Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 15 of 190
Found at i:2083869 original size:25 final size:25
Alignment explanation
Indices: 2083757--2083871 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
2083747 AAGTGGTATC
*
2083757 AGAGCTGAAGGTTCGAAATGTGAGAA
1 AGAGCTGAAGGTTCGAGATGTGA-AA
* * *
2083783 A-AGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAGATGTGAAA
* *
2083807 AGAGCCGAATGTTCGAGATGTGAAA
1 AGAGCTGAAGGTTCGAGATGTGAAA
* **
2083832 A-AGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAGATGTGAAA
*
2083856 AGAGCTAAAGGTTCGA
1 AGAGCTGAAGGTTCGA
2083872 AAAGTGCATG
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
24 23 0.32
25 48 0.67
26 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (25 bp):
AGAGCTGAAGGTTCGAGATGTGAAA
Found at i:2083870 original size:49 final size:50
Alignment explanation
Indices: 2083757--2083873 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 50
2083747 AAGTGGTATC
*
2083757 AGAGCTGAAGGTTCGAAATGTGAGAAAAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAAATGTGAGAAAAGCTGAAGATTCAAGATGTGAAA
* * * * **
2083807 AGAGCCGAATGTTCGAGATGTGA-AAAAGCTGAA-AGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATGTGAGAAAAGCTGAAGA-TTCAAGATGTGAAA
*
2083856 AGAGCTAAAGGTTCGAAA
1 AGAGCTGAAGGTTCGAAA
2083874 AGTGCATGGT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.02
49 34 0.62
50 20 0.36
ACGTcount: A:0.39, C:0.09, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAATGTGAGAAAAGCTGAAGATTCAAGATGTGAAA
Found at i:2084240 original size:52 final size:52
Alignment explanation
Indices: 2084172--2084327 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
2084162 TGGACAAGAA
* * *
2084172 GACTTACAA-AAAAGAATTCCAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* * *
2084223 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAATTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* *
2084275 GACTTACAGGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
2084327 G
1 G
2084328 TATGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 8 0.09
52 79 0.86
53 5 0.05
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:2084926 original size:25 final size:24
Alignment explanation
Indices: 2084898--2084953 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
2084888 TGAAGATTCA
*
2084898 AGATGTGAAAAGAGCCGAATGTTCG
1 AGATGTGAAAA-AGCCGAAAGTTCG
*
2084923 AGATGTGAAAAAGCTGAAAGTTCG
1 AGATGTGAAAAAGCCGAAAGTTCG
2084947 AGATGTG
1 AGATGTG
2084954 GGAAGAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (24 bp):
AGATGTGAAAAAGCCGAAAGTTCG
Found at i:2084970 original size:25 final size:25
Alignment explanation
Indices: 2084858--2084972 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
2084848 AAGTGGTATC
*
2084858 AGAGCTGAAGGTTCGAAATGTGAGAA
1 AGAGCTGAAGGTTCGAGATGTGA-AA
* * *
2084884 A-AGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAGATGTGAAA
* *
2084908 AGAGCCGAATGTTCGAGATGTGAAA
1 AGAGCTGAAGGTTCGAGATGTGAAA
* **
2084933 A-AGCTGAAAGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAGATGTGAAA
*
2084957 AGAGCTAAAGGTTCGA
1 AGAGCTGAAGGTTCGA
2084973 AAAGTGCATG
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
24 23 0.32
25 48 0.67
26 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (25 bp):
AGAGCTGAAGGTTCGAGATGTGAAA
Found at i:2084971 original size:49 final size:50
Alignment explanation
Indices: 2084858--2084974 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 50
2084848 AAGTGGTATC
*
2084858 AGAGCTGAAGGTTCGAAATGTGAGAAAAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTCGAAATGTGAGAAAAGCTGAAGATTCAAGATGTGAAA
* * * * **
2084908 AGAGCCGAATGTTCGAGATGTGA-AAAAGCTGAA-AGTTCGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAATGTGAGAAAAGCTGAAGA-TTCAAGATGTGAAA
*
2084957 AGAGCTAAAGGTTCGAAA
1 AGAGCTGAAGGTTCGAAA
2084975 AGTGCATGGT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.02
49 34 0.62
50 20 0.36
ACGTcount: A:0.39, C:0.09, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAATGTGAGAAAAGCTGAAGATTCAAGATGTGAAA
Found at i:2085341 original size:52 final size:52
Alignment explanation
Indices: 2085273--2085428 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
2085263 TGGACAAGAA
* * *
2085273 GACTTACAA-AAAAGAATTCCAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* * *
2085324 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAATTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* *
2085376 GACTTACAGGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
2085428 G
1 G
2085429 TATGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 8 0.09
52 79 0.86
53 5 0.05
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:2085987 original size:17 final size:17
Alignment explanation
Indices: 2085968--2085999 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2085958 TAAATGTATT
2085968 TTTTTATTA-TAAACTC
1 TTTTTATTATTAAACTC
2085984 TTTTTATTATTAAACT
1 TTTTTATTATTAAACT
2086000 AAAAAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTATTATTAAACTC
Found at i:2088176 original size:16 final size:16
Alignment explanation
Indices: 2088155--2088186 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2088145 TTTATACTCA
*
2088155 ATTTGAATTTTGAATT
1 ATTTGAAGTTTGAATT
2088171 ATTTGAAGTTTGAATT
1 ATTTGAAGTTTGAATT
2088187 GATTAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (16 bp):
ATTTGAAGTTTGAATT
Found at i:2088737 original size:25 final size:25
Alignment explanation
Indices: 2088685--2088738 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2088675 ATGTGTAGGT
*
2088685 AATTATTGTGAATTAAATATTTTAA
1 AATTATTGTCAATTAAATATTTTAA
* *
2088710 AATTATTGTCTATTTAAT-TTTTATA
1 AATTATTGTCAATTAAATATTTTA-A
2088735 AATT
1 AATT
2088739 TTATTTAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (25 bp):
AATTATTGTCAATTAAATATTTTAA
Found at i:2089368 original size:22 final size:22
Alignment explanation
Indices: 2089323--2089624 Score: 132
Period size: 22 Copynumber: 13.8 Consensus size: 22
2089313 TGTATTAAAT
*
2089323 ATAACTTAGTAAT-AATT-ATCG
1 ATAACTTAGTAGTAAATTAAT-G
*
2089344 ATAACTTAGCAGTAAATTAATG
1 ATAACTTAGTAGTAAATTAATG
* *
2089366 ATAACTTAATAGTAGATTAATG
1 ATAACTTAGTAGTAAATTAATG
* *
2089388 ATAATTTAGTAGTCAA-TAATTG
1 ATAACTTAGTAGTAAATTAA-TG
* * * *
2089410 ATAACCTT-TTAGTAAATGAGTA
1 ATAA-CTTAGTAGTAAATTAATG
** * * ** *
2089432 ATAACACAATAATAAATGCATA
1 ATAACTTAGTAGTAAATTAATG
* * *
2089454 ATACCTTAATAGTAAATTAATT
1 ATAACTTAGTAGTAAATTAATG
* ** *
2089476 ATAA-TATAGTTGTAAATGCATA
1 ATAACT-TAGTAGTAAATTAATG
* * * *
2089498 ACAA-TATAGTACTAAATCAAGG
1 ATAACT-TAGTAGTAAATTAATG
* * *
2089520 ATAACTTAATA-AAAAATAAGTG
1 ATAACTTAGTAGTAAATTAA-TG
* * *
2089542 ATAATTTAGTAGTTAATTATTG
1 ATAACTTAGTAGTAAATTAATG
* * *
2089564 ATAAGTTAGTAATAAATCAATG
1 ATAACTTAGTAGTAAATTAATG
* *
2089586 ATAACTTAATAGTAAATTATTG
1 ATAACTTAGTAGTAAATTAATG
* *
2089608 ATAATTTAATAGTAAAT
1 ATAACTTAGTAGTAAAT
2089625 CAATTTCAGT
Statistics
Matches: 207, Mismatches: 64, Indels: 19
0.71 0.22 0.07
Matches are distributed among these distances:
21 21 0.10
22 176 0.85
23 10 0.05
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATTAATG
Found at i:2089528 original size:66 final size:66
Alignment explanation
Indices: 2089458--2089626 Score: 157
Period size: 66 Copynumber: 2.6 Consensus size: 66
2089448 TGCATAATAC
* *
2089458 CTTAATAGTAAATTAATTATAATATAGTTGTAAATGCA-TAACAA-TATAGTACTAAATCAAGGA
1 CTTAATAGTAAATTAATTATAATATAGTAGTAAAT-CATTAACAAGT-TAGTAATAAATCAAGGA
2089521 TAA
64 TAA
* * * * * * * * *
2089524 CTTAATA-AAAAATAAGTGATAATTTAGTAGTTAATTATTGATAAGTTAGTAATAAATCAATGAT
1 CTTAATAGTAAATTAA-TTATAATATAGTAGTAAATCATTAACAAGTTAGTAATAAATCAAGGAT
2089588 AA
65 AA
* *
2089590 CTTAATAGTAAATT-ATTGATAATTTAATAGTAAATCA
1 CTTAATAGTAAATTAATT-ATAATATAGTAGTAAATCA
2089627 ATTTCAGTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
65 8 0.10
66 68 0.84
67 5 0.06
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (66 bp):
CTTAATAGTAAATTAATTATAATATAGTAGTAAATCATTAACAAGTTAGTAATAAATCAAGGATA
A
Found at i:2089639 original size:44 final size:44
Alignment explanation
Indices: 2089519--2089874 Score: 143
Period size: 44 Copynumber: 8.2 Consensus size: 44
2089509 CTAAATCAAG
* * * *
2089519 GATAACTTAATAAAAAAT-AAGTGATAATTTAGTAGTTAATTATT
1 GATAAGTTAATAATAAATCAA-TGATAATTTAATAGTAAATTATT
* *
2089563 GATAAGTTAGTAATAAATCAATGATAACTTAATAGTAAATTATT
1 GATAAGTTAATAATAAATCAATGATAATTTAATAGTAAATTATT
* * * *
2089607 GATAATTTAATAGTAAATCAAT-TTCAGTTTAATAGT-AATTAATT
1 GATAAGTTAATAATAAATCAATGAT-AATTTAATAGTAAATT-ATT
* * * * *
2089651 TATAGTAGTAAATCATAAA-C----A-AA-TTAGTAGTAAATCAATT
1 GATA--AGTTAATAATAAATCAATGATAATTTAATAGTAAAT-TATT
* * * * **
2089691 -ATAAATTAGA-AGTAAAT-AATTGATAATTTAGTAGTTAACCATT
1 GATAAGTTA-ATAATAAATCAA-TGATAATTTAATAGTAAATTATT
* * * *
2089734 GAAAATTTAA-AAGTAAATCAGT-ATAATTTAATAGTAAATCATT
1 GATAAGTTAATAA-TAAATCAATGATAATTTAATAGTAAATTATT
* * * * * * *
2089777 AATAA-TATAATAGTTAATTAGTGATAACTTAATAGTAAATCATT
1 GATAAGT-TAATAATAAATCAATGATAATTTAATAGTAAATTATT
* * * * ** *
2089821 TATAATTTAA-AATTAATCAATAATAATTTGGTAGTAAATCATT
1 GATAAGTTAATAATAAATCAATGATAATTTAATAGTAAATTATT
*
2089864 GATAATTTAAT
1 GATAAGTTAAT
2089875 GGTAAATTGG
Statistics
Matches: 238, Mismatches: 50, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
37 7 0.03
38 1 0.00
39 10 0.04
40 7 0.03
42 2 0.01
43 78 0.33
44 119 0.50
45 5 0.02
46 9 0.04
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (44 bp):
GATAAGTTAATAATAAATCAATGATAATTTAATAGTAAATTATT
Found at i:2089696 original size:22 final size:22
Alignment explanation
Indices: 2089674--2089881 Score: 113
Period size: 22 Copynumber: 9.5 Consensus size: 22
2089664 CATAAACAAA
*
2089674 TTAGTAGTAAATCAATTATAAA
1 TTAGTAGTAAATCAATTATAAT
*
2089696 TTAGAAGTAAAT-AATTGATAAT
1 TTAGTAGTAAATCAATT-ATAAT
* * *
2089718 TTAGTAGTTAA-CCATTGAAAAT
1 TTAGTAGTAAATCAATT-ATAAT
** *
2089740 TTAAAAGTAAATC-AGTATAAT
1 TTAGTAGTAAATCAATTATAAT
*
2089761 TTAATAGTAAATC-ATTAATAAT
1 TTAGTAGTAAATCAATT-ATAAT
* * * * * * *
2089783 ATAATAGTTAATTAGTGATAAC
1 TTAGTAGTAAATCAATTATAAT
* *
2089805 TTAATAGTAAATCATTTATAAT
1 TTAGTAGTAAATCAATTATAAT
* * * *
2089827 TTA-AAATTAATCAATAATAAT
1 TTAGTAGTAAATCAATTATAAT
*
2089848 TTGGTAGTAAATC-ATTGATAAT
1 TTAGTAGTAAATCAATT-ATAAT
* *
2089870 TTAATGGTAAAT
1 TTAGTAGTAAAT
2089882 TGGTGATAAT
Statistics
Matches: 141, Mismatches: 38, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
21 39 0.28
22 100 0.71
23 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (22 bp):
TTAGTAGTAAATCAATTATAAT
Found at i:2089761 original size:43 final size:44
Alignment explanation
Indices: 2089713--2089873 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 44
2089703 TAAATAATTG
* * * *
2089713 ATAATTTAGTAGTTAACCATTGAAAATTTAAAAGTAAATCAGT-
1 ATAATTTAATAGTAAATCATTGAAAATTTAAAAGTTAATCAGTA
* * * *
2089756 ATAATTTAATAGTAAATCATT-AATAATATAATAGTTAATTAGTG
1 ATAATTTAATAGTAAATCATTGAA-AATTTAAAAGTTAATCAGTA
* * * *
2089800 ATAACTTAATAGTAAATCATTTATAATTTAAAA-TTAATCAATA
1 ATAATTTAATAGTAAATCATTGAAAATTTAAAAGTTAATCAGTA
** *
2089843 ATAATTTGGTAGTAAATCATTGATAATTTAA
1 ATAATTTAATAGTAAATCATTGAAAATTTAA
2089874 TGGTAAATTG
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.02
43 67 0.69
44 27 0.28
45 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (44 bp):
ATAATTTAATAGTAAATCATTGAAAATTTAAAAGTTAATCAGTA
