGAAATAAAAAAGAATAAATAAGTAAATAAATGGAGA
Found at i:56195482 original size:39 final size:39
Alignment explanation
Indices: 56195407--56195483 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
56195397 GTGGTCAGCT
* *
56195407 AGGACATTGCCTCAGGTGTAGTAAAAAAGGAGATCAACC
1 AGGACATTGCCTCAAGTGTAGTAAAAAAGGAAATCAACC
* *
56195446 AGGACATTGTCTCAAGTGTAGTCAAAGAA-GAAATCAAC
1 AGGACATTGCCTCAAGTGTAGT-AAAAAAGGAAATCAAC
56195484 ACTTTCTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 28 0.85
40 5 0.15
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (39 bp):
AGGACATTGCCTCAAGTGTAGTAAAAAAGGAAATCAACC
Found at i:56201476 original size:33 final size:33
Alignment explanation
Indices: 56201406--56201476 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
56201396 AAATGGTAGC
* *
56201406 AAAATAGTGAAAAAACAACAAGAAAATAACAAC
1 AAAATAGTGAAAAAACAACAAGAAAATAAAAAA
*
56201439 AAAATAGT-AAAAAA-AGCAAGAAAATAGTAAAAA
1 AAAATAGTGAAAAAACAACAAGAAAATA--AAAAA
56201472 AAAAT
1 AAAAT
56201477 TTTGCATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.33
32 6 0.18
33 16 0.48
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.11
Consensus pattern (33 bp):
AAAATAGTGAAAAAACAACAAGAAAATAAAAAA
Found at i:56218481 original size:24 final size:25
Alignment explanation
Indices: 56218454--56218500 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56218444 GGATTCTGAA
56218454 ATAGA-AGATCTTGTTTCTTTTGTG
1 ATAGATAGATCTTGTTTCTTTTGTG
* * *
56218478 ATAGATGGTTTTTGTTTCTTTTG
1 ATAGATAGATCTTGTTTCTTTTG
56218501 GTAACACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.55
Consensus pattern (25 bp):
ATAGATAGATCTTGTTTCTTTTGTG
Found at i:56218804 original size:78 final size:78
Alignment explanation
Indices: 56218709--56218864 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
56218699 AACCAACAAA
*
56218709 AATTATTAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCATG
1 AATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCATG
56218774 AAACCAGTTTAAT
66 AAACCAGTTTAAT
*
56218787 AATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCTCTACTGCATG
1 AATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCATG
56218852 AAACCAGTTTAAT
66 AAACCAGTTTAAT
56218865 TGAGGTGCAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (78 bp):
AATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCATG
AAACCAGTTTAAT
Found at i:56220089 original size:3 final size:3
Alignment explanation
Indices: 56220081--56220121 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
56220071 TTCCTTATCA
* *
56220081 TCG TCG TCG TCG TCG TCG TCA TCC TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
56220122 ATGTTCTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.02, C:0.37, G:0.27, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:56220108 original size:21 final size:21
Alignment explanation
Indices: 56220078--56220123 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
56220068 ATCTTCCTTA
*
56220078 TCATCGTCGTCGTCGTCGTCG
1 TCATCCTCGTCGTCGTCGTCG
56220099 TCATCCTCGTCGTCGTCGTCG
1 TCATCCTCGTCGTCGTCGTCG
56220120 TCAT
1 TCAT
56220124 GTTCTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.07, C:0.35, G:0.24, T:0.35
Consensus pattern (21 bp):
TCATCCTCGTCGTCGTCGTCG
Found at i:56221031 original size:20 final size:21
Alignment explanation
Indices: 56221008--56221063 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
56220998 TTATAAATCT
*
56221008 TAAAAAGTAAAAATAAT-ATA
1 TAAAAAGTAAAAAAAATGATA
* *
56221028 TAAAAATTAAAAAAAATGTTA
1 TAAAAAGTAAAAAAAATGATA
*
56221049 TAAGAAGTAAAAAAA
1 TAAAAAGTAAAAAAA
56221064 TTTTAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
TAAAAAGTAAAAAAAATGATA
Found at i:56221252 original size:6 final size:6
Alignment explanation
Indices: 56221235--56221279 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
56221225 ATTTTTCTTT
*
56221235 TTTTATA TTTTTA CTTTTA TTTTTA TTTTTA TTTTCATA TTTTTA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TTTTTA
56221280 ACGTGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 24 0.71
7 4 0.12
8 6 0.18
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:56221534 original size:24 final size:23
Alignment explanation
Indices: 56221506--56221551 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
56221496 TCAAATCGTG
* *
56221506 AATAAAACCTTTTAAATTTAAAAA
1 AATAAAACATTTCAAA-TTAAAAA
56221530 AATAAAACATTTCAAATTAAAA
1 AATAAAACATTTCAAATTAAAA
56221552 TATTGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAAACATTTCAAATTAAAAA
Found at i:56221725 original size:18 final size:17
Alignment explanation
Indices: 56221696--56221770 Score: 78
Period size: 17 Copynumber: 4.0 Consensus size: 17
56221686 GTCCTCAAAA
56221696 TTATTATTTTAAATTTTT
1 TTATT-TTTTAAATTTTT
56221714 TTACTTTTTTAAATATATTCT
1 TTA-TTTTTTAAAT-T-TT-T
*
56221735 TTAGTTTTTTTAAATTTAT
1 TTA--TTTTTTAAATTTTT
56221754 TTATTTTTTAAATTTTT
1 TTATTTTTTAAATTTTT
56221771 AAAAATTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
17 13 0.27
18 11 0.22
19 7 0.14
20 3 0.06
21 5 0.10
22 10 0.20
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (17 bp):
TTATTTTTTAAATTTTT
Found at i:56224467 original size:3 final size:3
Alignment explanation
Indices: 56224461--56224489 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56224451 CGACAGTGAG
