Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168019.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_273, 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: 40397
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Found at i:1084 original size:26 final size:26
Alignment explanation
Indices: 1048--1100 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
1038 GTTGACTTAG
1048 GCATACGGAGTTCATTC-CTAGTCTAA
1 GCATACGGAGTTCATTCTC-AGTCTAA
1074 GCATACGGAGTTCATTCTCAGTCTAA
1 GCATACGGAGTTCATTCTCAGTCTAA
1100 G
1 G
1101 ATCGGACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCTCAGTCTAA
Found at i:1980 original size:26 final size:26
Alignment explanation
Indices: 1944--1994 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1934 GTTGACTTAG
*
1944 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
1970 GCATACGGAGTTCATTCTCAGTCTA
1 GCATACGGAGTTCATTCCCAGTCTA
1995 TGATCAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:2062 original size:896 final size:897
Alignment explanation
Indices: 280--2613 Score: 3162
Period size: 896 Copynumber: 2.6 Consensus size: 897
270 GCCGGAGATA
* * *
280 CGCCGGAGGGCATCCGCCAAAGAACCTGAGCGGATCGGCATTAGGGGTTCCGACGATTGGGGGTG
1 CGCCGGA--GCAT-CGCCAGAGAACCTGA-CCGAGCGGCATT-GGGGTTCCGACGATT-GGGG-G
* * *
345 GCCGGGGGGTGTGGGCGCATATGGATGTGCGATGGGTGCTGGTAACTTGGCCCTTAACATTGGCC
59 GCCAGGGGGTGT--GCGCACAT-GATGTGCGATGGGTGCTGGT-ACTTGGCCCTT-ATATTGGCC
* *
410 CCTATTCCCTTATCAAACCTCGAGAACTAACACCCCCCTT-AAGAGGCATTTGAGATTTTACAGG
119 CCTA-TCCCTCATCAAACCTCGAGAACTCACA-CCCCCTTAAAGA-GCATTTGAGATTTTACAGG
* * *
474 TTTGGCTGCCAAATACCCATTAAAGTGTCTGAAATGGGGGACACTTTTTTCCAAT-GTCACAAAA
181 TTT-GCTGCC-AGTAGCCATTAAAGTGTCTGAAAT-GGGGACACTTTTTTCAAATGGTCACAAAA
*
538 TCCTGTAGCACTT-GAGTTTTTAGGTGAA-TTTTTTGTGC-TGCCAAAAAAAATACAAGGATTCA
243 TCCTGTA-CACTTCGAGTTTTTAGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGA-TCA
* *
600 CCGTCTACCAAGTTTTGGGGCCAAAACTTCTTT-TGAAAAAGTTTT--AAAAATCTCGAACCGTA
306 CC-TCTACCAAG-TTTGGGGCCAAAA-ATCTTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTA
* * * *
662 AAAAGTTTCAAAAATTGTAAAAAATAGATAACGAGTCGTCTTGCCAAGAAACTT--C----A---
368 AAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGC
* * * * **
718 --AAGGGTCCATTGTATGAATTTACAATCCATAAAAATGGCATTGGCACGGCAAAAATACAAAGA
433 TTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGGCATTGGCACGGTAGAAATATGAAGA
781 TGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTGCGCATCCCGCCTCTCTGGTCGGCA
498 TGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTGCGCATCCCGCCTCTCTGGTCGGCA
* * * *
846 TAGTGCTCGCTCGTTCCGCTCGCTCGTTTCGTCGGTTGGCTTAGACATACAGAGTTCATTCCCAG
563 TAGTGCCCGCTCG-T-CGCCCGCTCATTTCGTCAGTTGGCTTAGACATACAGAGTTCATTCCCAG
* ** ** * *
911 TCTAAGATTAGACTAGACCAAGGGTTGTGGCAGCAAGATCGGTAGCATGCTGAGGGGGACCCGGC
626 TCTAAGATTAGACCAGACCAAGGGTTGTGGCAGCAAGATCAATAGCACACTGAAGGGGACCCGAC
* * * *
976 CAATCCCCGGCTTACGCATCCTGCCCTCTGGCATGCTGAGCGCCCGGACGCTTGTTTCGTGGGTT
691 CAATCCCCAGCTTACGCATCCTGCCCTCTGGCAGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTT
*
1041 GACTTAGGCATACGGAGTTCATTCCTAGTCTAAGCATACGGAGTTCATTCTCAGTCTAAGATCGG
756 GACTTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACGGAGTTCATTCTCAGTCTAAGATCGG
* * * *
1106 ACCAGACCAAGGGTTGCGGGTGTACATGCTAGGCTCGGGCATGTGCCGGTGCCTCATTTTTTTTT
821 A-CAGACCAAGGGTTACAGGTGCACATGCTAGGCTCGGGCATGTGCCGGTGCCGCATTTTTTTTT
* *
1171 CGCCCGGGGCACCAT
885 --ACCGAGGCACCAT
** *
1186 CGCCGGAGCATCGCCAGAGAACCTGACCGA-CGGCATTGTTGTTCCGACGATTGGGGGGCCAAGG
1 CGCCGGAGCATCGCCAGAGAACCTGACCGAGCGGCATTGGGGTTCCGACGATTGGGGGGCCAGGG
* *
1250 GGTGTGCGCACATGATGTGCAATGGGTGCTGGTACTTGGCACTTATATTGGCCCCTTATCCCTCA
66 GGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCC-TATCCCTCA
*
1315 TCAAACCTCAAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAG
130 TCAAACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAG
* *
1380 CTATTAAAGTGTCTGAAATGGGGACACTTTTTTTAAATGGTCACAAAATCCTGTACACTTCGAGT
195 CCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGT
* * **
1445 TTTTAGTTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACCT-TACCTAGTTTGGCAC
260 TTTTAGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACCTCTACCAAGTTTGGGGC
** *
1509 CAAAAATCTTTCTGAAAAAATTTTAAAAAAATCAGGAACCATAAAAAGTTTCAAAAATCGTGAAA
325 CAAAAATCTTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCGTGAAA
*
1574 TATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATT
390 AATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATT
* *
1639 TACAAGCCATAAAAATGGCATTGGCAGGGTAGAAATATGAAGATGTGCCTAAACCCACCTACTAC
455 TACAAGCCATAAAAATGGCATTGGCACGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCAC
* *
1704 CCTATCGATCCACGGCTTGCGCATCTCGCCTCTCTGGTCGGCGTAGTGCCCGC-C-T-GCCCGCT
520 CCTATCGATCCACGGCTTGCGCATCCCGCCTCTCTGGTCGGCATAGTGCCCGCTCGTCGCCCGCT
