Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 65 of 106
Found at i:11772052 original size:19 final size:20
Alignment explanation
Indices: 11772028--11772068 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11772018 TAAAGCTCAT
* *
11772028 ATTATATATGTATA-AATGA
1 ATTATAGATATATATAATGA
11772047 ATTATAGATATATATAATGA
1 ATTATAGATATATATAATGA
11772067 AT
1 AT
11772069 AAATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
ATTATAGATATATATAATGA
Found at i:11772957 original size:18 final size:18
Alignment explanation
Indices: 11772905--11773009 Score: 92
Period size: 18 Copynumber: 5.7 Consensus size: 18
11772895 AAACGTTATA
11772905 CAAATATATTAATTATCATG
1 CAAATATA-TAA-TATCATG
*
11772925 C-AATA-ATAACAATCATG
1 CAAATATATAA-TATCATG
*
11772942 TAAATATATAATATCATG
1 CAAATATATAATATCATG
11772960 CAAATATAT--TATCATG
1 CAAATATATAATATCATG
* *
11772976 CAATGATATAAAATACCATG
1 CAA--ATATATAATATCATG
11772996 CAAATATATTAATA
1 CAAATATA-TAATA
11773010 ACCATTCATG
Statistics
Matches: 70, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
16 10 0.14
17 9 0.13
18 29 0.41
19 12 0.17
20 10 0.14
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
CAAATATATAATATCATG
Found at i:11773013 original size:20 final size:19
Alignment explanation
Indices: 11772905--11773031 Score: 90
Period size: 18 Copynumber: 6.6 Consensus size: 19
11772895 AAACGTTATA
*
11772905 CAAATATATTAATTATCATG
1 CAAATATA-TAATAATCATG
*
11772925 C-AATA-ATAACAATCATG
1 CAAATATATAATAATCATG
*
11772942 TAAATATATAAT-ATCATG
1 CAAATATATAATAATCATG
11772960 CAAATATAT--T-ATCATG
1 CAAATATATAATAATCATG
11772976 C-AATGATATAA-AATACCATG
1 CAAAT-ATATAATAAT--CATG
11772996 CAAATATATTAATAACCATTCATG
1 CAAATATA-TAAT-A--A-TCATG
11773020 CAAATATATAAT
1 CAAATATATAAT
11773032 GATGAAATCA
Statistics
Matches: 87, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
15 3 0.03
16 12 0.14
17 9 0.10
18 21 0.24
19 8 0.09
20 9 0.10
21 6 0.07
23 5 0.06
24 12 0.14
25 1 0.01
26 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.33
Consensus pattern (19 bp):
CAAATATATAATAATCATG
Found at i:11773154 original size:24 final size:25
Alignment explanation
Indices: 11773126--11773173 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11773116 TATCATTCAA
11773126 ATATAATATTA-ATCATGCAATAAC
1 ATATAATATTATATCATGCAATAAC
11773150 ATATAATATTATATCATGCAATAA
1 ATATAATATTATATCATGCAATAA
11773174 TAATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATAATATTATATCATGCAATAAC
Found at i:11773182 original size:25 final size:24
Alignment explanation
Indices: 11773124--11773182 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 24
11773114 AATATCATTC
11773124 AAATATAATATTAATCATGCAATA
1 AAATATAATATTAATCATGCAATA
*
11773148 ACATATAATATTATATCATGCAATA
1 AAATATAATATTA-ATCATGCAATA
11773173 ATAATA-AATA
1 A-AATATAATA
11773183 AATAACTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 12 0.39
25 16 0.52
26 3 0.10
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATAATATTAATCATGCAATA
Found at i:11773263 original size:20 final size:20
Alignment explanation
Indices: 11773240--11773292 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
11773230 AAATAAATTA
*
11773240 ATAATCATGTAATTAA-ATAT
1 ATAATCATGCAATTAACA-AT
11773260 ATAATCATGCAATTAACAAT
1 ATAATCATGCAATTAACAAT
11773280 ATAAATCATGCAA
1 AT-AATCATGCAA
11773293 ATAAAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAATCATGCAATTAACAAT
Found at i:11773304 original size:33 final size:33
Alignment explanation
Indices: 11773266--11773328 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
11773256 ATATATAATC
*
11773266 ATGCAATTAACA-ATATAAATCATGCAAATAAAA
1 ATGCAATTAA-ATATATAAACCATGCAAATAAAA
11773299 ATGCAATTAAATATATAAACCATGCAAATA
1 ATGCAATTAAATATATAAACCATGCAAATA
11773329 TACAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (33 bp):
ATGCAATTAAATATATAAACCATGCAAATAAAA
Found at i:11773336 original size:29 final size:28
Alignment explanation
Indices: 11773302--11773368 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
11773292 AATAAAAATG
11773302 CAATTAAATATATAAACCATGCAAAT-ATA
1 CAATTAAATATAT-AACCATGC-AATCATA
*
11773331 CAATTAAATATATAATCATGCAATCATA
1 CAATTAAATATATAACCATGCAATCATA
*
11773359 CAAATAAATA
1 CAATTAAATA
11773369 AATTAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 3 0.09
28 19 0.54
29 13 0.37
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.28
Consensus pattern (28 bp):
CAATTAAATATATAACCATGCAATCATA
Found at i:11773403 original size:32 final size:32
Alignment explanation
Indices: 11773332--11773417 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
11773322 GCAAATATAC
*
11773332 AATTAAATATATAATCATGCAATCATACAAAT
1 AATTAAATATATAATCATGCAATCAGACAAAT
* * **
11773364 AAATAAAT-TAATAATCATGCAATTAGACATGT
1 AATTAAATAT-ATAATCATGCAATCAGACAAAT
*
11773396 AATTAAATATATAATTATGCAA
1 AATTAAATATATAATCATGCAA
11773418 ATAAAAATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
31 1 0.02
32 43 0.96
33 1 0.02
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (32 bp):
AATTAAATATATAATCATGCAATCAGACAAAT
Found at i:11773472 original size:20 final size:20
Alignment explanation
Indices: 11773391--11773609 Score: 105
Period size: 20 Copynumber: 10.8 Consensus size: 20
11773381 TGCAATTAGA
*
11773391 CATGTAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* * *
11773411 TATGCAAATAAAAATAT-AT
1 CATGCAATTAAATATATAAT
* * **
11773430 -ATACCATGCAA-ATA-AAT
1 CATGCAATTAAATATATAAT
*
11773447 -ATGCAATTAAATATGTAAT
1 CATGCAATTAAATATATAAT
11773466 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
11773486 CATTCAAATAATAATATATAAAT
1 CATGC-AATTA-AATATAT-AAT
11773509 CATGCAATCATGTAAATA-ATAAT
1 CATGC-A--AT-TAAATATATAAT
* *** * *
11773532 -ATACAA-GCCATACAAAAT
1 CATGCAATTAAATATATAAT
11773550 -ATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
11773569 CATGCAAATAAATATATTAAGAAT
1 CATGCAATTAAATATA-T---AAT
*
11773593 CAAGCAATTAAATATAT
1 CATGCAATTAAATATAT
11773610 TAATAATTAT
Statistics
Matches: 149, Mismatches: 33, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
17 15 0.10
18 17 0.11
19 13 0.09
20 49 0.33
21 6 0.04
22 10 0.07
23 13 0.09
24 19 0.13
25 6 0.04
26 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.32
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:11773593 original size:24 final size:24
Alignment explanation
Indices: 11773564--11773724 Score: 135
Period size: 24 Copynumber: 7.0 Consensus size: 24
11773554 AATTAAATAT
11773564 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* * *
11773588 AGAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
11773612 ATAATTATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
**
11773634 TATAATCATATAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
11773659 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
**
11773679 ATAAATCACACAAATAAATATA-T-
1 AT-AATCATGCAAATAAATATATTA
*
11773702 -TAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
11773725 GGCAAATAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 25
0.71 0.13 0.17
Matches are distributed among these distances:
20 12 0.11
21 22 0.21
22 3 0.03
23 15 0.14
24 46 0.43
25 8 0.08
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:11773653 original size:47 final size:45
Alignment explanation
Indices: 11773564--11773705 Score: 153
Period size: 47 Copynumber: 3.0 Consensus size: 45
11773554 AATTAAATAT
* *
11773564 ATAATCATGCAAATAAATATATTAAGAATCA-AGCAATTAAATATATTA
1 ATAATCATGCAAATAAAT-TAAT-A-AATCACA-CAAATAAATATATTA
* * *
11773612 ATAATTATGC-AATCAAATTAAATATAATCATATAAATAAATATATTA
1 ATAATCATGCAAAT-AAATT-AATA-AATCACACAAATAAATATATTA
*
11773659 ATAATCATGCAAATATATTAATAAATCACACAAATAAATATATTA
1 ATAATCATGCAAATAAATTAATAAATCACACAAATAAATATATTA
11773704 AT
1 AT
11773706 CATGCAAACA
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
45 22 0.27
46 4 0.05
47 36 0.44
48 19 0.23
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (45 bp):
ATAATCATGCAAATAAATTAATAAATCACACAAATAAATATATTA
Found at i:11773672 original size:20 final size:20
Alignment explanation
Indices: 11773649--11773713 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
11773639 TCATATAAAT
11773649 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
**
11773669 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCATGC
* *
11773690 AAATAAATATATTAATCATGC
1 AAATATAT-TAATAATCATGC
11773711 AAA
1 AAA
11773714 CAAATATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.32
21 22 0.59
22 3 0.08
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:11773692 original size:21 final size:20
Alignment explanation
Indices: 11773649--11773694 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11773639 TCATATAAAT
**
11773649 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
11773669 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
11773690 AAATA
1 AAATA
11773695 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:11773706 original size:21 final size:21
Alignment explanation
Indices: 11773636--11773724 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
11773626 AAATTAAATA
* *
11773636 TAATCATATAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
11773657 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
*
11773681 AAATCACACAAATAAATATAT
1 TAATCACACAAATAAATATAT
** *
11773702 TAATCATGCAAACAAATATAT
1 TAATCACACAAATAAATATAT
11773723 TA
1 TA
11773725 GGCAAATAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
21 34 0.65
22 2 0.04
23 3 0.06
24 13 0.25
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:11773747 original size:16 final size:16
Alignment explanation
Indices: 11773694--11773748 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
