Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 125 of 433
Found at i:38215712 original size:42 final size:42
Alignment explanation
Indices: 38215582--38215774 Score: 147
Period size: 43 Copynumber: 4.5 Consensus size: 42
38215572 ATTCTGTATT
* * * * *
38215582 AGACCATATCTAGGATATGACATCGTTATGCGATTTCATGTA
1 AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
** * * * * * * *
38215624 AGACCACGTTTTGGACATGGCTTCGAAGATGAGGCTTCGTATA
1 AGACCATATCTAGGACATGGCATCG-ATATGAGACTTCATGTA
* * *
38215667 AGACCATATCTGGGACATGGCATCGATATGAGACATCGTGTA
1 AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
* * *
38215709 AGACCATAGCTAGG-CTATTGGCATCGATATGTGA-TCCCATGTA
1 AGACCATATCTAGGAC-A-TGGCATCGATATGAGACT-TCATGTA
*
38215752 AGACCATATCTAGGATATGGCAT
1 AGACCATATCTAGGACATGGCAT
38215775 TGGCATCTTA
Statistics
Matches: 115, Mismatches: 31, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 50 0.43
43 64 0.56
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
Found at i:38223307 original size:17 final size:18
Alignment explanation
Indices: 38223287--38223320 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38223277 TGAAAAATAA
38223287 TGTG-AGAATAAAAGAAT
1 TGTGAAGAATAAAAGAAT
*
38223304 TGTGAAGATTAAAAGAA
1 TGTGAAGAATAAAAGAA
38223321 AAGCGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
TGTGAAGAATAAAAGAAT
Found at i:38233256 original size:54 final size:54
Alignment explanation
Indices: 38233061--38233257 Score: 274
Period size: 54 Copynumber: 3.6 Consensus size: 54
38233051 ATTGTAGAAA
* *
38233061 GGGATTTAGCCTAGACTGGTAATCTCGACATTACTCGACGAGTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
* * * * *
38233115 GGGATTTAGCTTAGACTGGTAATCCC-AC-TGTAAGATATAAG-GTTAATACCATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACAT-T-A-CTAGACGAGTTAATACTATAG
38233169 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
*
38233223 GGAATTTAGCCTAGACTGGTAATCCCGACATTACT
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACT
38233258 CGAGAGTGCA
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
52 1 0.01
53 7 0.06
54 109 0.88
55 6 0.05
56 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (54 bp):
GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
Found at i:38234413 original size:19 final size:21
Alignment explanation
Indices: 38234375--38234414 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
38234365 CAATATATAA
38234375 TATATAATAACAAAAAAAAAT
1 TATATAATAACAAAAAAAAAT
*
38234396 TATATAA-AA-AAATAAAAAT
1 TATATAATAACAAAAAAAAAT
38234415 ATGAGTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (21 bp):
TATATAATAACAAAAAAAAAT
Found at i:38234615 original size:9 final size:9
Alignment explanation
Indices: 38234596--38234699 Score: 56
Period size: 9 Copynumber: 11.2 Consensus size: 9
38234586 ATCTTAAAAT
*
38234596 TATAAATAA
1 TATATATAA
38234605 TATA-ATGAA
1 TATATAT-AA
38234614 TA-ATATAAA
1 TATATAT-AA
*
38234623 TATAAATAA
1 TATATATAA
38234632 TATA-ATAAA
1 TATATAT-AA
*
38234641 TAATATATGA
1 T-ATATATAA
*
38234651 TATACATAA
1 TATATATAA
38234660 TATATAATAA
1 TATAT-ATAA
*
38234670 -A-AAATAA
1 TATATATAA
38234677 TATAATAAGTAA
1 TAT-AT-A-TAA
38234689 TATATATAA
1 TATATATAA
38234698 TA
1 TA
38234700 AAAGTAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
7 4 0.05
8 7 0.09
9 39 0.52
10 14 0.19
11 5 0.07
12 6 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
TATATATAA
Found at i:38234617 original size:12 final size:12
Alignment explanation
Indices: 38234597--38234719 Score: 91
Period size: 12 Copynumber: 10.5 Consensus size: 12
38234587 TCTTAAAATT
38234597 ATAAATAATATA
1 ATAAATAATATA
*
38234609 ATGAATAATATAAA
1 ATAAATAATAT--A
38234623 TATAAATAATATA
1 -ATAAATAATATA
38234636 ATAAATAATAT-
1 ATAAATAATATA
* *
38234647 AT-GATATACATA
1 ATAAATA-ATATA
*
38234659 ATATATAATA-A
1 ATAAATAATATA
38234670 A-AAATAATATA
1 ATAAATAATATA
*
38234681 ATAAGTAATAT-
1 ATAAATAATATA
38234692 ATATAATAA-A-A
1 ATA-AATAATATA
*
38234703 GTAAA-AATATA
1 ATAAATAATATA
38234714 ATAAAT
1 ATAAAT
38234720 GCTATATAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
9 2 0.02
10 13 0.15
11 20 0.23
12 37 0.43
13 4 0.05
14 1 0.01
15 10 0.11
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:38234633 original size:27 final size:28
Alignment explanation
Indices: 38234596--38234701 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 28
38234586 ATCTTAAAAT
*
38234596 TATAAATAATATAATGAATAATATA-AA
1 TATAAATAATATAATAAATAATATATAA
*
38234623 TATAAATAATATAATAAATAATATATGA
1 TATAAATAATATAATAAATAATATATAA
* *
38234651 TATACATAATATATAATAAAAAATAATATAA
1 TATAAAT-A-ATATAATAAATAAT-ATATAA
38234682 TA-AGTAATATATATAATAAA
1 TATA--AATA-ATATAATAAA
38234702 AGTAAAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
27 24 0.36
28 7 0.10
29 1 0.01
30 14 0.21
31 19 0.28
32 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
TATAAATAATATAATAAATAATATATAA
Found at i:38234645 original size:7 final size:7
Alignment explanation
Indices: 38234592--38234701 Score: 68
Period size: 7 Copynumber: 15.4 Consensus size: 7
38234582 ACAAATCTTA
*
38234592 AAATTAT
1 AAATAAT
38234599 AAATAAT
1 AAATAAT
38234606 ATAATGAAT
1 A-AAT-AAT
38234615 -AAT-AT
1 AAATAAT
38234620 AAAT-AT
1 AAATAAT
38234626 AAATAAT
1 AAATAAT
38234633 --ATAAT
1 AAATAAT
38234638 AAATAAT
1 AAATAAT
*
38234645 ATATGATAT
1 AAAT-A-AT
*
38234654 ACATAAT
1 AAATAAT
*
38234661 ATATAAT
1 AAATAAT
*
38234668 AAAAAAT
1 AAATAAT
38234675 AATATAAT
1 AA-ATAAT
*
38234683 AAGTAAT
1 AAATAAT
38234690 ATATATAAT
1 A-A-ATAAT
38234699 AAA
1 AAA
38234702 AGTAAAAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
5 7 0.08
6 9 0.11
7 41 0.49
8 13 0.16
9 13 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (7 bp):
AAATAAT
Found at i:38234727 original size:33 final size:31
Alignment explanation
Indices: 38234659--38234719 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
38234649 GATATACATA
* *
38234659 ATATATAATAAAAAATAATATAATAAGTAAT
1 ATATATAATAAAAAAAAATATAATAAATAAT
38234690 ATATATAATAAAAGTAAAAATATAATAAAT
1 ATATATAATAAAA--AAAAATATAATAAAT
38234720 GCTATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 13 0.50
33 13 0.50
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (31 bp):
ATATATAATAAAAAAAAATATAATAAATAAT
Found at i:38236794 original size:119 final size:119
Alignment explanation
Indices: 38236536--38237488 Score: 1482
Period size: 119 Copynumber: 8.0 Consensus size: 119
38236526 CTTGAGTCTG
* * * * **
38236536 TTTGAGAACATCTGAGAGTTAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
38236601 CAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
*
38236656 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTGAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
38236721 CAAATCATCTTGGATCTGCTTCAGTATAAACCTCTAAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
* *
38236775 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTGAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
38236840 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTAGATCTGCTATA
*
38236894 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
38236959 CAAATCATCTTGGATCTGCTTTAGTATAAACATC-AGAGAGCTAGATCTACTACA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAG-GCTAGATCTGCTATA
* * * *
38237013 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCATTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
38237078 CAAATCATCTTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
*
38237132 TTTGAGAACATCTGAGATTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
38237197 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTAGATCTGCTATA
* * *
38237251 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
38237316 CAAATCATCTTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
* * * * * *
38237370 TCTGGGAACGTTTGAGAGTCAAATCTGCTATGTCCCCGATTTATTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
38237435 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTAGATCTGCTATA
38237489 CTGCGGCCTA
Statistics
Matches: 772, Mismatches: 54, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
117 2 0.00
118 3 0.00
119 681 0.88
120 86 0.11
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGCTAGATCTGCTATA
Found at i:38248394 original size:81 final size:81
Alignment explanation
Indices: 38248257--38248410 Score: 299
Period size: 81 Copynumber: 1.9 Consensus size: 81
38248247 ATTTATGATC
38248257 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
1 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
38248322 TTATTTCTTAATAAAA
66 TTATTTCTTAATAAAA
*
38248338 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACTGGGCTTACTTCCC
1 TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
38248403 TTATTTCT
66 TTATTTCT
38248411 CTCTTGGAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (81 bp):
TGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTTACTTCCC
TTATTTCTTAATAAAA
Found at i:38249765 original size:31 final size:31
Alignment explanation
Indices: 38249741--38249814 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
38249731 ATATTGAGTC
38249741 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
38249772 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
38249800 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38249815 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:38249810 original size:28 final size:29
Alignment explanation
Indices: 38249741--38249814 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