* * **
1766 CATTTCGTCAGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAGGG
585 CATTTCGTCAGTTGGCTTAGACATACAGAGTTCATTCCCAGTCTAAGATTAGACCAGACCAAGGG
* * *
1831 TTGTGGTAG-AGGATCAATAGCACACTGAAGGGGACCCGACCGATCCCCAGCTTACGCATCCTGC
650 TTGTGGCAGCAAGATCAATAGCACACTGAAGGGGACCCGACCAATCCCCAGCTTACGCATCCTG-
* * * *
1895 CCCTCTGGCCGGCTGAGCGCCCGCAGGCTCGTTTCGTTGGTTGACTTAGGCATATGGAGTTCATT
714 CCCTCTGGCAGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* * *
1960 CCCAGTCTAAGCATACGGAGTTCATTCTCAGTCTATGATCAGGTA-GGACCGAGGGTTACAGGTG
779 CCCAGTCTAAGCATACGGAGTTCATTCTCAGTCTAAGATC-GG-ACAGACCAAGGGTTACAGGTG
* *
2024 CACATGTTAGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTACCGAGGCACCAT
842 CACATGCTAGGCTCGGGCATGTGCCGGTGCCGCATTTTTTTTTACCGAGGCACCAT
* * * * *
2080 CGCCGTAGCATCGTCGGAGAACCCGACC-AGCGGCATTGGGGTTCCGACGATTGGGGGATCCAGG
1 CGCCGGAGCATCGCCAGAGAACCTGACCGAGCGGCATTGGGGTTCCGACGATTGGGGG-GCCAGG
* **
2144 GGGTGTGCGTACATGATGTGCGATGGGTGCTCATACTTGGCCCTTATATTGGCCCCCTATCCCTC
65 GGGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGG-CCCCTATCCCTC
* *
2209 ACCAAACCTCGAGAACTCACACCCCCTTTAAAGAGCATTTGAGATTTTACAGGATTGCTGCCAGT
129 ATCAAACCTCGAGAACTCACACCCCC-TTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGT
* * * *
2274 AGCCATTAAAGTGTCTGGAATGGGGACACTTTTTTCGAATGGTCACAAAATCCTATACACTTCGT
193 AGCCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGA
* * * *
2339 GTTTTTAGCTAAATTTTTTTGTGCATGCCCACAAAAATACAAGGATCACGTCTACCAAGTTTGGG
258 GTTTTTAGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACCTCTACCAAGTTTGGG
* * *
2404 GCCAAAACTCCTTCTGAAAAAA--TTAGAAAAAATCTCGAACCGT-AAAAGTTTCAAAAATCATG
323 GCCAAAAATCTTTCTGAAAAAATTTTA-AAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCGTG
*
2466 AAAAATAGAAAATGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGA
387 AAAAATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGA
** *
2531 ATTTACAAGCCATAAAAATGGTGTTGGCATGGTAGAAATATGAAGATGTGCCTAAACCCACCTAC
452 ATTTACAAGCCATAAAAATGGCATTGGCACGGTAGAAATATGAAGATGTGCCTAAACCCACCTAC
*
2596 CACCATATCGATCCACGG
517 CACCCTATCGATCCACGG
2614 TGTTATGAGC
Statistics
Matches: 1276, Mismatches: 123, Indels: 69
0.87 0.08 0.05
Matches are distributed among these distances:
887 5 0.00
888 22 0.02
889 28 0.02
890 115 0.09
891 21 0.02
892 50 0.04
893 39 0.03
894 72 0.06
895 309 0.24
896 390 0.31
897 32 0.03
898 13 0.01
899 4 0.00
900 14 0.01
901 134 0.11
902 3 0.00
903 14 0.01
904 4 0.00
906 7 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (897 bp):
CGCCGGAGCATCGCCAGAGAACCTGACCGAGCGGCATTGGGGTTCCGACGATTGGGGGGCCAGGG
GGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCTATCCCTCAT
CAAACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGC
CATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTT
TTTAGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACCTCTACCAAGTTTGGGGCC
AAAAATCTTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCGTGAAAA
ATAGAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTT
ACAAGCCATAAAAATGGCATTGGCACGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCACC
CTATCGATCCACGGCTTGCGCATCCCGCCTCTCTGGTCGGCATAGTGCCCGCTCGTCGCCCGCTC
ATTTCGTCAGTTGGCTTAGACATACAGAGTTCATTCCCAGTCTAAGATTAGACCAGACCAAGGGT
TGTGGCAGCAAGATCAATAGCACACTGAAGGGGACCCGACCAATCCCCAGCTTACGCATCCTGCC
CTCTGGCAGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCC
CAGTCTAAGCATACGGAGTTCATTCTCAGTCTAAGATCGGACAGACCAAGGGTTACAGGTGCACA
TGCTAGGCTCGGGCATGTGCCGGTGCCGCATTTTTTTTTACCGAGGCACCAT
Found at i:8085 original size:110 final size:110
Alignment explanation
Indices: 7892--8106 Score: 430
Period size: 110 Copynumber: 2.0 Consensus size: 110
7882 ACCGTTGATT
7892 CGCACAATTGGTCATCGTGCTTGGTTGAAAAGCCAATGGTGTGAAGCTACTGTGCGCTGGATTAT
1 CGCACAATTGGTCATCGTGCTTGGTTGAAAAGCCAATGGTGTGAAGCTACTGTGCGCTGGATTAT
7957 GACTGAACGCCTCTAAGTCAGAATCTAGGCTAGAAGTGATACGTA
66 GACTGAACGCCTCTAAGTCAGAATCTAGGCTAGAAGTGATACGTA
8002 CGCACAATTGGTCATCGTGCTTGGTTGAAAAGCCAATGGTGTGAAGCTACTGTGCGCTGGATTAT
1 CGCACAATTGGTCATCGTGCTTGGTTGAAAAGCCAATGGTGTGAAGCTACTGTGCGCTGGATTAT
8067 GACTGAACGCCTCTAAGTCAGAATCTAGGCTAGAAGTGAT
66 GACTGAACGCCTCTAAGTCAGAATCTAGGCTAGAAGTGAT
8107 GCGCACGCCC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (110 bp):
CGCACAATTGGTCATCGTGCTTGGTTGAAAAGCCAATGGTGTGAAGCTACTGTGCGCTGGATTAT
GACTGAACGCCTCTAAGTCAGAATCTAGGCTAGAAGTGATACGTA
Found at i:8932 original size:26 final size:26
Alignment explanation
Indices: 8896--8948 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
8886 TCGGTTCGAT
8896 CTTAGACTGGGAATAAAC-TCTGTATG
1 CTTAGACTGGGAATAAACTTC-GTATG
*
8922 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATAAACTTCGTATG
8948 C
1 C
8949 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATAAACTTCGTATG
Found at i:10426 original size:45 final size:46
Alignment explanation
Indices: 10377--10770 Score: 220
Period size: 45 Copynumber: 8.7 Consensus size: 46
10367 AGCCAGCCTT
* * *
10377 TGGTGCAGGCGGTTGCCTCGACCACCATCGGCACATGT-TAGGTCG
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTCGAGGCCG
* *
10422 TGGTGCGGGTGGTTGCCTCGACCACCATCGGCACATGTCGAGGCCT
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTCGAGGCCG
* * * ***
10468 TGGTGCGGGCAGTTGCCTCGAACACCATCGGCACATG-CCAGGATT
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTCGAGGCCG
* * * * * *
10513 TCGTGCGAGCCGTTGCCTCGAGCACCATCGGCACCA-GTCGA-CCCT
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCA-CATGTCGAGGCCG
* * * * * * * *
10558 TGGTGCCGGTGGTTGCCTTGACCACCATCGGTATAAGAT-G-GCCCC
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATG-TCGAGGCCG
* ** ** * * *
10603 TAGTGTAGGCGGTTGTGTTGAACACCATCGGCACATG-CTG-GGCCT
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTC-GAGGCCG
* * * ** *
10648 TGGTGCGGGCGATTACGTCGACCACCATC-G-ACA-GAAGATGGCCCC
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTCGA-GG-CCG
** * * * * *
10693 TGGTGCAAGCGGTTGCCTTGAACACCATCGGCACGTGTCGGGGCCT
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTCGAGGCCG
* *
10739 TGGTGCGAGC-GTTACCTCGA-CACCATCGGCAC
1 TGGTGCGGGCGGTTGCCTCGACCACCATCGGCAC
10771 TAGCGCCCTT
Statistics
Matches: 268, Mismatches: 66, Indels: 31
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.01
43 3 0.01
44 16 0.06
45 186 0.69
46 55 0.21
47 4 0.01
48 2 0.01
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (46 bp):
TGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGTCGAGGCCG
Found at i:10496 original size:91 final size:90
Alignment explanation
Indices: 10376--10588 Score: 250
Period size: 91 Copynumber: 2.4 Consensus size: 90
10366 AAGCCAGCCT
** * * **
10376 TTGGTGCAGGCGGTTGCCTCGACCACCATCGGCACATGTTAGG-TCGTGGTGCGGGTGGTTGCCT
1 TTGGTGCAGGCGGTTGCCTCGACCACCATCGGCACATGCCAGGAT-GTCGTGCGAGCCGTTGCCT
*
10440 CGACCACCATCGGCA-CATGTCGAGGCC
65 CGACCACCATCGGCACCA-GTCGA-CCC
* * * *
10467 TTGGTGCGGGCAGTTGCCTCGAACACCATCGGCACATGCCAGGATTTCGTGCGAGCCGTTGCCTC
1 TTGGTGCAGGCGGTTGCCTCGACCACCATCGGCACATGCCAGGATGTCGTGCGAGCCGTTGCCTC
*
10532 GAGCACCATCGGCACCAGTCGACCC
66 GACCACCATCGGCACCAGTCGACCC
* * *
10557 TTGGTGCCGGTGGTTGCCTTGACCACCATCGG
1 TTGGTGCAGGCGGTTGCCTCGACCACCATCGG
10589 TATAAGATGG
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
90 29 0.28
91 71 0.69
92 3 0.03
ACGTcount: A:0.15, C:0.31, G:0.32, T:0.22
Consensus pattern (90 bp):
TTGGTGCAGGCGGTTGCCTCGACCACCATCGGCACATGCCAGGATGTCGTGCGAGCCGTTGCCTC
GACCACCATCGGCACCAGTCGACCC
Found at i:10759 original size:90 final size:90
Alignment explanation
Indices: 10577--10766 Score: 249
Period size: 90 Copynumber: 2.1 Consensus size: 90
10567 TGGTTGCCTT
** * * * ** *
10577 GACCACCATCGGTATAAGATGGCCCCTAGTGTAGGCGGTTGTGTTGAACACCATCGGCACATGCT
1 GACCACCATCGACAGAAGATGGCCCCTAGTGCAAGCGGTTGCCTTGAACACCATCGGCACATGCG
* *
10642 GGGCCTTGGTGCGGGCGATTACGTC
66 GGGCCTTGGTGCGAGCGATTACCTC
* *
10667 GACCACCATCGACAGAAGATGGCCCCTGGTGCAAGCGGTTGCCTTGAACACCATCGGCACGTGTC
1 GACCACCATCGACAGAAGATGGCCCCTAGTGCAAGCGGTTGCCTTGAACACCATCGGCACATG-C
10732 GGGGCCTTGGTGCGAGCG-TTACCTC
65 GGGGCCTTGGTGCGAGCGATTACCTC
10757 GA-CACCATCG
1 GACCACCATCG
10767 GCACTAGCGC
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 8 0.09
90 62 0.71
91 17 0.20
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (90 bp):
GACCACCATCGACAGAAGATGGCCCCTAGTGCAAGCGGTTGCCTTGAACACCATCGGCACATGCG
GGGCCTTGGTGCGAGCGATTACCTC
Found at i:10809 original size:87 final size:89
Alignment explanation
Indices: 10623--10814 Score: 203
Period size: 87 Copynumber: 2.2 Consensus size: 89
10613 GGTTGTGTTG
* * * * *
10623 AACACCATCGGCACATGCTGGGCCTTGGTGCGGGCGATTACGTCGACCACCATCGACAGAAGATG
1 AACACCATCGGCACATGCGGGGCCTTGGTGCGAGCGATTACCTCGACCACCATCGACACAAGA-C
*
10688 GCCCCTGGTGCAAGCGGTTGCCTTG
65 GCCCCTGGTGCAAGCGGTTGCCTTC
* * *
10713 AACACCATCGGCACGTGTCGGGGCCTTGGTGCGAGCG-TTACCTCGA-CACCATCGGCACTAG-C
1 AACACCATCGGCACATG-CGGGGCCTTGGTGCGAGCGATTACCTCGACCACCATCGACACAAGAC
* ** *
10775 GCCCTTGGTGCTGGTGGTTGCC-TC
65 GCCCCTGGTGCAAGCGGTTGCCTTC
*
10799 AACCACCATCGACACA
1 AA-CACCATCGGCACA
10815 AGATGGCCCC
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
86 3 0.04
87 29 0.34
89 12 0.14
90 24 0.28
91 17 0.20
ACGTcount: A:0.19, C:0.32, G:0.29, T:0.19
Consensus pattern (89 bp):
AACACCATCGGCACATGCGGGGCCTTGGTGCGAGCGATTACCTCGACCACCATCGACACAAGACG
CCCCTGGTGCAAGCGGTTGCCTTC
Found at i:15040 original size:45 final size:45
Alignment explanation
Indices: 14906--15972 Score: 475
Period size: 45 Copynumber: 23.7 Consensus size: 45
14896 GGCACATGCA
* * **
14906 TCGACCATCATCGGCACAGGCT-GCCCTTTGGT-ACGGGCACTTGCC
1 TCGACCACCATCGGCACATGCTGGCCC-TTGGTGA-GGGCGGTTGCC