56224461 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
56224490 GGGCGTCCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:56229580 original size:21 final size:21
Alignment explanation
Indices: 56229555--56229594 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56229545 AAATTTAATG
*
56229555 GAAAAGATTAATTTCAAAACA
1 GAAAAGATTAATTTAAAAACA
**
56229576 GAAAATCTTAATTTAAAAA
1 GAAAAGATTAATTTAAAAA
56229595 GTGCATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (21 bp):
GAAAAGATTAATTTAAAAACA
Found at i:56238560 original size:30 final size:31
Alignment explanation
Indices: 56238524--56238588 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
56238514 AATAGCTCAA
**
56238524 TGACTTAAAT-AAAACTTTTGAATACTTCAG
1 TGACTTAAATGAAAACTTTCAAATACTTCAG
* *
56238554 TGACTTAAATGGAAACTTTCAAATATTTCAG
1 TGACTTAAATGAAAACTTTCAAATACTTCAG
56238585 TGAC
1 TGAC
56238589 CAAATTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATACTTCAG
Found at i:56241858 original size:25 final size:25
Alignment explanation
Indices: 56241708--56241864 Score: 105
Period size: 25 Copynumber: 6.3 Consensus size: 25
56241698 ATGAGAGTCT
56241708 CGTTATAGGACTCTTTGTGAGCTTCC
1 CGTTATAGG-CTCTTTGTGAGCTTCC
* * *
56241734 CAATTAAAGGCTCTTTGTAAGCTTCC
1 C-GTTATAGGCTCTTTGTGAGCTTCC
* * *
56241760 CG-T-TAGTGCTCGTT-TGAACTTCT
1 CGTTATAG-GCTCTTTGTGAGCTTCC
* **
56241783 CGTTATATGGCTATCCGAT-A-CTTCC
1 CGTTATA-GGCTCTTTG-TGAGCTTCC
*
56241808 CGTTA-AGTGCT-TTTCG-GAGCTACC
1 CGTTATAG-GCTCTTT-GTGAGCTTCC
56241832 CGTTATAGGCTCTTTGTGAGCTTCC
1 CGTTATAGGCTCTTTGTGAGCTTCC
56241857 CGTTATAG
1 CGTTATAG
56241865 TGCTTGAGAG
Statistics
Matches: 99, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
23 13 0.13
24 26 0.26
25 34 0.34
26 19 0.19
27 7 0.07
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
CGTTATAGGCTCTTTGTGAGCTTCC
Found at i:56243599 original size:8 final size:8
Alignment explanation
Indices: 56243576--56243616 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
56243566 AAGAAATAAG
56243576 TATTATAT
1 TATTATAT
56243584 TAATTATAT
1 T-ATTATAT
*
56243593 TATTATAA
1 TATTATAT
56243601 TATTATAT
1 TATTATAT
56243609 TATTATAT
1 TATTATAT
56243617 ATATAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:56243709 original size:17 final size:19
Alignment explanation
Indices: 56243687--56243725 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
56243677 AACAGGGAAG
56243687 AAAGGGAA-AAA-AAAGAA
1 AAAGGGAAGAAAGAAAGAA
56243704 AAAGGGAAGGAAAGAAAGAA
1 AAAGGGAA-GAAAGAAAGAA
56243724 AA
1 AA
56243726 TTTGGGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AAAGGGAAGAAAGAAAGAA
Found at i:56243725 original size:26 final size:26
Alignment explanation
Indices: 56243669--56243725 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
56243659 ACAAAATAGC
*
56243669 AAAACGAAAACAGGGAAGAAAGGGAAA
1 AAAAAGAAAACAGGGAAGAAA-GGAAA
56243696 AAAAAGAAAA-AGGGAAGGAAA-GAAA
1 AAAAAGAAAACAGGGAA-GAAAGGAAA
*
56243721 GAAAA
1 AAAAA
56243726 TTTGGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.30
26 6 0.22
27 13 0.48
ACGTcount: A:0.68, C:0.04, G:0.28, T:0.00
Consensus pattern (26 bp):
AAAAAGAAAACAGGGAAGAAAGGAAA
Found at i:56243725 original size:27 final size:27
Alignment explanation
Indices: 56243669--56243725 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
56243659 ACAAAATAGC
* *
56243669 AAAACGAAAACAGGGAAGAAAGGGAAA
1 AAAAAGAAAACAGGGAAGAAAGGAAAA
*
56243696 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAA
56243722 AAAA
1 AAAA
56243726 TTTGGGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.68, C:0.04, G:0.28, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAA
Found at i:56244723 original size:41 final size:40
Alignment explanation
Indices: 56244646--56244744 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 40
56244636 TTGATGGTAC
* * * * *
56244646 ATTGATTGGAAAGTGGAAAAATGTATTGGTATTGAATTGTAT
1 ATTGATTAGAAAGT-GAAAAATGAATTGGAAATGAATTGT-G
* *
56244688 ATTGATTAGAAAGTGAAAAGTGAATTTGAAATGAATTGTG
1 ATTGATTAGAAAGTGAAAAATGAATTGGAAATGAATTGTG
* *
56244728 ATTGAATCGAAAGTGAA
1 ATTGATTAGAAAGTGAA
56244745 TTTGAAATAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
40 15 0.31
41 20 0.42
42 13 0.27
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.33
Consensus pattern (40 bp):
ATTGATTAGAAAGTGAAAAATGAATTGGAAATGAATTGTG
Found at i:56256514 original size:47 final size:49
Alignment explanation
Indices: 56256439--56256547 Score: 123
Period size: 47 Copynumber: 2.2 Consensus size: 49
56256429 CATGGCAATA
* * * *
56256439 TGTGATATGTGATTTCCTTATAAGACCATATCTGGGATATGGCATCG-G
1 TGTGATATGTGACTTCCGTATAAAACCATAGCTGGGATATGGCATCGAG
* * * *
56256487 TGTGATATGTG-CTTCCGTGTAAAACCATAGCTGGGCTATGGCTTTGATG
1 TGTGATATGTGACTTCCGTATAAAACCATAGCTGGGATATGGCATCGA-G
56256536 TGTGATATGTGA
1 TGTGATATGTGA
56256548 TTATGTGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 27 0.54
48 11 0.22
49 12 0.24
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.36
Consensus pattern (49 bp):
TGTGATATGTGACTTCCGTATAAAACCATAGCTGGGATATGGCATCGAG
Found at i:56257099 original size:25 final size:25
Alignment explanation
Indices: 56257071--56257184 Score: 165
Period size: 25 Copynumber: 4.6 Consensus size: 25
56257061 GAACCTTAGT
*
56257071 GTGCTCTCTAATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
*