Found at i:2089770 original size:65 final size:64
Alignment explanation
Indices: 2089586--2089921 Score: 207
Period size: 65 Copynumber: 5.2 Consensus size: 64
2089576 TAAATCAATG
* * * * * * * *
2089586 ATAACTTAATAGTAAATTATTGATAATTTAATAGTAAATCAATTTCAGTTT--AAT-AGTAATTA
1 ATAATTTAGTAGTTAATCATTGATAATTTAATAGTAAATCAGTAT-AATTTAAAATAAATAATTA
* ** * * * * * *
2089648 AT--TTATAGTAGTAAATCATAAACAAATTAGTAGTAAATCAATTATAAATTAGAAGTAAATAAT
1 ATAATT-TAGTAGTTAATCATTGATAATTTAATAGTAAATC-AGTATAATTTA-AAATAAATAAT
*
2089711 TG
63 TA
* * * * *
2089713 ATAATTTAGTAGTTAACCATTGAAAATTTAAAAGTAAATCAGTATAATTTAATAGTAAATCATTA
1 ATAATTTAGTAGTTAATCATTGATAATTTAATAGTAAATCAGTATAATTTAA-AATAAATAATTA
* * * * * * *
2089778 ATAATATAATAGTTAATTAGTGATAACTTAATAGTAAATCATTTATAATTTAAAATTAATCAA-T
1 ATAATTTAGTAGTTAATCATTGATAATTTAATAGTAAATCA-GTATAATTTAAAATAAAT-AATT
2089842 A
64 A
* * * ** *
2089843 ATAATTTGGTAGTAAATCATTGATAATTTAATGGTAAATTGGTGATAATTTTATAATAAATAATT
1 ATAATTTAGTAGTTAATCATTGATAATTTAATAGTAAATCAGT-ATAA-TTTAAAATAAATAATT
2089908 A
64 A
* *
2089909 AAAATTAAGTAGT
1 ATAATTTAGTAGT
2089922 AAATTAATGA
Statistics
Matches: 205, Mismatches: 55, Indels: 24
0.72 0.19 0.08
Matches are distributed among these distances:
60 1 0.00
61 30 0.15
62 5 0.02
64 4 0.02
65 104 0.51
66 59 0.29
67 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (64 bp):
ATAATTTAGTAGTTAATCATTGATAATTTAATAGTAAATCAGTATAATTTAAAATAAATAATTA
Found at i:2089780 original size:14 final size:15
Alignment explanation
Indices: 2089753--2089820 Score: 51
Period size: 14 Copynumber: 4.8 Consensus size: 15
2089743 AAAGTAAATC
2089753 AGTATAAT--TTAAT
1 AGTATAATCATTAAT
2089766 AGTA-AATCATTAAT
1 AGTATAATCATTAAT
*
2089780 AATATAAT-AGTTAATT
1 AGTATAATCA-TTAA-T
2089796 AGTGATAA-C-TTAAT
1 AGT-ATAATCATTAAT
2089810 AGTA-AATCATT
1 AGTATAATCATT
2089821 TATAATTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
12 5 0.11
13 6 0.14
14 15 0.34
15 11 0.25
16 3 0.07
17 4 0.09
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (15 bp):
AGTATAATCATTAAT
Found at i:2089802 original size:87 final size:87
Alignment explanation
Indices: 2089701--2089989 Score: 219
Period size: 87 Copynumber: 3.3 Consensus size: 87
2089691 ATAAATTAGA
* * * * *
2089701 AGTAAATAATTGATAATTTAGTAGTTAACCATTGAAAATTTAAAAGTAAATCAGT-ATAATTTAA
1 AGTAAATTAGTGATAATTTAATAGTAAACCATTGAAAATTTAAAA-TAAATCAATAATAATTTAA
2089765 TAGTAAATCATTAATAATATAAT
65 TAGTAAATCATTAATAATATAAT
* * * * * * **
2089788 AGTTAATTAGTGATAACTTAATAGTAAATCATTTATAATTTAAAATTAATCAATAATAATTTGGT
1 AGTAAATTAGTGATAATTTAATAGTAAACCATTGAAAATTTAAAATAAATCAATAATAATTTAAT
* *
2089853 AGTAAATCATTGATAATTTAAT
66 AGTAAATCATTAATAATATAAT
* * * * ** * * * * **
2089875 GGTAAATTGGTGATAATTTTATAATAAATAATT-AAAAATTAAGTAGTAAATTAATGATAACATA
1 AGTAAATTAGTGATAATTTAATAGTAAACCATTGAAAATTTAA--AATAAATCAATAATAATTTA
*
2089939 ATACTAAAT-ATATAA-AACTATAAT
64 ATAGTAAATCAT-TAATAA-TATAAT
* * *
2089963 AGT-AATCATTGATAATTTAGTAGTAAA
1 AGTAAATTAGTGATAATTTAATAGTAAA
2089990 TTGATAATGT
Statistics
Matches: 155, Mismatches: 42, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
86 14 0.09
87 112 0.72
88 29 0.19
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (87 bp):
AGTAAATTAGTGATAATTTAATAGTAAACCATTGAAAATTTAAAATAAATCAATAATAATTTAAT
AGTAAATCATTAATAATATAAT
Found at i:2090138 original size:3 final size:3
Alignment explanation
Indices: 2090117--2090281 Score: 59
Period size: 3 Copynumber: 49.7 Consensus size: 3
2090107 TCTTATGTAT
* *
2090117 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA TTTA TTTA TTTA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA -TTA -TTA -TTA
* * *
2090166 TTTA TTT TTA TT- TT- TTA TCTG TTA GTA -TA TGTA TGTA TTTA TTA
1 -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA T-TA T-TA TTA
2090210 TTA TTTA TCTA TTTA TCTA TTA TTA TTTA TCTA -TA TTA TTA TTA TTA
1 TTA -TTA T-TA -TTA T-TA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA
* *
2090257 TTA TTTA TCTA TTA CTA TTT TTA TT
1 TTA -TTA T-TA TTA TTA TTA TTA TT
2090282 TATCTAATTA
Statistics
Matches: 132, Mismatches: 14, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
2 8 0.06
3 63 0.48
4 60 0.45
5 1 0.01
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2090170 original size:22 final size:22
Alignment explanation
Indices: 2090114--2090293 Score: 69
Period size: 21 Copynumber: 8.0 Consensus size: 22
2090104 GTATCTTATG
2090114 TATTTA-TTATTTATTTATTTAT
1 TATTTATTTATTTATTTA-TTAT
* *
2090136 TA-TTA-CTATTTA-TTAATATT
1 TATTTATTTATTTATTTATTA-T
2090156 TATTTATTTATTTATTT-TTAT
1 TATTTATTTATTTATTTATTAT
* * * *
2090177 TTTTTATCT-GTTAGTATATGTAT
1 TATTTATTTATTTA-TTTAT-TAT
2090200 GTATTTA-TTA-TTATTTATCTATT
1 -TATTTATTTATTTATTTAT-TA-T
*
2090223 TATCTATTATTATTTATCTATATTAT
1 TATTTA-T-TTATTTAT-T-TATTAT
2090249 TA-TTA-TTA-TTATTTATCTAT
1 TATTTATTTATTTATTTAT-TAT
*
2090269 TACTATT-TTTATTTATCTAATTAT
1 TA-T-TTATTTATTTAT-TTATTAT
2090293 T
1 T
2090294 TTCTTTTAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 44
0.67 0.08 0.25
Matches are distributed among these distances:
19 5 0.04
20 15 0.12
21 26 0.22
22 25 0.21
23 15 0.12
24 13 0.11
25 8 0.07
26 7 0.06
27 3 0.03
28 3 0.03
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTTATTTATTTATTTATTAT
Found at i:2090175 original size:14 final size:14
Alignment explanation
Indices: 2090109--2090284 Score: 74
Period size: 15 Copynumber: 11.6 Consensus size: 14
2090099 TCCTTGTATC
*
2090109 TTATGTATTTATTAT
1 TTATTTATTTATT-T
2090124 TTATTTATTTATTAT
1 TTATTTATTTATT-T
2090139 TACTATTTATTAATATTTAT
1 T--TATTTATT--TA-TT-T
2090159 TTATTTATTTATTT
1 TTATTTATTTATTT
*
2090173 TTATTT-TTTATCTG
1 TTATTTATTTAT-TT
* *
2090187 TTAGTATATGTATGTAT
1 TTA-TTTATTTAT-T-T
2090204 TTA-TTA-TTATTT
1 TTATTTATTTATTT
* *
2090216 ATCTATTTATCTATTA
1 -T-TATTTATTTATTT
*
2090232 TTATTTATCTATATTA
1 TTATTTAT-T-TATTT
2090248 TTA-TTA-TTATTAT
1 TTATTTATTTATT-T
*
2090261 TTATCTATTACTATTT
1 TTATTTATT--TATTT
2090277 TTATTTAT
1 TTATTTAT
2090285 CTAATTATTT
Statistics
Matches: 127, Mismatches: 14, Indels: 39
0.71 0.08 0.22
Matches are distributed among these distances:
12 5 0.04
13 11 0.09
14 25 0.20
15 29 0.23
16 27 0.21
17 15 0.12
18 8 0.06
19 2 0.02
20 5 0.04
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (14 bp):
TTATTTATTTATTT
Found at i:2090283 original size:4 final size:4
Alignment explanation
Indices: 2090109--2090269 Score: 80
Period size: 4 Copynumber: 42.2 Consensus size: 4
2090099 TCCTTGTATC
*
2090109 TTAT GTAT TTA- TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT
* * * *
2090155 TTAT TTAT TTAT TTA- TT-T TTAT TT-T TTAT CT-G TTAGT ATAT GTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT
* * * *
2090200 GTAT TTA- TTA- TTAT TTAT CTAT TTAT CTA- TTA- TTAT TTAT CTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
2090244 ATTA- TTA- TTA- TTA- TTAT TTAT CTAT T
1 -TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
2090270 ACTATTTTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
3 37 0.30
4 76 0.61
5 4 0.03
6 8 0.06
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:2091221 original size:5 final size:5
Alignment explanation
Indices: 2091211--2091269 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
2091201 GTTTAATACT
2091211 TTTTA TTTTA -TTT- TTTTA TTTTTA TTTTCA TTTTTTA TTTTA -TTT-
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT-A --TTTTA TTTTA TTTTA
2091256 TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
2091270 CTTTAAAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
4 12 0.26
5 23 0.50
6 6 0.13
7 1 0.02
8 4 0.09
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:2091228 original size:13 final size:13
Alignment explanation
Indices: 2091216--2091274 Score: 75
Period size: 13 Copynumber: 4.4 Consensus size: 13
2091206 ATACTTTTTA
*
2091216 TTTTATTTTTTTAT
1 TTTTATTTTATT-T
2091230 TTTTATTTTCA-TT
1 TTTTATTTT-ATTT
2091243 TTTTATTTTATTT
1 TTTTATTTTATTT
2091256 TTTTATTTTATTT
1 TTTTATTTTATTT
2091269 TCTTTA
1 T-TTTA
2091275 AAGTTTTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
12 1 0.02
13 26 0.63
14 14 0.34
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:2091246 original size:32 final size:31
Alignment explanation
Indices: 2091210--2091270 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 31
2091200 TGTTTAATAC
2091210 TTTTTATTTTATTTTTTTATTTTTATTTTCAT
1 TTTTTATTTTATTTTTTTA-TTTTATTTTCAT
2091242 TTTTTATTTTATTTTTTTATTTTATTTTC
1 TTTTTATTTTATTTTTTTATTTTATTTTC
2091271 TTTAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (31 bp):
TTTTTATTTTATTTTTTTATTTTATTTTCAT
Found at i:2091327 original size:57 final size:58
Alignment explanation
Indices: 2091280--2091443 Score: 217
Period size: 57 Copynumber: 2.8 Consensus size: 58
2091270 CTTTAAAGTT
*
2091280 TTTCAAAAAAAAAATTTTTTGAAGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGC
1 TTTCAAAAAAAAAATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-A-C
* * *
2091340 TTTC--TAAAAAAATTTTTTG-AGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC
1 TTTCAAAAAAAAAATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-A-C
*
2091397 TTTCAAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TTTCAAAAAAAAAAT-TTTTTGAAGAAAAGTTGAAAGTATCAATTTT
2091444 CAAGTATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
57 39 0.42
58 14 0.15
59 7 0.08
60 10 0.11
61 23 0.25
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
TTTCAAAAAAAAAATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAC
Found at i:2091450 original size:14 final size:14
Alignment explanation
Indices: 2091431--2091457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2091421 GAAAAGTTGA
2091431 AAGTATCAATTTTC
1 AAGTATCAATTTTC
2091445 AAGTATCAATTTT
1 AAGTATCAATTTT
2091458 TCTTGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
AAGTATCAATTTTC
Found at i:2091455 original size:75 final size:72
Alignment explanation
Indices: 2091370--2091516 Score: 233
Period size: 72 Copynumber: 2.0 Consensus size: 72
2091360 GGAAAGTTGA
2091370 AAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAAATATATTTTTGAA-GAAAAGTTGAAAG
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTC--AAAAAA-ATATTTTT-AAGGAAAAGTTGAAAG
2091434 TATCAATTTTC
62 TATCAATTTTC
* *
2091445 AAGTATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
1 AAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
2091510 AATTTTC
66 AATTTTC
2091517 TTTAAAAATA
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
71 2 0.03
72 32 0.46
73 5 0.07
75 30 0.43
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (72 bp):
AAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
AATTTTC
Found at i:2091456 original size:132 final size:128
Alignment explanation
Indices: 2091316--2091571 Score: 381
Period size: 132 Copynumber: 2.0 Consensus size: 128
2091306 AAGTTGAAAA
*
2091316 TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAA-ATTTTTTGAGG-AAAGTTGAAAGTATCAA
1 TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAA
* *
2091379 TTTTCCTTGAAAATAAGCTTTCAAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
65 TTTTCCTTAAAAATAAG-TTTC--AAAAAA-ATA-TTTTGAAGAAAAGTTAAAAGTATCAATTTT
2091444 CAAG
125 CAAG
2091448 TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
1 TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
* * **