* ** * * * * * *
14951 TCAACTGCCATTGGCATAAGCTGGGCCTTAGTGCA-GGCGATTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTG-AGGGCGGTTGCC
* * * *
14996 TCGATCACCATCGACACATGCCGGCCCTTGGTGATGGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
** *
15041 TTAACCACCATCGGCACAAGCTGGCCCTTGGT-ATGGGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGA-GGGCGGTTGCC
* * * * * * * *
15086 TCGACCACCATCAGCATAAGATGGCCCCTGGTGTGGGCAGTTGCA
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * *
15131 TCGAACACCATCAGCACATGCTGGGCCGTGGT-ACGGGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGA-GGGCGGTTGCC
* * * * *
15176 TCAACCACCATCGGCATATGCCGAG-CCTCGGT-ACGAGCGGTTGCC
1 TCGACCACCATCGGCACATGCTG-GCCCTTGGTGA-GGGCGGTTGCC
* ** * * * **
15221 TCAAATACCATCGGCACGTGCCGGGCCTTGGT-ACGGGCCATTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGA-GGGCGGTTGCC
* * * *** *
15266 TCGAGCACCATCAGCACCA-G-TCGGCCTTTGGTGCTAGCAGTTGCC
1 TCGACCACCATCGGCA-CATGCT-GGCCCTTGGTGAGGGCGGTTGCC
* * * * * * *
15311 TCAACCACCATTGGCACAAGATGGCCCCTGGTGCGGGCGGTTGCA
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * * * *
15356 TCAAACACCTTTGGCACATGCTGGGCCTTGGTGTGAGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
** * * * * * *
15401 TCGACCACCATCGATAGAAGAT-GACCTCTGGTGCGGACGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCT-TGGTGAGGGCGGTTGCC
* * * ** *
15446 TCGAACACCATCGGCACGTGCCGAG-CCTTGGTTCGGGTGGTTGCC
1 TCGACCACCATCGGCACATGCTG-GCCCTTGGTGAGGGCGGTTGCC
* * *
15491 TCGACCACCATCGGCAC-TAG-TCGGCCCTTGATGCGAGCGGTTGCC
1 TCGACCACCATCGGCACAT-GCT-GGCCCTTGGTGAGGGCGGTTGCC
* * * * * * ***
15536 TAGACGACCATCGGCACA-GATGGCCCCTGGTAAGGGCAGTTATG
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * *
15580 TCAAACACCATCGACACATGCTGGTCCTTGGTGCGGGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * * *
15625 TTGAACACCATCGGCACATGCTGGGCCTTGGT-ACGAGAGGTTACC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGA-GGGCGGTTGCC
* * * * * * * *
15670 TCGAGCACCATTGGTAAAAGATGGCCCCTGGTGCGGGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * * *
15715 TTGAGCACCATCGGCAC-TAGCCGACCCTTGGTGTGGGCGGTTGCT
1 TCGACCACCATCGGCACAT-GCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * * * * *
15760 TGGACCTCCATCGGCATAAGATGGCTCC-TGGTGCGGACGGTTGCA
1 TCGACCACCATCGGCACATGCTGGC-CCTTGGTGAGGGCGGTTGCC
* * * * * * * * * *
15805 TCGAACACCATCGACTCATGTTGGGCTTTGGTGCGAGCAGTTACC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * *
15850 TCGAACACCATCGGCACATGCTGGGCCTTGGTGCGAGAGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
* * * * * *
15895 TTGGCCACCATCGGTAGAAGATGG-CCTCTGGT-ACGGGCGGTTGCC
1 TCGACCACCATCGGCACATGCTGGCCCT-TGGTGA-GGGCGGTTGCC
* *
15940 TCGAGCACCATCGGCACAAG-TCGGCCCTTGGTG
1 TCGACCACCATCGGCACATGCT-GGCCCTTGGTG
15973 TAGGTGTCAC
Statistics
Matches: 757, Mismatches: 231, Indels: 67
0.72 0.22 0.06
Matches are distributed among these distances:
44 44 0.06
45 697 0.92
46 14 0.02
47 2 0.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.21
Consensus pattern (45 bp):
TCGACCACCATCGGCACATGCTGGCCCTTGGTGAGGGCGGTTGCC
Found at i:15654 original size:134 final size:135
Alignment explanation
Indices: 15339--15654 Score: 316
Period size: 134 Copynumber: 2.3 Consensus size: 135
15329 AGATGGCCCC
* * * * * * *
15339 TGGTGCGGGCGGTTGCATCAAACACCTTTGGCACATGCTGGGCCTTGGTGTGAGCGGTTGCCTCG
1 TGGTGCGGGCGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGATGCGAGCGGTTGCCTAG
* * ** * * * * *
15404 ACCACCATCGATAGAAGATGACCTCTGGTGCGGACGGTTGCCTCGAACACCATCGGCACGTGCCG
66 ACCACCATCGACAGAAGATGACCCCTGGTAAGGACAGTTACCTCAAACACCATCGACACATGCCG
15469 AGCCT
131 AGCCT
* * * *
15474 TGGTTCGGGTGGTTGCCTCGACCACCATCGGCAC-TAG-TCGGCCCTTGATGCGAGCGGTTGCCT
1 TGGTGCGGGCGGTTGCCTCGAACACCATCGGCACAT-GCT-GGGCCTTGATGCGAGCGGTTGCCT
* * * * * **
15537 AGACGACCATCGGCA-CAGATGGCCCCTGGTAAGGGCAGTTATGTCAAACACCATCGACACATGC
64 AGACCACCATCGACAGAAGATGACCCCTGGTAAGGACAGTTACCTCAAACACCATCGACACATGC
*
15601 TG-GTCCT
129 CGAG-CCT
*
15608 TGGTGCGGGCGGTTGCCTTGAACACCATCGGCACATGCTGGGCCTTG
1 TGGTGCGGGCGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTG
15655 GTACGAGAGG
Statistics
Matches: 143, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
133 1 0.01
134 80 0.56
135 62 0.43
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (135 bp):
TGGTGCGGGCGGTTGCCTCGAACACCATCGGCACATGCTGGGCCTTGATGCGAGCGGTTGCCTAG
ACCACCATCGACAGAAGATGACCCCTGGTAAGGACAGTTACCTCAAACACCATCGACACATGCCG
AGCCT
Found at i:22010 original size:45 final size:44
Alignment explanation
Indices: 21886--22724 Score: 181
Period size: 45 Copynumber: 18.9 Consensus size: 44
21876 CATTCGATAG
* * *
21886 AAGATGGCCCCTGGTG-TGGACGGTTGCCTCGACCACCATCGCAT
1 AAGATGGCCCTTGGTGCTAG-CGGTTGCCTCGACCACCATCGCAC
* * * * *
21930 AAGCTGACCCTTGGTACTAGCAGTTGCCTCAACCACCATCTGCAC