56257096 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
56257121 GTGCTCTCTGATTATTAGTACATCC
1 GTGCTCTCTGATTATTAGCACATCA
** *
56257146 GTGCTCTCTGATTATTAGCATGTTA
1 GTGCTCTCTGATTATTAGCACATCA
56257171 GTGCTCTCTGATTA
1 GTGCTCTCTGATTA
56257185 GCACATTTGT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:56257150 original size:50 final size:50
Alignment explanation
Indices: 56257071--56257184 Score: 183
Period size: 50 Copynumber: 2.3 Consensus size: 50
56257061 GAACCTTAGT
*
56257071 GTGCTCTCTAATTATTAGCACATCAGTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCAGTGCTCTCTGATTATTAGCACGTCA
* * * *
56257121 GTGCTCTCTGATTATTAGTACATCCGTGCTCTCTGATTATTAGCATGTTA
1 GTGCTCTCTGATTATTAGCACATCAGTGCTCTCTGATTATTAGCACGTCA
56257171 GTGCTCTCTGATTA
1 GTGCTCTCTGATTA
56257185 GCACATTTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (50 bp):
GTGCTCTCTGATTATTAGCACATCAGTGCTCTCTGATTATTAGCACGTCA
Found at i:56257187 original size:22 final size:22
Alignment explanation
Indices: 56257084--56257202 Score: 76
Period size: 25 Copynumber: 5.0 Consensus size: 22
56257074 CTCTCTAATT
*
56257084 ATTAGCACATCAGTGCTCTCTG
1 ATTAGCACATTAGTGCTCTCTG
* *
56257106 ATTATTAGCACGTCAGTGCTCTCTG
1 ---ATTAGCACATTAGTGCTCTCTG
* **
56257131 ATTATTAGTACATCCGTGCTCTCTG
1 ---ATTAGCACATTAGTGCTCTCTG
**
56257156 ATTATTAGCATGTTAGTGCTCTCTG
1 ---ATTAGCACATTAGTGCTCTCTG
*
56257181 ATTAGCACATTTGTGCTCTCTG
1 ATTAGCACATTAGTGCTCTCTG
56257203 TATAACACTT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
22 19 0.23
25 63 0.77
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (22 bp):
ATTAGCACATTAGTGCTCTCTG
Found at i:56258533 original size:13 final size:13
Alignment explanation
Indices: 56258515--56258539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56258505 TACTTATTGG
56258515 TTAAACCATAAAA
1 TTAAACCATAAAA
56258528 TTAAACCATAAA
1 TTAAACCATAAA
56258540 TTTTGAAAAT
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAACCATAAAA
Found at i:56259406 original size:30 final size:30
Alignment explanation
Indices: 56259365--56259425 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
56259355 CATGTGTAAC
56259365 TATGACGATAAACATGTGAAAATTATTCAA
1 TATGACGATAAACATGTGAAAATTATTCAA
* *
56259395 TATGGCGATAAACATGTGACAATTATTCAA
1 TATGACGATAAACATGTGAAAATTATTCAA
56259425 T
1 T
56259426 TTTACATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (30 bp):
TATGACGATAAACATGTGAAAATTATTCAA
Found at i:56260152 original size:122 final size:122
Alignment explanation
Indices: 56259935--56260181 Score: 494
Period size: 122 Copynumber: 2.0 Consensus size: 122
56259925 GCTTAGTGGT
56259935 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
1 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
56260000 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
66 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
56260057 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
1 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
56260122 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
66 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
56260179 TAA
1 TAA
56260182 AATAAAAAAA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 125 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (122 bp):
TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
Found at i:56261876 original size:25 final size:24
Alignment explanation
Indices: 56261848--56261899 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
56261838 TCAACTCAAC
56261848 TTATTACAACGCGAGACCACTCCAT
1 TTATTACAACGCGAGACCACTCC-T
* *
56261873 TTATTGCAACGGGAGACCACTCCT
1 TTATTACAACGCGAGACCACTCCT
56261897 TTA
1 TTA
56261900 ACTGACCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (24 bp):
TTATTACAACGCGAGACCACTCCT
Found at i:56286727 original size:23 final size:23
Alignment explanation
Indices: 56286698--56286743 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
56286688 GATGCCCATC
56286698 TCTCTCCCTCCACCCAAAAAATA
1 TCTCTCCCTCCACCCAAAAAATA
* *
56286721 TCTCTCCCTCCACTCGAAAAATA
1 TCTCTCCCTCCACCCAAAAAATA
56286744 ATTTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.41, G:0.02, T:0.24
Consensus pattern (23 bp):
TCTCTCCCTCCACCCAAAAAATA
Found at i:56287045 original size:170 final size:170
Alignment explanation
Indices: 56286859--56287194 Score: 591
Period size: 170 Copynumber: 2.0 Consensus size: 170
56286849 AAAAACATGG
* *
56286859 ATGTCGTTCGTCTCTCTCCCTCCATCCTTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATT
1 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
56286924 ATATTGGCATACCATTTCAGTATTTAATTTTTTAATTTGTATTATACTAGAAAAAAAGCCCACTA
66 ATATTGGCATACCATTTCAGTATTTAATTTTTTAATTTGTATTATACTAGAAAAAAAGCCCACTA
*
56286989 TCTTATAGATTTTATTAACACCGTATGTTTTCAACACCGC
131 TCTTATAAATTTTATTAACACCGTATGTTTTCAACACCGC
*
56287029 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACTGTTTCAAACACCCTATTTTGGTAAATAATG
1 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
* * * *
56287094 ATATTGGCATACCATTTCAGTATTTAATTTTTTAATTTGTGTTATACTGGTAAAAAAGTCCACTA
66 ATATTGGCATACCATTTCAGTATTTAATTTTTTAATTTGTATTATACTAGAAAAAAAGCCCACTA
*
56287159 TCTTATAAATTTTATTAACACCGTATGTTTTTAACA
131 TCTTATAAATTTTATTAACACCGTATGTTTTCAACA
56287195 TGTCTGATCT
Statistics
Matches: 157, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