2091513 TTTCTTTAAAAATAAGTTTCTAAAAAATATTTTGGGGAAAAGTTAAAAGTATCAATTTT
66 TTTCCTTAAAAATAAGTTTCAAAAAAATATTTTGAAGAAAAGTTAAAAGTATCAATTTT
2091572 TCTTGTAACC
Statistics
Matches: 115, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
128 27 0.23
129 3 0.03
130 5 0.04
132 47 0.41
133 33 0.29
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (128 bp):
TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAT
TTTCCTTAAAAATAAGTTTCAAAAAAATATTTTGAAGAAAAGTTAAAAGTATCAATTTTCAAG
Found at i:2091564 original size:56 final size:58
Alignment explanation
Indices: 2091445--2091575 Score: 196
Period size: 56 Copynumber: 2.3 Consensus size: 58
2091435 ATCAATTTTC
* *
2091445 AAGTATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTGA
1 AAGTATCAATTTTTCTTAAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTAA
**
2091503 AAGTATCAA-TTTTCTTTAAAAATAAG-TTTCTAAAAAATA-TTTTGGGGAAAAGTTAA
1 AAGTATCAATTTTTC-TTAAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTAA
2091559 AAGTATCAATTTTTCTT
1 AAGTATCAATTTTTCTT
2091576 GTAACCAAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
56 25 0.37
57 23 0.34
58 19 0.28
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (58 bp):
AAGTATCAATTTTTCTTAAAAATAAGCTTTCTAAAAAATATTTTTAAGGAAAAGTTAA
Found at i:2094796 original size:15 final size:15
Alignment explanation
Indices: 2094776--2094806 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2094766 TTTGCATACA
*
2094776 TGCATTCTCATTCAT
1 TGCATTCTCACTCAT
2094791 TGCATTCTCACTCAT
1 TGCATTCTCACTCAT
2094806 T
1 T
2094807 ACACTTAACA
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:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (15 bp):
TGCATTCTCACTCAT
Found at i:2102041 original size:10 final size:10
Alignment explanation
Indices: 2102026--2102074 Score: 75
Period size: 9 Copynumber: 5.0 Consensus size: 10
2102016 ATACTGTTCT
2102026 TGAAAAAAAA
1 TGAAAAAAAA
2102036 TG-AAAAAAA
1 TGAAAAAAAA
2102045 TGAAAAAAAAA
1 TG-AAAAAAAA
2102056 T-AAAAAAAA
1 TGAAAAAAAA
2102065 TGAAAAAAAA
1 TGAAAAAAAA
2102075 AGTGAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 18 0.50
10 10 0.28
11 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (10 bp):
TGAAAAAAAA
Found at i:2102044 original size:11 final size:11
Alignment explanation
Indices: 2102028--2102090 Score: 71
Period size: 11 Copynumber: 6.0 Consensus size: 11
2102018 ACTGTTCTTG
2102028 AAAAAAAATG-
1 AAAAAAAATGA
2102038 -AAAAAAATGA
1 AAAAAAAATGA
2102048 AAAAAAAAT--
1 AAAAAAAATGA
2102057 AAAAAAAATGA
1 AAAAAAAATGA
2102068 AAAAAAAAGTGA
1 AAAAAAAA-TGA
**
2102080 ATGAAAAATGA
1 AAAAAAAATGA
2102091 GGACTCAAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
9 18 0.39
11 19 0.41
12 9 0.20
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:2102051 original size:20 final size:20
Alignment explanation
Indices: 2102028--2102090 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 20
2102018 ACTGTTCTTG
2102028 AAAAAAAATGAAAAAAATGA
1 AAAAAAAATGAAAAAAATGA
*
2102048 AAAAAAAATAAAAAAAATGA
1 AAAAAAAATGAAAAAAATGA
2102068 AAAAAAAAGTGAATGAAAAATGA
1 AAAAAAAA-TGAA--AAAAATGA
2102091 GGACTCAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 27 0.71
21 3 0.08
23 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAAAAATGAAAAAAATGA
Found at i:2103188 original size:42 final size:42
Alignment explanation
Indices: 2103106--2103452 Score: 472
Period size: 42 Copynumber: 8.4 Consensus size: 42
2103096 AAGTTGTGAT
*
2103106 GCCTCTAATTAGAGGAGC--CATTTATTTTCAAAGTCGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* **
2103146 GCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTATTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * * *
2103188 GCCTCTGATTAGATGAGC--CATTTATTTTTAAAGTCGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* *
2103228 GCCTTTAATTAGAAGAGCTTTATTTATTTTCAAAGTCGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* *
2103270 GCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* *
2103312 GCCTCTGATTAGAGGAGC--CATTTATTTTCAAAGTCGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* *
2103352 GCCTGTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * *
2103394 GTCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTTGTTGA
1 GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
*
2103436 GCCTCTACTTAGAGGAG
1 GCCTCTAATTAGAGGAG
2103453 TTTTGATCAA
Statistics
Matches: 269, Mismatches: 32, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
40 86 0.32
42 183 0.68
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (42 bp):
GCCTCTAATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
Found at i:2103237 original size:82 final size:83
Alignment explanation
Indices: 2103106--2103452 Score: 468
Period size: 82 Copynumber: 4.2 Consensus size: 83
2103096 AAGTTGTGAT
2103106 GCCTCTAATTAGAGGAGC-CATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATT
1 GCCTCTAATTAGAGGAGCTCATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATT
* **
2103170 TATTTCCAAAGTTATTGA
66 TATTTTCAAAGTCGTTGA
* * * * *
2103188 GCCTCTGATTAGATGAGC-CATTTATTTTTAAAGTCGTTGAGCCTTTAATTAGAAGAGCTTTATT
1 GCCTCTAATTAGAGGAGCTCATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATT
2103252 TATTTTCAAAGTCGTTGA
66 TATTTTCAAAGTCGTTGA
* * * * *
2103270 GCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGAGCCTCTGATTAGAGGAGC--CAT
1 GCCTCTAATTAGAGGAGC-TCATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTAT
2103333 TTATTTTCAAAGTCGTTGA
65 TTATTTTCAAAGTCGTTGA
* * * * *
2103352 GCCTGTGATTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGTCTCTGATTAGAGGAGCTTTAT
1 GCCTCTAATTAGAGGAGC-TCATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTAT
*
2103417 TTATTTTCAAAGTTGTTGA
65 TTATTTTCAAAGTCGTTGA
*
2103436 GCCTCTACTTAGAGGAG
1 GCCTCTAATTAGAGGAG
2103453 TTTTGATCAA
Statistics
Matches: 233, Mismatches: 28, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
82 166 0.71
84 67 0.29
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (83 bp):
GCCTCTAATTAGAGGAGCTCATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATT
TATTTTCAAAGTCGTTGA
Found at i:2103312 original size:124 final size:124
Alignment explanation
Indices: 2103125--2103452 Score: 559
Period size: 124 Copynumber: 2.6 Consensus size: 124
2103115 TAGAGGAGCC
*
2103125 ATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTATTGAGC
1 ATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGAGC
* * *
2103190 CTCTGATTAGATGAGCCATTTATTTTTAAAGTCGTTGAGCCTTTAATTAGAAGAGCTTT
66 CTCTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAGCCTGTAATTAGAAGAGCTTT
2103249 ATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGAGC
1 ATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGAGC
* *
2103314 CTCTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAGCCTGTGATTAGAGGAGCTTT
66 CTCTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAGCCTGTAATTAGAAGAGCTTT
* * *
2103373 ATTTATTTTCAAAGTCGTTGAGTCTCTGATTAGAGGAGCTTTATTTATTTTCAAAGTTGTTGAGC
1 ATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGAGC
2103438 CTCT-ACTTAGAGGAG
66 CTCTGA-TTAGAGGAG
2103453 TTTTGATCAA
Statistics
Matches: 194, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
123 1 0.01
124 193 0.99
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (124 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCTTTATTTATTTCCAAAGTTGTTGAGC
CTCTGATTAGAGGAGCCATTTATTTTCAAAGTCGTTGAGCCTGTAATTAGAAGAGCTTT
Found at i:2103652 original size:13 final size:13
Alignment explanation
Indices: 2103634--2103663 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2103624 GGTAAGCCCA
*
2103634 TTTTATTTTTTAT
1 TTTTATTTTATAT
2103647 TTTTATTTTATAT
1 TTTTATTTTATAT
2103660 TTTT
1 TTTT
2103664 TTCAAAGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTATAT
Found at i:2104283 original size:7 final size:7
Alignment explanation
Indices: 2104267--2104368 Score: 63
Period size: 7 Copynumber: 14.6 Consensus size: 7
2104257 TTTTCTTTTC
2104267 ATTTACTT
1 ATTTA-TT
2104275 ATTTATT
1 ATTTATT
2104282 ATTTATTT
1 ATTTA-TT
2104290 ATTTATT
1 ATTTATT
2104297 -TATTATT
1 AT-TTATT
2104304 A-TTATT
1 ATTTATT
2104310 ATTTATT
1 ATTTATT
2104317 GATTATATT
1 -ATT-TATT
**
2104326 A-GAATT
1 ATTTATT
* *
2104332 GTTTAAT
1 ATTTATT
*
2104339 ATTTTTT
1 ATTTATT
2104346 ATTTTATT
1 A-TTTATT
2104354 -TTTATT
1 ATTTATT
2104360 -TTT-TT
1 ATTTATT
2104365 ATTT
1 ATTT
2104369 TAATTTTCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
5 2 0.03
6 22 0.29
7 26 0.35
8 21 0.28
9 4 0.05
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (7 bp):
ATTTATT
Found at i:2104287 original size:4 final size:4
Alignment explanation
Indices: 2104267--2104316 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
2104257 TTTTCTTTTC
*
2104267 ATTT ACTT ATTT A-TT ATTT ATTT ATTT ATTT A-TT A-TT A-TT A-TT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
2104310 ATTT ATT
1 ATTT ATT
2104317 GATTATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 15 0.36
4 27 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:2104295 original size:19 final size:19
Alignment explanation
Indices: 2104267--2104368 Score: 79
Period size: 19 Copynumber: 5.4 Consensus size: 19
2104257 TTTTCTTTTC
*
2104267 ATTTACTTATTTATTATTT
1 ATTTATTTATTTATTATTT
2104286 ATTTATTTATTTATTA-TT
1 ATTTATTTATTTATTATTT
2104304 A-TTA-TTATTTATTGATTAT
1 ATTTATTTATTTATT-ATT-T
* * * *
2104323 ATTAGAATTGTTTAATATTT
1 ATT-TATTTATTTATTATTT
2104343 -TTTATTTTATTT-TTATTT
1 ATTTA-TTTATTTATTATTT
*
2104361 TTTTATTT
1 ATTTATTT
2104369 TAATTTTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
16 9 0.13
17 4 0.06
18 13 0.19
19 28 0.42
20 2 0.03
21 4 0.06
22 7 0.10
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (19 bp):
ATTTATTTATTTATTATTT
Found at i:2104352 original size:5 final size:5
Alignment explanation
Indices: 2104342--2104398 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
2104332 GTTTAATATT
2104342 TTTTA TTTTA TTTT- TATTT- TTTTA TTTTAA TTTTCAA TTTTAA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTT-A TTTT--A TTTT-A TTTTA
2104390 TTTTA TTTT
1 TTTTA TTTT
2104399 CTTTAAAGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.08
5 27 0.56
6 11 0.23
7 6 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:2104366 original size:14 final size:14
Alignment explanation
Indices: 2104347--2104398 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
2104337 ATATTTTTTA
*
2104347 TTTTATTTTTATTT
1 TTTTATTTTAATTT
2104361 TTTTATTTTAA-TT
1 TTTTATTTTAATTT
**
2104374 TTCAATTTTAATTTT
1 TTTTATTTTAA-TTT
2104389 ATTTTATTTT
1 -TTTTATTTT
2104399 CTTTAAAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.37
14 10 0.33
15 2 0.07
16 7 0.23
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTAATTT
Found at i:2104369 original size:19 final size:19
Alignment explanation
Indices: 2104340--2104403 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
2104330 TTGTTTAATA
2104340 TTTTTTATTTTATTTTTAT
1 TTTTTTATTTTATTTTTAT
*
2104359 TTTTTTATTTTAATTTTCA-
1 TTTTTTATTTT-ATTTTTAT
* *
2104378 ATTTTAATTTTA-TTTTAT
1 TTTTTTATTTTATTTTTAT
2104396 TTTCTTTA
1 TTT-TTTA
2104404 AAGGTTTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.11
18 3 0.08
19 23 0.64
20 6 0.17
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTATTTTTAT
Found at i:2104495 original size:59 final size:59
Alignment explanation