11773684 TCACACAAAT
*
11773694 AAATATATTAATCATGC
1 AAATAAATT-ATCATGC
* * *
11773711 AAACAAATATATTAGGC
1 AAATAAAT-TATCATGC
11773728 AAATAAATTATCATGC
1 AAATAAATTATCATGC
11773744 AAATA
1 AAATA
11773749 TAATATTAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 11 0.37
17 18 0.60
18 1 0.03
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (16 bp):
AAATAAATTATCATGC
Found at i:11774176 original size:42 final size:42
Alignment explanation
Indices: 11774121--11774309 Score: 194
Period size: 42 Copynumber: 4.5 Consensus size: 42
11774111 CTTCAACTTA
*
11774121 AAACTTTTG-AAAATAAAATGCTCTCCTATAACTAAGGCTTTG
1 AAACTTTTGAAAAATAAAATGCTCTCC-ACAACTAAGGCTTTG
* * *
11774163 AAAC-TTTGAAAAATAAAATACTTCTCCACAATTGAGGCTTT-
1 AAACTTTTGAAAAATAAAATGC-TCTCCACAACTAAGGCTTTG
* * *
11774204 AGAACTTTTG-TAAATAAAATGCTCCTCCACAATTGAGGCTTTG
1 A-AACTTTTGAAAAATAAAATGCT-CTCCACAACTAAGGCTTTG
*
11774247 AAAC-TTTGAAAAATAAAATGCTC-CCTTACAACTGAA-GTTTTG
1 AAACTTTTGAAAAATAAAATGCTCTCC--ACAACT-AAGGCTTTG
11774289 AAACTTTTGAAAAATAAAATG
1 AAACTTTTGAAAAATAAAATG
11774310 AGATCATTCT
Statistics
Matches: 126, Mismatches: 10, Indels: 21
0.80 0.06 0.13
Matches are distributed among these distances:
40 2 0.02
41 11 0.09
42 86 0.68
43 27 0.21
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (42 bp):
AAACTTTTGAAAAATAAAATGCTCTCCACAACTAAGGCTTTG
Found at i:11774294 original size:84 final size:83
Alignment explanation
Indices: 11774121--11774309 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 83
11774111 CTTCAACTTA
*
11774121 AAACTTTTGAAAATAAAATGCTCTCCTATAACTAAGGCTTTGAAACTTTGAAAAATAAAATACTT
1 AAACTTTTGAAAATAAAATGCTCTCCTACAACTAAGGCTTTGAAACTTTGAAAAATAAAATACTT
* *
11774186 CTCCACAATTGAGGCTTT
66 CTCCACAACTGAAGCTTT
* * * *
11774204 AGAACTTTTGTAAATAAAATGCTCCTCC-ACAATTGAGGCTTTGAAACTTTGAAAAATAAAATGC
1 A-AACTTTTGAAAATAAAATGCT-CTCCTACAACTAAGGCTTTGAAACTTTGAAAAATAAAATAC
*
11774268 -TC-CCTTACAACTGAAGTTTT
64 TTCTCC--ACAACTGAAGCTTT
11774288 GAAACTTTTGAAAAATAAAATG
1 -AAACTTTTG-AAAATAAAATG
11774310 AGATCATTCT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
82 2 0.02
83 3 0.03
84 71 0.78
85 15 0.16
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (83 bp):
AAACTTTTGAAAATAAAATGCTCTCCTACAACTAAGGCTTTGAAACTTTGAAAAATAAAATACTT
CTCCACAACTGAAGCTTT
Found at i:11775782 original size:12 final size:12
Alignment explanation
Indices: 11775767--11775815 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
11775757 ATTTTCCTTT
11775767 TTTTTTTTTTTG
1 TTTTTTTTTTTG
**
11775779 TTTTTACTTTTG
1 TTTTTTTTTTTG
*
11775791 TTTTTGCTTTTTTC
1 TTTTT--TTTTTTG
11775805 TTTTTTTTTTT
1 TTTTTTTTTTT
11775816 ACACATCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 21 0.70
14 9 0.30
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:11778555 original size:8 final size:8
Alignment explanation
Indices: 11778542--11778566 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11778532 ATGCTTATGT
11778542 ATGAATGC
1 ATGAATGC
11778550 ATGAATGC
1 ATGAATGC
11778558 ATGAATGC
1 ATGAATGC
11778566 A
1 A
11778567 ATAAGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGAATGC
Found at i:11781778 original size:20 final size:18
Alignment explanation
Indices: 11781753--11781839 Score: 83
Period size: 16 Copynumber: 4.8 Consensus size: 18
11781743 TGTAAGAACG
11781753 TCATGCAAATATATTAATTA
1 TCATGC-AATATA-TAATTA
*
11781773 TCATGCAATA-ATAATAA
1 TCATGCAATATATAATTA
* *
11781790 TTATGTAAATATATAA-TA
1 TCATG-CAATATATAATTA
11781808 TCATGCAA-ATAT-ATTA
1 TCATGCAATATATAATTA
11781824 TCATGCAATAATATAA
1 TCATGCAAT-ATATAA
11781840 AATACCATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
15 1 0.02
16 14 0.25
17 11 0.20
18 14 0.25
19 9 0.16
20 6 0.11
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (18 bp):
TCATGCAATATATAATTA
Found at i:11781819 original size:16 final size:16
Alignment explanation
Indices: 11781800--11781856 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
11781790 TTATGTAAAT
11781800 ATATAATATCATGCAA
1 ATATAATATCATGCAA
*
11781816 ATATATTATCATGCAATA
1 ATATAATATCATGC-A-A
*
11781834 ATATAAAATACCATGCAA
1 ATAT--AATATCATGCAA
11781852 ATATA
1 ATATA
11781857 TTAATAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 14 0.41
17 1 0.03
18 10 0.29
19 1 0.03
20 8 0.24
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (16 bp):
ATATAATATCATGCAA
Found at i:11781867 original size:20 final size:20
Alignment explanation
Indices: 11781753--11781863 Score: 84
Period size: 18 Copynumber: 6.0 Consensus size: 20
11781743 TGTAAGAACG
*
11781753 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAATAA
11781773 TCATGC-AATA-A-TAATAA
1 TCATGCAAATATATTAATAA
* *
11781790 TTATGTAAATATA-TAAT-A
1 TCATGCAAATATATTAATAA
11781808 TCATGCAAATATA-T--T-A
1 TCATGCAAATATATTAATAA
11781824 TCATGC-AATA-ATATAA-AA
1 TCATGCAAATATAT-TAATAA
11781842 TACCATGCAAATATATTAATAA
1 T--CATGCAAATATATTAATAA
11781864 CCATTCATGT
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.01
15 4 0.05
16 9 0.12
17 9 0.12
18 20 0.27
19 9 0.12
20 11 0.15
21 7 0.09
22 4 0.05
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (20 bp):
TCATGCAAATATATTAATAA
Found at i:11781976 original size:24 final size:24
Alignment explanation
Indices: 11781946--11782007 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
11781936 AATATCATTC
*
11781946 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATCATATCATGCAAT
11781969 AACATATAATATCATATCATGCAAT
1 AA-ATATAATATCATATCATGCAAT
*
11781994 AAATATAAAATCAT
1 AAATATAATATCAT
11782008 GCAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 12 0.34
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.32
Consensus pattern (24 bp):
AAATATAATATCATATCATGCAAT
Found at i:11782083 original size:24 final size:23
Alignment explanation
Indices: 11782056--11782107 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
11782046 TAAATATATT
11782056 AATAATTATACAATCACACAAATA
1 AATAATTA-ACAATCACACAAATA
* **
11782080 AATAAATTAATAATCATGCAAATA
1 AAT-AATTAACAATCACACAAATA
11782104 AATA
1 AATA
11782108 TATAATCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 18 0.75
25 5 0.21
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAATTAACAATCACACAAATA
Found at i:11782104 original size:20 final size:19
Alignment explanation
Indices: 11782079--11782146 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
11782069 TCACACAAAT
11782079 AAATAAATTAATAATCATGC
1 AAATAAA-TAATAATCATGC
*
11782099 AAATAAATATATAATCTTGC
1 AAATAAATA-ATAATCATGC
*
11782119 AATTAACA-ATATAAATCATGC
1 AAATAA-ATA-AT-AATCATGC
11782140 AAATAAA
1 AAATAAA
11782147 CATGCAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.05
20 26 0.63
21 13 0.32
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (19 bp):
AAATAAATAATAATCATGC
Found at i:11782148 original size:22 final size:21
Alignment explanation
Indices: 11782089--11782148 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
11782079 AAATAAATTA
*
11782089 ATAATCATGCAAATAAA-TAT
1 ATAATCATGCAAATAAACAAT
* *
11782109 ATAATCTTGC-AATTAACAAT
1 ATAATCATGCAAATAAACAAT
11782129 ATAAATCATGCAAATAAACA
1 AT-AATCATGCAAATAAACA
11782149 TGCAATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 5 0.16
20 13 0.41
21 7 0.22
22 7 0.22
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.28
Consensus pattern (21 bp):
ATAATCATGCAAATAAACAAT
Found at i:11782154 original size:33 final size:32
Alignment explanation
Indices: 11782116--11782255 Score: 115
Period size: 33 Copynumber: 4.3 Consensus size: 32
11782106 TATATAATCT
11782116 TGCAATTAACAATATAAATCATGCAAATAAACA
1 TGCAATTAA-AATATAAATCATGCAAATAAACA
* * *
11782149 TGCAATTAAATACATAAACCATGCAAATAAATA
1 TGCAATTAAA-ATATAAATCATGCAAATAAACA
* *
11782182 TACAATT-AAATATATAATCATGC-AATCACACA
1 TGCAATTAAAATATA-AATCATGCAAAT-AAACA
* * * * * *
11782214 AGTAAATAAATTA-ATAATCATGCAATTAGACA
1 TGCAATTAAAATATA-AATCATGCAAATAAACA
11782246 TGCAATTAAA
1 TGCAATTAAA
11782256 CACATAATCA
Statistics
Matches: 84, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
31 7 0.08
32 37 0.44
33 40 0.48
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.26
Consensus pattern (32 bp):
TGCAATTAAAATATAAATCATGCAAATAAACA
Found at i:11782173 original size:21 final size:20
Alignment explanation
Indices: 11782142--11782181 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11782132 AATCATGCAA
*
11782142 ATAAACATGCAATTAAATAC
1 ATAAACATGCAAATAAATAC
11782162 ATAAACCATGCAAATAAATA
1 ATAAA-CATGCAAATAAATA
11782182 TACAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAACATGCAAATAAATAC
Found at i:11782263 original size:32 final size:32
Alignment explanation
Indices: 11782132--11782275 Score: 137
Period size: 32 Copynumber: 4.5 Consensus size: 32
11782122 TAACAATATA
*
11782132 AATCATGCAAATAAACATGCAATTAAATACAT
1 AATCATGCAATTAAACATGCAATTAAATACAT
* * * * *
11782164 AAACCATGCAAATAAATATACAATTAAATATAT
1 -AATCATGCAATTAAACATGCAATTAAATACAT
* * * * *
11782197 AATCATGCAATCACACAAGTAAATAAATTA-AT
1 AATCATGCAATTAAACATGCAATTAAA-TACAT
* *
11782229 AATCATGCAATTAGACATGCAATTAAACACAT
1 AATCATGCAATTAAACATGCAATTAAATACAT
*
11782261 AATCATGTAATTAAA
1 AATCATGCAATTAAA
11782276 TATATAAATC
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
31 1 0.01
32 57 0.65
33 30 0.34
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (32 bp):
AATCATGCAATTAAACATGCAATTAAATACAT
Found at i:11782282 original size:20 final size:21
Alignment explanation
Indices: 11782244--11782292 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
11782234 TGCAATTAGA
11782244 CATGCAATTAAACACAT-AAT
1 CATGCAATTAAACACATAAAT
* * *
11782264 CATGTAATTAAATATATAAAT
1 CATGCAATTAAACACATAAAT
11782285 CATGCAAT
1 CATGCAAT