170 157 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (170 bp):
ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
ATATTGGCATACCATTTCAGTATTTAATTTTTTAATTTGTATTATACTAGAAAAAAAGCCCACTA
TCTTATAAATTTTATTAACACCGTATGTTTTCAACACCGC
Found at i:56288628 original size:18 final size:18
Alignment explanation
Indices: 56288605--56288639 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56288595 TAATTTTATG
56288605 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
56288623 ATTGGGTTGGGTTGGGT
1 ATTGGGTTGGGTTGGGT
56288640 TGAATACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:56288650 original size:23 final size:23
Alignment explanation
Indices: 56288606--56288653 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
56288596 AATTTTATGA
**
56288606 TTGGGTTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTTGAATAATTGGG
*
56288629 TTGGGTTGGGTTGAATACTTGGG
1 TTGGGTTGGGTTGAATAATTGGG
56288652 TT
1 TT
56288654 TAAATTGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.46, T:0.42
Consensus pattern (23 bp):
TTGGGTTGGGTTGAATAATTGGG
Found at i:56290394 original size:16 final size:15
Alignment explanation
Indices: 56290361--56290399 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
56290351 TCTAGTTTTG
**
56290361 AAAAAAAAACTGTTA
1 AAAAAAAAACTGACA
56290376 AAAAAATAAACTGACA
1 AAAAAA-AAACTGACA
56290392 AAAAAAAA
1 AAAAAAAA
56290400 GGTGATGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAAAAAAACTGACA
Found at i:56290624 original size:20 final size:20
Alignment explanation
Indices: 56290569--56290624 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
56290559 TGGTCAGCCG
56290569 AAAGAGAGAAAGA-AGAAGAA
1 AAAG-GAGAAAGAGAGAAGAA
* **
56290589 AAGAAGAGAATCAGAGAAGAA
1 AA-AGGAGAAAGAGAGAAGAA
*
56290610 AAAGGAGAAGGAGAG
1 AAAGGAGAAAGAGAG
56290625 GGCGGGAAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.34, T:0.02
Consensus pattern (20 bp):
AAAGGAGAAAGAGAGAAGAA
Found at i:56290638 original size:5 final size:5
Alignment explanation
Indices: 56290628--56290652 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56290618 AGGAGAGGGC
56290628 GGGAA GGGAA GGGAA GGGAA GGGAA
1 GGGAA GGGAA GGGAA GGGAA GGGAA
56290653 AAAGAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:56291773 original size:27 final size:27
Alignment explanation
Indices: 56291743--56291796 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56291733 TAGGTAAAAG
*
56291743 ATGAGACCATTGA-TATGGAATTTGTGA
1 ATGAGACCATTGAGT-TGGAATTAGTGA
*
56291770 ATGAGATCATTGAGTTGGAATTAGTGA
1 ATGAGACCATTGAGTTGGAATTAGTGA
56291797 GATAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (27 bp):
ATGAGACCATTGAGTTGGAATTAGTGA
Found at i:56293627 original size:19 final size:19
Alignment explanation
Indices: 56293594--56293641 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
56293584 TAAACAATTC
56293594 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
56293611 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
56293630 AATAATATAAAT
1 AATAATATAAAT
56293642 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:56293910 original size:30 final size:31
Alignment explanation
Indices: 56293865--56293924 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
56293855 GGAGGTGGGA
*
56293865 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
56293896 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
56293925 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:56295733 original size:48 final size:48
Alignment explanation
Indices: 56295662--56295761 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
56295652 ATATTTATTT
*
56295662 AATTAGAATAACTGCAACATTAAAACTTGGAACAAACTTTGTAATATA
1 AATTAGAATAACTGCAACATTAAAACTTGGAACAAACATTGTAATATA
* *
56295710 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACATTGTAATATA
1 AATTAGAATAACTGCAACATTAAAACTTGGAACAAACATTGTAATATA
56295758 AATT
1 AATT
56295762 TTACAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (48 bp):
AATTAGAATAACTGCAACATTAAAACTTGGAACAAACATTGTAATATA
Found at i:56295794 original size:62 final size:62
Alignment explanation
Indices: 56295704--56295823 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 62
56295694 CAAACTTTGT
* * *
56295704 AATATAAATTAGATTAATTGCAACATT-AAAACTTGGAACAAACATTGTAATATAAATTTTAC
1 AATATAAATTAGAATAATTACAACATTAAAAAC-TAGAACAAACATTGTAATATAAATTTTAC
* *
56295766 AATATAAATTA-AATACATTACAATATTAAAAACTAGAACAAACTTTGTAATATAAATT
1 AATATAAATTAGAATA-ATTACAACATTAAAAACTAGAACAAACATTGTAATATAAATT
56295824 AGGTACATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 3 0.06
62 43 0.84
63 5 0.10
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (62 bp):
AATATAAATTAGAATAATTACAACATTAAAAACTAGAACAAACATTGTAATATAAATTTTAC
Found at i:56298958 original size:30 final size:31
Alignment explanation
Indices: 56298903--56298960 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
56298893 CATCAGATTA
*
56298903 TTTTAACAGTTTTGTTTTTTGTTGTCAGTTT
1 TTTTAACAGTTTTATTTTTTGTTGTCAGTTT
56298934 TTTTAACAGTTTTATTTTTT-TTGTCAG
1 TTTTAACAGTTTTATTTTTTGTTGTCAG
56298961 AACTAGAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.64
Consensus pattern (31 bp):
TTTTAACAGTTTTATTTTTTGTTGTCAGTTT
Found at i:56300292 original size:24 final size:22
Alignment explanation
Indices: 56300269--56300312 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