1 AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
*
21975 AAGATGGCCCTTGGTGCTAGCGGTTACCTCGACCACCATCGGCAC
1 AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
* * * ** *
22020 ATGCTAGG-CCTTGGTACGGGCGGTTGCCTCGAACACCATCG-AC
1 AAGAT-GGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATCGCAC
* * * * * *
22063 ATG-TGCTAGGCCTTGGTG-T-GGGTTGTTGCCTTGAGCACTATCGACAC
1 AAGATG---GCCCTTGGTGCTAGCG--GTTGCCTCGACCACCATCG-CAC
* * * *
22110 AA-ACGGCCCTTAGTG-T-G-GGTTCTTTCCTCGACCACCATCGGCAG
1 AAGATGGCCCTTGGTGCTAGCGG---TTGCCTCGACCACCATC-GCAC
** * * *
22154 AAGATGGCTCC-TGGTGCGGGCGGTTGCGTTGAACACCATCGGCAC
1 AAGATGGC-CCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
** * * * * * * * *
22199 GTGCTTGG--C-TGGTACGAACGGTTACCTCAACTACCATCGGCAG
1 AAG-ATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
* *
22242 AAGATGGCCCTTGGTGC-AGACGGTTTCCTCGACCACCATCAACAC
1 AAGATGGCCCTTGGTGCTAG-CGGTTGCCTCGACCACCATC-GCAC
** * * ** * *
22287 GAA-CCGACCCTTGGTG-TGGGCTCTTGCCTCGACCACCATCGATAG
1 -AAGATGGCCCTTGGTGCT-AGCGGTTGCCTCGACCACCATCG-CAC
** * * **
22332 AAGATGGCCCTTGGTGCGGGTGGTTGCCTCAAATACCATCAGCAC
1 AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
** * * * * *
22377 GTGCTGGGCCTTGGTGCGAGC-GTT---T-G--CACCATCGGTAA
1 AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
* * ** * *
22415 AAGATGGCCCTTAGTACGGGTGGTTGCCTCGAGCACCATCGGCAC
1 AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
* * * *
22460 AAGCTGGCCCTTGGTGC-AGGCGATTGCCTTGAACACCATCGGCAC
1 AAGATGGCCCTTGGTGCTA-GCGGTTGCCTCGACCACCATC-GCAC
** * * * * * * *
22505 GTGTTGGGCCTTGGTG-TGGGCAGTTACCTCGACCACCATCGGTAG
1 AAGATGGCCCTTGGTGCT-AGCGGTTGCCTCGACCACCATC-GCAC
** * * *
22550 AAGATCACCCTTGGTG-TGGGTGGTTGCCTTGACCACCATCAGCAC
1 AAGATGGCCCTTGGTGCT-AGCGGTTGCCTCGACCACCATC-GCAC
*** *** ** * *
22595 AAGCCAGCCCTTGGTGGGGGCTCTTACCTCGACCACCATCGGCAG
1 AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATC-GCAC
* * * * *
22640 AGGATGGCCCCTGGTG-TGGACGGTTGCGTCGAACACCATCAGCAC
1 AAGATGGCCCTTGGTGCTAG-CGGTTGCCTCGACCACCATC-GCAC
* * * *
22685 ATACA-GGGCCTTGGTGC-AGGCGGTTGTCTCGAACACCATC
1 A-AGATGGCCCTTGGTGCTA-GCGGTTGCCTCGACCACCATC
22725 ATCACATGCC
Statistics
Matches: 570, Mismatches: 177, Indels: 95
0.68 0.21 0.11
Matches are distributed among these distances:
38 21 0.04
39 3 0.01
41 3 0.01
42 5 0.01
43 35 0.06
44 68 0.12
45 415 0.73
46 13 0.02
47 5 0.01
48 2 0.00
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.22
Consensus pattern (44 bp):
AAGATGGCCCTTGGTGCTAGCGGTTGCCTCGACCACCATCGCAC
Found at i:22389 original size:90 final size:90
Alignment explanation
Indices: 21859--22475 Score: 251
Period size: 90 Copynumber: 7.0 Consensus size: 90
21849 GTGTGACACA
* ** * * * *
21859 GGCTCTTACCTCAACCA-CATTCGATAGAAGATGGCCCCTGGTGTGGACGGTTGCCTCGACCACC
1 GGCTCTTACCTCGACCACCA-TCGGCAGAAGATGGCCCTTGGTGCGGGCGGTTGCCTCGAACACC
*** ** *
21923 ATC-GCATAAGCTGACCCTTGGTACT-
65 ATCAGCACGTGCTGGGCCTTGGT-GTG
* ** * * * * ** * *
21948 AGCAGTTGCCTCAACCACCATCTGCACAAGATGGCCCTTGGTGCTAGCGGTTACCTCGACCACCA
1 GGCTCTTACCTCGACCACCATCGGCAGAAGATGGCCCTTGGTGCGGGCGGTTGCCTCGAACACCA
* * * **
22013 TCGGCACATGCTAGGCCTTGGTACG
66 TCAGCACGTGCTGGGCCTTGGTGTG
** * * * * * * ** * *
22038 GGCGGTTGCCTCGAACACCATCGACATG-TGCTAGG-CCTTGGTGTGGGTTGTTGCCTTGAGCAC
1 GGCTCTTACCTCGACCACCATCGGCA-GAAGAT-GGCCCTTGGTGCGGGCGGTTGCCTCGAACAC
* *** * *
22101 TATC-GACACAAAC-GGCCCTTAGTGTG
64 CATCAG-CACGTGCTGGGCCTTGGTGTG
* * * *
22127 GGTTCTTTCCTCGACCACCATCGGCAGAAGATGGCTCC-TGGTGCGGGCGGTTGCGTTGAACACC
1 GGCTCTTACCTCGACCACCATCGGCAGAAGATGGC-CCTTGGTGCGGGCGGTTGCCTCGAACACC
* * **
22191 ATCGGCACGTGCTTGG-C-TGGTACG
65 ATCAGCACGTGCTGGGCCTTGGTGTG
** ** * * * * * *
22215 AACGGTTACCTCAACTACCATCGGCAGAAGATGGCCCTTGGTGCAGACGGTTTCCTCGACCACCA
1 GGCTCTTACCTCGACCACCATCGGCAGAAGATGGCCCTTGGTGCGGGCGGTTGCCTCGAACACCA
* ** * **
22280 TCAACACGAACCGACCCTTGGTGTG
66 TCAGCACGTGCTGGGCCTTGGTGTG
* ** * * *
22305 GGCTCTTGCCTCGACCACCATCGATAGAAGATGGCCCTTGGTGCGGGTGGTTGCCTCAAATACCA
1 GGCTCTTACCTCGACCACCATCGGCAGAAGATGGCCCTTGGTGCGGGCGGTTGCCTCGAACACCA
*
22370 TCAGCACGTGCTGGGCCTTGGTGCG
66 TCAGCACGTGCTGGGCCTTGGTGTG
* * * * * * * *
22395 AGC-GTT---T-G--CACCATCGGTAAAAGATGGCCCTTAGTACGGGTGGTTGCCTCGAGCACCA
1 GGCTCTTACCTCGACCACCATCGGCAGAAGATGGCCCTTGGTGCGGGCGGTTGCCTCGAACACCA
* ** *
22453 TCGGCACAAGCTGGCCCTTGGTG
66 TCAGCACGTGCTGGGCCTTGGTG
22476 CAGGCGATTG
Statistics
Matches: 386, Mismatches: 128, Indels: 34
0.70 0.23 0.06
Matches are distributed among these distances:
83 62 0.16
85 1 0.00
86 1 0.00
87 2 0.01
88 62 0.16
89 112 0.29
90 144 0.37
91 2 0.01
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (90 bp):
GGCTCTTACCTCGACCACCATCGGCAGAAGATGGCCCTTGGTGCGGGCGGTTGCCTCGAACACCA
TCAGCACGTGCTGGGCCTTGGTGTG
Found at i:22466 original size:83 final size:83
Alignment explanation