11782293 CATGTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (21 bp):
CATGCAATTAAACACATAAAT
Found at i:11782370 original size:24 final size:23
Alignment explanation
Indices: 11782340--11782429 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 23
11782330 AATTAAATAC
11782340 ATAATCATGCAAATAAACATATTA
1 ATAATCATGCAAATAAA-ATATTA
11782364 ATAATCATGCAAAT---ATATTA
1 ATAATCATGCAAATAAAATATTA
**
11782384 ATAAATCACACAAAT-AAATA-TA
1 AT-AATCATGCAAATAAAATATTA
* *
11782406 TTAATCATGCAAAGAAATATATTA
1 ATAATCATGCAAATAAA-ATATTA
11782430 GGCAAATAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
20 8 0.15
21 19 0.35
22 5 0.09
23 6 0.11
24 16 0.30
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATCATGCAAATAAAATATTA
Found at i:11782452 original size:16 final size:16
Alignment explanation
Indices: 11782399--11782472 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 16
11782389 TCACACAAAT
*
11782399 AAATATATTAATCATGC
1 AAATAAATT-ATCATGC
* * *
11782416 AAAGAAATATATTAGGC
1 AAATAAAT-TATCATGC
11782433 AAATAAATTATCATGC
1 AAATAAATTATCATGC
11782449 AAATATAATATTAGTCATGC
1 -AA-ATAA-ATTA-TCATGC
11782469 AAAT
1 AAAT
11782473 TCATGCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
16 6 0.13
17 20 0.44
18 7 0.16
19 6 0.13
20 6 0.13
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (16 bp):
AAATAAATTATCATGC
Found at i:11782468 original size:20 final size:18
Alignment explanation
Indices: 11782435--11782472 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
11782425 TATTAGGCAA
11782435 ATAAATTATCATGCAAAT
1 ATAAATTATCATGCAAAT
11782453 ATAATATTAGTCATGCAAAT
1 ATAA-ATTA-TCATGCAAAT
11782473 TCATGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAAATTATCATGCAAAT
Found at i:11782493 original size:27 final size:30
Alignment explanation
Indices: 11782443--11782497 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11782433 AAATAAATTA
*
11782443 TCATGCAAATATAATATTAGTCATGCAAAT
1 TCATGCAAAAATAATATTAGTCATGCAAAT
11782473 TCATGCAAAAATAA-A-TA-TCATGCAA
1 TCATGCAAAAATAATATTAGTCATGCAA
11782498 TAAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 1 0.04
30 13 0.54
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (30 bp):
TCATGCAAAAATAATATTAGTCATGCAAAT
Found at i:11782495 original size:17 final size:17
Alignment explanation
Indices: 11782469--11782503 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11782459 TTAGTCATGC
11782469 AAATTCATGCAA-AAAT
1 AAATTCATGCAATAAAT
11782485 AAATATCATGCAATAAAT
1 AAAT-TCATGCAATAAAT
11782503 A
1 A
11782504 TAAAATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (17 bp):
AAATTCATGCAATAAAT
Found at i:11782959 original size:15 final size:15
Alignment explanation
Indices: 11782939--11782969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11782929 CTAAGTCTTT
11782939 CCAAAATTATTCAAC
1 CCAAAATTATTCAAC
*
11782954 CCAAAATTATTTAAC
1 CCAAAATTATTCAAC
11782969 C
1 C
11782970 ATTAAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (15 bp):
CCAAAATTATTCAAC
Found at i:11783152 original size:19 final size:19
Alignment explanation
Indices: 11783112--11783153 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11783102 CATTTGACTA
*
11783112 AAAAAATAAAAATTAAACT
1 AAAAAATAAAAATTAAAAT
*
11783131 AAAAAATTAAAA-TACAAAT
1 AAAAAATAAAAATTA-AAAT
11783150 AAAA
1 AAAA
11783154 TTTAGGGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAATAAAAATTAAAAT
Found at i:11783849 original size:107 final size:103
Alignment explanation
Indices: 11783696--11784039 Score: 411
Period size: 107 Copynumber: 3.4 Consensus size: 103
11783686 TGTAGGACTG
** * * *
11783696 AAAATTTTATTATTATT-TTTTTACAAAAAATTCATTAAGTCTTCCAATATTTTGATAAGACTTA
1 AAAATTTTATTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTTA
*
11783760 ATTCAAGATTTAAATCTTCCAATAGTTTGATAAGATTAAA
66 ATTCAAGATTTAAATCTTCCAATAGTTTGGTAAGATT--A
*
11783800 AAAATTTATTATTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAGTTTGATAAAACT
1 AAAA-TT-TTATTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACT
*
11783865 TAATTCAAAATTTAAATCTTCCAATAGTTTGGTCAA-ATTA
64 TAATTCAAGATTTAAATCTTCCAATAGTTTGGT-AAGATTA
* * * *
11783905 AAAATTTTATTATTATTA--TTTTTAAAAAATTCATTAAGTCCTCTAATAATTTGGTAAAACTCA
1 AAAATTTTATTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTTA
* *
11783968 AGTT-AAGATTTAAATCCTCTAATAGTTTGGTAAGATT-
66 A-TTCAAGATTTAAATCTTCCAATAGTTTGGTAAGATTA
* *
11784005 GAAA-TTT-TT-TT-TTATTTTTTCAAAAAAATTCATTA
1 AAAATTTTATTATTATTATTTTTT-TAAAAAATTCATTA
11784040 TAAAATTCTT
Statistics
Matches: 214, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
96 3 0.01
97 2 0.01
98 6 0.03
99 16 0.07
100 5 0.02
101 68 0.32
102 2 0.01
103 12 0.06
104 6 0.03
105 7 0.03
106 11 0.05
107 74 0.35
108 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (103 bp):
AAAATTTTATTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTTA
ATTCAAGATTTAAATCTTCCAATAGTTTGGTAAGATTA
Found at i:11783979 original size:101 final size:100
Alignment explanation
Indices: 11783696--11784039 Score: 408
Period size: 101 Copynumber: 3.4 Consensus size: 100
11783686 TGTAGGACTG
* * *
11783696 AAAATTTTATTATTATTTTTTTACAAAAAATTCATTAAGTCTTCCAATATTTTGATAAGACTTAA
1 AAAATTTTATTATTATTTTTTT--AAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTTAA
*
11783761 TTCAAGATTTAAATCTTCCAATAGTTTGATAAGATTAAAA
64 TTCAAGATTTAAATCTTCCAATAGTTTGGTAAGATT---A
*
11783801 AAATTTATTATTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAGTTTGATAAAACTT
1 AAA---ATT-TTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTT
*
11783866 AATTCAAAATTTAAATCTTCCAATAGTTTGGTCAA-ATTA
62 AATTCAAGATTTAAATCTTCCAATAGTTTGGT-AAGATTA
* * * *
11783905 AAAATTTTATTATTATTATTTTTAAAAAATTCATTAAGTCCTCTAATAATTTGGTAAAACTCAAG
1 AAAATTTTATTATTATT-TTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTTAA-
* *
11783970 TT-AAGATTTAAATCCTCTAATAGTTTGGTAAGATT-
64 TTCAAGATTTAAATCTTCCAATAGTTTGGTAAGATTA
* * *
11784005 GAAATTTT-TTTTTATTTTTTCAAAAAAATTCATTA
1 AAAATTTTATTATTATTTTTT-TAAAAAATTCATTA
11784040 TAAAATTCTT
Statistics
Matches: 214, Mismatches: 16, Indels: 24
0.84 0.06 0.09
Matches are distributed among these distances:
98 4 0.02
99 20 0.09
100 20 0.09
101 71 0.33
102 2 0.01
104 4 0.02
105 3 0.01
107 69 0.32
108 5 0.02
109 16 0.07
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (100 bp):
AAAATTTTATTATTATTTTTTTAAAAAATTCATTAAGTCATCCAATAATTTGATAAAACTTAATT
CAAGATTTAAATCTTCCAATAGTTTGGTAAGATTA
Found at i:11784184 original size:16 final size:16
Alignment explanation
Indices: 11784163--11784193 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11784153 AAAAAAAGAG
*
11784163 ATATAAATGAATAAAT
1 ATATAAATAAATAAAT
11784179 ATATAAATAAATAAA
1 ATATAAATAAATAAA
11784194 ATGTGAAAAT
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATATAAATAAATAAAT
Found at i:11784832 original size:28 final size:28
Alignment explanation
Indices: 11784800--11784854 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
11784790 GATTGAAACA
*
11784800 AATCTAAGTCTGATCAGTTTGAACCCCG
1 AATCTAAGTCTGATCAATTTGAACCCCG
*
11784828 AATCTGAGTCTGATCAATTTGAACCCC
1 AATCTAAGTCTGATCAATTTGAACCCC
11784855 AAATTAGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
AATCTAAGTCTGATCAATTTGAACCCCG
Found at i:11800566 original size:93 final size:93
Alignment explanation
Indices: 11800366--11800594 Score: 251
Period size: 93 Copynumber: 2.5 Consensus size: 93
11800356 TTAAAATTAC
* * *
11800366 AAAATTTTAGAATTTATTTATTTTAAACTATAA-ATTTTGATAAAATATATTAAACTATATTATA
1 AAAATTTGA-AATTTATTTATTTTAAATTATAATA-TTTGATAAAATATATTAAAATATATTATA
11800430 TATAAAAATTAAAAAAACTTATTCAAAAAG
64 TATAAAAATTAAAAAAACTTATTCAAAAAG
11800460 AAAATTTTGAAATTT-TTTATTTTAAATTATAATATTTGATAAAA-ATATTAAAATAAATATTAT
1 AAAA-TTTGAAATTTATTTATTTTAAATTATAATATTTGATAAAATATATTAAAAT--ATATTAT
* * *
11800523 AT-TTAAAATT-AAAAAATTTCTT-AACAAATTG
63 ATATAAAAATTAAAAAAACTTATTCAA-AAA--G
*
11800554 AAAA-TTGAAAATTTATTTA-GTTAAATTATAATATTTG-TAAA
1 AAAATTTG-AAATTTATTTATTTTAAATTATAATATTTGATAAA
11800595 TACACTAAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 20
0.82 0.05 0.14
Matches are distributed among these distances:
91 2 0.02
92 29 0.24
93 56 0.47
94 28 0.24
95 4 0.03
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (93 bp):
AAAATTTGAAATTTATTTATTTTAAATTATAATATTTGATAAAATATATTAAAATATATTATATA
TAAAAATTAAAAAAACTTATTCAAAAAG
Found at i:11801366 original size:2 final size:2
Alignment explanation
Indices: 11801359--11801391 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11801349 TAATACGTAG
11801359 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 T
11801392 TGCATGTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11809019 original size:15 final size:15
Alignment explanation
Indices: 11808999--11809030 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11808989 AAAAATTTAC
*
11808999 AAAAGTTAAAAATAA
1 AAAAGTTAAAAACAA
11809014 AAAAGTTAAAAACAA
1 AAAAGTTAAAAACAA
11809029 AA
1 AA
11809031 GAATCATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAAGTTAAAAACAA
Found at i:11811986 original size:16 final size:16
Alignment explanation
Indices: 11811962--11811998 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
11811952 AAAAATATAG
11811962 AAAAAC-TTTAAGGTC
1 AAAAACTTTTAAGGTC
11811977 AAAAAGCTTTTAAGGTC
1 AAAAA-CTTTTAAGGTC
11811994 AAAAA
1 AAAAA
11811999 ATTCAAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 1 0.05
17 14 0.70
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (16 bp):
AAAAACTTTTAAGGTC
Found at i:11815129 original size:17 final size:16
Alignment explanation
Indices: 11815094--11815153 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 16
11815084 AAAAATTTTA
11815094 TATACATTTTTTATGATT