38249731 ATATTGAGTC
*
38249741 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
38249772 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
38249800 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38249815 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:38256401 original size:81 final size:81
Alignment explanation
Indices: 38256266--38256426 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
38256256 CTCTGATACC
38256266 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
1 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
38256331 ACTTCCCTTATTTCTT
66 ACTTCCCTTATTTCTT
*
38256347 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACTGGGCTT
1 AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
38256412 ACTTCCCTTATTTCT
66 ACTTCCCTTATTTCT
38256427 CTCTTGGAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (81 bp):
AATAAAATGTAACACCCCAAACCCGTGACCGTCACCGGATTTGACCACGTGGTGTTACCGGGCTT
ACTTCCCTTATTTCTT
Found at i:38257781 original size:31 final size:31
Alignment explanation
Indices: 38257757--38257830 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
38257747 ATATTGAGTC
38257757 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
38257788 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
38257816 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38257831 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:38257826 original size:28 final size:29
Alignment explanation
Indices: 38257757--38257830 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
38257747 ATATTGAGTC
*
38257757 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
38257788 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
38257816 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38257831 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:38258316 original size:2 final size:2
Alignment explanation
Indices: 38258309--38258334 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38258299 CATACTCATG
38258309 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
38258335 CACACATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38263948 original size:50 final size:50
Alignment explanation
Indices: 38263842--38263978 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
38263832 GACAGGACAG
* * * *
38263842 GACAAAAATGAGCCATGTAAGTCCATATCAG----ATATATGGCTTTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
*
38263888 GAGAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
*
38263938 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATAT
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATAT
38263979 ATATATATAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 27 0.34
50 53 0.66
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (50 bp):
GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
Found at i:38270813 original size:50 final size:50
Alignment explanation
Indices: 38270707--38270843 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
38270697 GACAGGACAG
* * * *
38270707 GACAAAAATGAGCCATGTAAGTCCATATCAG----ATATATGGCTTTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
*
38270753 GAGAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
*
38270803 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATAT
1 GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATAT
38270844 ATATATATAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 27 0.34
50 53 0.66
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (50 bp):
GACAGAAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
Found at i:38270841 original size:2 final size:2
Alignment explanation
Indices: 38270834--38270873 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
38270824 CCCATATTAG
38270834 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38270874 GGCATTGGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38277887 original size:41 final size:41
Alignment explanation
Indices: 38277832--38278086 Score: 264
Period size: 41 Copynumber: 6.3 Consensus size: 41
38277822 GGGCACAAAA
* **
38277832 GTGC-ATTCAGGGGTACCGAAGTACAAACAAAGGCACGTAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * *
38277872 GTGCAATTCAAGGGTACCAAAGTGC-AACAGAGGCACATAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * **
38277912 GTGCAATTCAAGGGTGCCAAAGTATAAGTAGGGGCACGTAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * *
38277953 GTGCAATTTAAGTGTACCGAAGTACAAACAGGGGCATGTAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * * * *
38277994 GTGCAATTTAGGGGTTCTGAAGTACAAATAGGGGCACATAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
**
38278035 GTGCAATTC-AGGGTTATTGAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAAGGG-TACCGAAGTACAAACAGGGGCACGTAT
*
38278076 GTGTAATTCAA
1 GTGCAATTCAA
38278087 CAATAATATT
Statistics
Matches: 177, Mismatches: 34, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
40 42 0.24
41 134 0.76
42 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:38281747 original size:25 final size:23
Alignment explanation
Indices: 38281704--38281754 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
38281694 TAAAGTCTTT
*
38281704 AATAGATTAAACTAAAAGAAATTGA
1 AATACATTAAACTAAAAG--ATTGA
* *
38281729 AATACATTAAATTAGAAGATTGA
1 AATACATTAAACTAAAAGATTGA
38281752 AAT
1 AAT
38281755 TCCATTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (23 bp):
AATACATTAAACTAAAAGATTGA
Found at i:38282852 original size:2 final size:2
Alignment explanation
Indices: 38282845--38282869 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38282835 TATCTCCCTT
38282845 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
38282870 TGGTGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38287308 original size:18 final size:20
Alignment explanation
Indices: 38287269--38287305 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38287259 AAATATTAAG
*
38287269 GTAATATAATCCTACAAAAT
1 GTAATATAATCATACAAAAT
38287289 GTAATATAAT-ATACAAA
1 GTAATATAATCATACAAA
38287306 TGTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (20 bp):
GTAATATAATCATACAAAAT
Found at i:38289463 original size:47 final size:46
Alignment explanation
Indices: 38289394--38289564 Score: 181
Period size: 45 Copynumber: 3.7 Consensus size: 46
38289384 GTAAGGTGCT
* *
38289394 GATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCGAAGCC
** *
38289441 GATGCCATGTCCCAGACATGGTCTTACACT-AATC--ATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCGAAGCC
* * * *
38289486 GATGCATGTCTCAGACATGTCTTACA-TGGCTTATGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAAGCC
*
38289531 GATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCA
38289565 CACACAAATG
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 9 0.09
44 18 0.17
45 40 0.38
46 7 0.07
47 29 0.28
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAAGCC
Found at i:38298366 original size:47 final size:47
Alignment explanation
Indices: 38298257--38298367 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
38298247 CCAGGATAAG
* *
38298257 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
38298304 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTTG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
38298351 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
38298368 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:38305635 original size:47 final size:47
Alignment explanation
Indices: 38305526--38305628 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 47
38305516 CCGGGATAAG
* *
38305526 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
38305573 CACAAAGTACTTCATCAGAACAAATCTGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTA-TAGTA
38305620 CACATAGTG
1 CACATAGTG
38305629 TCTCATCGAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 45 0.96
48 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:38313121 original size:17 final size:17
Alignment explanation
Indices: 38313099--38313140 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
38313089 ACAAAATCTA
38313099 AATTT-ATTTCCCAATTT
1 AATTTAATTT-CCAATTT
*
38313116 AATTTAATTTTCAATTT
1 AATTTAATTTCCAATTT
38313133 AA-TTAATT
1 AATTTAATT
38313141 AATTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAATTTCCAATTT
Found at i:38316940 original size:17 final size:18
Alignment explanation
Indices: 38316915--38316949 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38316905 CCACTTAATC
*
38316915 TACCTACCCAA-ACCCAA
1 TACCAACCCAACACCCAA
38316932 TACCAACCCAACACCCAA
1 TACCAACCCAACACCCAA
38316950 ACAAAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.49, G:0.00, T:0.09
Consensus pattern (18 bp):
TACCAACCCAACACCCAA
Found at i:38322395 original size:38 final size:39
Alignment explanation
Indices: 38322278--38322469 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
38322268 TGTGTATGAA
*
38322278 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
38322317 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
38322356 TGTGCAAGCTATGATATCCGGGATAA-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
38322394 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * *
38322434 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
38322470 TGTTTGAACA
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 34 0.25
39 59 0.44
40 41 0.31
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:38322406 original size:77 final size:79
Alignment explanation
Indices: 38322287--38322438 Score: 263