Indices: 22320--22476 Score: 215
Period size: 83 Copynumber: 1.9 Consensus size: 83
22310 TTGCCTCGAC
* * * * ** *
22320 CACCATCGATAGAAGATGGCCCTTGGTGCGGGTGGTTGCCTCAAATACCATCAGCACGTGCTGGG
1 CACCATCGATAAAAGATGGCCCTTAGTACGGGTGGTTGCCTCAAACACCATCAGCACAAGCTGGC
22385 CCTTGGTGCGAGCGTTTG
66 CCTTGGTGCGAGCGTTTG
* * * *
22403 CACCATCGGTAAAAGATGGCCCTTAGTACGGGTGGTTGCCTCGAGCACCATCGGCACAAGCTGGC
1 CACCATCGATAAAAGATGGCCCTTAGTACGGGTGGTTGCCTCAAACACCATCAGCACAAGCTGGC
22468 CCTTGGTGC
66 CCTTGGTGC
22477 AGGCGATTGC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.22
Consensus pattern (83 bp):
CACCATCGATAAAAGATGGCCCTTAGTACGGGTGGTTGCCTCAAACACCATCAGCACAAGCTGGC
CCTTGGTGCGAGCGTTTG
Found at i:22577 original size:90 final size:90
Alignment explanation
Indices: 22513--22685 Score: 229
Period size: 90 Copynumber: 1.9 Consensus size: 90
22503 ACGTGTTGGG
* * * * **
22513 CCTTGGTGTGGGCAGTTACCTCGACCACCATCGGTAGAAGATCACCCTTGGTGTGGGTGGTTGCC
1 CCTTGGTGGGGGCACTTACCTCGACCACCATCGGCAGAAGATCACCCCTGGTGTGGACGGTTGCC
*
22578 TTGACCACCATCAGCACAAGCCAGC
66 TTGAACACCATCAGCACAAGCCAGC
* * ** *
22603 CCTTGGTGGGGGCTCTTACCTCGACCACCATCGGCAGAGGATGGCCCCTGGTGTGGACGGTTGCG
1 CCTTGGTGGGGGCACTTACCTCGACCACCATCGGCAGAAGATCACCCCTGGTGTGGACGGTTGCC
*
22668 TCGAACACCATCAGCACA
66 TTGAACACCATCAGCACA
22686 TACAGGGCCT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (90 bp):
CCTTGGTGGGGGCACTTACCTCGACCACCATCGGCAGAAGATCACCCCTGGTGTGGACGGTTGCC
TTGAACACCATCAGCACAAGCCAGC
Found at i:22655 original size:135 final size:135
Alignment explanation
Indices: 22403--22658 Score: 298
Period size: 135 Copynumber: 1.9 Consensus size: 135
22393 CGAGCGTTTG
** * * **
22403 CACCATCGGTAAAAGATGGCCCTTAGTACGGGTGGTTGCCTCGAGCACCATCGGCACAAGCTGGC
1 CACCATCGGTAAAAGATCACCCTTAGTACGGGTGGTTGCCTCGACCACCATCAGCACAAGCCAGC
* * * * * *
22468 CCTTGGTGCAGGCGATTGCCTTGAACACCATCGGCACGTGTTGGGCCTTGGTGTGGGCAGTTACC
66 CCTTGGTGCAGGCGATTACCTCGAACACCATCGGCACGGGATGGCCCCTGGTGTGGGCAGTTACC
22533 TCGAC
131 TCGAC
* * ** *
22538 CACCATCGGTAGAAGATCACCCTTGGTGTGGGTGGTTGCCTTGACCACCATCAGCACAAGCCAGC
1 CACCATCGGTAAAAGATCACCCTTAGTACGGGTGGTTGCCTCGACCACCATCAGCACAAGCCAGC
** ** *
22603 CCTTGGTGGGGGCTCTTACCTCGACCACCATCGGCA-GAGGATGGCCCCTGGTGTGG
66 CCTTGGTGCAGGCGATTACCTCGAACACCATCGGCACG-GGATGGCCCCTGGTGTGG
22659 ACGGTTGCGT
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
134 1 0.01
135 97 0.99
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.21
Consensus pattern (135 bp):
CACCATCGGTAAAAGATCACCCTTAGTACGGGTGGTTGCCTCGACCACCATCAGCACAAGCCAGC
CCTTGGTGCAGGCGATTACCTCGAACACCATCGGCACGGGATGGCCCCTGGTGTGGGCAGTTACC
TCGAC
Found at i:22725 original size:45 final size:45
Alignment explanation
Indices: 22660--22745 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
22650 CTGGTGTGGA
22660 CGGTTGCGTCGAACACCATCAGCACATACAGGGCCTTGGTGCAGG
1 CGGTTGCGTCGAACACCATCAGCACATACAGGGCCTTGGTGCAGG
* * *
22705 CGGTTGTC-TCGAACACCATCATCACATGCCGGGCCTTGGTG
1 CGGTTG-CGTCGAACACCATCAGCACATACAGGGCCTTGGTG
22746 TGGGCACATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.29, T:0.21
Consensus pattern (45 bp):
CGGTTGCGTCGAACACCATCAGCACATACAGGGCCTTGGTGCAGG
Found at i:22761 original size:45 final size:45
Alignment explanation
Indices: 22668--22761 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 45
22658 GACGGTTGCG
*** *
22668 TCGAACACCATCAGCACATACAGGGCCTTGGTGCAGGCGGTTGTC
1 TCGAACACCATCAGCACATACAGGGCCTTGGTGCAGGCACATGCC
* * * **
22713 TCGAACACCATCATCACATGCCGGGCCTTGGTGTGGGCACATGCC
1 TCGAACACCATCAGCACATACAGGGCCTTGGTGCAGGCACATGCC
22758 TCGA
1 TCGA
22762 GCTGCTGTGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.20
Consensus pattern (45 bp):
TCGAACACCATCAGCACATACAGGGCCTTGGTGCAGGCACATGCC
Found at i:27526 original size:215 final size:214
Alignment explanation
Indices: 27149--27576 Score: 653
Period size: 215 Copynumber: 2.0 Consensus size: 214
27139 TCTAATGCTC
*
27149 TTTAGGGGGTGGTGGTCTGGTACCCCCTCTCCCCTCTTACGGGGGAGTAGGTGTACGTGATGGGC
1 TTTAGGGGGTGGTGGTCTGGTACCCCCTCTCCCCTCCTACGGGGGAGTAGGTGTACGTGATGGGC
* * * *
27214 CTTCCATTACGTATACCCAGGGTAACATCCCTTGAGCGAAATACAGGGCGTGCATGCCTTTCGAA
66 CTCCCATTACGTACACCCAGGGTAACATCCCTCGAGCGAAATACAGGGCGAGCATGCCTTTCGAA
* ** *
27279 TGTTTTGTTTGGTGACTGGTTGCTTTGGTGACTGGCAGGCACCCTTGGCCTTGATCGATTGACGT
131 TGTTTTGTCTGGTGACTGGTTGCTCCGGTGACTGGCAGGCACCCTTGGCCTCGATCGATTGACGT
27344 GCATGCAAAAAAGAGGAGTA
196 GCATGCAAAAAA-AGGAGTA
*
27364 TTTAGGGGGTGGTGGT-TCGGTACCCCTTCTCCCC-CCTACGGGGGGAGTAGGTGTACGTGATGG
1 TTTAGGGGGTGGTGGTCT-GGTACCCCCTCTCCCCTCCTAC-GGGGGAGTAGGTGTACGTGATGG
** * * *
27427 GCCTCCCATTGTGTACACCCGGGGTAACGTCCCTCGATCGAAATACAGGGCGAGCATGCCTTTCG
64 GCCTCCCATTACGTACACCCAGGGTAACATCCCTCGAGCGAAATACAGGGCGAGCATGCCTTTCG
* * *
27492 AATGTTTTGTCTGGTGACTGGTTGCTCCGGTGACTGGTAGGCGCCCTTGGCCTCGATTGATTGAC