1 TATA-ATTTTTTAT-ATT
11815112 TATAATTTTCTTATATTT
1 TATAATTTT-TTATA-TT
* *
11815130 TAAAATTTTTTTATACT
1 TATAA-TTTTTTATATT
11815147 TATAATT
1 TATAATT
11815154 CGGTCATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 19 0.53
19 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (16 bp):
TATAATTTTTTATATT
Found at i:11817622 original size:2 final size:2
Alignment explanation
Indices: 11817615--11817676 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
11817605 AAGAAACTGT
**
11817615 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA CC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
11817656 CA AA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
11817677 GTTTTAAGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:11821122 original size:23 final size:24
Alignment explanation
Indices: 11821096--11821140 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11821086 ACAGATGCTC
*
11821096 ACATTATTTGA-AAAAAAATAGCA
1 ACATTATATGAGAAAAAAATAGCA
*
11821119 ACATTATATGAGAGAAAAATAG
1 ACATTATATGAGAAAAAAATAG
11821141 GCATGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (24 bp):
ACATTATATGAGAAAAAAATAGCA
Found at i:11834528 original size:8 final size:8
Alignment explanation
Indices: 11834517--11834557 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
11834507 TTTTTATTTA
11834517 TATATATT
1 TATATATT
*
11834525 TATATAAT
1 TATATATT
11834533 TATATATT
1 TATATATT
*
11834541 TAAATATT
1 TATATATT
11834549 TATAT-TT
1 TATATATT
11834556 TA
1 TA
11834558 AAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATATT
Found at i:11834536 original size:16 final size:15
Alignment explanation
Indices: 11834517--11834572 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
11834507 TTTTTATTTA
*
11834517 TATATATTTATATAAT
1 TATAT-TTTAAATAAT
*
11834533 TATATATTTAAATATT
1 TATAT-TTTAAATAAT
*
11834549 TATATTTTAAAAAAT
1 TATATTTTAAATAAT
*
11834564 AATATTTTA
1 TATATTTTA
11834573 TTAATTTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
15 16 0.46
16 19 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATTTTAAATAAT
Found at i:11836382 original size:6 final size:6
Alignment explanation
Indices: 11836368--11836420 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
11836358 GGAAATTATG
* * * *
11836368 AGAGAC AGAGGC AGAGGC AGAGGC AGAGGC AGGGGC ATAAGC AGAGGC
1 AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC AGAGGC
11836416 AGAGG
1 AGAGG
11836421 AGCATTAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.47, T:0.02
Consensus pattern (6 bp):
AGAGGC
Found at i:11839006 original size:78 final size:78
Alignment explanation
Indices: 11838877--11839033 Score: 201
Period size: 78 Copynumber: 2.0 Consensus size: 78
11838867 TGTGGCCATC
* *
11838877 ACAAGATAGGTGCCAAAAGGAAAGCAGAGAGAGACACAAATTACTAGATACATTCT-ATCATGGT
1 ACAAGATAGGTGCCAAAAGGAAAGCAGAGAGAGAAACAAATGACTAGATACATT-TAATCATGGT
*
11838941 TTACATCATCAAGA
65 TGACATCATCAAGA
* *** *
11838955 ACAAGCTAGGTGCCATTGGGAAAGCAGAGAGAGAAACGAATGACTCA-ATACATTTAATCATGGT
1 ACAAGATAGGTGCCAAAAGGAAAGCAGAGAGAGAAACAAATGACT-AGATACATTTAATCATGGT
*
11839019 TGACATCATTAAGA
65 TGACATCATCAAGA
11839033 A
1 A
11839034 AAAAAACTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
78 66 0.97
79 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (78 bp):
ACAAGATAGGTGCCAAAAGGAAAGCAGAGAGAGAAACAAATGACTAGATACATTTAATCATGGTT
GACATCATCAAGA
Found at i:11839804 original size:44 final size:43
Alignment explanation
Indices: 11839715--11839800 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
11839705 AGCCCGTTCA
* *
11839715 TTCCTTTCTTTTTTGGTCGGGTCAAGGAGAATTACTTGGTTGG
1 TTCCTTTCTTTTTTGGTCGGGTCAAGGAGAATCAATTGGTTGG
* *
11839758 TTCCTTTTTTTTTTTGGTCGGGTCTAGGAGAATCAATT-GTTGG
1 TTCC-TTTCTTTTTTGGTCGGGTCAAGGAGAATCAATTGGTTGG
11839801 GTTCTTTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 9 0.24
44 29 0.76
ACGTcount: A:0.14, C:0.13, G:0.27, T:0.47
Consensus pattern (43 bp):
TTCCTTTCTTTTTTGGTCGGGTCAAGGAGAATCAATTGGTTGG
Found at i:11840119 original size:22 final size:23
Alignment explanation
Indices: 11840093--11840151 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
11840083 TACTTTAAAA
11840093 ATTATAAGTACTAATT-TT-TATT
1 ATTATAAGTA-TAATTATTATATT
*
11840115 ATTATAATTATAATTATTATATT
1 ATTATAAGTATAATTATTATATT
11840138 -TTATAA-TA-AATTAT
1 ATTATAAGTATAATTAT
11840152 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 17 0.50
23 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTATAAGTATAATTATTATATT
Found at i:11842591 original size:17 final size:18
Alignment explanation
Indices: 11842561--11842594 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11842551 TAAGATGTTA
11842561 AAAATATATAAAATAATT
1 AAAATATATAAAATAATT
11842579 AAAATAT-TAAAATAAT
1 AAAATATATAAAATAAT
11842595 AAAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATATAAAATAATT
Found at i:11844519 original size:18 final size:19
Alignment explanation
Indices: 11844473--11844519 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11844463 CCGATGATTT
*
11844473 TTTTTTTTTTGCAACATTA
1 TTTTCTTTTTGCAACATTA
* *
11844492 TTTTCATTTTGTAACATTA
1 TTTTCTTTTTGCAACATTA
11844511 -TTTCTTTTT
1 TTTTCTTTTT
11844520 TTCATTAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTCTTTTTGCAACATTA
Found at i:11850843 original size:22 final size:21
Alignment explanation
Indices: 11850803--11850843 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11850793 AAAATTGTTG
*
11850803 TAAGAAACAAAGGTCTTTAAC
1 TAAGAAACAAAGATCTTTAAC
*
11850824 TAAGAAATCAAAGATTTTTA
1 TAAGAAA-CAAAGATCTTTA
11850844 TAATCCTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAGAAACAAAGATCTTTAAC
Found at i:11853863 original size:22 final size:20
Alignment explanation
Indices: 11853825--11853864 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11853815 TTTATTTCCA
11853825 TTTTTTTCAAAATATTTTCG
1 TTTTTTTCAAAATATTTTCG
*
11853845 TTTTTTCTTAAAATGATTTT
1 TTTTTT-TCAAAAT-ATTTT
11853865 TTCTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTTTCAAAATATTTTCG
Found at i:11855919 original size:16 final size:17
Alignment explanation
Indices: 11855898--11855930 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11855888 TTATATAAAC
11855898 AAAAAT-ATGAAAAGTA
1 AAAAATAATGAAAAGTA
*
11855914 AAAAATAATGAACAGTA
1 AAAAATAATGAAAAGTA
11855931 TCCAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAATAATGAAAAGTA
Found at i:11864928 original size:27 final size:28
Alignment explanation
Indices: 11864898--11864956 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
11864888 CACCAAGCAT
11864898 ACAAAATTAT-CACTTGTAAGATTTCAA
1 ACAAAATTATGCACTTGTAAGATTTCAA
* * * *
11864925 ACAATATTTTGCCCTTGTAAGATTTTAA
1 ACAAAATTATGCACTTGTAAGATTTCAA
11864953 ACAA
1 ACAA
11864957 TCATTCTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (28 bp):
ACAAAATTATGCACTTGTAAGATTTCAA
Found at i:11869967 original size:3 final size:3
Alignment explanation
Indices: 11869959--11870007 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
11869949 AACAAAGTAT
11869959 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11870006 TT
1 TT
11870008 TCCCTACTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11871850 original size:33 final size:33
Alignment explanation
Indices: 11871813--11871880 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
11871803 TGCTTCCACT
*
11871813 AAATCATAACAAAAGTGAACCAAGTTAAACATG
1 AAATCAAAACAAAAGTGAACCAAGTTAAACATG
* * *
11871846 AAATCAAAACATAAGTGGACCATGTTAAACATG
1 AAATCAAAACAAAAGTGAACCAAGTTAAACATG
11871879 AA
1 AA
11871881 TTCCCTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.19
Consensus pattern (33 bp):
AAATCAAAACAAAAGTGAACCAAGTTAAACATG
Found at i:11874769 original size:2 final size:2
Alignment explanation
Indices: 11874762--11874802 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11874752 AAATCTCCCT
11874762 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11874803 GGTGGATTGT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11875270 original size:17 final size:18
Alignment explanation
Indices: 11875248--11875281 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11875238 TTTAATCAAA
11875248 TTTTTA-TATTTAAATTT
1 TTTTTATTATTTAAATTT
*
11875265 TTTTTATTATTTTAATT
1 TTTTTATTATTTAAATT
11875282 AATAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTATTTAAATTT
Found at i:11876086 original size:22 final size:22
Alignment explanation
Indices: 11876061--11876109 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
11876051 TCATTTAAAT
11876061 CATGTCTTTAATTATTTCATAA
1 CATGTCTTTAATTATTTCATAA
11876083 CATGTCTTTAATTATTTCATAA
1 CATGTCTTTAATTATTTCATAA
11876105 CATGT
1 CATGT
11876110 TACTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (22 bp):
CATGTCTTTAATTATTTCATAA
Found at i:11876185 original size:13 final size:13
Alignment explanation
Indices: 11876154--11876192 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11876144 ATGCAATTTG
*
11876154 AAAAAAAATTAATG
1 AAAAAAAATT-ATA
*
11876168 TAAAAAAATTATA
1 AAAAAAAATTATA
11876181 AAAAAAAATTAT
1 AAAAAAAATTAT
11876193 TTGATGGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAAAAAATTATA
Found at i:11878085 original size:21 final size:21
Alignment explanation
Indices: 11878059--11878100 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11878049 TCGATCGAGA
11878059 CCAATTAGTTTAAGGATATAT
1 CCAATTAGTTTAAGGATATAT
11878080 CCAATTAGTTTAAGGATATAT
1 CCAATTAGTTTAAGGATATAT
11878101 TAGGATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
CCAATTAGTTTAAGGATATAT
Found at i:11879066 original size:128 final size:124
Alignment explanation
Indices: 11878902--11879134 Score: 269