Period size: 77 Copynumber: 1.9 Consensus size: 79
38322277 ATGTGCGAAT
*
38322287 TATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAG
1 TATGATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAG
38322351 GCAATTGTGCAAGC
66 GCAATTGTGCAAGC
*
38322365 TATGATATCCGGGATAA-CCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAG
1 TATGATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAG
*
38322429 GCATTTGTGC
66 GCAATTGTGC
38322439 GGGTTATCAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 38 0.54
78 32 0.46
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (79 bp):
TATGATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAG
GCAATTGTGCAAGC
Found at i:38330234 original size:39 final size:39
Alignment explanation
Indices: 38330180--38330342 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
38330170 TGTGTATGAA
*
38330180 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
38330219 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
38330258 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
38330297 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
38330337 TGTGCG
1 TGTGCG
38330343 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:38330358 original size:40 final size:39
Alignment explanation
Indices: 38330180--38330372 Score: 260
Period size: 39 Copynumber: 4.9 Consensus size: 39
38330170 TGTGTATGAA
* *
38330180 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
38330219 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
38330258 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
38330297 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
38330337 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
38330373 TGTTTGAACG
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:38338148 original size:39 final size:39
Alignment explanation
Indices: 38338094--38338287 Score: 253
Period size: 40 Copynumber: 4.9 Consensus size: 39
38338084 TGTGTATGAA
*
38338094 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
38338133 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
38338172 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* *
38338212 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
38338252 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
38338288 TGTTTGAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 62 0.45
40 74 0.54
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:38338220 original size:79 final size:79
Alignment explanation
Indices: 38338105--38338257 Score: 254
Period size: 79 Copynumber: 1.9 Consensus size: 79
38338095 GTGCGAATTG
* *
38338105 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
38338169 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
*
38338183 TGATATCCGGGATAAACTCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
*
38338248 CATTTGTGCG
65 CAATTGTGCG
38338258 GGTTATCATA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 15 0.22
79 37 0.54
80 17 0.25
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:38340230 original size:17 final size:18
Alignment explanation
Indices: 38340197--38340238 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
38340187 ACAGAATCTG
38340197 AATTT-ATTTTCCAATTT
1 AATTTAATTTTCCAATTT
*
38340214 AATTTAATTTT-CGATTT
1 AATTTAATTTTCCAATTT
38340231 -ATTTAATT
1 AATTTAATT
38340239 GTTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTAATTTTCCAATTT
Found at i:38341617 original size:26 final size:26
Alignment explanation
Indices: 38341556--38341628 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
38341546 TCTCATCCCT
* **
38341556 ATTTTAACCCTAACAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
38341582 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* *
38341608 CTTTTGCCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
38341629 CGAGAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:38356098 original size:68 final size:70
Alignment explanation
Indices: 38356026--38356223 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
38356016 ACACCCTGTA
* * * *
38356026 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
38356088 ATAAAT
65 ATAAAT
*
38356094 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
38356159 ATAAAT
65 ATAAAT
*
38356165 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
38356224 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:38356137 original size:41 final size:41
Alignment explanation
Indices: 38356092--38356209 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
38356082 TGAAAGATAA
38356092 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
38356133 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38356163 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38356204 ATGTAG
1 ATGTAG
38356210 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:38356149 original size:71 final size:71
Alignment explanation
Indices: 38356060--38356223 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38356050 GAGATGTATC
38356060 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38356125 AGGACA
66 AGGACA
38356131 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38356196 AGGACA
66 AGGACA
38356202 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
38356224 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:38363665 original size:68 final size:70
Alignment explanation
Indices: 38363593--38363790 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
38363583 ACACCCTGTA
* * * *
38363593 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
38363655 ATAAAT
65 ATAAAT
*
38363661 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
38363726 ATAAAT
65 ATAAAT
*
38363732 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
38363791 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:38363704 original size:41 final size:41
Alignment explanation
Indices: 38363659--38363776 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
38363649 TGAAAGATAA
38363659 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
38363700 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38363730 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38363771 ATGTAG
1 ATGTAG
38363777 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:38363716 original size:71 final size:71
Alignment explanation
Indices: 38363627--38363790 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38363617 GAGATGTATC
38363627 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38363692 AGGACA
66 AGGACA
38363698 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38363763 AGGACA
66 AGGACA
38363769 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
38363791 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:38368766 original size:10 final size:10
Alignment explanation
Indices: 38368753--38368791 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
38368743 ACATCATTAT
38368753 ACTAACTTTA
1 ACTAACTTTA
38368763 ACTAACTTTA
1 ACTAACTTTA
*
38368773 ACTAGCTTTA
1 ACTAACTTTA
*
38368783 ACTAGCTTT
1 ACTAACTTT
38368792 CATTCAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (10 bp):
ACTAACTTTA
Found at i:38375317 original size:45 final size:44
Alignment explanation
Indices: 38375252--38375368 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 44
38375242 TATCGTACAG
* * * *
38375252 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACT-ATCAGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
*
38375297 TACTATTCAGGCCTTCGAGCCTAGTAGGCTATAATACCGGTGAAA
1 TACTA-TCAGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
*
38375342 TGA-TATCAAG-CTTCGAGCCTAGCAGGC
1 T-ACTATCAGGCCTTCGAGCCTAGCAGGC
38375369 GAATTAAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 16 0.25
44 5 0.08
45 41 0.65
46 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (44 bp):
TACTATCAGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
Found at i:38385792 original size:47 final size:46
Alignment explanation
Indices: 38385728--38385853 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
38385718 ATCTCGTAGC
*
38385728 CAATGCATGTCCTAGACATGTCTTACACTAGCACTCGTC-TCAATGT-
1 CAATGCATGTCCCAGACATGTCTTACACTAGCACTC-TCAT-AATGTG
*
38385774 CAATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCTCATAATGTGG
1 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCATAATGT-G
*
38385821 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -CAATGCATGTCCCAGACATGTCTTACACTAGC
38385854 TCACAATAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
45 7 0.10
46 19 0.28
47 29 0.42
48 14 0.20
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCACTCTCATAATGTG
Found at i:38385798 original size:92 final size:93
Alignment explanation
Indices: 38385684--38385853 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 93
38385674 ATTTATGCCG
* * *
38385684 ATGCCATGTCCCATATACGGTCTTACACTGACACATC-T-CGTAGCCAATGCATGTCCTAGACAT
1 ATGCCATGTCCCAGACACGGTCTTACACTGACAC-TCATACGTAGCCAATGCATGTCCCAGACAT
38385747 GTCTTACACTAGCACTCGTCTCAATGTCA
65 GTCTTACACTAGCACTCGTCTCAATGTCA
* * * * * *
38385776 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACACGGTCTTACACTGACACTCAT-ACGTAGCCAATGCATGTCCCAGACAT
38385841 GTCTTACACTAGC
65 GTCTTACACTAGC
38385854 TCACAATAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 30 0.45
94 34 0.52
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
ATGCCATGTCCCAGACACGGTCTTACACTGACACTCATACGTAGCCAATGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTCAATGTCA
Found at i:38394713 original size:24 final size:24
Alignment explanation
Indices: 38394686--38394731 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38394676 ATATGTTGAC
38394686 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
38394710 ATTCAACTCCGCACACATAGTG
1 ATTCAAATCAGCACACATAGTG
38394732 TCAATGTACA
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:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:38402038 original size:24 final size:24
Alignment explanation
Indices: 38401985--38402047 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
38401975 AGCTTATTTC
* *
38401985 ATTAAATAAAAAATTTTAAAATAT
1 ATTAAATCAAATATTTTAAAATAT
*
38402009 AATAAATCAAATATATTTAAAA-AT
1 ATTAAATCAAATAT-TTTAAAATAT
*
38402033 ATTAAAACAAATATT
1 ATTAAATCAAATATT
38402048 AAAACAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 1 0.03
24 25 0.76
25 7 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTAAATCAAATATTTTAAAATAT
Found at i:38402044 original size:12 final size:12
Alignment explanation
Indices: 38402029--38402054 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38402019 ATATATTTAA
38402029 AAATATTAAAAC
1 AAATATTAAAAC
38402041 AAATATTAAAAC
1 AAATATTAAAAC
38402053 AA
1 AA
38402055 GAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:38402516 original size:41 final size:41
Alignment explanation
Indices: 38402471--38402553 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
38402461 TGATTTTTTT
* *
38402471 TCCAAAGTTCTAATTTTACCCAAAATTATTCAAAACAAAAA
1 TCCAAAGTTCTAACTTTACCCAAAATCATTCAAAACAAAAA
* ** * *
38402512 TCCAAAGTTTTGGCTTTACCCAAAGTCATTCAAAGCAAAAA
1 TCCAAAGTTCTAACTTTACCCAAAATCATTCAAAACAAAAA
38402553 T
1 T
38402554 TTAACCCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (41 bp):
TCCAAAGTTCTAACTTTACCCAAAATCATTCAAAACAAAAA
Found at i:38403838 original size:2 final size:2
Alignment explanation
Indices: 38403831--38403866 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
38403821 TATGAAACTA
38403831 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38403867 GCATGAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38405720 original size:497 final size:497
Alignment explanation
Indices: 38404786--38405783 Score: 1924
Period size: 497 Copynumber: 2.0 Consensus size: 497
38404776 AATTGAAAAA
38404786 TTTGGATTCTAGAAGCAATTTGTATGAAATTTCTTTAGATTATAAATTAGAAGGTCTTGGAGAGC
1 TTTGGATTCTAGAAGCAATTTGTATGAAATTTCTTTAGATTATAAATTAGAAGGTCTTGGAGAGC
38404851 AATTTTTCTAATTTTTAAGTTTTTGGACAAAAATGGGCTTGCATGGATGAAATTTTAAAGAAAGG
66 AATTTTTCTAATTTTTAAGTTTTTGGACAAAAATGGGCTTGCATGGATGAAATTTTAAAGAAAGG
38404916 GCTTAAGGGCATTTTGATCATTTGGCATTTTAATGAAATAAAATGGGAAAAATGGAAAAAAAATC
131 GCTTAAGGGCATTTTGATCATTTGGCATTTTAATGAAATAAAATGGGAAAAATGGAAAAAAAATC
* *
38404981 AGCCATTTTCTCATTTATACCATCTGGAACTCTCAAGCCCTCCATAGCTAGAGTTTTCAAGTTTT
196 AGCCATTTTCTCATTTATACCAGCTGGAACTCTCAAGCCCTCCATAGCTAGAGTTTTCAAGCTTT
38405046 TCAAGCTCAATAGTAAGTGTTCCCAAACCCCGTTTTTAATGTTCTTTGTATTTTTGAAATTCCGA
261 TCAAGCTCAATAGTAAGTGTTCCCAAACCCCGTTTTTAATGTTCTTTGTATTTTTGAAATTCCGA
*
38405111 TAACTTGCTCTCTCCATTTCTACCCGTATTTCATGCTAGGGTTCATGTTTAAAAATTTTCCCATG
326 TAACTTGCTCTCTCCATTTCTACCCGTATTTCATGCTAGGGTTCATGTTTAAAAATTTACCCATG
38405176 CATGAGTTACTTGTATTTTGATGGATTATGGAGGAATATGAAAGTTGGATGAGTGTTAAACATAT
391 CATGAGTTACTTGTATTTTGATGGATTATGGAGGAATATGAAAGTTGGATGAGTGTTAAACATAT
*
38405241 TTTTTTTAGGTGGTTTTCATGAAAAACCCCTAAAAGGACCTT
456 TTTTTCTAGGTGGTTTTCATGAAAAACCCCTAAAAGGACCTT
*
38405283 TTTGGATTCTAGAAGCAATTTGTATGAAATTTCTTTAGATTATGAATTAGAAGGTCTTGGAGAGC
1 TTTGGATTCTAGAAGCAATTTGTATGAAATTTCTTTAGATTATAAATTAGAAGGTCTTGGAGAGC
38405348 AATTTTTCTAATTTTTAAGTTTTTGGACAAAAATGGGCTTGCATGGATGAAATTTTAAAGAAAGG
66 AATTTTTCTAATTTTTAAGTTTTTGGACAAAAATGGGCTTGCATGGATGAAATTTTAAAGAAAGG
* *
38405413 GCTTAAGGGTATTTTGATCATTTGGCATTTTAATGAAATAAAATGGGAAAAATGGAACAAAAATC
131 GCTTAAGGGCATTTTGATCATTTGGCATTTTAATGAAATAAAATGGGAAAAATGGAAAAAAAATC
38405478 AGCCATTTTCTCATTTATACCAGCTGGAACTCTCAAGCCCTCCATAGCTAGAGTTTTCAAGCTTT
196 AGCCATTTTCTCATTTATACCAGCTGGAACTCTCAAGCCCTCCATAGCTAGAGTTTTCAAGCTTT
38405543 TCAAGCTCAATAGTAAGTGTTCCCAAACCCCGTTTTTAATGTTCTTTGTATTTTTGAAATTCCGA
261 TCAAGCTCAATAGTAAGTGTTCCCAAACCCCGTTTTTAATGTTCTTTGTATTTTTGAAATTCCGA
38405608 TAACTTGCTCTCTCCATTTCTACCCGTATTTCATGCTAGGGTTCATGTTTAAAAATTTACCCATG
326 TAACTTGCTCTCTCCATTTCTACCCGTATTTCATGCTAGGGTTCATGTTTAAAAATTTACCCATG
*
38405673 CATGAGTTACTTGTATTTTGATGGATTATGGAGGAATATGAAAGTTGGATGAGTGTTAAACATCT
391 CATGAGTTACTTGTATTTTGATGGATTATGGAGGAATATGAAAGTTGGATGAGTGTTAAACATAT
38405738 TTTTTCTAGGTGGTTTTCATGAAAAACCCCTAAAAGGACCTT
456 TTTTTCTAGGTGGTTTTCATGAAAAACCCCTAAAAGGACCTT
38405780 TTTG
1 TTTG
38405784 CAAAAGGTGT
Statistics
Matches: 493, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
497 493 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (497 bp):
TTTGGATTCTAGAAGCAATTTGTATGAAATTTCTTTAGATTATAAATTAGAAGGTCTTGGAGAGC
AATTTTTCTAATTTTTAAGTTTTTGGACAAAAATGGGCTTGCATGGATGAAATTTTAAAGAAAGG
GCTTAAGGGCATTTTGATCATTTGGCATTTTAATGAAATAAAATGGGAAAAATGGAAAAAAAATC
AGCCATTTTCTCATTTATACCAGCTGGAACTCTCAAGCCCTCCATAGCTAGAGTTTTCAAGCTTT
TCAAGCTCAATAGTAAGTGTTCCCAAACCCCGTTTTTAATGTTCTTTGTATTTTTGAAATTCCGA
TAACTTGCTCTCTCCATTTCTACCCGTATTTCATGCTAGGGTTCATGTTTAAAAATTTACCCATG
CATGAGTTACTTGTATTTTGATGGATTATGGAGGAATATGAAAGTTGGATGAGTGTTAAACATAT
TTTTTCTAGGTGGTTTTCATGAAAAACCCCTAAAAGGACCTT
Found at i:38408297 original size:17 final size:17
Alignment explanation
Indices: 38408275--38408307 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38408265 ATGTACCTCA
38408275 CTCATTGCATTTACTCG
1 CTCATTGCATTTACTCG
38408292 CTCATTGCATTTACTC
1 CTCATTGCATTTACTC
38408308 ACTCCAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.30, G:0.09, T:0.42
Consensus pattern (17 bp):
CTCATTGCATTTACTCG
Found at i:38410717 original size:46 final size:44
Alignment explanation
Indices: 38410606--38410926 Score: 184
Period size: 48 Copynumber: 6.8 Consensus size: 44
38410596 GGGTTATTTG
* * *
38410606 TGTGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGC-ATTGAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGA
* * * *
38410652 TGATAGCTAGTGTAAGACATGTCTGGGACATGTATTGGCCT-CGTGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA
38410698 TGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
* * * *
38410744 TGTGTCAGTGTAAGACCATGTCTAGGACATGGCATTGAC-ACGTATAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGA
* * *
38410792 GGTGTCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGTATAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGA
* * * * *
38410840 GGTGTCAATGTAAGACCATGTCTGGGACATGGAATTGGC-ACGTATAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGA
* **
38410888 GGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
38410927 ACAAATATGT
Statistics
Matches: 242, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
44 11 0.05
45 19 0.08
46 56 0.23
47 15 0.06
48 141 0.58
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGA
Found at i:38410806 original size:48 final size:48
Alignment explanation
Indices: 38410705--38410928 Score: 332
Period size: 48 Copynumber: 4.8 Consensus size: 48
38410695 TGATGTAAGC
* *
38410705 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGTATAGAGGTGT
* *
38410749 CAGTGTAAGACCATGTCTAGGACATGGCATTGACACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
38410797 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
* *
38410845 CAATGTAAGACCATGTCTGGGACATGGAATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
* *
38410893 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
38410929 AAATATGTGA
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
44 10 0.06
45 16 0.10
46 6 0.04
48 131 0.80
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
Found at i:38411012 original size:49 final size:50
Alignment explanation
Indices: 38410750--38411023 Score: 206
Period size: 48 Copynumber: 5.6 Consensus size: 50
38410740 GAGATGTGTC
* * * ** * * *
38410750 AGTGTAAGACCATGTCTAGGACATGGCATTGACACGTATA-GAG-GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTT
* ** * * *
38410798 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATA-GAG-GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTT
* * * ** * *
38410846 AATGTAAGACCATGTCTGGGACATGGAATTGGCACGTATA-GAG-GTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTT
*
38410894 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTT
* * * * ** *
38410944 AGTGTAACACCATGCCTGGGGCATGGCGTCGGC-CTCGAT-T-TCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AAATATGT-GAGAGTT
38410993 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
38411024 ACTTGATGGA
Statistics
Matches: 197, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
48 127 0.64
49 36 0.18
50 34 0.17
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTT
Found at i:38411962 original size:28 final size:28
Alignment explanation
Indices: 38411904--38411994 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
38411894 GTGACAGAGT
* *
38411904 CACCAGATACAAATATTTTGTGGC-AGTGC
1 CACCAGA-ACAGATAATTTGTGGCAAG-GC
*
38411933 CACCAGAATAGATAATTTGTGGCAAGGC
1 CACCAGAACAGATAATTTGTGGCAAGGC
* *
38411961 CACCAGAACAGATAGTTTGTAGCATA-GC
1 CACCAGAACAGATAATTTGTGGCA-AGGC
38411989 CACCAG
1 CACCAG
38411995 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 44 0.81
29 10 0.19
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAAGGC
Found at i:38412147 original size:28 final size:28
Alignment explanation