Indices: 2104407--2104633 Score: 327
Period size: 59 Copynumber: 3.9 Consensus size: 59
2104397 TTCTTTAAAG
*
2104407 GTTTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
1 GTTTTCAAAAAAA-ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
** *
2104467 GTTTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAA
1 G-TTTTCAAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
* *
2104526 GCTTTCAAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
1 GTTTTCAAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
* * *
2104585 G-TTTC-TAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 GTTTTCAAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTG
2104634 TAACAAAAGC
Statistics
Matches: 154, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
56 32 0.21
57 8 0.05
58 8 0.05
59 94 0.61
60 7 0.05
61 5 0.03
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (59 bp):
GTTTTCAAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
Found at i:2104547 original size:118 final size:116
Alignment explanation
Indices: 2104409--2104633 Score: 380
Period size: 118 Copynumber: 1.9 Consensus size: 116
2104399 CTTTAAAGGT
* *
2104409 TTTCAAAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTC
1 TTTCAAAAAAATATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG--TTTC
*
2104474 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGC
64 AAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGC
*
2104528 TTTCAAAAAAA-ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCTA
1 TTTCAAAAAAATATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAA
2104592 AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
66 AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
2104634 TAACAAAAGC
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
115 34 0.33
116 12 0.12
118 45 0.44
119 11 0.11
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (116 bp):
TTTCAAAAAAATATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAA
AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGC
Found at i:2105205 original size:22 final size:22
Alignment explanation
Indices: 2105152--2105234 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
2105142 GTTATGACAG
*
2105152 ATAACTTAATAATAAATCATTA
1 ATAACTTAGTAATAAATCATTA
* *
2105174 ATAA-TGTAGTATTAAATTATTA
1 ATAACT-TAGTAATAAATCATTA
* * *
2105196 ATAACTTAGTTATAAATCAGTG
1 ATAACTTAGTAATAAATCATTA
* *
2105218 ATAATTTGGTAATAAAT
1 ATAACTTAGTAATAAAT
2105235 TAGTTAATCA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (22 bp):
ATAACTTAGTAATAAATCATTA
Found at i:2105335 original size:22 final size:22
Alignment explanation
Indices: 2105295--2105437 Score: 67
Period size: 22 Copynumber: 6.5 Consensus size: 22
2105285 ATAAAACATC
*
2105295 ATCAATAACTTAGTAGTAAATT
1 ATCAATAACTTAATAGTAAATT
* * *
2105317 ATCAATAATTTAATGGTAAATC
1 ATCAATAACTTAATAGTAAATT
** * *
2105339 ATTTATAACTTAATCA-CAAATC
1 ATCAATAACTTAAT-AGTAAATT
* * *
2105361 ATTC-ATAAATTAGTACTAAA-T
1 A-TCAATAACTTAATAGTAAATT
* *
2105382 AACTAATAACTTAATAGTAAATA
1 ATC-AATAACTTAATAGTAAATT
** * * *
2105405 ATTGATAACTTAATTGTTAATC
1 ATCAATAACTTAATAGTAAATT
*
2105427 ATTAATAACTT
1 ATCAATAACTT
2105438 GATAATTTTG
Statistics
Matches: 89, Mismatches: 26, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
20 1 0.01
21 2 0.02
22 84 0.94
23 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (22 bp):
ATCAATAACTTAATAGTAAATT
Found at i:2105362 original size:66 final size:66
Alignment explanation
Indices: 2105275--2105418 Score: 159
Period size: 66 Copynumber: 2.2 Consensus size: 66
2105265 CATTAGTAAA
* * * * * *
2105275 TTATAACTTTATAAAACATCA-TCAATAACTTAGTAGTAAATTA-TCAATAATTTAATGGTAAAT
1 TTATAACTTAATAAAACATCATTC-ATAAATTAGTACTAAATAACT-AATAACTTAATAGTAAAT
*
2105338 CAT
64 AAT
*
2105341 TTATAACTTAATCACAA-ATCATTCATAAATTAGTACTAAATAACTAATAACTTAATAGTAAATA
1 TTATAACTTAAT-AAAACATCATTCATAAATTAGTACTAAATAACTAATAACTTAATAGTAAATA
2105405 AT
65 AT
*
2105407 TGATAACTTAAT
1 TTATAACTTAAT
2105419 TGTTAATCAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
66 60 0.91
67 6 0.09
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (66 bp):
TTATAACTTAATAAAACATCATTCATAAATTAGTACTAAATAACTAATAACTTAATAGTAAATAA
T
Found at i:2105476 original size:22 final size:21
Alignment explanation
Indices: 2105451--2105520 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
2105441 AATTTTGTAA
2105451 TAAATAATTAAAAATTAAGTAG
1 TAAATAATTAAAAATTAA-TAG
* * * *
2105473 TAAATTAATGATACA-TAATAC
1 TAAA-TAATTAAAAATTAATAG
2105494 TAAATACA-TAAAAATATAATAG
1 TAAATA-ATTAAAAAT-TAATAG
2105516 TAAAT
1 TAAAT
2105521 CATTGATAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 17 0.47
23 7 0.19
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAATAATTAAAAATTAATAG
Found at i:2105544 original size:19 final size:19
Alignment explanation
Indices: 2105522--2105561 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2105512 ATAGTAAATC
*
2105522 ATTGATAA-TTTAGTAGTAA
1 ATTGATAACTTGA-TAGTAA
2105541 ATTGATAACTTGATAGTAA
1 ATTGATAACTTGATAGTAA
2105560 AT
1 AT
2105562 CATTAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (19 bp):
ATTGATAACTTGATAGTAA
Found at i:2105563 original size:41 final size:42
Alignment explanation
Indices: 2105512--2105629 Score: 132
Period size: 41 Copynumber: 2.8 Consensus size: 42
2105502 TAAAAATATA
*
2105512 ATAGTAAATCATTGATAATTTAGTAGTAAATTGATAACTT-G
1 ATAGTAAATCATTGATAATTTAGTAGTAAATTAATAACTTAG
* **
2105553 ATAGTAAATCATTAATAACATAGTAGTAAATTATTAATAACTTAG
1 ATAGTAAATCATTGATAATTTAGTAGT-AA--ATTAATAACTTAG
* * *
2105598 TTA-TAAATTAGTGATAATTTAGTAGTAAATTA
1 ATAGTAAATCATTGATAATTTAGTAGTAAATTA
2105630 GTTAATCATT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 28 0.44
42 2 0.03
43 2 0.03
44 28 0.44
45 3 0.05
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (42 bp):
ATAGTAAATCATTGATAATTTAGTAGTAAATTAATAACTTAG
Found at i:2105608 original size:11 final size:11
Alignment explanation
Indices: 2105579--2105633 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
2105569 AACATAGTAG
2105579 TAAATTA-TTAA
1 TAAATTAGTT-A
*
2105590 TAACTTAGTTA
1 TAAATTAGTTA
*
2105601 TAAATTAGTGA
1 TAAATTAGTTA
*
2105612 TAATTTAG-TA
1 TAAATTAGTTA
2105622 GTAAATTAGTTA
1 -TAAATTAGTTA
2105634 ATCATTAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 1 0.03
11 30 0.86
12 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (11 bp):
TAAATTAGTTA
Found at i:2105631 original size:22 final size:22
Alignment explanation
Indices: 2105513--2105629 Score: 109
Period size: 22 Copynumber: 5.5 Consensus size: 22
2105503 AAAAATATAA
* *
2105513 TAGTAAATCATTGATAATTTAG
1 TAGTAAATTATTGATAACTTAG
2105535 TAGT-AA--ATTGATAACTT-G
1 TAGTAAATTATTGATAACTTAG
* * *
2105553 ATAGTAAATCATTAATAACATAG
1 -TAGTAAATTATTGATAACTTAG
*
2105576 TAGTAAATTATTAATAACTTAG
1 TAGTAAATTATTGATAACTTAG
* *
2105598 TTA-TAAATTAGTGATAATTTAG
1 -TAGTAAATTATTGATAACTTAG
2105620 TAGTAAATTA
1 TAGTAAATTA
2105630 GTTAATCATT
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.01
19 14 0.17
20 2 0.03
21 4 0.05
22 56 0.70
23 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.39
Consensus pattern (22 bp):
TAGTAAATTATTGATAACTTAG
Found at i:2105666 original size:22 final size:20
Alignment explanation
Indices: 2105641--2105727 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 20
2105631 TTAATCATTA
2105641 ATAACTTCTTAATAAATCATC
1 ATAACTT-TTAATAAATCATC
* * *
2105662 GATAAATTAATAGTAAATCATC
1 -ATAACTT-TTAATAAATCATC
*
2105684 ATAACTTTATAATATATCATC
1 ATAACTTT-TAATAAATCATC
*
2105705 AATAA-TTTAGTAGTAAATCATC
1 -ATAACTTT--TAATAAATCATC
2105727 A
1 A
2105728 CTAATTTAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 20 0.39
22 31 0.61
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.37
Consensus pattern (20 bp):
ATAACTTTTAATAAATCATC
Found at i:2105690 original size:43 final size:43
Alignment explanation
Indices: 2105641--2105747 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
2105631 TTAATCATTA
*
2105641 ATAACTTCT-TAATAAATCATCGATAAATTAATAGTAAATCATC
1 ATAACTT-TATAATAAATCATCAATAAATTAATAGTAAATCATC
* * *
2105684 ATAACTTTATAATATATCATCAATAATTTAGTAGTAAATCATC
1 ATAACTTTATAATAAATCATCAATAAATTAATAGTAAATCATC
*
2105727 ACTAA-TTTAATGATAAATCAT
1 A-TAACTTT-ATAATAAATCAT
2105748 TCATAGCTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 41 0.75
44 13 0.24
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (43 bp):
ATAACTTTATAATAAATCATCAATAAATTAATAGTAAATCATC
Found at i:2105743 original size:22 final size:20
Alignment explanation
Indices: 2105652--2105752 Score: 87
Period size: 22 Copynumber: 4.7 Consensus size: 20
2105642 TAACTTCTTA
*
2105652 ATAAATCATCGATAAATTAAT
1 ATAAATCATC-ATAATTTAAT
2105673 AGTAAATCATCATAACTTT-AT
1 A-TAAATCATCATAA-TTTAAT
* *
2105694 AATATATCATCAATAATTTAGT
1 -ATAAATCATC-ATAATTTAAT
2105716 AGTAAATCATCACTAATTTAAT
1 A-TAAATCATCA-TAATTTAAT
2105738 GATAAATCATTCATA
1 -ATAAATCA-TCATA
2105753 GCTTAATCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
21 20 0.30
22 42 0.64
23 4 0.06
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (20 bp):
ATAAATCATCATAATTTAAT
Found at i:2105805 original size:22 final size:22
Alignment explanation
Indices: 2105780--2105823 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2105770 TCATAAATTC
2105780 GTAGTAAATAATTGAAAACTTA
1 GTAGTAAATAATTGAAAACTTA
*
2105802 GTAGTAAATAATTGATAACTTA
1 GTAGTAAATAATTGAAAACTTA
2105824 ATTGTTAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (22 bp):
GTAGTAAATAATTGAAAACTTA
Found at i:2106190 original size:22 final size:22
Alignment explanation
Indices: 2106111--2106184 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
2106101 TAATAAAAAA
* *
2106111 AGTGATAACTTAATAGTTAATA
1 AGTGATAACTTAATAGTAAATT
* *
2106133 ATTGATAACTTAATAATAAATT
1 AGTGATAACTTAATAGTAAATT
*
2106155 AATGATAACTTAATAGTAAATT
1 AGTGATAACTTAATAGTAAATT
2106177 AGTGATAA
1 AGTGATAA
2106185 TGTAATCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (22 bp):
AGTGATAACTTAATAGTAAATT
Found at i:2106522 original size:23 final size:22
Alignment explanation
Indices: 2106491--2106542 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2106481 TAATAGTAAT
* *
2106491 TAATTAATAAACTTAGTATTAAA
1 TAATAAAT-AACTTAGTAATAAA
*
2106514 TAATAAATAATTTAGTAATAAA
1 TAATAAATAACTTAGTAATAAA
2106536 TCAATAA
1 T-AATAA
2106543 TAATTGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
TAATAAATAACTTAGTAATAAA
Found at i:2106535 original size:22 final size:22
Alignment explanation
Indices: 2106503--2106547 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2106493 ATTAATAAAC
*
2106503 TTAGTATTAAAT-AATAAATAAT
1 TTAGTAATAAATCAAT-AATAAT
2106525 TTAGTAATAAATCAATAATAAT
1 TTAGTAATAAATCAATAATAAT
2106547 T
1 T
2106548 GTGTTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
TTAGTAATAAATCAATAATAAT
Found at i:2106625 original size:22 final size:22
Alignment explanation
Indices: 2106597--2106666 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
2106587 AATTAAGTAG
*
2106597 TAGTTAATCATCAATAATTTAA
1 TAGTTAATCATAAATAATTTAA
*
2106619 TAGTTAATCAATAAAATAACTTAA
1 TAGTTAATC-AT-AAATAATTTAA
* *
2106643 TAGTAAATTATAAATAATTTAA
1 TAGTTAATCATAAATAATTTAA
2106665 TA
1 TA
2106667 TAAATAAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 21 0.51
23 4 0.10
24 16 0.39
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