Period size: 128 Copynumber: 1.8 Consensus size: 124
11878892 ATATGAAACC
* * *
11878902 GATTCTTGAAGGTGTTTTTGACCAAACTCGTTTTTAATAATCTAATCA-AT-A-AATTTT-TAGT
1 GATTCTTGAAGGTATTTTTAACCAAACTCG-CTTTAAT-AT-T--TCACATGATAATTTTATAGT
11878963 ATGGATTATTAAAGGTGATTTTTTTGTCAAAAATACCTTCAATAATCCATACATAAAAGTTGGAA
61 -TGGATTATTAAAGGTGATTTTTTTG--AAAAATACCTTCAATAATCCATACATAAAAGTTGGAA
11879028 TG
123 TG
*
11879030 GATTCTTGAAGGTATTTTTAACTCAAAACTC-CTTTAATATTTCACATGATAATTTTGAATGGTT
1 GATTCTTGAAGGTATTTTTAAC-C-AAACTCGCTTTAATATTTCACATGATAATTTT--ATAGTT
* *
11879094 GGATTATTGAATGTGATTTTTTTGAAAAATACCTTCAATAA
62 GGATTATTAAAGGTGATTTTTTTGAAAAATACCTTCAATAA
11879135 CATTTTGTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
124 3 0.03
125 2 0.02
126 2 0.02
127 25 0.27
128 26 0.29
129 24 0.26
130 9 0.10
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (124 bp):
GATTCTTGAAGGTATTTTTAACCAAACTCGCTTTAATATTTCACATGATAATTTTATAGTTGGAT
TATTAAAGGTGATTTTTTTGAAAAATACCTTCAATAATCCATACATAAAAGTTGGAATG
Found at i:11879575 original size:35 final size:35
Alignment explanation
Indices: 11879529--11879597 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
11879519 TGTATATGTC
* *
11879529 AAGTCAGTTGTAGGTTTATG-CCTAAAAAATATTTG
1 AAGTCAGTTGTAGATTTATGACC-AAAAAACATTTG
*
11879564 AAGTCAGTTGTATATTTATGACCAAAAAACATTT
1 AAGTCAGTTGTAGATTTATGACCAAAAAACATTT
11879598 AGTTTATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AAGTCAGTTGTAGATTTATGACCAAAAAACATTTG
Found at i:11882831 original size:25 final size:25
Alignment explanation
Indices: 11882797--11882849 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
11882787 AATAATGTGC
* **
11882797 TCAGACACACCATTCAGTAAACCAT
1 TCAGAAACACCATTCAACAAACCAT
*
11882822 TCAGAAACACCATTTAACAAACCAT
1 TCAGAAACACCATTCAACAAACCAT
11882847 TCA
1 TCA
11882850 ACATATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.30, G:0.06, T:0.21
Consensus pattern (25 bp):
TCAGAAACACCATTCAACAAACCAT
Found at i:11882835 original size:13 final size:13
Alignment explanation
Indices: 11882797--11882835 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
11882787 AATAATGTGC
*
11882797 TCAGACACACCAT
1 TCAGAAACACCAT
*
11882810 TCAGTAA-ACCAT
1 TCAGAAACACCAT
11882822 TCAGAAACACCAT
1 TCAGAAACACCAT
11882835 T
1 T
11882836 TAACAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.21
Consensus pattern (13 bp):
TCAGAAACACCAT
Found at i:11882876 original size:12 final size:12
Alignment explanation
Indices: 11882861--11882891 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11882851 CATATCATTC
11882861 AGCATACAATTT
1 AGCATACAATTT
*
11882873 AGCATACGATTT
1 AGCATACAATTT
11882885 AGCATAC
1 AGCATAC
11882892 CAATATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (12 bp):
AGCATACAATTT
Found at i:11884130 original size:187 final size:184
Alignment explanation
Indices: 11883636--11884307 Score: 633
Period size: 187 Copynumber: 3.6 Consensus size: 184
11883626 AGACGGCTTC
* * * *
11883636 AATAATTTCAAAAATTTTTTAAAGATAATTATTGAAGGCGTTTGTTTTTAAAAAATCACCTTCAA
1 AATAATTT-AAAAATTTTTAAAAGAAAATTATTGAAGG-GTTTGTTATCAAAAAA-CACCTTCAA
* * * * * * * *
11883701 TAATTATGTGCAAACA-TTAAAATG-AATTAGTGAAGGCATTTTCCTATAATAAATGCCTTC-TC
63 TAATTATGTACAAA-ATTTAAAA-GAAATTATTAAAGGTATTTTTCTAAAATAAACGCATTCAT-
* * * * * * *
11883763 TAACGGTATTAAGATTTGAGCACTGATATATTGAAGGCATTTTTCAGTAGAA-AACGTCGTT
125 TAACCGTCTTAAAATTTGAGCACTGATATATTGAAGGCTTTTTTAAATAGAAGAACAT--TT
* * * *
11883824 AATAATTCT-AAAATTTTTATAAAAAAAATTATTGAATGGGTTTATTATAAAAAAAAACGTCTTC
1 AATAATT-TAAAAATTTTTA-AAAGAAAATTATTGAA-GGGTTTGTTATCAAAAAACAC--CTTC
* * * * **
11883888 AATAATTATATACAAAATTAAAAAAAAAATATTAAAGGTATTTTTCTGGAATAAACGCATTCATT
61 AATAATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTCTAAAATAAACGCATTCATT
11883953 AACCGTCTTAAAATTTGAGCACTGATATATTGAAGGCTTTTTTAAATAGAAGACACATTT
126 AACCGTCTTAAAATTTGAGCACTGATATATTGAAGGCTTTTTTAAATAGAAGA-ACATTT
* * *
11884013 AATAATCTTAAAAGTTTTTAAAAGAAAATTATTGAAGGCGGTTGTTATCAAAAAACACCTTTAAT
1 AATAAT-TTAAAAATTTTTAAAAGAAAATTATTGAAGG-GTTTGTTATCAAAAAACACCTTCAAT
* * * * * *
11884078 AATTATCTACAAAATTTAAAAGAAATTATTAAATGTATTTTTTTAAAATAAACGCTTTCAATAAT
64 AATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTCTAAAATAAACGCATTCATTAAC
* * * * *
11884143 CGTCTTAAAATTT-ATGTA-TCGATATATTGAAGG-TATTTTTTACTAGAAGATGCCTTT
129 CGTCTTAAAATTTGA-GCACT-GATATATTGAAGGCT-TTTTTAAATAGAAGA-ACATTT
* ** *
11884200 AATAATCTTAAAAATTTTTAGAAGAAAATTATT-AAAAGTATTGGTTATCAAGAAACACCTTCAA
1 AATAAT-TTAAAAATTTTTAAAAGAAAATTATTGAAGGGT-TT-GTTATCAAAAAACACCTTCAA
* *
11884264 TATTTATGTACAAAAATTAAAAGAAATTATTAAAGGTATTTTTC
63 TAATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTC
11884308 AATAGAAGAT
Statistics
Matches: 403, Mismatches: 63, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
185 1 0.00
186 7 0.02
187 205 0.51
188 37 0.09
189 138 0.34
190 12 0.03
191 3 0.01
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (184 bp):
AATAATTTAAAAATTTTTAAAAGAAAATTATTGAAGGGTTTGTTATCAAAAAACACCTTCAATAA
TTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTCTAAAATAAACGCATTCATTAACCG
TCTTAAAATTTGAGCACTGATATATTGAAGGCTTTTTTAAATAGAAGAACATTT
Found at i:11884326 original size:124 final size:124
Alignment explanation
Indices: 11884167--11884430 Score: 350
Period size: 124 Copynumber: 2.1 Consensus size: 124
11884157 TGTATCGATA
* * *
11884167 TATTGAAGGTATTTTTTACTAGAAGATGCCTTTAATAATCTTAAAAATTTTTAGAA-GAAAATTA
1 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAAATTTTTA-AATGAAAATTA
* * * * *
11884231 TTAAAAGTATTGGTTATCAAGAAACACCTTCAATATTTATGTACAAAAATTAAAAGAAAT
65 TTAAAAGCATTGGTTATAAAAAAACACCTTCAATAATTATGAACAAAAATTAAAAGAAAT
*
11884291 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTTAAATGAAAATTAT
1 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAAATTTTTAAATGAAAATTAT
* * * * * * * *
11884356 TGAAGGCGTTTGTTATAAAAAAACGCCTTTAATAATTATGAACCAAACTTAAAAGAAAT
66 TAAAAGCATTGGTTATAAAAAAACACCTTCAATAATTATGAACAAAAATTAAAAGAAAT
*
11884415 TATTAAAGATATTTTT
1 TATTAAAGGTATTTTT
11884431 TTGGAATAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
123 2 0.02
124 119 0.98
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (124 bp):
TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAAATTTTTAAATGAAAATTAT
TAAAAGCATTGGTTATAAAAAAACACCTTCAATAATTATGAACAAAAATTAAAAGAAAT
Found at i:11884353 original size:62 final size:60
Alignment explanation
Indices: 11884167--11884361 Score: 155
Period size: 62 Copynumber: 3.1 Consensus size: 60
11884157 TGTATCGATA
* * *
11884167 TATTGAAGGTATTTTTTACTAGAAGATGCCTTTAATAATCTTAAAAATTTTTAGAAGAAAAT
1 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTT-AAAATTTTTA-AAGAAAAT
* ** * * * ** *
11884229 TATTAAAAGTATTGGTTATC-A-AGAA-ACACCTTCAATATTTATGTACAAAAATTAAAAG-AAA
1 TATTAAAGGTATT--TT-TCAATAGAAGATGCCTTTAATA-ATCT-TA-AAATTTTTAAAGAAAA
11884290 T
60 T
11884291 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTTAAATGAAAAT
1 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAA-TTTTTAAA-GAAAAT
*
11884353 TATTGAAGG
1 TATTAAAGG
11884362 CGTTTGTTAT
Statistics
Matches: 99, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
59 5 0.05
60 10 0.10
61 7 0.07
62 57 0.58
63 10 0.10
64 9 0.09
65 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (60 bp):
TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTAAAGAAAAT
Found at i:11884599 original size:311 final size:310
Alignment explanation
Indices: 11883991--11884616 Score: 774
Period size: 311 Copynumber: 2.0 Consensus size: 310
11883981 ATTGAAGGCT
11883991 TTTTTAAATAGAAGACACATTTAATAATCTTAAAAGTTTTTAAAAGAAAATTATTGAAGGCGGTT
1 TTTTTAAATAGAAGACACATTTAATAATCTTAAAAGTTTTTAAAAGAAAATTATTGAAGGCGGTT
* * *
11884056 GTTATCAAAAAACACCTTTAATAATTATCTACAAAATTTAAAAGAAATTATTAAATGTATTTTTT
66 GTTATAAAAAAACACCTTTAATAATTATCAACAAAACTTAAAAGAAATTATTAAATGTATTTTTT
* * * ** *
11884121 TAAAATAAACGCTTTCAATAATCGTCTTAAAATTTATGTATCGATATATTGAAGGTATTTTTTAC
131 TAAAATAAACGCATTCAATAACCATCTTAAAATTTATGTATCGATATATTGAAGACATTTTTCAC
* * ** * * *
11884186 TAGAAGATGCCTTTAATAATCTTAAAAATTTTTAGAAGAAAATTATTAAAAGTATTGGTTATCAA
196 TAGAAAACGCCTTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTAAAAGCATTGGTTATAAA
* * *
11884251 GAAACACCTTCAATATTTATGTACAAAAATTAAAAGAAATTATTAAAGGTA
261 AAAACACATTCAATAATTATGTACAAAAATTAAAAG-AATTATTAAAGGTA
* ** * * * *
11884302 TTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTTAAATGAAAATTATTGAAGGCGTTT
1 TTTTTAAATAGAAGACACATTTAATAATCTTAAAAGTTTTTAAAAGAAAATTATTGAAGGCGGTT
* * *
11884367 GTTATAAAAAAACGCCTTTAATAATTATGAACCAAACTTAAAAGAAATTATTAAA-GATATTTTT
66 GTTATAAAAAAACACCTTTAATAATTATCAACAAAACTTAAAAGAAATTATTAAATG-TATTTTT
** ** * *
11884431 TTGGAATAAACGCATTCTCTAACCATCTTAAAATTTGA-GTA-CTGGTATATTTAAGACA-TTTT
130 TTAAAATAAACGCATTCAATAACCATCTTAAAATTT-ATGTATC-GATATATTGAAGACATTTTT
* ** * * * * *
11884493 CAGTAGAAAACGTTTTTATTAATCCCAAAATTTTTTAAAAGAAAATTATTGAAGGCATTTGTTAT
193 CACTAGAAAACGCCTTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTAAAAGCATTGGTTAT
* *
11884558 AAAAAAATACATTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGGTA
258 AAAAAAACACATTCAATAATTATGTACAAAAATT-AAAAGAATTATTAAAGGTA
11884612 TTTTT
1 TTTTT
11884617 TTGGAATAAA
Statistics
Matches: 266, Mismatches: 45, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
310 103 0.39
311 162 0.61
312 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (310 bp):
TTTTTAAATAGAAGACACATTTAATAATCTTAAAAGTTTTTAAAAGAAAATTATTGAAGGCGGTT
GTTATAAAAAAACACCTTTAATAATTATCAACAAAACTTAAAAGAAATTATTAAATGTATTTTTT
TAAAATAAACGCATTCAATAACCATCTTAAAATTTATGTATCGATATATTGAAGACATTTTTCAC
TAGAAAACGCCTTTAATAATCCCAAAAATTTTTAAAAGAAAATTATTAAAAGCATTGGTTATAAA
AAAACACATTCAATAATTATGTACAAAAATTAAAAGAATTATTAAAGGTA