129 AATGTTTTGTCTGGTGACTGGTTGCTCCGGTGACTGGCAGGCACCCTTGGCCTCGATCGATTGAC
27557 GTGCATGCAAAAAAAGGAGT
194 GTGCATGCAAAAAAAGGAGT
27577 TGAGCTTGAG
Statistics
Matches: 193, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
214 11 0.06
215 182 0.94
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (214 bp):
TTTAGGGGGTGGTGGTCTGGTACCCCCTCTCCCCTCCTACGGGGGAGTAGGTGTACGTGATGGGC
CTCCCATTACGTACACCCAGGGTAACATCCCTCGAGCGAAATACAGGGCGAGCATGCCTTTCGAA
TGTTTTGTCTGGTGACTGGTTGCTCCGGTGACTGGCAGGCACCCTTGGCCTCGATCGATTGACGT
GCATGCAAAAAAAGGAGTA
Found at i:35300 original size:26 final size:26
Alignment explanation
Indices: 35271--35331 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
35261 CTCGATCTGG
* **
35271 TCCGTATGTTTAGGTTGGGAATGAAC
1 TCCGTATGCTTAGACTGGGAATGAAC
35297 TCCGTATGCTTAGACTGGGAATGAAC
1 TCCGTATGCTTAGACTGGGAATGAAC
*
35323 TCCATATGC
1 TCCGTATGC
35332 CTAAGTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (26 bp):
TCCGTATGCTTAGACTGGGAATGAAC
Found at i:38357 original size:26 final size:26
Alignment explanation
Indices: 38321--38370 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
38311 ATCCGGTCCA
38321 TATGCTTAGACTGGGAATGAACTCTG
1 TATGCTTAGACTGGGAATGAACTCTG
38347 TATGCTTAGACTGGGAATGAACTC
1 TATGCTTAGACTGGGAATGAACTC
38371 CACATGCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (26 bp):
TATGCTTAGACTGGGAATGAACTCTG
Found at i:38377 original size:26 final size:26
Alignment explanation
Indices: 38317--38377 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
38307 CTCGATCCGG
38317 TCCATATGCTTAGACTGGGAATGAAC
1 TCCATATGCTTAGACTGGGAATGAAC
**
38343 TCTGTATGCTTAGACTGGGAATGAAC
1 TCCATATGCTTAGACTGGGAATGAAC
*
38369 TCCACATGC
1 TCCATATGC
38378 CTAAGTCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
TCCATATGCTTAGACTGGGAATGAAC
Found at i:38528 original size:197 final size:197
Alignment explanation
Indices: 38177--38548 Score: 464
Period size: 197 Copynumber: 1.9 Consensus size: 197
38167 AGAACTCTGT
* ** * *
38177 ATGCCTAAGCCAACCCACAAAATGAGCGTGTGGGTGCTCAGCTGGTCGGAGAGGCATAATGCACA
1 ATGCCTAAGCCAACCCACAAAACGAGCGTGTGGGTGCTCAGCTGACCAGAGAGGCAGAATGCACA
* * * * * * *
38242 AGTCGGGGATCGACCCGGCCCTCCTGCGTGCTGTCGATCCTGCTGCTGGTCCTACTGCCGTAACC
66 AGTCAGGGATCGACCCGGCCCCCCTGCGTGCTGTCGATCCTACTACGGGTCCTACTACCGCAACC
*
38307 CTCGATCCGGTCCATATGCTTAGACTGGGAATGAACTCTGTATGCTTAGACTGGGAATGAACTCC
131 CTCGATCCGGTCCAGATGCTTAGACTGGGAATGAACTCTGTATGCTTAGACTGGGAATGAACTCC
38372 AC
196 AC
* ** *
38374 ATGCCTAAGTCAACCCATGAAACGAGCGTGTGGGTGCTCAGCTGACCAGAGAGGCAGAATGCATA
1 ATGCCTAAGCCAACCCACAAAACGAGCGTGTGGGTGCTCAGCTGACCAGAGAGGCAGAATGCACA
* * *
38439 AGTCAGGGATTGGCCCGGCCCCCCT-C-TGCTTGCTACTGATCCTACTACGGGTCCTACTATCGC
66 AGTCAGGGATCGACCCGGCCCCCCTGCGTGC-TG-T-C-GATCCTACTACGGGTCCTACTACCGC
* * * *
38502 AACCCTTGATCCGGT-CGGAT-CTTAGACTGGGAATGAATTTTGTATGC
127 AACCCTCGATCCGGTCCAGATGCTTAGACTGGGAATGAACTCTGTATGC
38549 CTAAGTCAAC
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
195 3 0.02
196 3 0.02
197 103 0.70
198 4 0.03
199 34 0.23
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (197 bp):
ATGCCTAAGCCAACCCACAAAACGAGCGTGTGGGTGCTCAGCTGACCAGAGAGGCAGAATGCACA
AGTCAGGGATCGACCCGGCCCCCCTGCGTGCTGTCGATCCTACTACGGGTCCTACTACCGCAACC
CTCGATCCGGTCCAGATGCTTAGACTGGGAATGAACTCTGTATGCTTAGACTGGGAATGAACTCC
AC
Found at i:39370 original size:45 final size:44
Alignment explanation
Indices: 39321--39983 Score: 307
Period size: 45 Copynumber: 14.7 Consensus size: 44
39311 GGTTACCCTT
**
39321 TGGTACGGGCACTTGCCTCGACTACCATCGGCACAAGCTGGGCCC
1 TGGTACGGGCGGTTGCCTCGAC-ACCATCGGCACAAGCTGGGCCC
* * * * * *
39366 TGGTACGGACGGTTGCCTTGATCACCACCGACACATGCT-GGCCTT
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCC-C
* * * *
39411 TGGTATGGGCGGTTGCCTTGAGCACCATCGACACAAGCT-GACCC
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCCC
* * * ** *
39455 TTGGTGCGGGCAGTTGCCTCGACCACCATCGACACAAAATGGCCCC
1 -TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCCC
** * * * *
39501 TGGTGTGAGCGGTTGCATCGAACACCATCGGCACATGCTGGGCCA
1 TGGTACGGGCGGTTGCCTCG-ACACCATCGGCACAAGCTGGGCCC
* * * * * * * *
39546 TGGTGCGGGTGGTTACCTCGACCATCATCGACACATGCTGAGCCT
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCCC
* * * * * *
39591 TGGTACAGGCGGTTTCTTTGAACACCATCGGCACATGCTGGGCCT
1 TGGTACGGGCGGTTGCCTCG-ACACCATCGGCACAAGCTGGGCCC
* ** * * * *
39636 TGGTATGGGCCATTGCTTCAAGCACCATCGGCACTAA--TCGACCC
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCAC-AAGCTGGGCCC
* * *
39680 TTGGTACGGGCGGTTGCCTCGACCACCATCAGCACAAGATGGCCCC
1 -TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCCC
* * * * ** * * * * *
39726 TGGTGCTGACGATTGTGTCGAACACCATCAGTACATGTTGGGCCT
1 TGGTACGGGCGGTTGCCTCG-ACACCATCGGCACAAGCTGGGCCC
** ** * * * *
39771 TGGTGTGGGTAGTTGCCTCAACCATCATCGGCAGAAGAT-GGCCAC