56300259 TAGTTTATTA
*
56300269 ATATTTTGATTTGATTTTTAATT
1 ATATTTTGAATT-ATTTTTAATT
*
56300292 ATATTTTTAATTATTTTTAAT
1 ATATTTTGAATTATTTTTAAT
56300313 CATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
ATATTTTGAATTATTTTTAATT
Found at i:56302451 original size:24 final size:24
Alignment explanation
Indices: 56302415--56302469 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
56302405 TTCCCAATAT
* * *
56302415 ATGGCTATCCGGAGCTTCCCGTTA
1 ATGGCTCTACGGAGCTACCCGTTA
56302439 ATGGCTCTACGGAGCTACCCGTTA
1 ATGGCTCTACGGAGCTACCCGTTA
*
56302463 TTGGCTC
1 ATGGCTC
56302470 GAATGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.25, T:0.29
Consensus pattern (24 bp):
ATGGCTCTACGGAGCTACCCGTTA
Found at i:56302477 original size:24 final size:24
Alignment explanation
Indices: 56302425--56302478 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
56302415 ATGGCTATCC
* * *
56302425 GGAGCTTCCCGTTAATGGCTCTAC
1 GGAGCTACCCGTTAATGGCTCGAA
*
56302449 GGAGCTACCCGTTATTGGCTCGAA
1 GGAGCTACCCGTTAATGGCTCGAA
*
56302473 TGAGCT
1 GGAGCT
56302479 TCCTGATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (24 bp):
GGAGCTACCCGTTAATGGCTCGAA
Found at i:56302870 original size:15 final size:17
Alignment explanation
Indices: 56302852--56302888 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
56302842 AAATACATGG
56302852 AAATGA-TGATAT-ATA
1 AAATGATTGATATAATA
56302867 AAAT-ATTGATATAATA
1 AAATGATTGATATAATA
56302883 AAATGA
1 AAATGA
56302889 ACGATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 10 0.53
16 7 0.37
17 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATGATTGATATAATA
Found at i:56307629 original size:20 final size:20
Alignment explanation
Indices: 56307591--56307629 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56307581 AAGATAAACC
* *
56307591 AAAAAAAAAAGATTTAAAAG
1 AAAAAAAAAACATTAAAAAG
*
56307611 AAAAAAAAATCATTAAAAA
1 AAAAAAAAAACATTAAAAA
56307630 CATTATAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAAAAAAACATTAAAAAG
Found at i:56329961 original size:72 final size:70
Alignment explanation
Indices: 56329830--56329968 Score: 172
Period size: 72 Copynumber: 2.0 Consensus size: 70
56329820 ATAAATGAAG
* * * *
56329830 TTCGAACATGTATATATATGTATATGATCTTAAATTTAGTTAAAGGTAAGACTGTTATATATATA
1 TTCGAAAATGTATATATATGTATAAGATCTTAAATTTAATTAAAGGTAAGACTGATATATATATA
56329895 TAAGA
66 TAAGA
* * * *
56329900 TTCGAAAATGTATATATTTATGTATAAGATTTTGAATTTAATTAAAGGTATGGAC-GATATATTT
1 TTCGAAAATGTATATA--TATGTATAAGATCTTAAATTTAATTAAAGGTA-AGACTGATATATAT
56329964 ATATA
63 ATATA
56329969 TATAAGGTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 15 0.26
72 40 0.69
73 3 0.05
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (70 bp):
TTCGAAAATGTATATATATGTATAAGATCTTAAATTTAATTAAAGGTAAGACTGATATATATATA
TAAGA
Found at i:56330446 original size:41 final size:41
Alignment explanation
Indices: 56330398--56330506 Score: 166
Period size: 41 Copynumber: 2.6 Consensus size: 41
56330388 AATTATAAGT
*
56330398 CTAGCAGGCTAAGTGCCGGTGAT-TGAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATATG-AATCAGGCTATAAAC
* *
56330439 CTAGCAGGCTACGTGCCGGTGATATGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATATGAATCAGGCTATAAAC
56330480 CTAGCAGGCTAAGTGCCGGTGAATATG
1 CTAGCAGGCTAAGTGCCGGTG-ATATG
56330507 TTAAATTATG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 55 0.89
42 7 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATATGAATCAGGCTATAAAC
Found at i:56331289 original size:18 final size:18
Alignment explanation
Indices: 56331266--56331303 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
56331256 GGGTTTGTCA
56331266 TCATTATTATCCATATTT
1 TCATTATTATCCATATTT
*
56331284 TCATTATTATCCCTATTT
1 TCATTATTATCCATATTT
56331302 TC
1 TC
56331304 CGCTAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTATTATCCATATTT
Found at i:56333563 original size:19 final size:19
Alignment explanation
Indices: 56333536--56333572 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56333526 TGTCAGGGTA
56333536 CACGCCAGCAAATCGCGTC
1 CACGCCAGCAAATCGCGTC
* *
56333555 CACGTCAGCAACTCGCGT
1 CACGCCAGCAAATCGCGT
56333573 TGACATGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.41, G:0.22, T:0.14
Consensus pattern (19 bp):
CACGCCAGCAAATCGCGTC
Found at i:56333719 original size:12 final size:11
Alignment explanation
Indices: 56333702--56333734 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
56333692 AACAAATCCT
56333702 CTCTCATATTTC
1 CTCTCA-ATTTC
56333714 CTCTCAA-TTC
1 CTCTCAATTTC
56333724 CTCTCAATTTC
1 CTCTCAATTTC
56333735 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:56333778 original size:29 final size:29
Alignment explanation
Indices: 56333746--56333832 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
56333736 TTCCAAAATT
56333746 CTCTCAAATTCATATTTAATTTCAATTTC
1 CTCTCAAATTCATATTTAATTTCAATTTC
* * * *
56333775 CTCTCAATTTC--CTTCAA----AAATT-
1 CTCTCAAATTCATATTTAATTTCAATTTC
*
56333797 CTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAAATTCATATTTAATTTCAATTTC
56333826 CTCTCAA
1 CTCTCAA
56333833 TTTCCTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 9 0.21
23 4 0.10
24 4 0.10
27 4 0.10
28 4 0.10
29 17 0.40
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (29 bp):
CTCTCAAATTCATATTTAATTTCAATTTC