Found at i:11884877 original size:188 final size:185
Alignment explanation
Indices: 11884302--11885028 Score: 675
Period size: 186 Copynumber: 3.9 Consensus size: 185
11884292 ATTAAAGGTA
* * * ** *
11884302 TTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTTAAATGAAAATTATTGAAGGCGTTT
1 TTTTTCAGTAGAAGATACCTTTAATAATCTCAAAATTTTTTAAAAAAAAATTATTGAAGGCATTT
* * *
11884367 GTTATAAAAAAACGCCTTTAATAATTATGAACCAAACTTAAAAGAAATTATTAAAGATATTTTTT
66 GTTATAAAAAAACGCCTTTAATAATTATGTA-CAAAATTAAAAG-AATTATTAAAGGTATTTTTT
* * *
11884432 TGGAATAAACGCATTCTCTAACCATCTTAAAATTTGAGTACTGGTATATTTAAGAC-
129 TGGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAGACT
* * * * *
11884488 ATTTTCAGTAGAA-A-ACGTTTTTATTAATCCCAAAATTTTTTAAAAGAAAATTATTGAAGGCAT
1 TTTTTCAGTAGAAGATAC--CTTTAATAATCTCAAAATTTTTTAAAAAAAAATTATTGAAGGCAT
** * *
11884551 TTGTTATAAAAAAATACATTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGGTATTTT
64 TTGTTATAAAAAAACGCCTTTAATAATTATGTACAAAA-TT-AAAAGAATTATTAAAGGTATTTT
* *
11884616 TTTGGAATAAACTCCTTCACTAATCATCTTAAAATTTGAGTACTGGTATATTGAAAGTA-T
127 TTTGGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTG-AAG-ACT
* *
11884676 TTTTT-AGTAGAAGATACCTTTAATAATCTCAAAA-TTTTAAAAAAAAAATTTATTGAAGGCAAT
1 TTTTTCAGTAGAAGATACCTTTAATAATCTCAAAATTTTTTAAAAAAAAA-TTATTGAAGGCATT
* * ** * *
11884739 TGTTATAAAAAAAACGCCTTTAATAATTATGTACATAAATTAAATGTAAGTCGTGAAGGCATTTT
65 TGTTAT-AAAAAAACGCCTTTAATAATTATGTACA-AAATTAAAAG-AATTATTAAAGGTATTTT
* * * ** * * *
11884804 TCTAGAATAAACGCCTTCACTAACCGT-AAAAAATTTTGAATA-GGGAAATATTGAAGACT
127 TTTGGAATAAACGCCTTCACTAACCATCTTAAAA-TTTGAGTACTGG-TATATTGAAGACT
* * * * *
11884863 TTTTTCACTAGAAGACT-CCTTTAATAATAC-CAAAA-ATTTTAATAAGAAATTATTGAATGCAT
1 TTTTTCAGTAGAAGA-TACCTTTAATAAT-CTCAAAATTTTTTAAAAAAAAATTATTGAAGGCAT
* * * * * * * *
11884925 TTGTTCTCAAAAAATGCCTATAATAATTACGTACATAAATTAAAAAAAATTAGTAAAAGTATTTT
64 TTGTTATAAAAAAACGCCTTTAATAATTATGTACA-AAATT-AAAAGAATTATTAAAGGTATTTT
* ** * * * * *
11884990 TCTAAAATAAATGCCTCCATTAATCGTCTTAAAATTTGA
127 TTTGGAATAAACGCCTTCACTAACCATCTTAAAATTTGA
11885029 CCAGTGAAAT
Statistics
Matches: 446, Mismatches: 74, Indels: 42
0.79 0.13 0.07
Matches are distributed among these distances:
184 1 0.00
185 5 0.01
186 228 0.51
187 91 0.20
188 114 0.26
189 7 0.02
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (185 bp):
TTTTTCAGTAGAAGATACCTTTAATAATCTCAAAATTTTTTAAAAAAAAATTATTGAAGGCATTT
GTTATAAAAAAACGCCTTTAATAATTATGTACAAAATTAAAAGAATTATTAAAGGTATTTTTTTG
GAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTACTGGTATATTGAAGACT
Found at i:11885022 original size:374 final size:373
Alignment explanation
Indices: 11884291--11885028 Score: 823
Period size: 374 Copynumber: 2.0 Consensus size: 373
11884281 TAAAAGAAAT
* * * **
11884291 TATTAAAGGTATTTTTCAATAGAAGATGCCTTTAATAATCTTAAAATTTTTTAAATGAAAATTAT
1 TATTAAAGGTATTTTTCAATAGAAGATACCTTTAATAATCTCAAAATTTTTAAAAAAAAAATTAT
** * * *
11884356 TGAAGGCGTTTGTTATAAAAAAACGCCTTTAATAATTATGAACCAAACTTAAAAGAAATTATTAA
66 TGAAGGCAATTGTTATAAAAAAACGCCTTTAATAATTATGAACCAAAATTAAAAGAAAGTAGTAA
* * * * ** * * * *
11884421 AGATATTTTTTTGGAATAAACGCATTCTCTAACCATCTTAAAATTTGAGTACTGGTATATTTAAG
131 AGACATTTTTCTAGAATAAACGCATTCACTAACCATCAAAAAATTTGAATACGGGAATATTGAAG
* * * * *
11884486 ACATTTTCAGTAGAAAACGTTTTTATTAATCCCAAAATTTTTTAAAAGAAAATTATTGAAGGCAT
196 ACATTTTCACTAGAAAACGTCTTTAATAATACCAAAATATTTTAAAAGAAAATTATTGAAGGCAT
* * * *
11884551 TTGTTATAAAAAAATACATTCAATAATTATGTACAAAATTTAAAAAGAATTATTAAAGGTATTTT
261 TTGTTATAAAAAAATACATTCAATAATTACGTACAAAATTTAAAAAAAATTAGTAAAAGTATTTT
* ** *
11884616 TTTGGAATAAACTCCTTCACTAATCATCTTAAAATTTGAGTACTGGTA
326 TCTAAAATAAACTCCTCCACTAATCATCTTAAAATTTGAGTACTGGTA
* *
11884664 TATTGAAA-GTATTTTTTAGTAGAAGATACCTTTAATAATCTCAAAA-TTTTAAAAAAAAAATTT
1 TATT-AAAGGTATTTTTCAATAGAAGATACCTTTAATAATCTCAAAATTTTTAAAAAAAAAA-TT
* * * *
11884727 ATTGAAGGCAATTGTTATAAAAAAAACGCCTTTAATAATTATGTA-CATAAATTAAATGTAAGTC
64 ATTGAAGGCAATTGTTAT-AAAAAAACGCCTTTAATAATTATGAACCA-AAATTAAAAGAAAGTA
* * * *
11884791 GTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCGT-AAAAAATTTTGAATA-GGGAAATA
127 GTAAAGACATTTTTCTAGAATAAACGCATTCACTAACCATCAAAAAA-TTTGAATACGGG-AATA
* *
11884854 TTGAAGACTTTTTTCACTAGAAGAC-TCCTTTAATAATACCAAAA-ATTTTAATAAG-AAATTAT
190 TTGAAGAC-ATTTTCACTAGAAAACGT-CTTTAATAATACCAAAATATTTTAA-AAGAAAATTAT
* * * * *
11884916 TGAATGCATTTGTTCTCAAAAAATGCCTAT-AATAATTACGTACATAAA-TTAAAAAAAATTAGT
252 TGAAGGCATTTGTTATAAAAAAATACAT-TCAATAATTACGTACA-AAATTTAAAAAAAATTAGT
* *
11884979 AAAAGTATTTTTCTAAAATAAA-TGCCTCCATTAATCGTCTTAAAATTTGA
315 AAAAGTATTTTTCTAAAATAAACT-CCTCCACTAATCATCTTAAAATTTGA
11885029 CCAGTGAAAT
Statistics
Matches: 301, Mismatches: 52, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
372 11 0.04
373 65 0.22
374 191 0.63
375 34 0.11
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (373 bp):
TATTAAAGGTATTTTTCAATAGAAGATACCTTTAATAATCTCAAAATTTTTAAAAAAAAAATTAT
TGAAGGCAATTGTTATAAAAAAACGCCTTTAATAATTATGAACCAAAATTAAAAGAAAGTAGTAA
AGACATTTTTCTAGAATAAACGCATTCACTAACCATCAAAAAATTTGAATACGGGAATATTGAAG
ACATTTTCACTAGAAAACGTCTTTAATAATACCAAAATATTTTAAAAGAAAATTATTGAAGGCAT
TTGTTATAAAAAAATACATTCAATAATTACGTACAAAATTTAAAAAAAATTAGTAAAAGTATTTT
TCTAAAATAAACTCCTCCACTAATCATCTTAAAATTTGAGTACTGGTA
Found at i:11891677 original size:24 final size:24
Alignment explanation
Indices: 11891645--11891699 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
11891635 TTGTAATACA
*
11891645 TGATATGCATGGATAAGTTACGGT
1 TGATATGCATGAATAAGTTACGGT
*
11891669 TGATATGCATGAATAAGTTATGGT
1 TGATATGCATGAATAAGTTACGGT
11891693 TGATATG
1 TGATATG
11891700 TATCCTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (24 bp):
TGATATGCATGAATAAGTTACGGT
Found at i:11892077 original size:17 final size:19
Alignment explanation
Indices: 11892055--11892089 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11892045 CTAGAAAAAA
11892055 AAGGCA-TGGA-TGGGTCC
1 AAGGCATTGGATTGGGTCC
11892072 AAGGCATTGGATTGGGTC
1 AAGGCATTGGATTGGGTC
11892090 TAACACCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.23, C:0.14, G:0.40, T:0.23
Consensus pattern (19 bp):
AAGGCATTGGATTGGGTCC
Found at i:11892534 original size:18 final size:18
Alignment explanation
Indices: 11892511--11892550 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
11892501 TCATCAATTG
11892511 GCAGCCTTCAAAATCTAT
1 GCAGCCTTCAAAATCTAT
11892529 GCAGCCTTCAAAATCTAT
1 GCAGCCTTCAAAATCTAT
11892547 GCAG
1 GCAG
11892551 TAATCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (18 bp):
GCAGCCTTCAAAATCTAT
Found at i:11892557 original size:18 final size:18
Alignment explanation
Indices: 11892518--11892557 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11892508 TTGGCAGCCT
**
11892518 TCAAAATCTATGCAGCCT
1 TCAAAATCTATGCAGCAA
*
11892536 TCAAAATCTATGCAGTAA
1 TCAAAATCTATGCAGCAA
11892554 TCAA
1 TCAA
11892558 TTTCATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (18 bp):
TCAAAATCTATGCAGCAA
Found at i:11893098 original size:134 final size:135
Alignment explanation
Indices: 11892851--11893101 Score: 288
Period size: 134 Copynumber: 1.9 Consensus size: 135
11892841 TCTTACTAGA
* * ** * *
11892851 AAACACTACTAAAATAGCGATATTTTTTTGATACAAACGCCACTAAAGCAACGACGTTTTTCTCA
1 AAACACTACTAAAATAGCGACATTATCATGATACAAACGCCACCAAAACAACGACGTTTTTCTCA
* * * * **
11892916 TAAAAATGTCACTAAATTTACAACATTTCAAACATATAAACATTACTAATATAGAGATATTTTTA
66 TAAAAATATCACTAAATTAACAACATCTCAAACATACAAACACCACTAATATAGAGATATTTTTA
11892981 GATAT
131 GATAT
* * * *
11892986 AAACACTGCTAAAATAGCGACATTATCAT-ATACAAACGTCGCCAAAACAATGACGTTTTTCTCA
1 AAACACTACTAAAATAGCGACATTATCATGATACAAACGCCACCAAAACAACGACGTTTTTCTCA
*** * * **
11893050 TAAAAATATCACTAAATTAATGGCGTCTCAAATATACAAATGCCACTAATAT
66 TAAAAATATCACTAAATTAACAACATCTCAAACATACAAACACCACTAATAT
11893102 TGCTGTGTTT
Statistics
Matches: 93, Mismatches: 23, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
134 69 0.74
135 24 0.26
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (135 bp):
AAACACTACTAAAATAGCGACATTATCATGATACAAACGCCACCAAAACAACGACGTTTTTCTCA
TAAAAATATCACTAAATTAACAACATCTCAAACATACAAACACCACTAATATAGAGATATTTTTA
GATAT
Found at i:11893373 original size:24 final size:24
Alignment explanation
Indices: 11893346--11893391 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11893336 TAATAAAAAA
11893346 TTTAAATTATAAAATAATAATATT
1 TTTAAATTATAAAATAATAATATT
* * *
11893370 TTTAATTTTTAATATAATAATA
1 TTTAAATTATAAAATAATAATA
11893392 AAAATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAAATTATAAAATAATAATATT
Found at i:11897670 original size:24 final size:24
Alignment explanation
Indices: 11897638--11897689 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
11897628 ATACAATACC
11897638 CAAACCTAAAACCCAATAGTTAAG
1 CAAACCTAAAACCCAATAGTTAAG
11897662 CAAACCTAAAACCCAATAGTTAAG
1 CAAACCTAAAACCCAATAGTTAAG
11897686 CAAA
1 CAAA
11897690 GGAAAGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.25, G:0.08, T:0.15
Consensus pattern (24 bp):
CAAACCTAAAACCCAATAGTTAAG
Found at i:11908041 original size:6 final size:6
Alignment explanation
Indices: 11908030--11908057 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11908020 GTGACCAAGA
11908030 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
11908058 TGGAATTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11909878 original size:2 final size:2
Alignment explanation
Indices: 11909866--11909904 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
11909856 AGTGTGGTGG
*
11909866 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11909905 AACAAAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11910986 original size:2 final size:2
Alignment explanation
Indices: 11910974--11911018 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
11910964 GTCATCCACT