Indices: 38412100--38412164 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
38412090 AAATTAACCC
* *
38412100 TAGGAGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
38412128 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
38412156 TAGGGGTAT
1 TAGGGGTAT
38412165 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:38423764 original size:55 final size:54
Alignment explanation
Indices: 38423677--38423931 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
38423667 ATTAGGGTTT
*
38423677 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
38423732 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
38423787 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
38423840 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
38423889 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
38423932 GTACCGCGTA
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:38423883 original size:108 final size:110
Alignment explanation
Indices: 38423684--38423884 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
38423674 TTTAAGGATA
*
38423684 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
38423749 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
38423794 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
38423856 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38423885 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:38424143 original size:16 final size:16
Alignment explanation
Indices: 38424122--38424152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38424112 ATAAATTTGA
38424122 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38424138 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38424153 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38431355 original size:54 final size:53
Alignment explanation
Indices: 38431214--38431467 Score: 247
Period size: 49 Copynumber: 4.8 Consensus size: 53
38431204 ATTAGGGTTT
* *
38431214 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* *
38431269 AAGGAAAT-CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGG--ATCCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* *
38431324 AAAGG-TCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATCCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * *
38431376 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
38431425 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
38431468 GTACCGCGTA
Statistics
Matches: 174, Mismatches: 16, Indels: 24
0.81 0.07 0.11
Matches are distributed among these distances:
49 40 0.23
51 4 0.02
52 10 0.06
53 39 0.22
54 40 0.23
55 35 0.20
56 4 0.02
57 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATCCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:38431409 original size:107 final size:109
Alignment explanation
Indices: 38431221--38431469 Score: 327
Period size: 107 Copynumber: 2.4 Consensus size: 109
38431211 TTTAAGGATA
*
38431221 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
38431286 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGT
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGT
* *
38431330 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* * * *
38431392 ACCATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG-ATA---
65 ACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGT
* * *
38431432 CCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
38431470 ACCGCGTATC
Statistics
Matches: 124, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
102 29 0.23
103 2 0.02
105 2 0.02
106 8 0.06
107 49 0.40
108 7 0.06
109 27 0.22
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGT
Found at i:38431678 original size:16 final size:16
Alignment explanation
Indices: 38431657--38431687 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38431647 ATAAATTTGA
38431657 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38431673 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38431688 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38450780 original size:13 final size:13
Alignment explanation
Indices: 38450762--38450787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38450752 GCTCGGTAAG
38450762 GACACGCCCGTGT
1 GACACGCCCGTGT
38450775 GACACGCCCGTGT
1 GACACGCCCGTGT
38450788 ACGATCACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:38451023 original size:63 final size:63
Alignment explanation
Indices: 38450924--38451049 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
38450914 GCCGTGTTAC
*
38450924 TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTTCTTTCACTCTCCTATGCTTGCCT
1 TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
* * * *
38450987 TTTGGCCTACTTTCTCTGTTTTTTGGCTCGTTTCTCGTTCCTTTCGCTCTCCTATGCTTGCCT
1 TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
38451050 AAGTATAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.04, C:0.31, G:0.16, T:0.49
Consensus pattern (63 bp):
TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
Found at i:38470448 original size:80 final size:78
Alignment explanation
Indices: 38470354--38470621 Score: 297
Period size: 80 Copynumber: 3.3 Consensus size: 78
38470344 TTACACTACA
* * * * *
38470354 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAATAGTTTTGCAATCGAGGGTGTTCCAG
1 AGGGTATTTCGGTAATTTTACAAACT-GGGGTATTTCAGTAATTTTACAATCGAGGGTATTTC-G
38470419 TAATTTTACAAATTG
64 TAATTTTACAAATTG
* * * *
38470434 AGGGTATTTTGGTAATTTTACAATCTGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAACTG-GGGTATTTCAGTAATTTTACAATC-GAGGGTATTTC-
**
38470499 GTAATTTTACAAGCTG
63 GTAATTTTACAAATTG
* * *
38470515 -GGGATATTTCGGTAATTTTACAAATTGGGGGATTTTAGTAATTTTACAAATCGAGGGTATTTCG
1 AGGG-TATTTCGGTAATTTTACAAACTGGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCG
*
38470579 ATAATTTTAC-AATCTA
64 -TAATTTTACAAAT-TG
*
38470595 AGGGTATTTTGGTAATTTTACAAACTG
1 AGGGTATTTCGGTAATTTTACAAACTG
38470622 AGGTCTTAAC
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
79 3 0.02
80 106 0.68
81 48 0.31
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (78 bp):
AGGGTATTTCGGTAATTTTACAAACTGGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGTA
ATTTTACAAATTG
Found at i:38470510 original size:27 final size:27
Alignment explanation
Indices: 38470327--38470620 Score: 249
Period size: 27 Copynumber: 11.0 Consensus size: 27
38470317 TTTACCTTAC
** *
38470327 AAGGGTATTTCAATAA-TTTACACTAC-
1 AAGGGTATTTCGGTAATTTTACA-AACT
38470353 AAGGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * * *
38470380 AGGGGTATTTCAATAGTTTTGCAATC-
1 AAGGGTATTTCGGTAATTTTACAAACT
* * * * *
38470406 GAGGGTGTTCCAGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
38470433 GAGGGTATTTTGGTAATTTTACAATCT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
38470460 GAGGGTATTTCAGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
38470487 AAGGGTATTTCGGTAATTTTACAAGCT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
38470514 -GGGGATATTTCGGTAATTTTACAAA-T
1 AAGGG-TATTTCGGTAATTTTACAAACT
** * **
38470540 TGGGGGATTTTAGTAATTTTACAAA-T
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
38470566 CGAGGGTATTTCGATAATTTTACAATCT
1 -AAGGGTATTTCGGTAATTTTACAAACT
*
38470594 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
38470621 GAGGTCTTAA
Statistics
Matches: 215, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
26 55 0.26
27 159 0.74
28 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:38470550 original size:107 final size:106
Alignment explanation
Indices: 38470354--38470617 Score: 336
Period size: 107 Copynumber: 2.5 Consensus size: 106
38470344 TTACACTACA
* ** * * * *
38470354 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAATAGTTTTGCAATCGAGGGTGTTCCAG
1 AGGGTATTTC-GTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCGAGGGTATTCCAG
* *
38470419 TAATTTTACAAATTGAGGGTATTTTGGTAATTTTAC-AATCTG
65 TAATTTTACAAATTGAGGGGATTTTAGTAATTTTACAAATC-G
*
38470461 AGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCTG-GGGATATTTC
1 AGGGTATTTC-GTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGC-GAGGG-TATTCC
*
38470525 GGTAATTTTACAAATTG-GGGGATTTTAGTAATTTTACAAATCG
63 AGTAATTTTACAAATTGAGGGGATTTTAGTAATTTTACAAATCG
* *
38470568 AGGGTATTTCGATAATTTTACAATCTAAGGGTATTTTGGTAATTTTACAA
1 AGGGTATTTCG-TAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAA
38470618 ACTGAGGTCT
Statistics
Matches: 139, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
106 1 0.01
107 113 0.81
108 25 0.18
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (106 bp):
AGGGTATTTCGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCGAGGGTATTCCAGT
AATTTTACAAATTGAGGGGATTTTAGTAATTTTACAAATCG
Found at i:38470555 original size:134 final size:134
Alignment explanation
Indices: 38470327--38470620 Score: 373
Period size: 134 Copynumber: 2.2 Consensus size: 134
38470317 TTTACCTTAC
* *
38470327 AAGGGTATTTCAATAA-TTTACACTAC-AAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTT
1 AAGGGTATTTCAGTAATTTTACA-AACTAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTT
* * * * *
38470390 CAATAGTTTTGCAATCGAGGGTGTTCCAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTAC
65 CAATAATTTTACAATCGAGGGTGTTCCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTAC
38470455 AATCT
130 AATCT
* *
38470460 GAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCT-GGGGATATTT
1 AAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAACTAGGGG-TATTT
** * **
38470524 CGGTAATTTTACAAATTG-GGG-GATTTTAGTAATTTTACAAATCGAGGGTATTTCGATAATTTT