Found at i:56333785 original size:51 final size:51
Alignment explanation
Indices: 56333717--56333839 Score: 212
Period size: 51 Copynumber: 2.4 Consensus size: 51
56333707 ATATTTCCTC
* * *
56333717 TCAA-TTCCTCTCAATTTCTTTCCAAAATTCTCTCAAATTCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
56333767 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
56333818 TCAATTTCCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
56333840 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 4 0.06
51 65 0.94
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
Found at i:56334990 original size:7 final size:7
Alignment explanation
Indices: 56334980--56335004 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56334970 ATTCGATTGA
56334980 TATTTAG
1 TATTTAG
56334987 TATTTAG
1 TATTTAG
56334994 TATTTAG
1 TATTTAG
56335001 TATT
1 TATT
56335005 ATGTATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:56337097 original size:46 final size:44
Alignment explanation
Indices: 56337030--56337300 Score: 234
Period size: 36 Copynumber: 6.6 Consensus size: 44
56337020 TTTGAGTACT
* *
56337030 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
56337076 TCTGATCAAGTGACAAAGTGAT-A-----AG-T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
*
56337112 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
*
56337158 TCTGATCAAGTGAAAAAGTGATAA---GT-GCTA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
* *
56337194 TCTGATCAAGTGAAAAAAGTGATAA---GT-GCTA--T--ATTTA
1 TCTGATCAAGTG-ACAAAGTGATAAGTGGTAGCTAGCTACACTTA
*
56337231 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TAGCTACACTTA
*
56337276 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
56337301 ATTATACATA
Statistics
Matches: 195, Mismatches: 10, Indels: 43
0.79 0.04 0.17
Matches are distributed among these distances:
36 59 0.30
37 37 0.19
38 1 0.01
39 2 0.01
40 6 0.03
41 2 0.01
42 4 0.02
43 12 0.06
44 7 0.04
45 13 0.07
46 52 0.27
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
Found at i:56337167 original size:82 final size:82
Alignment explanation
Indices: 56337030--56337221 Score: 330
Period size: 82 Copynumber: 2.3 Consensus size: 82
56337020 TTTGAGTACT
* *
56337030 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
56337095 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
56337112 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
56337177 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
*
56337194 TCTGATCAAGTGAAAAAAGTGATAAGTG
1 TCTGATCAAGAG-AAAAAGTGATAAGTG
56337222 CTATATTTAT
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
82 90 0.87
83 14 0.13
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:56337220 original size:119 final size:115
Alignment explanation
Indices: 56337066--56337300 Score: 362
Period size: 119 Copynumber: 2.0 Consensus size: 115
56337056 GGTAGCTTTA
*
56337066 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
56337131 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATC-AGGGAAAAA-TGATAAGT
* * * * *
56337184 GCTATACTTATCTGATCAAGTGAAAAAAGTGATAAGTGCTATATTTATCTGATCAAGTGATAAAG
1 GCTACACTTATCTGATCAAGTG-AAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAG
*
56337249 TGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGACAAATGATAAGT
65 TGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGT
56337300 G
1 G
56337301 ATTATACATA
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
116 9 0.08
117 7 0.06
118 41 0.38
119 51 0.47
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (115 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGT
Found at i:56338721 original size:23 final size:23
Alignment explanation
Indices: 56338685--56338746 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
56338675 TTAAAACCCT
* *
56338685 AACCTTAACATAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
56338708 AATCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
56338731 AACCCTAACCTAATTT
1 AACCCTAACCTAATTT
56338747 TACATAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:56342024 original size:123 final size:122
Alignment explanation
Indices: 56341795--56342136 Score: 483
Period size: 123 Copynumber: 2.8 Consensus size: 122
56341785 CATGCTAATT
*
56341795 TAGCAAAAACGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAG
1 TAGCAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT--AAG
* *
56341860 CGATTTTATATTATTTGCTCAGAAACATC-AAAAAAAATATTTCTTACATGACCTACTG
64 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCTACTG
* * * *
56341918 TAGCAAAAACGCG-CTGACGAGGCCGCGATTTCACAAATTCTTCTCAAATAACATCTTGCT-AGC
1 TAGCAAAAACGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAAGC
* *
56341981 GATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTACTG
65 GATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AA-TATTTCTTACATGACCTACTG
* *
56342041 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTAGAAG
1 TAGCAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT--AAG
**
56342106 CGATTTTATACTATTTTATCAGAAACGTCAA
64 CGATTTTATACTATTTGCTCAGAAACGTCAA
56342137 CTCGAAATTA
Statistics
Matches: 194, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
120 29 0.15
121 6 0.03
122 3 0.02
123 124 0.64
124 1 0.01
126 31 0.16
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (122 bp):
TAGCAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAAGCG
ATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCTACTG
Found at i:56349061 original size:3 final size:3
Alignment explanation
Indices: 56349055--56349079 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56349045 ACAACAACAA
56349055 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
56349080 TGCAAACAGC
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:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:56351911 original size:91 final size:91
Alignment explanation
Indices: 56351634--56351892 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
56351624 TTAAATGTAT
56351634 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
56351699 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
56351725 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
56351790 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
56351816 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
56351881 GAAAATTTATTA
66 GAAAATTTATTA
56351893 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:56352063 original size:16 final size:16
Alignment explanation
Indices: 56352042--56352083 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56352032 TTATTAAATT
*
56352042 ATATATTTTAATTATA
1 ATATATTTTAATAATA
56352058 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
56352073 AT-TATGTTTAA
1 ATATAT-TTTAA
56352084 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:56352068 original size:15 final size:15
Alignment explanation
Indices: 56352033--56352074 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56352023 TTAAGAATTT
*
56352033 TATTAAATTAT-ATA
1 TATTTAATTATAATA
56352047 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
56352061 TATTTAATAATAAT
1 TATTTAATTATAAT
56352075 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:56352309 original size:45 final size:44
Alignment explanation
Indices: 56352228--56352318 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
56352218 ACCTTTATTC
*
56352228 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
56352272 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
56352317 CA
1 CA
56352319 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:56352318 original size:16 final size:16
Alignment explanation
Indices: 56352297--56352334 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
56352287 TTGATTTGCT
*
56352297 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
56352313 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
56352329 AATACA
1 ATTACA
56352335 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:56354266 original size:21 final size:19
Alignment explanation
Indices: 56354242--56354288 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
56354232 GCTAATAAAA
*
56354242 TTTAAAACTTTTTTCTCAAAT
1 TTTAAAACTTTATT-TC-AAT
*
56354263 TTTATAACTTTATTTCAAT
1 TTTAAAACTTTATTTCAAT
56354282 TTTAAAA
1 TTTAAAA
56354289 TAAAAAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 12 0.52
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAACTTTATTTCAAT
Found at i:56355756 original size:19 final size:20
Alignment explanation
Indices: 56355708--56355757 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
56355698 TTTTTTTACT
* *
56355708 TTTTAAATT-TATTATTAAT
1 TTTTAAATTATTTTATTAAA
56355727 TTTTAAA-TATTTTA-TAAA
1 TTTTAAATTATTTTATTAAA
56355745 TTTTAAATTATTT
1 TTTTAAATTATTT
56355758 GTTGACGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAATTATTTTATTAAA
Found at i:56358396 original size:29 final size:29
Alignment explanation
Indices: 56358341--56358396 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
56358331 CAACATTTTA
* **
56358341 AATTATTTTTACTATTTAAAATATAAAGT
1 AATTATTTTTAATATAAAAAATATAAAGT
56358370 AATTATTTTTAATCATAAAAAAT-TAAA
1 AATTATTTTTAAT-ATAAAAAATATAAA
56358397 CAAGTTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (29 bp):
AATTATTTTTAATATAAAAAATATAAAGT
Found at i:56362448 original size:13 final size:13
Alignment explanation
Indices: 56362430--56362456 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56362420 ATAAATGTTA
56362430 TATATTATAATTT
1 TATATTATAATTT
56362443 TATATTATAATTT
1 TATATTATAATTT
56362456 T
1 T
56362457 TACTTAACTT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATTATAATTT
Found at i:56362556 original size:21 final size:21
Alignment explanation
Indices: 56362531--56362573 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56362521 TATAAATTTT
56362531 TATGATTAAAGTTACAAATTA
1 TATGATTAAAGTTACAAATTA
56362552 TATGATTAAAGTTACAAATTA
1 TATGATTAAAGTTACAAATTA
56362573 T
1 T
56362574 TTGCATCGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TATGATTAAAGTTACAAATTA
Found at i:56365745 original size:14 final size:14
Alignment explanation
Indices: 56365726--56365754 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56365716 TTGACTCCTA
56365726 CTACTTTCACCCTG
1 CTACTTTCACCCTG
56365740 CTACTTTCACCCTG
1 CTACTTTCACCCTG
56365754 C
1 C
56365755 AAGGTGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.45, G:0.07, T:0.34
Consensus pattern (14 bp):
CTACTTTCACCCTG
Found at i:56366978 original size:15 final size:16
Alignment explanation
Indices: 56366950--56366984 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
56366940 CATTTTAGTC
56366950 ATCACTTTTAAAAATA