*
11910974 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11911016 TC T
1 TC T
11911019 AAGGAAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:11913803 original size:16 final size:16
Alignment explanation
Indices: 11913780--11913821 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
11913770 GTAATAGGAT
11913780 GAATAAAATAATGAAAA
1 GAATAAAA-AATGAAAA
*
11913797 G-ATAAAAAATTAAAA
1 GAATAAAAAATGAAAA
11913812 GAATAAAAAA
1 GAATAAAAAA
11913822 GTAAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 14 0.61
17 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (16 bp):
GAATAAAAAATGAAAA
Found at i:11913826 original size:16 final size:15
Alignment explanation
Indices: 11913780--11913827 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
11913770 GTAATAGGAT
11913780 GAATAAAATAATGAAAA
1 GAATAAAA-AAT-AAAA
11913797 G-ATAAAAAATTAAAA
1 GAATAAAAAA-TAAAA
11913812 GAATAAAAAAGTAAAA
1 GAATAAAAAA-TAAAA
11913828 ACATAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.25
16 20 0.71
17 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (15 bp):
GAATAAAAAATAAAA
Found at i:11918372 original size:17 final size:18
Alignment explanation
Indices: 11918352--11918386 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11918342 TTAAATTTTA
*
11918352 TATTTT-TAATTTAAATT
1 TATTTTGTAATTGAAATT
11918369 TATTTTGTAATTGAAATT
1 TATTTTGTAATTGAAATT
11918387 AAGCTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATTTTGTAATTGAAATT
Found at i:11918676 original size:61 final size:63
Alignment explanation
Indices: 11918602--11918725 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
11918592 TACAAAAAAT
* * ** *
11918602 TAAATAAAGTTATTC-AAG-ATATTTTTTATTAAAAAA-TATTGAATAATTTCTTTTAATTTTTA
1 TAAAGAAAGTTATTCAAAGCAT-TTTTTAAGCAAAAAACT-TTGAATAATTTCTTTCAATTTTTA
11918664 TAAAGAAA-TTATTCAAAGCATTTTTTAAGCAAAAAAGCTTTGAATAATTTCTTTCAATTTTT
1 TAAAGAAAGTTATTCAAAGCATTTTTTAAGCAAAAAA-CTTTGAATAATTTCTTTCAATTTTT
11918726 TATTTGAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
61 6 0.11
62 22 0.42
63 24 0.45
64 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.46
Consensus pattern (63 bp):
TAAAGAAAGTTATTCAAAGCATTTTTTAAGCAAAAAACTTTGAATAATTTCTTTCAATTTTTA
Found at i:11919292 original size:150 final size:148
Alignment explanation
Indices: 11919017--11919304 Score: 336
Period size: 150 Copynumber: 1.9 Consensus size: 148
11919007 TTTTTATGAA
* * *
11919017 AGGATTATTTAAGGTATTTTTTGTCAAAAATATCTTGAATAATCTCTTCTAATTTTTTATTAGGA
1 AGGATTATTTAAAGTATTTTTTGTCAAAAAGACCTTGAATAATCTCTTCTAATTTTTTATTAGGA
* * * * * * *
11919082 ATTATTCAAGACGTTTTTGCTTAAAAAATGTCTCGAATAATCCCTTACAAAAAATTAAATGTAAA
66 ATTATTAAAGACATTTTTGCATAAAAAACGTCTAGAATAAT-CCTCAAAAAAAATTAAATG-AAA
11919147 TATTCAAAAAAAAATGGAAG
129 TATTCAAAAAAAAATGGAAG
*
11919167 AGGATTATTTAAAGT-TTTTTTGTCCAAAAAGACCTTGAATAATC-CTTATTAA-TTTTTATTAG
1 AGGATTATTTAAAGTATTTTTTGT-CAAAAAGACCTTGAATAATCTCTT-CTAATTTTTTATTAG
*
11919229 GAAATTATTTAAAG-CATTTTCTG-ATAAAAAACGTTTAGAATAAT-CTCAAAAAAAATTTGAAA
64 G-AATTA-TTAAAGACATTTT-TGCATAAAAAACGTCTAGAATAATCCTCAAAAAAAA-TT-AAA
*
11919291 TGAATTATTCAAAA
124 TGAAATATTCAAAA
11919305 CATTTTGTGC
Statistics
Matches: 118, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
148 9 0.08
149 35 0.30
150 67 0.57
151 7 0.06
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (148 bp):
AGGATTATTTAAAGTATTTTTTGTCAAAAAGACCTTGAATAATCTCTTCTAATTTTTTATTAGGA
ATTATTAAAGACATTTTTGCATAAAAAACGTCTAGAATAATCCTCAAAAAAAATTAAATGAAATA
TTCAAAAAAAAATGGAAG
Found at i:11931987 original size:10 final size:10
Alignment explanation
Indices: 11931972--11932017 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
11931962 ACTCATAAGA
11931972 AAAAAAAAGG
1 AAAAAAAAGG
*
11931982 AAAAAAAATG
1 AAAAAAAAGG
*
11931992 AAAAAGAAAAG
1 AAAAA-AAAGG
11932003 AAAAAAAAGG
1 AAAAAAAAGG
11932013 AAAAA
1 AAAAA
11932018 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:11931996 original size:21 final size:21
Alignment explanation
Indices: 11931970--11932017 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
11931960 GAACTCATAA
*
11931970 GAAAAA-AAAAGGAAAAAAAAT
1 GAAAAAGAAAA-GAAAAAAAAG
11931991 GAAAAAGAAAAGAAAAAAAAG
1 GAAAAAGAAAAGAAAAAAAAG
11932012 GAAAAA
1 GAAAAA
11932018 CATGAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (21 bp):
GAAAAAGAAAAGAAAAAAAAG
Found at i:11933078 original size:9 final size:9
Alignment explanation
Indices: 11933044--11933101 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
11933034 TATGGTATAG
11933044 ATTTCATGC
1 ATTTCATGC
* *
11933053 ATTGCATCC
1 ATTTCATGC
*
11933062 ATTGCATGC
1 ATTTCATGC
11933071 ATTTCATGC
1 ATTTCATGC
11933080 ATTAT-ATGC
1 ATT-TCATGC
* *
11933089 ATTACATTC
1 ATTTCATGC
11933098 ATTT
1 ATTT
11933102 TAAGCGTTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 39 0.98
10 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (9 bp):
ATTTCATGC
Found at i:11933091 original size:27 final size:27
Alignment explanation
Indices: 11933044--11933101 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11933034 TATGGTATAG
* *
11933044 ATTTCATGCATTGCATCCATTGCATGC
1 ATTTCATGCATTACATCCATTACATGC
* * *
11933071 ATTTCATGCATTATATGCATTACATTC
1 ATTTCATGCATTACATCCATTACATGC
11933098 ATTT
1 ATTT
11933102 TAAGCGTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (27 bp):
ATTTCATGCATTACATCCATTACATGC
Found at i:11933718 original size:22 final size:22
Alignment explanation
Indices: 11933693--11933756 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
11933683 AGTCTGCTAG
*
11933693 GCATAATCTATAAAACCTCTAA
1 GCATAATCTATAAAACCTCCAA
* * *
11933715 GCATAACTTTTTAAAATTCTCCAA
1 GCATAA-TCTATAAAA-CCTCCAA
11933739 GCATAATC-ACTAAAACCT
1 GCATAATCTA-TAAAACCT
11933757 TTGGGTATGA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
22 8 0.25
23 13 0.41
24 11 0.34
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (22 bp):
GCATAATCTATAAAACCTCCAA
Found at i:11936259 original size:56 final size:55
Alignment explanation
Indices: 11936094--11936392 Score: 255
Period size: 57 Copynumber: 5.1 Consensus size: 55
11936084 CAAAAAAATA
* * *
11936094 TAAAAAAATATATATTTCAAAAAATATTTTGAGAAAAAGTTGAAA-TATCAATTTTTC
1 TAAATAAA-ATATATTTCAAAAAAT-TTTTAAGGAAAAGTT-AAAGTATCAATTTTTC
* ** *
11936151 TCAAATAAAAAATTTATTTCAAAAAATATATATTTTAATAAAAAGTTGAAGTATCAATTTTTC
1 T-AAAT--AAAATATATTTC--AAAA-A-AT-TTTTAAGGAAAAGTTAAAGTATCAATTTTTC
* *
11936214 TAAATAAAATATATTTCTAAAAAATTTTTAAGGAAAAGTTAAAGTATTAATTTTCTT
1 TAAATAAAATATATTTC-AAAAAATTTTTAAGGAAAAGTTAAAGTATCAATTTT-TC
* * *
11936271 TAAATAAAA-AAATTTTCAAAAAAATGTTTAAGGAAAAGTTGAAGTATCAA-TTTTC
1 TAAATAAAATATA-TTTC-AAAAAATTTTTAAGGAAAAGTTAAAGTATCAATTTTTC
* * *
11936326 TTAAATAAAA-ATATTTCAAAAAATGTTTGAGGAAAAAGTTGAAAATATCAATTTTTCC
1 -TAAATAAAATATATTTCAAAAAATTTTTAAGG-AAAAGTT-AAAGTATCAATTTTT-C
11936384 TTAAATAAA
1 -TAAATAAA
11936393 GTATCTTTTT
Statistics
Matches: 205, Mismatches: 22, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
54 14 0.07
55 12 0.06
56 49 0.24
57 50 0.24
58 14 0.07
59 12 0.06
60 14 0.07
61 4 0.02
62 7 0.03
63 29 0.14
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (55 bp):
TAAATAAAATATATTTCAAAAAATTTTTAAGGAAAAGTTAAAGTATCAATTTTTC
Found at i:11936971 original size:56 final size:56
Alignment explanation
Indices: 11936895--11937008 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
11936885 ATAAGTCCAT
* *
11936895 TAATCTATACGTTATGACAATATTTTATCTATATAATAAGCATAAATATAAAATCA
1 TAATCTATACGTTATGACAATATTTTATCTATATAATAAGCAAAAATAAAAAATCA
* *
11936951 TAATCTATATGTTATGACAATGTTTTATCTATATAATAAGCAAAAATAAAAAATCA
1 TAATCTATACGTTATGACAATATTTTATCTATATAATAAGCAAAAATAAAAAATCA
11937007 TA
1 TA
11937009 CCTTTGTGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (56 bp):
TAATCTATACGTTATGACAATATTTTATCTATATAATAAGCAAAAATAAAAAATCA
Found at i:11939650 original size:24 final size:23
Alignment explanation
Indices: 11939605--11939659 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
11939595 AAATAACTCT
*
11939605 AAAAAAAA-TAAAAACCAAAGAA
1 AAAAAAAAGCAAAAACCAAAGAA
* *
11939627 AAAAGAAAGCAAAAACTCATAGAA
1 AAAAAAAAGCAAAAAC-CAAAGAA
11939651 AAAAAAAAG
1 AAAAAAAAG
11939660 GTACTTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.26
23 6 0.22
24 14 0.52
ACGTcount: A:0.76, C:0.09, G:0.09, T:0.05
Consensus pattern (23 bp):
AAAAAAAAGCAAAAACCAAAGAA
Found at i:11942324 original size:171 final size:175
Alignment explanation
Indices: 11942035--11942352 Score: 396
Period size: 171 Copynumber: 1.8 Consensus size: 175
11942025 TCATTTTTTT
* *
11942035 AGAGATTATTCAAGGCATTTTTTATCAGAAAATACCTTAAATAATCTCTTAAAAAAATTAAATGG
1 AGAGATTATTCAAGGCATTTTTGACCAGAAAATACCTTAAATAATCTCTTAAAAAAATTAAATGG
* * * * * * *
11942100 AGTTATTTAAGGTGTTTTTAGTCAAAAACACTTTTAGTAATCCCCTCTAATTTTT-TT-GAGGAT
66 AGTTATTCAAGATGTTTCTAGTCAAAAACACCTTGAATAATCCCCTCTAATTTTTATTAAAGGAT
*
11942163 TATTCAAGGTATTTTTGTCTAGAAATGCCTTTAATAAAAATTGAA
131 TATTCAAGGCATTTTTGTCTAGAAATGCCTTTAATAAAAATTGAA
* * * *
11942208 AGAGATTATTCAAGGCA-TTTTGGCCAG-AAATGCCTTGAATAATC-CTTTACAAAAAA-TGAAT
1 AGAGATTATTCAAGGCATTTTTGACCAGAAAATACCTTAAATAATCTC-TTA-AAAAAATTAAAT
* * ** *
11942269 GGGGTTATTCAAGATGTTTCTGGTCAAAAATGCCTTGAATAATCCCCTTTAATTTTTATTAAAGG
64 GGAGTTATTCAAGATGTTTCTAGTCAAAAACACCTTGAATAATCCCCTCTAATTTTTATTAAAGG
*
11942334 ATTATTTAAGGCATTTTTG
129 ATTATTCAAGGCATTTTTG
11942353 GTGAGAAAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
170 1 0.01
171 68 0.56
172 15 0.12
173 37 0.31
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (175 bp):
AGAGATTATTCAAGGCATTTTTGACCAGAAAATACCTTAAATAATCTCTTAAAAAAATTAAATGG
AGTTATTCAAGATGTTTCTAGTCAAAAACACCTTGAATAATCCCCTCTAATTTTTATTAAAGGAT
TATTCAAGGCATTTTTGTCTAGAAATGCCTTTAATAAAAATTGAA