65 CAATAATTTTAC-AATCGAGGGTG-TTCCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTT
38470587 ACAATCT
128 ACAATCT
**
38470594 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCAGTAATTTTACAAACT
38470621 GAGGTCTTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
133 21 0.15
134 114 0.82
135 4 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (134 bp):
AAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTC
AATAATTTTACAATCGAGGGTGTTCCAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACA
ATCT
Found at i:38486465 original size:40 final size:39
Alignment explanation
Indices: 38486420--38486548 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
38486410 GGAATACAAT
38486420 CGGATATAACCACGT-GCATGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAC-TAGCA-GAATGCCTTCGGGTCTTAGCC
* ** *
38486460 CGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCACTAGCA-GAATGCCTTCGGGTCTTAGCC
* * * *
38486500 CGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAACCACTAGCAGAA-TGCCTTCGGGTCTTAGCC
38486540 CGGATATAA
1 CGGATATAA
38486549 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
CGGATATAACCACTAGCAGAATGCCTTCGGGTCTTAGCC
Found at i:38486563 original size:40 final size:40
Alignment explanation
Indices: 38486442--38486582 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
38486432 CGTGCATGAA
* *
38486442 TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATATAATCAC-CAGCAC-AAT
* ** *
38486482 TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* ** *
38486522 TGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* *
38486562 TGTCTTCGGGGCTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
38486583 GTATCATTCA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 2 0.02
40 80 0.98
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
Found at i:38504636 original size:42 final size:42
Alignment explanation
Indices: 38504589--38504695 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
38504579 TATTGGTCTC
38504589 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
38504631 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
38504673 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
38504696 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:38504760 original size:27 final size:28
Alignment explanation
Indices: 38504703--38504772 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
38504693 AAAATTGTAC
**
38504703 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
38504731 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38504758 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38504773 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38509533 original size:33 final size:31
Alignment explanation
Indices: 38509496--38509590 Score: 118
Period size: 33 Copynumber: 2.9 Consensus size: 31
38509486 GGTGCACACT
38509496 CCCTTTTCAAGTGGTACACATGAAGTGTACATA
1 CCCTTTTCAAGT-GTACACAT-AAGTGTACATA
* *
38509529 CCCTTTTCAATTTGTACACACAAAGTGTACATA
1 CCCTTTTCAA-GTGTACACA-TAAGTGTACATA
*
38509562 ACCTTTTCAAGTGTACACATATAGTGTAC
1 CCCTTTTCAAGTGTACACATA-AGTGTAC
38509591 TTTTCCTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
31 1 0.02
32 15 0.28
33 37 0.69
34 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (31 bp):
CCCTTTTCAAGTGTACACATAAGTGTACATA
Found at i:38509619 original size:66 final size:66
Alignment explanation
Indices: 38509497--38509620 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
38509487 GTGCACACTC
* *
38509497 CCTTTTCAAGTGGTACACATGAAGTGTACATACCCTTTTCAATTTGTACACACAAAGTGTACATA
1 CCTTTTCAAGTGGTACACATGAAGTGTACATACCCTTTTCAAGTGGTACACACAAAGTGTACATA
38509562 A
66 A
* ** * *
38509563 CCTTTTCAAGT-GTACACAT-ATAGTGTACTTTTCCTTTATTAAGTGGTATACACAAAGT
1 CCTTTTCAAGTGGTACACATGA-AGTGTACATACCCTTT-TCAAGTGGTACACACAAAGT
38509621 ATACCTTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
64 1 0.02
65 21 0.43
66 27 0.55
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (66 bp):
CCTTTTCAAGTGGTACACATGAAGTGTACATACCCTTTTCAAGTGGTACACACAAAGTGTACATA
A
Found at i:38509646 original size:33 final size:33
Alignment explanation
Indices: 38509606--38509668 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
38509596 CTTTATTAAG
**
38509606 TGGTATACACAAAGTATACCTTTCCTTTTCGTA
1 TGGTATACACAAAGTATACCTAACCTTTTCGTA
38509639 TGGTATACACAAAGTATACCTAACCTTTTC
1 TGGTATACACAAAGTATACCTAACCTTTTC
38509669 AAATTGTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTAACCTTTTCGTA
Found at i:38514511 original size:48 final size:47
Alignment explanation
Indices: 38514398--38514570 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 47
38514388 TATGTGTGCT
** *
38514398 AGTGTAAGACATGTCTGGGACATGCATCAGCC-ACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGTATTAGAGCC
*
38514444 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAG-TA-TTAGAGCC
* * * * *
38514492 AGTGTAAGACATGTTTGGGACATGTATCGGCATTGAG-ATTAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGTATTAGAGCC
* *
38514538 AATGTAAGATATGTCTGGGACATGCATCAGCCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT
38514571 CGTGGTAGAC
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
45 3 0.03
46 62 0.57
47 2 0.02
48 40 0.37
49 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGTATTAGAGCC
Found at i:38514590 original size:94 final size:94
Alignment explanation
Indices: 38514395--38514609 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 94
38514385 TGATATGTGT
*
38514395 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCT
* * ***
38514460 GGGACATGCATCGGCCTTGAGATATTTAA
66 GGGACATGCATCAGCCTCGAGATAGACAA
* * * * * * * *
38514489 GCCAGTGTAAGACATGTTTGGGACATGTATC-GGCATTGAG-ATTAGAGCTAATGTAAGATATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGTATGAGAGCCAATGTAAGACATGT
* *
38514552 CTGGGACATGCATCAGCCTCGTGGTAGACAA
64 CTGGGACATGCATCAGCCTCGAGATAGACAA
* *
38514583 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
38514610 GCGTCGGCTT
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
93 3 0.03
94 94 0.95
95 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCT
GGGACATGCATCAGCCTCGAGATAGACAA
Found at i:38514592 original size:48 final size:47
Alignment explanation
Indices: 38514395--38514609 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 47
38514385 TGATATGTGT
* * *
38514395 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCTGGTA-GATAA
* * **
38514441 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCTG-G-TAGATAA
* * * * *
38514489 GCCAGTGTAAGACATGTTTGGGACATGTATCGGCAT-T-G-AGATTAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCTGGTAGA-TA-A
* * *
38514535 GCTAATGTAAGATATGTCTGGGACATGCATCAGCCTCGTGGTAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC-TGGTAGATAA
* *
38514583 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
38514610 GCGTCGGCTT
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 64 0.47
47 1 0.01
48 62 0.46
49 2 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCTGGTAGATAA
Found at i:38515276 original size:13 final size:13
Alignment explanation
Indices: 38515258--38515288 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
38515248 GTTGGTAGAA
38515258 ATATATGAATCGT
1 ATATATGAATCGT
38515271 ATATATGAATCGT
1 ATATATGAATCGT
38515284 ATATA
1 ATATA
38515289 CGGTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (13 bp):
ATATATGAATCGT
Found at i:38521397 original size:18 final size:18
Alignment explanation
Indices: 38521374--38521453 Score: 99
Period size: 18 Copynumber: 4.4 Consensus size: 18
38521364 CAAGGTCATG
*
38521374 ATCAATAGT-GTCACTATC
1 ATCAATA-TCGTCACTAGC
*
38521392 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
38521410 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
* * *
38521428 ATCAATATCATCACCATC
1 ATCAATATCGTCACTAGC
38521446 ATCAATAT
1 ATCAATAT
38521454 TGATATCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:38521414 original size:36 final size:35
Alignment explanation
Indices: 38521374--38521467 Score: 102
Period size: 36 Copynumber: 2.7 Consensus size: 35
38521364 CAAGGTCATG
* *
38521374 ATCAATAGTGTCACTATCATCAATAGCGTCACTAGC
1 ATCAATA-TGTCACTATCATCAATAGCATCACCAGC
* * *
38521410 ATCAATATCGTCACTAGCATCAATATCATCACCATC
1 ATCAATAT-GTCACTATCATCAATAGCATCACCAGC
*
38521446 ATCAATAT-TGA-TATCATCAATA
1 ATCAATATGTCACTATCATCAATA
38521468 AGAAAACCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 10 0.20
34 2 0.04
35 1 0.02
36 37 0.74
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (35 bp):
ATCAATATGTCACTATCATCAATAGCATCACCAGC
Found at i:38521418 original size:27 final size:27
Alignment explanation
Indices: 38521374--38521452 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
38521364 CAAGGTCATG
** *
38521374 ATCAATAGTGTCACTATCATCAATAGC
1 ATCAATAGCATCAATATCATCAATAGC
* * * *
38521401 GTCACTAGCATCAATATCGTCACTAGC
1 ATCAATAGCATCAATATCATCAATAGC
* **
38521428 ATCAATATCATCACCATCATCAATA
1 ATCAATAGCATCAATATCATCAATA
38521453 TTGATATCAT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.28
Consensus pattern (27 bp):
ATCAATAGCATCAATATCATCAATAGC
Found at i:38524847 original size:40 final size:39
Alignment explanation
Indices: 38524802--38524931 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
38524792 CGGAATATAA
38524802 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
38524842 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
38524882 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
38524922 CCGGATATAA