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCC-C
* * *
39816 TGGTACGGGCGGTTGCCTCGAGCACCATCGGCACTAGC-CGACCC
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCCC
* * * * *
39860 TTGGTGCTGGCGGTTGGCTCAACCACCATCGGCACAAGAT-GGCCC
1 -TGGTACGGGCGGTTGCCTCGA-CACCATCGGCACAAGCTGGGCCC
** * * *
39905 TTGGTGA-GGGCGGTTGTGTCAAACACCATCGGCACATGCTGGGCCT
1 -TGGT-ACGGGCGGTTGCCTC-GACACCATCGGCACAAGCTGGGCCC
*** *
39951 TGGTACAAACGGTTGCCTCGACCACCATTGGCA
1 TGGTACGGGCGGTTGCCTCGA-CACCATCGGCA
39984 GAAGATGGCC
Statistics
Matches: 464, Mismatches: 131, Indels: 46
0.72 0.20 0.07
Matches are distributed among these distances:
44 20 0.04
45 424 0.91
46 20 0.04
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.22
Consensus pattern (44 bp):
TGGTACGGGCGGTTGCCTCGACACCATCGGCACAAGCTGGGCCC
Found at i:39907 original size:135 final size:134
Alignment explanation
Indices: 39411--39978 Score: 407
Period size: 135 Copynumber: 4.2 Consensus size: 134
39401 TGCTGGCCTT
* * * * * *
39411 TGGTATGGGCGGTTGCCTTGAGCACCATCGACACAAGCTGACCCTTGGTGCGGGCAGTTGCCTCG
1 TGGTACGGGCGGTTGCCTCGACCACCATCGACACAAGCTGACCCTTGGTGCTGGCGGTTGGCTC-
* * * * * * * * *
39476 ACCACCATCGACACAAAATGGCCCCTGGTGTGAGCGGTTGCATCGAACACCATCGGCACATGCTG
65 AACACCATCGGCACAAGATGGCCCTTGGTGTGGGCAGTTGCATC-AACACCATCGGCACAAGATC
39541 GGCCA-
129 GGCCAC
* * * * * * * * *
39546 TGGTGCGGGTGGTTACCTCGACCATCATCGACACATGCTGAGCCTTGGTACAGGCGGTT-TCTTT
1 TGGTACGGGCGGTTGCCTCGACCACCATCGACACAAGCTGACCCTTGGTGCTGGCGGTTGGC--T
* * * * * * *
39610 GAACACCATCGGCACATGCTGGGCCTTGGTATGGGCCA-TTGCTTCAAGCACCATCGGCACTA-A
64 CAACACCATCGGCACAAGATGGCCCTTGGTGTGGG-CAGTTGCATCAA-CACCATCGGCACAAGA
*
39673 TCGACC-C
127 TCGGCCAC
* * * * *
39680 TTGGTACGGGCGGTTGCCTCGACCACCATC-AGCACAAGATGGCCCCTGGTGCTGACGATTGTG-
1 -TGGTACGGGCGGTTGCCTCGACCACCATCGA-CACAAGCTGACCCTTGGTGCTGGCGGTTG-GC
* * * * * * * * *
39743 TCGAACACCATCAGTACATGTTGGGCCTTGGTGTGGGTAGTTGCCTCAACCATCATCGGCAGAAG
63 TC-AACACCATCGGCACAAGATGGCCCTTGGTGTGGGCAGTTGCATCAA-CACCATCGGCACAAG
39808 AT-GGCCAC
126 ATCGGCCAC
* * * *
39816 TGGTACGGGCGGTTGCCTCGAGCACCATCGGCACTAGCCGACCCTTGGTGCTGGCGGTTGGCTCA
1 TGGTACGGGCGGTTGCCTCGACCACCATCGACACAAGCTGACCCTTGGTGCTGGCGGTTGGCTCA
* * ** * * *
39881 ACCACCATCGGCACAAGATGGCCCTTGGTGAGGGCGGTTGTGTCAAACACCATCGGCACATGCTG
66 A-CACCATCGGCACAAGATGGCCCTTGGTGTGGGCAGTTGCATC-AACACCATCGGCACAAGATC
*
39946 GGCC-T
129 GGCCAC
***
39951 TGGTACAAACGGTTGCCTCGACCACCAT
1 TGGTACGGGCGGTTGCCTCGACCACCAT
39979 TGGCAGAAGA
Statistics
Matches: 331, Mismatches: 84, Indels: 36
0.73 0.19 0.08
Matches are distributed among these distances:
134 13 0.04
135 307 0.93
136 11 0.03
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.22
Consensus pattern (134 bp):
TGGTACGGGCGGTTGCCTCGACCACCATCGACACAAGCTGACCCTTGGTGCTGGCGGTTGGCTCA
ACACCATCGGCACAAGATGGCCCTTGGTGTGGGCAGTTGCATCAACACCATCGGCACAAGATCGG
CCAC
Found at i:39968 original size:180 final size:180
Alignment explanation
Indices: 39656--40008 Score: 445
Period size: 180 Copynumber: 2.0 Consensus size: 180
39646 CATTGCTTCA
* *
39656 AGCACCATCGGCACTAATCGACCCTTGGTACGGGCGGTTGCCTCGACCACCATCAGCACAAGATG
1 AGCACCATCGGCACTAACCGACCCTTGGTACGGGCGGTTGCCTCAACCACCATCAGCACAAGATG
** * * * ******
39721 GCCCCTGGTGCTGACGATTGTGTCGAACACCATCAGTACATGTTGGGCCTTGGTGTGGGTAGTTG
66 GCCCCTGGTGAGGACGATTGTGTCAAACACCATCAGCACATGCTGGGCCTTGGTACAAACAGTTG
* *
39786 CCTCAACCATCATCGGCAGAAGATGGCCACTGGTACGGGCGGTTGCCTCG
131 CCTCAACCACCATCGGCAGAAGATGGCCACTGGTACAGGCGGTTGCCTCG
* * * * *
39836 AGCACCATCGGCACTAGCCGACCCTTGGTGCTGGCGGTTGGCTCAACCACCATCGGCACAAGATG
1 AGCACCATCGGCACTAACCGACCCTTGGTACGGGCGGTTGCCTCAACCACCATCAGCACAAGATG
* * * * *
39901 GCCCTTGGTGAGGGCGGTTGTGTCAAACACCATCGGCACATGCTGGGCCTTGGTACAAACGGTTG
66 GCCCCTGGTGAGGACGATTGTGTCAAACACCATCAGCACATGCTGGGCCTTGGTACAAACAGTTG
* * * *
39966 CCTCGACCACCATTGGCAGAAGATGGCCTCTGGTGCAGGCGGT
131 CCTCAACCACCATCGGCAGAAGATGGCCACTGGTACAGGCGGT
40009 ACGGGCTGTT
Statistics
Matches: 144, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
180 144 1.00
ACGTcount: A:0.20, C:0.29, G:0.30, T:0.21
Consensus pattern (180 bp):
AGCACCATCGGCACTAACCGACCCTTGGTACGGGCGGTTGCCTCAACCACCATCAGCACAAGATG
GCCCCTGGTGAGGACGATTGTGTCAAACACCATCAGCACATGCTGGGCCTTGGTACAAACAGTTG
CCTCAACCACCATCGGCAGAAGATGGCCACTGGTACAGGCGGTTGCCTCG
Found at i:40210 original size:45 final size:45
Alignment explanation
Indices: 40159--40258 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
40149 GGTTACGTCA
* * *
40159 AACACCATTGGCACATGCTGGGACTTGGTGTGGGCGGTTGCCTTG
1 AACACCATCGGCACATGCTGGGACTTAGTGTGGGCAGTTGCCTTG
* *
40204 AACACCATCGGCACATGCTTGGCCTTAGTGTGGGCAGTTGCCTTG
1 AACACCATCGGCACATGCTGGGACTTAGTGTGGGCAGTTGCCTTG
*
40249 AGCACCATCG
1 AACACCATCG
40259 ACATAAGCTG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (45 bp):
AACACCATCGGCACATGCTGGGACTTAGTGTGGGCAGTTGCCTTG
Done.