TAGTTAATCATAAATAATTTAA
Found at i:2106628 original size:46 final size:46
Alignment explanation
Indices: 2106578--2106666 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
2106568 CTAAAAAGTA
* * * *
2106578 AATCAATATAATTAA-GTAGTAGTTAATCATCAATAATTTAATAGTT
1 AATCAATA-AAATAACGTAATAGTAAATCATAAATAATTTAATAGTT
* *
2106624 AATCAATAAAATAACTTAATAGTAAATTATAAATAATTTAATA
1 AATCAATAAAATAACGTAATAGTAAATCATAAATAATTTAATA
2106667 TAAATAAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 5 0.14
46 31 0.86
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (46 bp):
AATCAATAAAATAACGTAATAGTAAATCATAAATAATTTAATAGTT
Found at i:2106802 original size:22 final size:21
Alignment explanation
Indices: 2106775--2106826 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
2106765 GATAACATAA
2106775 TAGTAAATCACTA-ATAATTTAG
1 TAGTAAAT-A-TAGATAATTTAG
*
2106797 TGGTAAATATATGATAATTTAG
1 TAGTAAATATA-GATAATTTAG
2106819 TAGTAAAT
1 TAGTAAAT
2106827 TAATTAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 2 0.08
21 1 0.04
22 23 0.88
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAGTAAATATAGATAATTTAG
Found at i:2106836 original size:52 final size:52
Alignment explanation
Indices: 2106780--2106885 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 52
2106770 CATAATAGTA
* * * *
2106780 AATCACTAATAA-TTTAGTGGTAAA-TATATGATAATTTAGTAGTAAATTAATT
1 AATCACTAATAATTTTA-TAGTAAATTAT-TGATAAATTAATAGTAAATCAATT
* *
2106832 AATCATTGATAATTTTATAGTAAATTATTGATAAATTAATAGTAAATCAATT
1 AATCACTAATAATTTTATAGTAAATTATTGATAAATTAATAGTAAATCAATT
2106884 AA
1 AA
2106886 AATTTTATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 39 0.85
53 7 0.15
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (52 bp):
AATCACTAATAATTTTATAGTAAATTATTGATAAATTAATAGTAAATCAATT
Found at i:2106864 original size:22 final size:22
Alignment explanation
Indices: 2106836--2106878 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2106826 TTAATTAATC
* *
2106836 ATTGATAATTTTATAGTAAATT
1 ATTGATAAATTAATAGTAAATT
2106858 ATTGATAAATTAATAGTAAAT
1 ATTGATAAATTAATAGTAAAT
2106879 CAATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTGATAAATTAATAGTAAATT
Found at i:2106890 original size:44 final size:44
Alignment explanation
Indices: 2106853--2106970 Score: 96
Period size: 44 Copynumber: 2.7 Consensus size: 44
2106843 ATTTTATAGT
* * **
2106853 AAATTATTGATAAATTAATAGTAAATCAATTAA-AATTTTATAAC
1 AAATAATT-ATAAATTAATAGTAAATCAATCAACAATTTTATAGT
* * * *
2106897 AAATCATCAGTAATTTAATAGTAAATC-ATCAACAATTTAATAGT
1 AAATAATTA-TAAATTAATAGTAAATCAATCAACAATTTTATAGT
* * *
2106941 AAACCAATTATAAATTAGTAGTAAACCAAT
1 AAA-TAATTATAAATTAATAGTAAATCAAT
2106971 ATTAATTTGT
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
43 5 0.09
44 47 0.82
45 5 0.09
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (44 bp):
AAATAATTATAAATTAATAGTAAATCAATCAACAATTTTATAGT
Found at i:2106927 original size:25 final size:22
Alignment explanation
Indices: 2106867--2106943 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
2106857 TATTGATAAA
*
2106867 TTAATAGTAAATCAATTAA-AAT
1 TTAATAGTAAATC-ATCAACAAT
* ** **
2106889 TTTATAACAAATCATCAGTAAT
1 TTAATAGTAAATCATCAACAAT
2106911 TTAATAGTAAATCATCAACAAT
1 TTAATAGTAAATCATCAACAAT
2106933 TTAATAGTAAA
1 TTAATAGTAAA
2106944 CCAATTATAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
21 3 0.07
22 41 0.93
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAATAGTAAATCATCAACAAT
Found at i:2107464 original size:21 final size:21
Alignment explanation
Indices: 2107412--2107507 Score: 90
Period size: 21 Copynumber: 4.6 Consensus size: 21
2107402 GAAGATTATA
*
2107412 AAAATTGTGTCAATAGTTACC
1 AAAATTGTATCAATAGTTACC
* *
2107433 GATATTGTATCAATAGTTACC
1 AAAATTGTATCAATAGTTACC
*
2107454 AAAATTATATC-ATAAGTTACC
1 AAAATTGTATCAAT-AGTTACC
* * *
2107475 AAAACTGTATTAA-AATTACC
1 AAAATTGTATCAATAGTTACC
2107495 AAAAGTT-TATCAA
1 AAAA-TTGTATCAA
2107508 AGGTTATCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 17 0.28
21 42 0.70
22 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAATTGTATCAATAGTTACC
Found at i:2107570 original size:3 final size:3
Alignment explanation
Indices: 2107550--2107606 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
2107540 TTAAAATTAA
*
2107550 ATT ATT AGT ATT -TT -TT 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
2107596 ATT ATT ATT AT
1 ATT ATT ATT AT
2107607 AGTGTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2107877 original size:20 final size:21
Alignment explanation
Indices: 2107731--2107874 Score: 114
Period size: 21 Copynumber: 6.9 Consensus size: 21
2107721 TAGAAATAAC
* *
2107731 ATCAAAAGTTTATTAAAATTTT
1 ATCAAAAG-TTATCAAAATTGT
* * *
2107753 GTTAAAAATTATCAAAATTGT
1 ATCAAAAGTTATCAAAATTGT
**
2107774 ATCAATGGTTATCAAAATTGT
1 ATCAAAAGTTATCAAAATTGT
* * *
2107795 ATCAATAGCTA-CAAAATTAT
1 ATCAAAAGTTATCAAAATTGT
* *
2107815 ATCATAAGTTACCAAAATTGT
1 ATCAAAAGTTATCAAAATTGT
** *
2107836 AT-TGAAGTTAACAAAAATT-T
1 ATCAAAAGTTATC-AAAATTGT
2107856 ATCAAAAGTTATCAAAATT
1 ATCAAAAGTTATCAAAATT
2107875 TATTTATATT
Statistics
Matches: 96, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
20 32 0.33
21 59 0.61
22 5 0.05
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (21 bp):
ATCAAAAGTTATCAAAATTGT
Found at i:2107894 original size:41 final size:42
Alignment explanation
Indices: 2107731--2107896 Score: 119
Period size: 41 Copynumber: 4.0 Consensus size: 42
2107721 TAGAAATAAC
* * * * *
2107731 ATCAAAAGTTTATTAAAATTTTGTTAAAAATTAT-CAAAATTGT
1 ATCAAAAG-TTATCAAAATTGTATT-AATATTATACAAAATTAT
** * **
2107774 ATCAATGGTTATCAAAATTGTATCAATA-GCTACAAAATTAT
1 ATCAAAAGTTATCAAAATTGTATTAATATTATACAAAATTAT
* * *
2107815 ATCATAAGTTACCAAAATTGTATTGAA-GTTA-ACAAAAATT-T
1 ATCAAAAGTTATCAAAATTGTATT-AATATTATAC-AAAATTAT
*
2107856 ATCAAAAGTTATCAAAATT-TATTTATATTATATCAAAATTA
1 ATCAAAAGTTATCAAAATTGTATTAATATTATA-CAAAATTA
2107897 AAATTAAATT
Statistics
Matches: 93, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
39 1 0.01
40 8 0.09
41 57 0.61
42 21 0.23
43 6 0.06
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (42 bp):
ATCAAAAGTTATCAAAATTGTATTAATATTATACAAAATTAT
Found at i:2111021 original size:22 final size:22
Alignment explanation
Indices: 2110996--2111067 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
2110986 ATAAAAAATG
* *
2110996 TGATAACTTAGTAGTTAA-TAA
1 TGATAACTTAATAGTAAATTAA
*
2111017 TTGATAACTTAATAATAAATTAA
1 -TGATAACTTAATAGTAAATTAA
*
2111040 TGATAACTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATTAA
2111062 TGATAA
1 TGATAA
2111068 TGTAATCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 41 0.93
23 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAA
Found at i:2111768 original size:59 final size:58
Alignment explanation
Indices: 2111614--2111974 Score: 376
Period size: 59 Copynumber: 6.1 Consensus size: 58
2111604 TTTTGTGCAG
*
2111614 GGAAAATTGATACTTTCAACTTTTTTCCCAAAAATATTTTTTTGTGAAAAGC-TTATTTTCAA
1 GGAAAATTGATACTTTCAAC--TTTTCCCAAAAA-ATATTTTT-TGAAAA-CTTTATTTTCAA
* * * *
2111676 GGAAAATTGATACTTTTCAACTTTTCCCCAAAAATATTTTTGGAAAACTTTAATTTCGA
1 GGAAAATTGATAC-TTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTTATTTTCAA
*
2111735 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA-ACTTTTTTTGAAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAATA--TTTTTTGAAAACTTTATTTTCAA
* * *
2111794 GGAAAATTGATACTTTCAATTTTTCCTCAAAAAAAATCTTTTTTGAAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-C--AAAAAATATTTTTTGAAAACTTTATTTTCAA
* *
2111854 GGAAAATTGATACTTTCAATTTTTTCCC-AAAAATATTTTTTGAAAACTTTTAATTTCGAA
1 GGAAAATTGATACTTTCAA-CTTTTCCCAAAAAATATTTTTTGAAAAC-TTTATTTTC-AA
* ** * * *
2111914 -GAAAATTGATACTTTCAACTTTTGCTCAAAACCTCTTTTTTGAAAA-TTAATTTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAAATATTTTTTGAAAACTTTATTTTCAA
2111971 GGAA
1 GGAA
2111975 GAATGTTTTT
Statistics
Matches: 261, Mismatches: 23, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
57 19 0.07
58 28 0.11
59 94 0.36
60 76 0.29
61 24 0.09
62 13 0.05
63 7 0.03
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTTATTTTCAA
Found at i:2111858 original size:178 final size:178
Alignment explanation
Indices: 2111614--2111974 Score: 534
Period size: 178 Copynumber: 2.0 Consensus size: 178
2111604 TTTTGTGCAG
* *
2111614 GGAAAATTGATACTTTCAACTTTTTTCCCAAAAATATTTTTTTGTGAAAAGCTTATTTTCAAGGA
1 GGAAAATTGATACTTTCAAC-TTTTTCCCAAAAAAATCTTTTTGTGAAAAGCTTATTTTCAAGGA
*
2111679 AAATTGATACTTTTCAACTTTTCCCCAAAAATATTTTTGGAAAAC-TTTAATTTCGAGGAAAATT
65 AAATTGATAC-TTTCAACTTTTCCCCAAAAATATTTTTGGAAAACTTTTAATTTCGAAGAAAATT
*
2111743 GATACTTTCAACTTTTCCTCAAAAAAACT-TTTTTTGAAAATTTATTTTTAA
129 GATACTTTCAACTTTTCCTC--AAAAACTCTTTTTTGAAAATTAATTTTTAA
* *
2111794 GGAAAATTGATACTTTCAA-TTTTTCCTCAAAAAAAATCTTTTT-TGAAAA-TTTATTTTTAAGG
1 GGAAAATTGATACTTTCAACTTTTTCC-C-AAAAAAATCTTTTTGTGAAAAGCTTATTTTCAAGG
* * *
2111856 AAAATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAAACTTTTAATTTCGAAGAAAATT
64 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTGGAAAACTTTTAATTTCGAAGAAAATT
* *
2111921 GATACTTTCAACTTTTGCTCAAAACCTCTTTTTTGAAAATTAATTTTTAA
129 GATACTTTCAACTTTTCCTCAAAAACTCTTTTTTGAAAATTAATTTTTAA
2111971 GGAA
1 GGAA
2111975 GAATGTTTTT
Statistics
Matches: 166, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
176 6 0.04
177 56 0.34
178 66 0.40
179 7 0.04
180 31 0.19
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (178 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAAAATCTTTTTGTGAAAAGCTTATTTTCAAGGAA
AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTGGAAAACTTTTAATTTCGAAGAAAATTGA
TACTTTCAACTTTTCCTCAAAAACTCTTTTTTGAAAATTAATTTTTAA
Found at i:2111875 original size:30 final size:30
Alignment explanation
Indices: 2111781--2111875 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
2111771 TTTTTTTGAA
2111781 AATTTATTTTTAAGGAAAATTGATACTTTC
1 AATTTATTTTTAAGGAAAATTGATACTTTC
* * ** * *
2111811 AATTT-TTCCTCAAAAAAAATCT--T-TTTTGAA
1 AATTTATT-TTTAAGGAAAAT-TGATACTTT--C
2111841 AATTTATTTTTAAGGAAAATTGATACTTTC
1 AATTTATTTTTAAGGAAAATTGATACTTTC
2111871 AATTT
1 AATTT
2111876 TTTCCCAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 16
0.62 0.16 0.22
Matches are distributed among these distances:
28 3 0.07
29 4 0.09
30 31 0.69
31 4 0.09
32 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (30 bp):
AATTTATTTTTAAGGAAAATTGATACTTTC
Found at i:2112021 original size:15 final size:15
Alignment explanation
Indices: 2112001--2112117 Score: 67
Period size: 14 Copynumber: 7.4 Consensus size: 15
2111991 TTATTTAAAG
*
2112001 AAAATAAAATAAATA
1 AAAATAAAAAAAATA
2112016 AAAATAAAAAAAATA
1 AAAATAAAAAAAATA
**
2112031 AAAATATTAAACAATCCTA
1 AAAATA--AAA-AA-AATA
* *
2112050 ATATAATAATAATAATA
1 A-A-AATAAAAAAAATA
*
2112067 AATATATAATAAAAATA
1 AA-A-ATAAAAAAAATA
* **
2112084 AAAAT-AGAAAAACG
1 AAAATAAAAAAAATA
2112098 AAAAT-AAAAAAATA
1 AAAATAAAAAAAATA
2112112 AAAATA
1 AAAATA
2112118 TTAAACAATC
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
14 22 0.28
15 22 0.28
16 4 0.05
17 19 0.24
18 3 0.04
19 5 0.06
20 1 0.01
21 4 0.05
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAAAAAAATA
Found at i:2112033 original size:9 final size:9
Alignment explanation
Indices: 2112001--2112034 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
2111991 TTATTTAAAG
2112001 AAAATAAAAT