1 ATCACTTTTAAAAATA
*
56366966 ATCA-TTTTGAAAATA
1 ATCACTTTTAAAAATA
56366981 ATCA
1 ATCA
56366985 AAGTTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (16 bp):
ATCACTTTTAAAAATA
Found at i:56368091 original size:48 final size:48
Alignment explanation
Indices: 56368036--56368135 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
56368026 ATGTTAAAAC
56368036 TAAATTTATTGAATTTTTTAGAATTAATGCCAAAATGACAAATTAAAT
1 TAAATTTATTGAATTTTTTAGAATTAATGCCAAAATGACAAATTAAAT
56368084 TAAATTTATTGAATTTTTTAGAATTAATGCCAAAATGACAAATTAAAT
1 TAAATTTATTGAATTTTTTAGAATTAATGCCAAAATGACAAATTAAAT
56368132 TAAA
1 TAAA
56368136 AAAAAGGGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (48 bp):
TAAATTTATTGAATTTTTTAGAATTAATGCCAAAATGACAAATTAAAT
Found at i:56372791 original size:31 final size:29
Alignment explanation
Indices: 56372723--56372792 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
56372713 ATGACCATTT
*
56372723 TATAATTTTTTAAAATTGAATAACCTAAA
1 TATAATTTATTAAAATTGAATAACCTAAA
* * *
56372752 CATAAATTTATTAATAATTTAATAACATTAAA
1 TAT-AATTTATTAA-AATTGAATAAC-CTAAA
56372784 TATAATTTA
1 TATAATTTA
56372793 CCCTATTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 2 0.06
30 9 0.27
31 16 0.48
32 6 0.18
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (29 bp):
TATAATTTATTAAAATTGAATAACCTAAA
Found at i:56394207 original size:31 final size:30
Alignment explanation
Indices: 56394148--56394213 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
56394138 TTTGTTAGTT
* *
56394148 AAATTTGACTATCACCATTTAAAGAGAGTC
1 AAATTTGACAATCACCATTTAAAAAGAGTC
* *
56394178 AAATTTGACAATCAATCTTTTAAAAAGAGTC
1 AAATTTGACAATC-ACCATTTAAAAAGAGTC
*
56394209 GAATT
1 AAATT
56394214 GATGTTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (30 bp):
AAATTTGACAATCACCATTTAAAAAGAGTC
Found at i:56395917 original size:29 final size:30
Alignment explanation
Indices: 56395856--56395924 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
56395846 ACTGGACTTG
*
56395856 AATTTTGAAATATAAAAAGTAAAGGGACTA
1 AATTTTGAAATATAAAAAGTAAAGGAACTA
* *
56395886 AATTTCTGAAA-ATAAAAA-TAGAGGAATTA
1 AATTT-TGAAATATAAAAAGTAAAGGAACTA
56395915 AATTTT-AAAT
1 AATTTTGAAAT
56395925 TTATGAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 13 0.38
30 12 0.35
31 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (30 bp):
AATTTTGAAATATAAAAAGTAAAGGAACTA
Found at i:56397094 original size:29 final size:29
Alignment explanation
Indices: 56397036--56397096 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
56397026 TTAACCTTAT
* * *
56397036 TTTATTCTCTTTAATAGTATAAAAACTAA
1 TTTATTCTATTTAATAATATAAAAAATAA
56397065 TTTATTCTATTTAATAATA-AAATAAATAA
1 TTTATTCTATTTAATAATATAAA-AAATAA
56397094 TTT
1 TTT
56397097 GATTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTATTCTATTTAATAATATAAAAAATAA
Found at i:56400940 original size:29 final size:31
Alignment explanation
Indices: 56400894--56400951 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
56400884 ATTTGAATTT
*
56400894 TAAAATATAAAAAGTAAATAGACTAAATTAC
1 TAAAATATAAAAAGTAAAAAGACTAAATTAC
56400925 TAAAA-ATAAAAA-TAAAAAGACTAAATT
1 TAAAATATAAAAAGTAAAAAGACTAAATT
56400952 TCACATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.54
30 7 0.27
31 5 0.19
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (31 bp):
TAAAATATAAAAAGTAAAAAGACTAAATTAC
Found at i:56401527 original size:113 final size:112
Alignment explanation
Indices: 56401340--56401573 Score: 271
Period size: 113 Copynumber: 2.1 Consensus size: 112
56401330 GATTCACAAA
*
56401340 AAGCGCCGCAAAAAAATAAGGCCAACGACGTCGTTTATTGAGTTTTTGGGCCATTAGCGGCGTTT
1 AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTATTGAGTTTTTGGGCCATTAGCGGCGTTT
*
56401405 TTACAAAAGCGCC-ATAATGCTCCTG-TCTTTAGCGGCG-TTTTCTGAG
66 TTACAAAAGCGCCGATAATGAT-CTGTTCTTTAGCGGCGTTTTTCTG-G
* * * * *
56401451 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTG-TTTTTTGGGCCTTTAGCGGCG
1 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCG-TTT-ATTGAGTTTTTGGGCCATTAGCGGCG
* * * * *
56401515 TTTTCT-TAAAAGCGCCGCTAATGATTTGTTTTTTAGCGGCGTTTTTCTGT
63 TTTT-TACAAAAGCGCCGATAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
56401565 AAGCGCCGC
1 AAGCGCCGC
56401574 TAATAGTAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
111 15 0.14
112 15 0.14
113 37 0.36
114 30 0.29
115 7 0.07
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (112 bp):
AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTATTGAGTTTTTGGGCCATTAGCGGCGTTT
TTACAAAAGCGCCGATAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
Found at i:56401959 original size:18 final size:21
Alignment explanation
Indices: 56401913--56401961 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
56401903 TAGTTCGACT
56401913 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
56401934 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
56401952 AAATTAATAT
1 AAATTAATAT
56401962 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:56402245 original size:15 final size:16
Alignment explanation
Indices: 56402227--56402257 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
56402217 GCTTTAAGAC
56402227 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
56402242 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
56402258 CGTGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Done.