1 CCGGATATAA
38524932 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:38524946 original size:40 final size:40
Alignment explanation
Indices: 38524818--38525004 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
38524808 ATAACCATGT
* * *
38524818 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
38524858 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
38524898 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * * * *
38524938 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA-AGTCACAA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATATAATCTCCA
* *
38524977 GCA-TATTCGCCTTCGGGACTTAGCCCGG
1 GCACAATT-GCCTTCGGGTCTTAGCCCGG
38525005 GTAGAATTCA
Statistics
Matches: 117, Mismatches: 24, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
38 3 0.03
39 26 0.22
40 85 0.73
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:38524952 original size:80 final size:80
Alignment explanation
Indices: 38524818--38524967 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
38524808 ATAACCATGT
*
38524818 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
38524882 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
38524898 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
38524961 CCCGGAT
64 CCCGGAT
38524968 AAGTCACAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:38526713 original size:29 final size:29
Alignment explanation
Indices: 38526671--38526729 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
38526661 TATCTTCTAT
*
38526671 TAGGAATAGTGTTTTGATATGATAATAAA
1 TAGGAATAGCGTTTTGATATGATAATAAA
38526700 TAGGAATAGCGTTTTGATATGATAATAAA
1 TAGGAATAGCGTTTTGATATGATAATAAA
38526729 T
1 T
38526730 GGGTTGCTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (29 bp):
TAGGAATAGCGTTTTGATATGATAATAAA
Found at i:38531764 original size:2 final size:2
Alignment explanation
Indices: 38531757--38531787 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38531747 CAGAGAATGG
38531757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38531788 GTATTTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38534208 original size:78 final size:78
Alignment explanation
Indices: 38534079--38534237 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 78
38534069 GACCATGTGT
38534079 ATGTAACTCATGTGCTTTGATATAAGTAGAAGCTTATGTTATAAATATGATTGAGCCCATAGCCG
1 ATGTAACTCATGTGCTTTGATATAAGTAGAAGCTTATGTTATAAATATGATTGAGCCCATAGCCG
38534144 ATATGTTAGGTAC
66 ATATGTTAGGTAC
* * *
38534157 ATGTAACTCATGTTCTTTGATATAAGTAGAGGCTTATGTTCTAAATATGATTGAGCCCATAGCCG
1 ATGTAACTCATGTGCTTTGATATAAGTAGAAGCTTATGTTATAAATATGATTGAGCCCATAGCCG
38534222 ATATGTTAGGTAC
66 ATATGTTAGGTAC
38534235 ATG
1 ATG
38534238 ACTTGTGTAT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (78 bp):
ATGTAACTCATGTGCTTTGATATAAGTAGAAGCTTATGTTATAAATATGATTGAGCCCATAGCCG
ATATGTTAGGTAC
Found at i:38535490 original size:61 final size:58
Alignment explanation
Indices: 38535425--38535540 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
38535415 ACATATTATC
* *
38535425 TTAATATTAAATTAAATTTAATACTTATCTTATAGATAAATATTTTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATACTTATC-T-TA-ATAAATATTATATTAATTTAATAGAT
* * *
38535486 TTAATATTAAATTTAATCTAATATTTATCTTAATAATTATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAAATATTATATTAATTTAATA
38535541 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 21 0.42
59 2 0.04
60 1 0.02
61 26 0.52
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATACTTATCTTAATAAATATTATATTAATTTAATAGAT
Found at i:38539088 original size:4 final size:4
Alignment explanation
Indices: 38539079--38539108 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
38539069 CAAATAAAAC
38539079 AAAT AAAT AAAT AAAT AAGAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT A
38539109 GAACAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:38539119 original size:12 final size:13
Alignment explanation
Indices: 38539079--38539108 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
38539069 CAAATAAAAC
38539079 AAATAA-ATAAAT
1 AAATAAGATAAAT
38539091 AAATAAGATAAAT
1 AAATAAGATAAAT
38539104 AAATA
1 AAATA
38539109 GAACAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAGATAAAT
Found at i:38542537 original size:2 final size:2
Alignment explanation
Indices: 38542530--38542559 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38542520 ATAACATTAC
38542530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38542560 TACCTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38542657 original size:32 final size:32
Alignment explanation
Indices: 38542619--38542685 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
38542609 CATTTCAATG
38542619 ATACATAAGCTATTCATTCACAAACCGAATAC
1 ATACATAAGCTATTCATTCACAAACCGAATAC
38542651 ATACATAAGCTATTCATTCACAAACCGAATAC
1 ATACATAAGCTATTCATTCACAAACCGAATAC
38542683 ATA
1 ATA
38542686 TACCACATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (32 bp):
ATACATAAGCTATTCATTCACAAACCGAATAC
Found at i:38546650 original size:15 final size:15
Alignment explanation
Indices: 38546622--38546659 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
38546612 TTCTTAAAAG
38546622 ATAATAT-C-CACTA
1 ATAATATCCTCACTA
38546635 ATAATATCCTCACTA
1 ATAATATCCTCACTA
38546650 ATAATATCCT
1 ATAATATCCT
38546660 AACAGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.30
14 1 0.04
15 15 0.65
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATCCTCACTA
Found at i:38547750 original size:34 final size:34
Alignment explanation
Indices: 38547707--38547775 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
38547697 AATAAGTAAA
38547707 CCTAAAAAATAGAAAGAAACAACATAGCAAAACC
1 CCTAAAAAATAGAAAGAAACAACATAGCAAAACC
38547741 CCTAAAAAATAGAAAGAAACAACATAGCAAAACC
1 CCTAAAAAATAGAAAGAAACAACATAGCAAAACC
38547775 C
1 C
38547776 ACAATGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.61, C:0.22, G:0.09, T:0.09
Consensus pattern (34 bp):
CCTAAAAAATAGAAAGAAACAACATAGCAAAACC
Found at i:38549271 original size:27 final size:26
Alignment explanation
Indices: 38549241--38549322 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
38549231 GATCCACTTA
38549241 AAATTTTGACCCCAATAATTTAAATTT
1 AAATTTTGA-CCCAATAATTTAAATTT
* ** *
38549268 AAA-TTCGATGCAATTATTTAAATTT
1 AAATTTTGACCCAATAATTTAAATTT
* *
38549293 AAATTTTCATCCCATTAATTTAAATTT
1 AAATTTTGA-CCCAATAATTTAAATTT
38549320 AAA
1 AAA
38549323 ATAAATTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 17 0.40
26 7 0.16
27 19 0.44
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (26 bp):
AAATTTTGACCCAATAATTTAAATTT
Found at i:38552064 original size:18 final size:18
Alignment explanation
Indices: 38552043--38552097 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
38552033 TAAATTTTGT
38552043 AATAATTATATATTTAAA
1 AATAATTATATATTTAAA
38552061 AATAATTATA-ATTTAATTA
1 AATAATTATATATTTAA--A
*
38552080 AA-AATTAT-TACTTAAA
1 AATAATTATATATTTAAA
38552096 AA
1 AA
38552098 AGTTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 21 0.64
19 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATTATATATTTAAA
Found at i:38554468 original size:2 final size:2
Alignment explanation
Indices: 38554461--38554501 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
38554451 AGTTAAATGC
38554461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38554502 TCTGTTATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38556153 original size:17 final size:17
Alignment explanation
Indices: 38556131--38556165 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38556121 AGTGTACCTA
38556131 TCGAACAGTAGTATAGT
1 TCGAACAGTAGTATAGT
38556148 TCGAACAGTAGTATAGT
1 TCGAACAGTAGTATAGT
38556165 T
1 T
38556166 TTAGCAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (17 bp):
TCGAACAGTAGTATAGT
Found at i:38562208 original size:22 final size:21
Alignment explanation
Indices: 38562158--38562213 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
38562148 TGCTAAGAGA
*
38562158 AAGAAAAAGTAAATTAATTAGT
1 AAGAAAAA-TAAATTAATTAGC
* *
38562180 AATAAAATTAAATTAAATT-GC
1 AAGAAAAATAAATT-AATTAGC
38562201 AAGAAAAATAAAT
1 AAGAAAAATAAAT
38562214 GGCTAAAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAGAAAAATAAATTAATTAGC
Found at i:38565260 original size:19 final size:19
Alignment explanation
Indices: 38565236--38565273 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38565226 TTACTGAATA
38565236 AGGCAGGCATAAAATTAAT
1 AGGCAGGCATAAAATTAAT
38565255 AGGCAGGCATAAAATTAAT
1 AGGCAGGCATAAAATTAAT
38565274 CTTTGACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (19 bp):
AGGCAGGCATAAAATTAAT
Found at i:38574034 original size:42 final size:42
Alignment explanation
Indices: 38573982--38574225 Score: 289
Period size: 42 Copynumber: 5.8 Consensus size: 42
38573972 CAGCTACCGG
* * * *
38573982 GATTCCGTATAAGACCATATATGGGATATGGAATCGCTATGT
1 GATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGT
38574024 GATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGT
1 GATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGT
*
38574066 GATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGT
1 GATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGT
* **
38574108 GATTCTATATAAGACCATATCTAAGATATGGCATCGGTATGT
1 GATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGT
* * * * *
38574150 GATT-TCGTATAAGACCATGTCAGGGACATGGCGTCGATATGAT
1 GATTCT-GTATAAGACCATATCTGGGATATGGCATCGGTATG-T
* *
38574193 -ATTTCATG--TAAGACCATATCCGAGATATGGCAT