1 AAAA-AAAAT
2112011 AAATAAAAAT
1 AAA-AAAAAT
2112021 AAAAAAAAT
1 AAAAAAAAT
2112030 AAAAA
1 AAAAA
2112035 TATTAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 11 0.48
10 11 0.48
11 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:2112075 original size:20 final size:19
Alignment explanation
Indices: 2112050--2112089 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2112040 AACAATCCTA
*
2112050 ATATAATAATAATAATAAAT
1 ATATAATAAAAATAA-AAAT
2112070 ATATAATAAAAATAAAAAT
1 ATATAATAAAAATAAAAAT
2112089 A
1 A
2112090 GAAAAACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATAATAAAAATAAAAAT
Found at i:2112114 original size:20 final size:20
Alignment explanation
Indices: 2112078--2112115 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2112068 ATATATAATA
*
2112078 AAAATAAAAATAGAAAAACG
1 AAAATAAAAAAAGAAAAACG
*
2112098 AAAATAAAAAAATAAAAA
1 AAAATAAAAAAAGAAAAA
2112116 TATTAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAATAAAAAAAGAAAAACG
Found at i:2112566 original size:3 final size:3
Alignment explanation
Indices: 2112560--2112599 Score: 53
Period size: 3 Copynumber: 12.3 Consensus size: 3
2112550 TATTAGCATA
2112560 AAT AAT AAT AAT AAT AAT AAT AAT AGAGT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T -AAT AAT AAT A
2112600 TGTATTAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 29 0.85
4 2 0.06
5 2 0.06
6 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2112580 original size:15 final size:18
Alignment explanation
Indices: 2112560--2112599 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 18
2112550 TATTAGCATA
2112560 AATAATAATA-A-T-AAT
1 AATAATAATAGAGTAAAT
2112575 AATAATAATAGAGTAAAT
1 AATAATAATAGAGTAAAT
2112593 AATAATA
1 AATAATA
2112600 TGTATTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 1 0.05
18 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AATAATAATAGAGTAAAT
Found at i:2112598 original size:24 final size:24
Alignment explanation
Indices: 2112566--2112621 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
2112556 CATAAATAAT
*
2112566 AATAATAATA-ATAATAATAGAGTA
1 AATAATAATATATAATAACAGA-TA
* *
2112590 AATAATAATATGTATTAACAGATA
1 AATAATAATATATAATAACAGATA
2112614 AATAATAA
1 AATAATAA
2112622 AAATGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (24 bp):
AATAATAATATATAATAACAGATA
Found at i:2112989 original size:44 final size:42
Alignment explanation
Indices: 2112891--2113082 Score: 163
Period size: 44 Copynumber: 4.4 Consensus size: 42
2112881 ATTTAATCAG
* * *
2112891 AACTCCTCTAAGCAGAGGCTTAACGAC-TTTGAAGAACATAAACAA
1 AACTCCTCTAATCAGAGGCTCAAAGACTTTTGAA-AA-AT-AA-AA
* * *
2112936 AACTTCTCTAATCAGAGACTCAAATACTTTTGAAAAATAAACAA
1 AACTCCTCTAATCAGAGGCTCAAAGACTTTTGAAAAAT-AA-AA
* * *
2112980 AACTCCTCTAATCAGAGGCTCAACGACTTTTTGGAAAATAAAT
1 AACTCCTCTAATCAGAGGCTCAAAGAC-TTTTGAAAAATAAAA
** * *
2113023 GGCTCCTCTAATCAGAGGCTTAACA-ACTTTTGGAAAATAAAA
1 AACTCCTCTAATCAGAGGCTCAA-AGACTTTTGAAAAATAAAA
**
2113065 GGCTCCTCTAATCAGAGG
1 AACTCCTCTAATCAGAGG
2113083 TAATTTTTTT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
42 32 0.25
43 23 0.18
44 33 0.26
45 33 0.26
46 6 0.05
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (42 bp):
AACTCCTCTAATCAGAGGCTCAAAGACTTTTGAAAAATAAAA
Found at i:2113069 original size:42 final size:42
Alignment explanation
Indices: 2112941--2113082 Score: 178
Period size: 42 Copynumber: 3.3 Consensus size: 42
2112931 AACAAAACTT
* * **
2112941 CTCTAATCAGAGACTCAA-ATACTTTTGAAAAATAAACAAAACTC
1 CTCTAATCAGAGGCTCAACA-ACTTTTGGAAAAT-AA-AAGGCTC
* *
2112985 CTCTAATCAGAGGCTCAACGACTTTTTGGAAAATAAATGGCTC
1 CTCTAATCAGAGGCTCAACAAC-TTTTGGAAAATAAAAGGCTC
*
2113028 CTCTAATCAGAGGCTTAACAACTTTTGGAAAATAAAAGGCTC
1 CTCTAATCAGAGGCTCAACAACTTTTGGAAAATAAAAGGCTC
2113070 CTCTAATCAGAGG
1 CTCTAATCAGAGG
2113083 TAATTTTTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
42 32 0.37
43 24 0.28
44 21 0.24
45 10 0.11
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (42 bp):
CTCTAATCAGAGGCTCAACAACTTTTGGAAAATAAAAGGCTC
Found at i:2113265 original size:42 final size:41
Alignment explanation
Indices: 2113153--2113384 Score: 319
Period size: 42 Copynumber: 5.6 Consensus size: 41
2113143 GAGGCTCAAC
*
2113153 AACTTTGAAAAATAAATGGCTCCTCTAAACAGAGGCACCACG-
1 AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGA
* *
2113195 -ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
*
2113235 AACTTTGAAAAAATAAATTGTTCCTCTAAACAGAGGCACCACG-
1 AACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGA
* *
2113278 -ACTTTGAAAAGTAAATTGCTCTTCTAAACAGAGGCAACGA
1 AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
2113318 AACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
1 AACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
2113360 AACTTTGAAAAAATAAATTGCTCCT
1 AACTTTG-AAAAATAAATTGCTCCT
2113385 TGACAATCAT
Statistics
Matches: 170, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
39 6 0.04
41 72 0.42
42 89 0.52
44 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (41 bp):
AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
Found at i:2113273 original size:83 final size:82
Alignment explanation
Indices: 2113153--2113384 Score: 360
Period size: 83 Copynumber: 2.8 Consensus size: 82
2113143 GAGGCTCAAC
* *
2113153 AACTTTGAAAAATAAATGGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
1 AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
2113218 CTAAACAGAGGCAACGA
66 CTAAACAGAGGCAACGA
* *
2113235 AACTTTGAAAAAATAAATTGTTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCT
1 AACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCC
2113300 TCTAAACAGAGGCAACGA
65 TCTAAACAGAGGCAACGA
*
2113318 AACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAAATAAATTGC
1 AACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG--ACTTTG-AAAAGTAAATTGC
2113381 TCCT
62 TCCT
2113385 TGACAATCAT
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
81 3 0.02
82 7 0.05
83 112 0.81
84 16 0.12
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (82 bp):
AACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
CTAAACAGAGGCAACGA
Found at i:2115202 original size:19 final size:19
Alignment explanation
Indices: 2115180--2115254 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 19
2115170 TTTGAATCTC
*
2115180 TTTTTTCATTTTTTCTTCT
1 TTTTTTCATTTTTTTTTCT
*
2115199 TTTTTTCTTTTTTTTTTTCTT
1 TTTTTTC-ATTTTTTTTTC-T
2115220 TTTTTTCATCATTTTTTTTCT
1 TTTTTTCAT--TTTTTTTTCT
2115241 TTTTTCTCATTTTT
1 TTTTT-TCATTTTT
2115255 CATCCATTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 7 0.15
20 14 0.29
21 14 0.29
22 13 0.27
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCATTTTTTTTTCT
Found at i:2115213 original size:12 final size:12
Alignment explanation
Indices: 2115188--2115225 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
2115178 TCTTTTTTCA
*
2115188 TTTTTTC-TTCT
1 TTTTTTCTTTTT
2115199 TTTTTTCTTTTT
1 TTTTTTCTTTTT
2115211 TTTTTTCTTTTT
1 TTTTTTCTTTTT
2115223 TTT
1 TTT
2115226 CATCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:2115223 original size:22 final size:23
Alignment explanation
Indices: 2115188--2115245 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
2115178 TCTTTTTTCA
**
2115188 TTTTTTCTTCTTTTTTTC-TTTTT
1 TTTTTTCTT-TTTTTTTCATCATT
2115211 TTTTTTC-TTTTTTTTCATCATT
1 TTTTTTCTTTTTTTTTCATCATT
2115233 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
2115246 CTCATTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 8 0.26
22 11 0.35
23 12 0.39
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTTCATCATT
Found at i:2115238 original size:29 final size:30
Alignment explanation
Indices: 2115201--2115258 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2115191 TTTCTTCTTT
* **
2115201 TTTTCTTTTTTTTTTTCTTTTTTTTCATCA
1 TTTTCTTTTCTTTTTTCTCATTTTTCATCA
2115231 TTTT-TTTTCTTTTTTCTCATTTTTCATC
1 TTTTCTTTTCTTTTTTCTCATTTTTCATC
2115259 CATTGTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTCTTTTCTTTTTTCTCATTTTTCATCA
Found at i:2119412 original size:59 final size:58
Alignment explanation
Indices: 2119157--2119643 Score: 385
Period size: 59 Copynumber: 8.2 Consensus size: 58
2119147 TTTTGTGCAG
* * * *
2119157 GAAAAATTAATACTTTCAACTTTTCCTT-AAAAAT-TCATTTTTGAAAAC-TTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTT-TTTCAAAAATAT--TTTTTGAAAACTTTAATTTCAA
* *** * **
2119215 GGAAAATTGATACTTTCAACTTTTCCCCCAAAAATATTTTTGTTTTTGGAAACTTTAATTTTGA
1 GAAAAATTGATACTTTCAACTTTT-TTTCAAAAATA----T-TTTTTGAAAACTTTAATTTCAA
* ** * * * *
2119279 GGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTTTCAAAA---ATATTTTTTGAAAACTTTAATTTCAA
* ** * *
2119339 GGAAAATTGATACTTTCAACTTTTTTTTGAAAATATTTTTTAAAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTGAAAAC-TTTAATTTCAA
**
2119398 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAACTTTAATTTCAA
1 GAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTT-GAAAACTTTAATTTCAA
* * ** * * *
2119457 GGAAAATAGATACTTTCAACTTTTCCTCAAAAAAAAATCTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTTTC----AAAAATATTTTTTGAAAACTTTAATTTCAA
*
2119518 GAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTGAAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTGAAAAC-TTTAATTTCAA
* ** * * *
2119577 GGAAAATTGATACTTTCAACTTTTCCTCAAAACCCT-TTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTTTCAAAA--ATATTTTTTGAAAACTTTAATTTCAA
2119635 GAAAAATTG
1 GAAAAATTG
2119644 TTTTTTTAAC
Statistics
Matches: 356, Mismatches: 52, Indels: 42
0.79 0.12 0.09
Matches are distributed among these distances:
57 28 0.08
58 40 0.11
59 123 0.35
60 53 0.15
61 43 0.12
62 6 0.02
63 29 0.08
64 33 0.09
66 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTGAAAACTTTAATTTCAA
Found at i:2119540 original size:179 final size:179
Alignment explanation
Indices: 2119157--2119608 Score: 619
Period size: 179 Copynumber: 2.5 Consensus size: 179
2119147 TTTTGTGCAG
* ** *
2119157 GAAAAATTAATACTTTCAACTTTTCCTTAAAAAT-TCATTTTTGAAAACTTATT--TTT-AAGGA
1 GAAAAATTGATACTTTCAACTTTTTTTTAAAAATAT--TTTTTGAAAACTT-TTAATTTCGAGGA
* **
2119218 AAATTGATACTTTCAACTTTTCCCCCAAAAATATTTTTGTTTTTGGAAACTTTAATTTTGAGGAA
63 AAATTGATACTTTCAACTTTT-CCTCAAAAATA---TTGTTTTTGGAAACTTTAATTTCAAGGAA
* **** *
2119283 AATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAA
124 AATAGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTGAAAATTTATTTTTAA
* * * *
2119339 GGAAAATTGATACTTTCAACTTTTTTTTGAAAATATTTTTTAAAAACTTTTAATTTCGAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTTTTTAAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAA
2119404 TTGATACTTTCAACTTTTCCTCAAAAATA-T-TTTTTGGAAAACTTTAATTTCAAGGAAAATAGA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGG-AAACTTTAATTTCAAGGAAAATAGA
2119467 TACTTTCAACTTTTCCTCAAAAAAAAATCTTTTTTGAAAATTTATTTTTAA
130 TACTTTCAACTTTTCCTC-AAAAAAAATCTTTTTTGAAAATTTATTTTTAA
*
2119518 GAAAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTTTTTAAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAA
2119583 TTGATACTTTCAACTTTTCCTCAAAA
66 TTGATACTTTCAACTTTTCCTCAAAA
2119609 CCCTTTTTTT
Statistics
Matches: 242, Mismatches: 22, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
177 7 0.03
178 41 0.17
179 113 0.47
180 2 0.01
181 12 0.05
182 42 0.17
183 25 0.10
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (179 bp):