Found at i:11942718 original size:34 final size:34
Alignment explanation
Indices: 11942680--11942750 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
11942670 TTCTTGTATT
* *
11942680 TTGGGTTAAATCCCTAAACTTTTTGTCTGATTTG
1 TTGGGTCAAATCCCTAAACTTTTTATCTGATTTG
* *
11942714 TTGGGTCAAGTCCCTAAATTTTTTATCTGATTTG
1 TTGGGTCAAATCCCTAAACTTTTTATCTGATTTG
11942748 TTG
1 TTG
11942751 TATTTCTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (34 bp):
TTGGGTCAAATCCCTAAACTTTTTATCTGATTTG
Found at i:11945421 original size:21 final size:21
Alignment explanation
Indices: 11945374--11945421 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
11945364 AAAGAATAGG
*
11945374 AACGTGCTAGAATTGAACAGA
1 AACGTGCTAAAATTGAACAGA
* * *
11945395 AGCGTGCTAAAATTGAAGATA
1 AACGTGCTAAAATTGAACAGA
11945416 AACGTG
1 AACGTG
11945422 TTAGAATGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (21 bp):
AACGTGCTAAAATTGAACAGA
Found at i:11945888 original size:13 final size:13
Alignment explanation
Indices: 11945870--11945894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11945860 AATCAATATT
11945870 AAAATAAATTTTA
1 AAAATAAATTTTA
11945883 AAAATAAATTTT
1 AAAATAAATTTT
11945895 GTTAATTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATTTTA
Found at i:11946418 original size:22 final size:22
Alignment explanation
Indices: 11946393--11946435 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11946383 TACTGACAAA
11946393 AAAG-TATTTAAGAAAAAATTTT
1 AAAGATATTT-AGAAAAAATTTT
11946415 AAAGATATTTAGAAAAAATTT
1 AAAGATATTTAGAAAAAATTT
11946436 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (22 bp):
AAAGATATTTAGAAAAAATTTT
Found at i:11946444 original size:8 final size:8
Alignment explanation
Indices: 11946428--11946484 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
11946418 GATATTTAGA
*
11946428 AAAAATTT
1 AAAATTTT
11946436 AAAATTTT
1 AAAATTTT
11946444 AAAATTTT
1 AAAATTTT
*
11946452 AAAATATCCATA
1 AAAAT-T---TT
11946464 AAAATTTT
1 AAAATTTT
11946472 AAAATTATT
1 AAAATT-TT
11946481 AAAA
1 AAAA
11946485 AATATTCTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 27 0.66
9 7 0.17
11 1 0.02
12 6 0.15
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (8 bp):
AAAATTTT
Found at i:11946474 original size:36 final size:38
Alignment explanation
Indices: 11946407--11946484 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 38
11946397 TATTTAAGAA
**
11946407 AAAATTTTAAAGATATTTAGAAAAAATTTAAAATT-TT
1 AAAATTTTAAAGATATCCAGAAAAAATTTAAAATTATT
* *
11946444 AAAATTTTAAA-ATATCCATAAAAATTTTAAAATTATT
1 AAAATTTTAAAGATATCCAGAAAAAATTTAAAATTATT
11946481 AAAA
1 AAAA
11946485 AATATTCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 19 0.53
37 17 0.47
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (38 bp):
AAAATTTTAAAGATATCCAGAAAAAATTTAAAATTATT
Found at i:11946498 original size:29 final size:29
Alignment explanation
Indices: 11946407--11946500 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
11946397 TATTTAAGAA
11946407 AAAATTTTAAAGA-TATTTAGAAAAA-ATT-T
1 AAAATTTTAAA-ATTA-TTA-AAAAATATTCT
*
11946436 AAAATTTTAAAATT-TT--AAAATATCCAT
1 AAAATTTTAAAATTATTAAAAAATATTC-T
11946463 AAAAATTTTAAAATTATTAAAAAATATTCT
1 -AAAATTTTAAAATTATTAAAAAATATTCT
*
11946493 ATAATTTT
1 AAAATTTT
11946501 TTTTTTATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
24 4 0.07
25 2 0.04
27 3 0.06
28 15 0.28
29 21 0.39
30 1 0.02
31 8 0.15
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATTTTAAAATTATTAAAAAATATTCT
Found at i:11948245 original size:28 final size:26
Alignment explanation
Indices: 11948190--11948262 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 26
11948180 GTAAGATTTT
* * *
11948190 TTTAAAATTAAGTGATTTTAAATCAAA
1 TTTAAAATTAAAT-ATTTAAAATAAAA
11948217 TATTAAAATTAAATATTTAATAATAAAA
1 T-TTAAAATTAAATATTTAA-AATAAAA
11948245 TTTAAAA--AAATATTTAAA
1 TTTAAAATTAAATATTTAAA
11948263 TTCTCTCGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.02
25 10 0.24
27 12 0.29
28 18 0.44
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (26 bp):
TTTAAAATTAAATATTTAAAATAAAA
Found at i:11948985 original size:24 final size:24
Alignment explanation
Indices: 11948958--11949003 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11948948 TAAGTTTGAT
* * *
11948958 TTAAATTTTTTTATTGAATTAATA
1 TTAAATTTATATATTAAATTAATA
11948982 TTAAATTTATATATTAAATTAA
1 TTAAATTTATATATTAAATTAA
11949004 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAAATTTATATATTAAATTAATA
Found at i:11949056 original size:20 final size:21
Alignment explanation
Indices: 11949031--11949069 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11949021 CAAATCAAAT
*
11949031 TATAT-ATTTTTATTAAATTA
1 TATATAATTTTTATAAAATTA
11949051 TATATAATTTTTATAAAAT
1 TATATAATTTTTATAAAAT
11949070 AAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATAATTTTTATAAAATTA
Found at i:11949081 original size:21 final size:21
Alignment explanation
Indices: 11949031--11949082 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
11949021 CAAATCAAAT
* *
11949031 TATA-TATTTTTATTAAATTA
1 TATATTATTTTTATAAAATAA
*
11949051 TATATAATTTTTATAAAATAA
1 TATATTATTTTTATAAAATAA
11949072 -ATAATTATTTT
1 TAT-ATTATTTT
11949083 ATATTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATTATTTTTATAAAATAA
Found at i:11949107 original size:20 final size:21
Alignment explanation
Indices: 11949082--11949122 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11949072 ATAATTATTT
* *
11949082 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
11949102 TATATTAAAAATTATATTAAA
1 TATATTAAAAATTATATTAAA
11949123 ATGGCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:11950276 original size:27 final size:27
Alignment explanation
Indices: 11950222--11950276 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
11950212 ATATATAATC
**
11950222 TATAATTATTTATTTTAAATTATCAAA
1 TATAATTATTTATTTTAAATTAAAAAA
*
11950249 TATAACTTATTT-TTTTAATTTAAAAAA
1 TATAA-TTATTTATTTTAAATTAAAAAA
11950276 T
1 T
11950277 TAAACAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TATAATTATTTATTTTAAATTAAAAAA
Found at i:11955374 original size:131 final size:129
Alignment explanation
Indices: 11955217--11955495 Score: 346
Period size: 129 Copynumber: 2.1 Consensus size: 129
11955207 TATGCTAGTT
* *
11955217 CCAGCTGATACAGCACCAAGGGTGGGTTCAGGATTAAATCCAGCAC-TGCGACTAATGCCTACAG
1 CCAGCTGATACAGCACCAAGGCTGGGTTCAGGATGAAATCCAGCACTTG-GACTAATG-C--CAG
* * ** *
11955281 GAGAATCCCATCTTTGGCCAACTAAA-GTGGAACTTCTAGTGGAGATGAATAACCCCTAATGGTA
62 GAGAATCCCATCTATGACCAACTAAATGTGGAACTTCTACAGGAGATGAATAACCCCTAATGGAA
11955345 GCA
127 GCA
* * * * *
11955348 CCAGCAGATACAGCACCAAGGCTGGGTTCAGGATGAACTCCAGCCCTTGGGCTAATGCCAGGAGC
1 CCAGCTGATACAGCACCAAGGCTGGGTTCAGGATGAAATCCAGCACTTGGACTAATGCCAGGAGA
* * * * *
11955413 ATCCCGTCTATGACCAACTAAATTTGGAACTTCTACAGTAGATGAGTAACCCCTAATGGAAGCT
66 ATCCCATCTATGACCAACTAAATGTGGAACTTCTACAGGAGATGAATAACCCCTAATGGAAGCA
*
11955477 CCAGCTGATACACCACCAA
1 CCAGCTGATACAGCACCAA
11955496 AACTAGGTTG
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
128 25 0.20
129 51 0.40
130 1 0.01
131 48 0.38
132 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (129 bp):
CCAGCTGATACAGCACCAAGGCTGGGTTCAGGATGAAATCCAGCACTTGGACTAATGCCAGGAGA
ATCCCATCTATGACCAACTAAATGTGGAACTTCTACAGGAGATGAATAACCCCTAATGGAAGCA
Found at i:11955488 original size:129 final size:131
Alignment explanation
Indices: 11955152--11955495 Score: 399
Period size: 131 Copynumber: 2.6 Consensus size: 131
11955142 CCTAGTGAAC
* * * * * * * * *
11955152 CATCCCGTCTTTGGCCAACTAAGTTTGGATCTTCTGGAGGAGATGGGTTACCCTTTATGCTAGTT
1 CATCCCGTCTTTGGCCAACTAAATTTGGAACTTCTAGAGGAGATGAGTAACCCCTAATGGTAGCT
* *
11955217 CCAGCTGATACAGCACCAAGGGTGGGTTCAGGATTAAATCCAGCACTGCGACTAATGCCTACAGG
66 CCAGCTGATACAGCACCAAGGCTGGGTTCAGGATGAAATCCAGCACTGCGACTAATGCC-ACAGG
11955282 AG
130 AG
* * * * * *
11955284 AATCCCATCTTTGGCCAACTAAA-GTGGAACTTCTAGTGGAGATGAATAACCCCTAATGGTAGCA
1 CATCCCGTCTTTGGCCAACTAAATTTGGAACTTCTAGAGGAGATGAGTAACCCCTAATGGTAGCT
* * * *
11955348 CCAGCAGATACAGCACCAAGGCTGGGTTCAGGATGAACTCCAGCCCTTG-GGCTAATG-C-CAGG
66 CCAGCTGATACAGCACCAAGGCTGGGTTCAGGATGAAATCCAGCAC-TGCGACTAATGCCACAGG
11955410 AG
130 AG
* * * * *
11955412 CATCCCGTCTATGACCAACTAAATTTGGAACTTCTACAGTAGATGAGTAACCCCTAATGGAAGCT
1 CATCCCGTCTTTGGCCAACTAAATTTGGAACTTCTAGAGGAGATGAGTAACCCCTAATGGTAGCT
*
11955477 CCAGCTGATACACCACCAA
66 CCAGCTGATACAGCACCAA
11955496 AACTAGGTTG
Statistics
Matches: 176, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
128 25 0.14
129 51 0.29
130 1 0.01
131 77 0.44
132 22 0.12
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (131 bp):
CATCCCGTCTTTGGCCAACTAAATTTGGAACTTCTAGAGGAGATGAGTAACCCCTAATGGTAGCT
CCAGCTGATACAGCACCAAGGCTGGGTTCAGGATGAAATCCAGCACTGCGACTAATGCCACAGGA
G
Found at i:11956410 original size:6 final size:7
Alignment explanation
Indices: 11956375--11956411 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
11956365 TCTGTCCTTC
11956375 AACTTGA
1 AACTTGA
11956382 AACTTGA
1 AACTTGA
11956389 AACTTGA
1 AACTTGA
11956396 AA-TCTGA
1 AACT-TGA
11956403 AAC-TGA
1 AACTTGA
11956409 AAC
1 AAC
11956412 CCTTTTGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 7 0.25
7 21 0.75
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (7 bp):
AACTTGA
Found at i:11957043 original size:27 final size:27
Alignment explanation
Indices: 11957013--11957066 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
11957003 ATAAGTAATA
* *
11957013 TTTGATAAATTTTTATATAATTTTGAT
1 TTTGATAAATTTTGATAAAATTTTGAT
*
11957040 TTTGATAACTTTTGATAAAATTTTGAT
1 TTTGATAAATTTTGATAAAATTTTGAT
11957067 AATTTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (27 bp):
TTTGATAAATTTTGATAAAATTTTGAT
Done.