1 GA-TTC-TGTATAAGACCATATCTGGGATATGGCAT
38574226 TGATATGGTA
Statistics
Matches: 175, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 169 0.97
43 3 0.02
44 1 0.01
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
GATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGT
Found at i:38574123 original size:84 final size:84
Alignment explanation
Indices: 38573982--38574225 Score: 330
Period size: 84 Copynumber: 2.9 Consensus size: 84
38573972 CAGCTACCGG
* * * *
38573982 GATTCCGTATAAGACCATATATGGGATATGGAATCGCTATGTGATTCTGTATAAGACCATATCTG
1 GATTCCGTATAAGACCATATCTGGGATATGGCATCGATATGTGATTCTATATAAGACCATATCTG
*
38574047 GGATATGGCATCGGTATGT
66 AGATATGGCATCGGTATGT
* *
38574066 GATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGATTCTATATAAGACCATATCTA
1 GATTCCGTATAAGACCATATCTGGGATATGGCATCGATATGTGATTCTATATAAGACCATATCTG
38574131 AGATATGGCATCGGTATGT
66 AGATATGGCATCGGTATGT
* * * * * *
38574150 GATTTCGTATAAGACCATGTCAGGGACATGGCGTCGATATGAT-ATT-TCATGTAAGACCATATC
1 GATTCCGTATAAGACCATATCTGGGATATGGCATCGATATG-TGATTCT-ATATAAGACCATATC
*
38574213 CGAGATATGGCAT
64 TGAGATATGGCAT
38574226 TGATATGGTA
Statistics
Matches: 143, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
83 1 0.01
84 141 0.99
85 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (84 bp):
GATTCCGTATAAGACCATATCTGGGATATGGCATCGATATGTGATTCTATATAAGACCATATCTG
AGATATGGCATCGGTATGT
Found at i:38577342 original size:35 final size:35
Alignment explanation
Indices: 38577315--38577480 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
38577305 CATGGCAAAG
*
38577315 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
38577350 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
38577385 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
38577425 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
38577460 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
38577481 TTTAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:38577434 original size:75 final size:73
Alignment explanation
Indices: 38577315--38577481 Score: 216
Period size: 75 Copynumber: 2.3 Consensus size: 73
38577305 CATGGCAAAG
** *
38577315 TGTGAAATGTAGGTATGG---TATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CC
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCCC
*
38577376 ATACTGAGC
65 ATACCGAGC
38577385 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
38577450 CATACCGAGT
64 CATACCGAGC
**
38577460 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
38577482 TTAATGAGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 61 0.73
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (73 bp):
TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCA
TACCGAGC
Found at i:38579477 original size:16 final size:16
Alignment explanation
Indices: 38579456--38579494 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38579446 GAAGCCTAAA
*
38579456 AGTTTTTAAGGTATCC
1 AGTTTTTAAGGTATAC
**
38579472 AGTTTTTTGGGTATAC
1 AGTTTTTAAGGTATAC
38579488 AGTTTTT
1 AGTTTTT
38579495 TGGGTTTAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.51
Consensus pattern (16 bp):
AGTTTTTAAGGTATAC
Found at i:38579495 original size:16 final size:16
Alignment explanation
Indices: 38579465--38579499 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
38579455 AAGTTTTTAA
*
38579465 GGTATCCAGTTTTTTG
1 GGTATACAGTTTTTTG
38579481 GGTATACAGTTTTTTG
1 GGTATACAGTTTTTTG
38579497 GGT
1 GGT
38579500 TTAGCCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.09, G:0.29, T:0.49
Consensus pattern (16 bp):
GGTATACAGTTTTTTG
Found at i:38584353 original size:3 final size:3
Alignment explanation
Indices: 38584345--38584439 Score: 190
Period size: 3 Copynumber: 31.7 Consensus size: 3
38584335 ATTAAGCTAA
38584345 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38584393 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
38584440 ATATCAAAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:38584599 original size:2 final size:2
Alignment explanation
Indices: 38584592--38584618 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38584582 CATAAGTGTT
38584592 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38584619 GACATGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38586969 original size:60 final size:59
Alignment explanation
Indices: 38586842--38586980 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
38586832 TTTAGTGTTA
* *
38586842 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
38586903 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
38586963 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
38586981 TGACACAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.04
60 51 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:38586998 original size:20 final size:19
Alignment explanation
Indices: 38586973--38587028 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
38586963 ATTGGGCCTT
*
38586973 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
38586993 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
38587012 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
38587029 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:38591180 original size:22 final size:23
Alignment explanation
Indices: 38591152--38591197 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
38591142 AATGATATAC
*
38591152 TATGTTA-GATGCTTGAATTGGT
1 TATGTTATAATGCTTGAATTGGT
38591174 TATGTTATAATGCTTGAATTGGT
1 TATGTTATAATGCTTGAATTGGT
38591197 T
1 T
38591198 GGTATTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (23 bp):
TATGTTATAATGCTTGAATTGGT
Found at i:38596109 original size:42 final size:43
Alignment explanation
Indices: 38596039--38596232 Score: 162
Period size: 42 Copynumber: 4.5 Consensus size: 43
38596029 CAATGCTATG
* * * * *
38596039 TCCCAGACATGGTCTTACATGGAATCTCAA-ATCGATGCCATA
1 TCCCAGATATGGTCTTATACGAAATCTCAATATCGACGCCATA
* * * *
38596081 TCCTAGATATGGTCTTATACGAATTCTC-ATTTCGACGCCATG
1 TCCCAGATATGGTCTTATACGAAATCTCAATATCGACGCCATA
* * * *
38596123 TCCTAGACATGGTC-TATACGAAATCT-AATATCAACACCATA
1 TCCCAGATATGGTCTTATACGAAATCTCAATATCGACGCCATA
* * * *
38596164 TCCCAGATATGGTCTTACATGATAACTCATGCTAATACCGATGCCATA
1 TCCCAGATATGGTCTTATACGA-AA-TC-T-C-AATATCGACGCCATA
38596212 TCCCAGATATGGTCTTATACG
1 TCCCAGATATGGTCTTATACG
38596233 GGATCCCATC
Statistics
Matches: 118, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
41 34 0.29
42 49 0.42
43 2 0.02
44 2 0.02
45 1 0.01
48 30 0.25
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
TCCCAGATATGGTCTTATACGAAATCTCAATATCGACGCCATA
Found at i:38596176 original size:41 final size:41
Alignment explanation
Indices: 38596076--38596178 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
38596066 CAAATCGATG
* * * * *
38596076 CCATATCCTAGATATGGTCTTATACGAATTCTCATTTCGACG
1 CCATATCCTAGATATGGTC-TATACGAAATCTAATATCAACA
* *
38596118 CCATGTCCTAGACATGGTCTATACGAAATCTAATATCAACA
1 CCATATCCTAGATATGGTCTATACGAAATCTAATATCAACA
*
38596159 CCATATCCCAGATATGGTCT
1 CCATATCCTAGATATGGTCT
38596179 TACATGATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 34 0.67
42 17 0.33
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (41 bp):
CCATATCCTAGATATGGTCTATACGAAATCTAATATCAACA
Found at i:38597704 original size:20 final size:19
Alignment explanation
Indices: 38597598--38597705 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 19
38597588 TTATTATTTT
*
38597598 AAAATTGTTAAAAAAGTTATTT
1 AAAATTG-T-AAAAA-TTATTA
*
38597620 AAAATTATAAAACATTATTTA
1 AAAATTGTAAAA-ATTA-TTA
*
38597641 AAATTTGTAAAAATTATTA
1 AAAATTGTAAAAATTATTA
* * *
38597660 AAATTTGTGAAAGTTATTAA
1 AAAATTGTAAAAATTATT-A
*
38597680 AAAATTGCAAATAATTATTA
1 AAAATTGTAAA-AATTATTA
38597700 AAAATT
1 AAAATT
38597706 TGTGAACCAA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
19 19 0.26
20 27 0.38
21 20 0.28
22 6 0.08
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (19 bp):
AAAATTGTAAAAATTATTA
Found at i:38597705 original size:10 final size:10
Alignment explanation
Indices: 38597598--38597705 Score: 57
Period size: 10 Copynumber: 10.6 Consensus size: 10
38597588 TTATTATTTT
*
38597598 AAAATTGTTAA
1 AAAATTATT-A
*
38597609 AAAAGTTATTT
1 AAAA-TTATTA
38597620 AAAATTA-TA
1 AAAATTATTA
*
38597629 AAACATTATTT
1 AAA-ATTATTA
38597640 AAAATT-TGTA
1 AAAATTAT-TA
38597650 AAAATTATT-
1 AAAATTATTA
*
38597659 AAAATT-TGTG
1 AAAATTAT-TA
*
38597669 AAAGTTATTA
1 AAAATTATTA
38597679 AAAA--ATTGCA
1 AAAATTATT--A
38597689 AATAATTATTA
1 AA-AATTATTA
38597700 AAAATT
1 AAAATT
38597706 TGTGAACCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 27
0.68 0.07 0.24
Matches are distributed among these distances:
8 4 0.05
9 12 0.16
10 34 0.45
11 19 0.25
12 4 0.05
13 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:38603883 original size:33 final size:34
Alignment explanation
Indices: 38603789--38603922 Score: 135
Period size: 34 Copynumber: 4.0 Consensus size: 34
38603779 CCTATTACAT
* * ** *
38603789 GGTCTAGCCAAACAGCTTTGTAACCCTTCCACGC
1 GGTCTGGCCACACAGCCATGTAACCCTTCCACAC
* * **
38603823 AGTCTGACCACACAATCATGTAACCCTTCCACAC
1 GGTCTGGCCACACAGCCATGTAACCCTTCCACAC
* * *
38603857 GGTCTGGCCACAC-GCCGTGTAACCCTTCTACAT
1 GGTCTGGCCACACAGCCATGTAACCCTTCCACAC
* *
38603890 GGTTTGGCCACACGGCCATGTAACCCTTCCACA
1 GGTCTGGCCACACAGCCATGTAACCCTTCCACA
38603923 TGGCCCAGCC
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
33 27 0.34
34 53 0.66
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (34 bp):
GGTCTGGCCACACAGCCATGTAACCCTTCCACAC
Done.