GAAAAATTGATACTTTCAACTTTTTTTTAAAAATATTTTTTGAAAACTTTTAATTTCGAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTGTTTTTGGAAACTTTAATTTCAAGGAAAATAGAT
ACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTGAAAATTTATTTTTAA
Found at i:2119709 original size:13 final size:13
Alignment explanation
Indices: 2119665--2119720 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2119655 TTATTTAAAG
2119665 AAAATAAAATAAATA
1 AAAAT-AAA-AAATA
**
2119680 AAAATAAAAAACG
1 AAAATAAAAAATA
2119693 AAAATAAAAAATA
1 AAAATAAAAAATA
* *
2119706 AAAATTAAAATTA
1 AAAATAAAAAATA
2119719 AA
1 AA
2119721 CATCTAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 27 0.77
14 3 0.09
15 5 0.14
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:2120178 original size:20 final size:20
Alignment explanation
Indices: 2120155--2120206 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
2120145 TAGATAACCA
*
2120155 AAAAAAATAATTAGATAAAT
1 AAAATAATAATTAGATAAAT
*
2120175 AAAACTATTAA-TAGATAAAT
1 AAAA-TAATAATTAGATAAAT
2120195 AATAATAATAAT
1 AA-AATAATAAT
2120207 AATAATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAATAATAATTAGATAAAT
Found at i:2120200 original size:3 final size:3
Alignment explanation
Indices: 2120192--2120236 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
2120182 TTAATAGATA
*
2120192 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAG AGAT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT A
2120237 TGTATATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 34 0.89
4 3 0.08
5 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2120916 original size:22 final size:22
Alignment explanation
Indices: 2120860--2121163 Score: 153
Period size: 22 Copynumber: 14.1 Consensus size: 22
2120850 AATAAAAAAA
* * *
2120860 AATTAAGTAGTAAATCAATGAT
1 AATTTAGTAGTAAATCATTAAT
** *
2120882 AACATAATAGTAAATCATTAAT
1 AATTTAGTAGTAAATCATTAAT
* * * *
2120904 AATTTAGTGGTAAATAAATGAT
1 AATTTAGTAGTAAATCATTAAT
* * *
2120926 GATTTAGAAGTAAATTATTAAT
1 AATTTAGTAGTAAATCATTAAT
* * *
2120948 AAATTAATAGTAAATAAGTTAA-
1 AATTTAGTAGTAAATCA-TTAAT
** *
2120970 AATTTTA-TAACAAATCATTAGT
1 AA-TTTAGTAGTAAATCATTAAT
* * *
2120992 TATTTAATAGTAAATCATCAAT
1 AATTTAGTAGTAAATCATTAAT
* *
2121014 AATTTAATAGTAAACCAATT-AT
1 AATTTAGTAGTAAATC-ATTAAT
* * *
2121036 AAATTAGTAGTAAATCAATATT
1 AATTTAGTAGTAAATCATTAAT
* * *
2121058 AATTT-GTAATAAATTATTGAT
1 AATTTAGTAGTAAATCATTAAT
*
2121079 AATTTAGCTA-TATATCA-T--T
1 AATTTAG-TAGTAAATCATTAAT
*
2121098 GA--TAGTAGTAAATCATTAAT
1 AATTTAGTAGTAAATCATTAAT
* * *
2121118 AATATAGTTGTAAATCAATAAT
1 AATTTAGTAGTAAATCATTAAT
* *
2121140 AATTTAATTA-TAAATTATTAAT
1 AATTT-AGTAGTAAATCATTAAT
2121162 AA
1 AA
2121164 ATTTTTTACA
Statistics
Matches: 207, Mismatches: 60, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
16 2 0.01
17 9 0.04
18 1 0.00
19 2 0.01
20 2 0.01
21 26 0.13
22 152 0.73
23 13 0.06
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
AATTTAGTAGTAAATCATTAAT
Found at i:2121549 original size:21 final size:21
Alignment explanation
Indices: 2121497--2121592 Score: 90
Period size: 21 Copynumber: 4.6 Consensus size: 21
2121487 GAAGATTATA
* *
2121497 AAAATTGTTTCAATGGTTACC
1 AAAATTGTATCAATAGTTACC
* *
2121518 GATATTGTATCAATAGTTACC
1 AAAATTGTATCAATAGTTACC
*
2121539 AAAATTATATC-ATAAGTTACC
1 AAAATTGTATCAAT-AGTTACC
* *
2121560 AAAATTGTATTAA-AATTACC
1 AAAATTGTATCAATAGTTACC
2121580 AAAAGTT-TATCAA
1 AAAA-TTGTATCAA
2121593 AGGTTATCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 17 0.28
21 43 0.70
22 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (21 bp):
AAAATTGTATCAATAGTTACC
Found at i:2121652 original size:3 final size:3
Alignment explanation
Indices: 2121635--2121674 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
2121625 TTAAAATTAA
*
2121635 ATT ATT AGT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2121675 TTAGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2121846 original size:11 final size:10
Alignment explanation
Indices: 2121801--2121921 Score: 64
Period size: 11 Copynumber: 11.6 Consensus size: 10
2121791 TAGAAATGAC
2121801 ATCAAAAGTTT
1 ATCAAAA-TTT
*
2121812 ATTAAAATTTT
1 ATCAAAA-TTT
* * *
2121823 GTTAAAAATT
1 ATCAAAATTT
2121833 ATCAAAATTAT
1 ATCAAAATT-T
* *
2121844 ATCAATAGTT
1 ATCAAAATTT
2121854 ATCAAAATTAT
1 ATCAAAATT-T
* *
2121865 ATCATAAGTT
1 ATCAAAATTT
2121875 ATCAAAATTGT
1 ATCAAAATT-T
** *
2121886 AT-TGAAGTT
1 ATCAAAATTT
*
2121895 ACCAAAAATTT
1 ATC-AAAATTT
*
2121906 ATCAAAAGTT
1 ATCAAAATTT
2121916 ATCAAA
1 ATCAAA
2121922 TTTGATTTAT
Statistics
Matches: 81, Mismatches: 24, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
9 2 0.02
10 39 0.48
11 40 0.49
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (10 bp):
ATCAAAATTT
Found at i:2121855 original size:21 final size:21
Alignment explanation
Indices: 2121831--2121921 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
2121821 TTGTTAAAAA
2121831 TTATCAAAATTATATCAATAG
1 TTATCAAAATTATATCAATAG
2121852 TTATCAAAATTATATC-ATAAG
1 TTATCAAAATTATATCAAT-AG
* **
2121873 TTATCAAAATTGTATTGA-AG
1 TTATCAAAATTATATCAATAG
* *
2121893 TTACCAAAAATT-TATCAAAAG
1 TTATC-AAAATTATATCAATAG
2121914 TTATCAAA
1 TTATCAAA
2121922 TTTGATTTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
20 15 0.25
21 44 0.73
22 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (21 bp):
TTATCAAAATTATATCAATAG
Found at i:2121909 original size:41 final size:42
Alignment explanation
Indices: 2121826--2121921 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
2121816 AAATTTTGTT
* *
2121826 AAAAATTATCAAAATTATATCAATAGTTATCAAAATTATATC
1 AAAAGTTATCAAAATTATATCAATAGTTACCAAAATTATATC
* * **
2121868 ATAAGTTATCAAAATTGTATTGA-AGTTACCAAAAATT-TATC
1 AAAAGTTATCAAAATTATATCAATAGTTACC-AAAATTATATC
2121909 AAAAGTTATCAAA
1 AAAAGTTATCAAA
2121922 TTTGATTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 22 0.48
42 24 0.52
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (42 bp):
AAAAGTTATCAAAATTATATCAATAGTTACCAAAATTATATC
Found at i:2122171 original size:102 final size:102
Alignment explanation
Indices: 2122049--2122254 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 102
2122039 ATGTATCAAC
* *
2122049 CTCTAAAATATAATTTAATTTATAATATCAGCTGACAAAATTCTAGAAATGACACTAATTAATAA
1 CTCTAAAATATAATCTAATTTATAATATCAGCTGAAAAAATTCTAGAAATGACACTAATTAATAA
2122114 TGCAAGAAAATTTTGAGTTGTAATTTTATTTTATTTT
66 TGCAAGAAAATTTTGAGTTGTAATTTTATTTTATTTT
*
2122151 CTCTGAAATATAATCTAATTTATAATATCAGCTGAAAAAATTCTAGAAATGACACTAATTAATAA
1 CTCTAAAATATAATCTAATTTATAATATCAGCTGAAAAAATTCTAGAAATGACACTAATTAATAA
2122216 TGCAAGAAAATTTTGAGTTGTAATTTTATTTTATTTT
66 TGCAAGAAAATTTTGAGTTGTAATTTTATTTTATTTT
2122253 CT
1 CT
2122255 TGTTTCCTTT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (102 bp):
CTCTAAAATATAATCTAATTTATAATATCAGCTGAAAAAATTCTAGAAATGACACTAATTAATAA
TGCAAGAAAATTTTGAGTTGTAATTTTATTTTATTTT
Found at i:2126684 original size:3 final size:3
Alignment explanation
Indices: 2126678--2126703 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2126668 TTTTTTTAAA
2126678 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
2126704 GCATAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2127529 original size:2 final size:2
Alignment explanation
Indices: 2127522--2127552 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2127512 TGTATAAGCA
2127522 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
2127553 AACAACATAG
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:2132911 original size:2 final size:2
Alignment explanation
Indices: 2132904--2132930 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2132894 TTGATACATT
2132904 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
2132931 TTTTTACACT
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:2135748 original size:491 final size:491
Alignment explanation
Indices: 2134826--2135805 Score: 1861
Period size: 491 Copynumber: 2.0 Consensus size: 491
2134816 CCTGGATATA
* *
2134826 GTTTCTATAGCTGGTGGTGCTTTGGTTGCAATGCATAAAGACTACATAATCACGGTTTCCGAAAT
1 GTTTCTATAGCTGGTGGTCCTTTGGTTGCAATGCATAAAGACTACATAATCACGGTTTCAGAAAT
*
2134891 GAATGAAGGAAGAAATGATCTTTGGCTTGCCTAGCAGCCTAACACTGATTCAAAGCCACAACTTG
66 GAAAGAAGGAAGAAATGATCTTTGGCTTGCCTAGCAGCCTAACACTGATTCAAAGCCACAACTTG
*
2134956 CTGATGTAATACTGAATGGAGTTGAGATCTTGAAGTTGAGCGATACTAGTAACAATCTTGCAGCT
131 CTGATGTAATACTGAATGGAGTTGAGATCTTGAAGTTGAGCGATACTAGTAAAAATCTTGCAGCT
* *
2135021 CATGTTCAAGTAGATAATCGGGGCAAGACCACTCCATCTAATATCTTCCTTGGATTGGTTCTGGG
196 CATGTTCAAGTAGATAATCGGCGCAAGACCACCCCATCTAATATCTTCCTTGGATTGGTTCTGGG
*
2135086 TATGGTTTTTGGAATTTGTCTAGTCTCTCTAACAGTCTACCTGGTTTCTCATTGGATTTCGAAAC
261 TATGGTTTTTGGAATTTGTCTAGTCTCTCTAACAGTCTACCTGGTTTCTCATTGGAGTTCGAAAC
2135151 ATTACGAGAAAAACCTTGGTAAAACAGGCAGCCTAAATGTTAAATCTTCAGATCATTGCCAGTCA
326 ATTACGAGAAAAACCTTGGTAAAACAGGCAGCCTAAATGTTAAATCTTCAGATCATTGCCAGTCA
2135216 ATTTCCCTTGGAAGAGATAAAAGCTGCCACTAATAATTTCAGTGAAGCTCTTGTGCTTGGTTGTG
391 ATTTCCCTTGGAAGAGATAAAAGCTGCCACTAATAATTTCAGTGAAGCTCTTGTGCTTGGTTGTG
2135281 GCGGGTTCGGTCAGGTTTATGAGGGTCTACTGGATG
456 GCGGGTTCGGTCAGGTTTATGAGGGTCTACTGGATG
*
2135317 GTTTCTATAGCTGGTGGTCCTTTGGTTGCAATGCATAAAGACTATATAATCACGGTTTCAGAAAT
1 GTTTCTATAGCTGGTGGTCCTTTGGTTGCAATGCATAAAGACTACATAATCACGGTTTCAGAAAT
*
2135382 GAAAGGAGGAAGAAATGATCTTTGGCTTGCCTAGCAGCCTAACACTGATTCAAAGCCACAACTTG
66 GAAAGAAGGAAGAAATGATCTTTGGCTTGCCTAGCAGCCTAACACTGATTCAAAGCCACAACTTG
2135447 CTGATGTAATACTGAATGGAGTTGAGATCTTGAAGTTGAGCGATACTAGTAAAAATCTTGCAGCT
131 CTGATGTAATACTGAATGGAGTTGAGATCTTGAAGTTGAGCGATACTAGTAAAAATCTTGCAGCT
*
2135512 CATGTTCAAGTAGATAATCGGCGCAAGACTACCCCATCTAATATCTTCCTTGGATTGGTTCTGGG
196 CATGTTCAAGTAGATAATCGGCGCAAGACCACCCCATCTAATATCTTCCTTGGATTGGTTCTGGG
2135577 TATGGTTTTTGGAATTTGTCTAGTCTCTCTAACAGTCTACCTGGTTTCTCATTGGAGTTCGAAAC
261 TATGGTTTTTGGAATTTGTCTAGTCTCTCTAACAGTCTACCTGGTTTCTCATTGGAGTTCGAAAC
*
2135642 ATTACGAGAAAAACCTTGGTAAAATAGGCAGCCTAAATGTTAAATCTTCAGATCATTGCCAGTCA
326 ATTACGAGAAAAACCTTGGTAAAACAGGCAGCCTAAATGTTAAATCTTCAGATCATTGCCAGTCA
2135707 ATTTCCCTTGGAAGAGATAAAAGCTGCCACTAATAATTTCAGTGAAGCTCTTGTGCTTGGTTGTG
391 ATTTCCCTTGGAAGAGATAAAAGCTGCCACTAATAATTTCAGTGAAGCTCTTGTGCTTGGTTGTG
2135772 GCGGGTTCGGTCAGGTTTATGAGGGTCTACTGGA
456 GCGGGTTCGGTCAGGTTTATGAGGGTCTACTGGA
2135806 GGATGGGTTC
Statistics
Matches: 478, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
491 478 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (491 bp):
GTTTCTATAGCTGGTGGTCCTTTGGTTGCAATGCATAAAGACTACATAATCACGGTTTCAGAAAT
GAAAGAAGGAAGAAATGATCTTTGGCTTGCCTAGCAGCCTAACACTGATTCAAAGCCACAACTTG
CTGATGTAATACTGAATGGAGTTGAGATCTTGAAGTTGAGCGATACTAGTAAAAATCTTGCAGCT
CATGTTCAAGTAGATAATCGGCGCAAGACCACCCCATCTAATATCTTCCTTGGATTGGTTCTGGG
TATGGTTTTTGGAATTTGTCTAGTCTCTCTAACAGTCTACCTGGTTTCTCATTGGAGTTCGAAAC
ATTACGAGAAAAACCTTGGTAAAACAGGCAGCCTAAATGTTAAATCTTCAGATCATTGCCAGTCA
ATTTCCCTTGGAAGAGATAAAAGCTGCCACTAATAATTTCAGTGAAGCTCTTGTGCTTGGTTGTG
GCGGGTTCGGTCAGGTTTATGAGGGTCTACTGGATG
Found at i:2139124 original size:17 final size:17
Alignment explanation
Indices: 2139104--2139138 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2139094 ATTTAAATAA
*
2139104 TTTTTTTATTATTAGAC
1 TTTTTTTATAATTAGAC
2139121 TTTTTTTATAATTAGAC
1 TTTTTTTATAATTAGAC
2139138 T
1 T
2139139 AAAAAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTTTTATAATTAGAC
Found at i:2143838 original size:20 final size:20
Alignment explanation
Indices: 2143813--2143857 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2143803 ATATTGATAT
*
2143813 AAATTTAGTAAATTTTAATA
1 AAATTTAGTAAATTATAATA
* *
2143833 AAATTTGGTAACTTATAATA
1 AAATTTAGTAAATTATAATA
*
2143853 TAATT
1 AAATT
2143858 AATTAGTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (20 bp):
AAATTTAGTAAATTATAATA
Found at i:2144506 original size:3 final size:3
Alignment explanation
Indices: 2144491--2144686 Score: 78
Period size: 3 Copynumber: 60.7 Consensus size: 3
2144481 TTTTAATTTT
* *
2144491 TTA TTA CTA TTA TTA TTTA TTA ATA TATA TT- TTA TTTA TTTA TCTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA -TTA -TTA T-TA
** *
2144537 TTA ACA -TA TT- TTA TTA TTTA TCTA TTA ATA TATA TATA TTA TTTA
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA T-TA TTA -TTA
* *
2144582 TCTA TTCA TATA TTA TTA TTTA ATA TTA TTA TTTA TCTA TTA ATA TATA
1 T-TA TT-A T-TA TTA TTA -TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA
* * * * *
2144631 TT- TTT TTA TCTA TTA ATA -TA TTT TTT TTA TCTA TTA TTA TTA CTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2144676 TTA TTA TTA TT
1 TTA TTA TTA TT
2144687 TTTTCTTGAC
Statistics
Matches: 152, Mismatches: 19, Indels: 44
0.71 0.09 0.20
Matches are distributed among these distances:
2 9 0.06
3 85 0.56
4 57 0.38
5 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2144551 original size:21 final size:21
Alignment explanation
Indices: 2144525--2144666 Score: 111
Period size: 24 Copynumber: 6.7 Consensus size: 21
2144515 ATATATTTTA
*
2144525 TTTATTTATCTATTAACATATTT
1 TTTATTTATCTATT-A-ATATAT
2144548 TATTATTTATCTATTAATATATAT
1 T-TTATTTATCTATT-A-ATATAT
*
2144572 ATATTATTTATCTATTCATATA-
1 -T-TTATTTATCTATTAATATAT
2144594 -TTA-TTA--T-TTAATATTA-
1 TTTATTTATCTATTAATA-TAT
2144610 T-TATTTATCTATTAATATAT
1 TTTATTTATCTATTAATATAT
*
2144630 ATTTTTTTATCTATTAATATAT
1 -TTTATTTATCTATTAATATAT
*
2144652 TTTTTTTATCTATTA
1 TTTATTTATCTATTA
2144667 TTATTACTAT
Statistics
Matches: 103, Mismatches: 5, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
15 5 0.05
16 5 0.05
17 3 0.03
18 3 0.03
19 6 0.06
20 6 0.06
21 16 0.16
22 18 0.17
23 6 0.06
24 20 0.19
25 15 0.15
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATTTATCTATTAATATAT
Found at i:2144592 original size:47 final size:50
Alignment explanation
Indices: 2144498--2144666 Score: 152
Period size: 57 Copynumber: 3.3 Consensus size: 50
2144488 TTTTTATTAC
* * *
2144498 TATTA-TTATTTATTAATATATATTTTATTTATTTATCTATTAACATATTT
1 TATTATTTATCTATTAATATATATTATATTTATTTATCTATT-ACATATAT
2144548 TATTATTTATCTATTAATATATA-TATA-TTATTTATCTATT-CATATAT
1 TATTATTTATCTATTAATATATATTATATTTATTTATCTATTACATATAT
* * *
2144595 TATTATTTAATATTATTATTTATCTATTAATATATATTTTTTTATCTATTA-ATATAT
1 TATTATTT-AT-CTATTA---ATATA-T-AT-TATATTTATTTATCTATTACATATAT
*
2144652 T-TTTTTTATCTATTA
1 TATTATTTATCTATTA
2144667 TTATTACTAT
Statistics
Matches: 99, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
47 14 0.14
48 2 0.02
49 18 0.18
50 8 0.08
51 16 0.16
52 4 0.04
53 1 0.01
54 6 0.06
55 2 0.02
56 9 0.09
57 19 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (50 bp):
TATTATTTATCTATTAATATATATTATATTTATTTATCTATTACATATAT
Found at i:2144596 original size:57 final size:56
Alignment explanation
Indices: 2144498--2144652 Score: 171
Period size: 60 Copynumber: 2.8 Consensus size: 56
2144488 TTTTTATTAC
* * *
2144498 TATTA-TTATTTATTAATATATATTTTATTTA--T-TTATCTATTA-ACAT-ATTT
1 TATTATTTATCTATTAATATATATTTTATTTATCTATTATATATTATACATAATAT
**
2144548 TATTATTTATCTATTAATATATATATATTATTTATCTATTCATATATTATTATTTAATAT
1 TATTATTTATCTATTAATATATAT-T-TTATTTATCTATT-ATATATTA-TACATAATAT
2144608 TATTATTTATCTATTAATATATATTTT-TTTATCTATTAATATATT
1 TATTATTTATCTATTAATATATATTTTATTTATCTATT-ATATATT
2144653 TTTTTTATCT
Statistics
Matches: 89, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
50 5 0.06
51 17 0.19
52 1 0.01
53 7 0.08
55 1 0.01
56 2 0.02
57 24 0.27
58 2 0.02
59 3 0.03
60 27 0.30
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (56 bp):
TATTATTTATCTATTAATATATATTTTATTTATCTATTATATATTATACATAATAT
Found at i:2144609 original size:13 final size:13
Alignment explanation
Indices: 2144591--2144616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2144581 ATCTATTCAT
2144591 ATATTATTATTTA
1 ATATTATTATTTA
2144604 ATATTATTATTTA
1 ATATTATTATTTA
2144617 TCTATTAATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTATTATTTA
Found at i:2144624 original size:60 final size:57
Alignment explanation
Indices: 2144542--2144690 Score: 189
Period size: 60 Copynumber: 2.6 Consensus size: 57
2144532 ATCTATTAAC
* *
2144542 ATATTTTATTATTTATCTATTAATATATATATATTATTTATCTATTCATATATTATTATTT
1 ATATATTATTATTTATCTATTAATATATAT-T-TT-TTTATCTATTAATATATT-TTATTT
*
2144603 A-ATATTATTATTTATCTATTAATATATATTTTTTTATCTATTAATATATTTTTTTT
1 ATATATTATTATTTATCTATTAATATATATTTTTTTATCTATTAATATATTTTATTT
* *
2144659 ATCTATTATTA-TTA-CTATTATTAT-TATTTTTT
1 ATATATTATTATTTATCTATTAATATATATTTTTT
2144691 CTTGACTTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
54 8 0.10
55 9 0.11
56 9 0.11
57 25 0.30
58 2 0.02
59 1 0.01
60 27 0.33
61 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (57 bp):
ATATATTATTATTTATCTATTAATATATATTTTTTTATCTATTAATATATTTTATTT
Found at i:2144638 original size:22 final size:22
Alignment explanation
Indices: 2144601--2144666 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
2144591 ATATTATTAT
*
2144601 TTAATAT-TA-TTATTTATCTA
1 TTAATATATATTTTTTTATCTA
2144621 TTAATATATATTTTTTTATCTA
1 TTAATATATATTTTTTTATCTA
2144643 TTAATATAT-TTTTTTTATCTA
1 TTAATATATATTTTTTTATCTA
2144664 TTA
1 TTA
2144667 TTATTACTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
20 7 0.16
21 17 0.40
22 19 0.44
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTAATATATATTTTTTTATCTA
Found at i:2144649 original size:18 final size:20
Alignment explanation
Indices: 2144523--2144666 Score: 84
Period size: 22 Copynumber: 6.8 Consensus size: 20
2144513 ATATATATTT
*
2144523 TATTTATTTATCTATTAACATA
1 TATTTTTTTATCTATT-A-ATA
*
2144545 TTTTATTATTTATCTATTAATATA
1 TATT-TT-TTTATCTATT-A-ATA
*
2144569 TATATATTATTTATCTATTCATA
1 TAT-T-TT-TTTATCTATTAATA
*
2144592 TA--TTATTA--T-TTAATA
1 TATTTTTTTATCTATTAATA
*
2144607 T-TATTATTTATCTATTAATATA
1 TAT-TTTTTTATCTATT-A-ATA
2144629 TATTTTTTTATCTATTAATA
1 TATTTTTTTATCTATTAATA
2144649 TATTTTTTTTATCTATTA
1 TA-TTTTTTTATCTATTA
2144667 TTATTACTAT
Statistics
Matches: 99, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.06
16 1 0.01
17 4 0.04
18 3 0.03
19 3 0.03
20 7 0.07
21 17 0.17
22 19 0.19
23 7 0.07
24 17 0.17
25 15 0.15
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTTTTATCTATTAATA
Found at i:2151145 original size:412 final size:413
Alignment explanation
Indices: 2150380--2151210 Score: 1547
Period size: 412 Copynumber: 2.0 Consensus size: 413
2150370 CCAATCCCAT
2150380 AATCCTCTTATCCCTAAACATATCAAACCTCTTTTAGGCCTCAAAACACCATATACAATCCTAAC
1 AATCCTCTTATCCCTAAACATATCAAACCTCTTTTAGGCCTCAAAACACCATATACAATCCTAAC
*
2150445 ACTCAACCTACCTCAAGACTTCATACCCATCCAACTAGCCCAATAGGTGGTTCACGAGAGCAACG
66 ACTCAACCTACCTCAAGACCTCATACCCATCCAACTAGCCCAATAGGTGGTTCACGAGAGCAACG
*
2150510 AACTACTCGTGAAAAATCTGTATTTGACCTAATTCCTATGACTTATACAGAATTATATCATGAGC
131 AACTACTCGTGAAAAATCTGTATTTGACCTAATTCCTATGACTTATACAAAATTATATCATGAGC
*
2150575 TTTACAATAGTTATCTACTTGTTCTTAGAAAATTAGAGCCATTCAAGCCATCTTACCCTAAGTGA
196 TTTACAATAGTTATCTACTTGTTCCTAGAAAATTAGAGCCATTCAAGCCATCTTACCCTAAGTGA
* *
2150640 TATGATCCCATAGCCCATTGTGACTATCACTGTGGGATTGTTGGTCATTCCATTGAAAGTTGCAC
261 TATGATCCCATAGCCCATTGTGACTATCACTGTGGGATTATTGGTCATTCCACTGAAAGTTGCAC
2150705 TACCTTGAAACATAAAGTGCAATGACTAATCAAGGATGGAATGATTAGCTTTGATACATGAGGGA
326 TACCTTGAAACATAAAGTGCAATGACTAATCAAGGATGGAATGATTAGCTTTGATACATGAGGGA
2150770 TAACTGCCCCAAACGTTAGTGAC
391 TAACTGCCCCAAACGTTAGTGAC
*
2150793 AATCCTCTTATCCTTAAACATATCAAACCTCTTTTAGGCCTCAAAACACCATATACAATCCTAAC
1 AATCCTCTTATCCCTAAACATATCAAACCTCTTTTAGGCCTCAAAACACCATATACAATCCTAAC
2150858 ACTCAACCTACCT-AAGACCTCATACCCATCCAACTAGCCCAATAGGTGGTTCACGAGAGCAACG
66 ACTCAACCTACCTCAAGACCTCATACCCATCCAACTAGCCCAATAGGTGGTTCACGAGAGCAACG
*
2150922 AACTACTCGTGAAAAATTTGTATTTGACCTAATTCCTATGACTTATACAAAATTATATCATGAGC
131 AACTACTCGTGAAAAATCTGTATTTGACCTAATTCCTATGACTTATACAAAATTATATCATGAGC
*
2150987 TTTACAATAGTTATCTACTTGTTCCTAGAAAATTAGAGCCATTCAAGCCGTCTTACCCTAAGTGA
196 TTTACAATAGTTATCTACTTGTTCCTAGAAAATTAGAGCCATTCAAGCCATCTTACCCTAAGTGA
2151052 TATGATCCCATAGCCCATTGTGACTATCACTGTGGGATTATTGGTCATTCCACTGAAAGTTGCAC
261 TATGATCCCATAGCCCATTGTGACTATCACTGTGGGATTATTGGTCATTCCACTGAAAGTTGCAC
* *
2151117 TATCTTGAAACATAAAGTGCAATGACTAATCAATGATGGAATGATTAGCTTTGATACATGAGGGA
326 TACCTTGAAACATAAAGTGCAATGACTAATCAAGGATGGAATGATTAGCTTTGATACATGAGGGA
* *
2151182 TAACTGTCCCAAACGTTAGTGGC
391 TAACTGCCCCAAACGTTAGTGAC
2151205 AATCCT
1 AATCCT
2151211 TTAACTAATC
Statistics
Matches: 406, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
412 329 0.81
413 77 0.19
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (413 bp):
AATCCTCTTATCCCTAAACATATCAAACCTCTTTTAGGCCTCAAAACACCATATACAATCCTAAC
ACTCAACCTACCTCAAGACCTCATACCCATCCAACTAGCCCAATAGGTGGTTCACGAGAGCAACG
AACTACTCGTGAAAAATCTGTATTTGACCTAATTCCTATGACTTATACAAAATTATATCATGAGC
TTTACAATAGTTATCTACTTGTTCCTAGAAAATTAGAGCCATTCAAGCCATCTTACCCTAAGTGA
TATGATCCCATAGCCCATTGTGACTATCACTGTGGGATTATTGGTCATTCCACTGAAAGTTGCAC
TACCTTGAAACATAAAGTGCAATGACTAATCAAGGATGGAATGATTAGCTTTGATACATGAGGGA
TAACTGCCCCAAACGTTAGTGAC
Found at i:2152513 original size:19 final size:19
Alignment explanation
Indices: 2152485--2152530 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2152475 ACCCTACACC
*
2152485 AAAAGATCAAGTTTAATGT
1 AAAAGGTCAAGTTTAATGT
2152504 AAAAGGTCAAGTTTAATGT
1 AAAAGGTCAAGTTTAATGT
2152523 AAAAGGTC
1 AAAAGGTC
2152531 GATTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (19 bp):
AAAAGGTCAAGTTTAATGT
Found at i:2157837 original size:41 final size:41
Alignment explanation
Indices: 2157776--2158102 Score: 228
Period size: 42 Copynumber: 7.8 Consensus size: 41
2157766 AGCCTTTTAC
* *
2157776 TTTCAAAGTTCGTT--GTCTCTGTTTAGAGGAGTTATTTATT
1 TTTCAAAGTT-GTTGAGCCTCTGTTTAGAGGAGTAATTTATT
* * **
2157816 TTTCGAAGTTGTTGAACCTCTGTTTAGAGGAACAATTTATT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGTAATTTATT
* * * *
2157857 TTTCAAAGTTGTGGTTGGCTCTGTTTAGAGGAGCAATTTA-T
1 TTTCAAAGTTGTTG-AGCCTCTGTTTAGAGGAGTAATTTATT
* * * *
2157898 TTTCAAAAGTTGTAGTGCTTCTGTTTAGAGGAGCAATTTAATT
1 TTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGTAATTT-ATT
* * * * *
2157941 TCTAAAAGTAGTTGAGCCTTTGTTTAGATGAGTAATTTACTT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGTAATTTA-TT
* * * * * **
2157983 TTTCAAAGTCGTTAAGCATTTGATTAGAGGAGCTTTGTTTATT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAG--TAATTTATT
* * **
2158026 TTTCAACAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTGTTTATT
1 TTTCAA-AGTTGTTGAGCCTCTGTTTAGAGGAG--TAATTTATT
** * *
2158070 TTTCAAAAGTCATTGAACCTCTGCTTAGAGGAG
1 TTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAG
2158103 CTTTGATCAA
Statistics
Matches: 232, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.01
40 9 0.04
41 61 0.26
42 85 0.37
43 11 0.05
44 61 0.26
45 2 0.01
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (41 bp):
TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGTAATTTATT
Done.