Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 73 of 121
Found at i:12648170 original size:89 final size:88
Alignment explanation
Indices: 12648012--12648178 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 88
12648002 ATATGCTTGC
* * *
12648012 GAGAGCTTTTGATAGATCCCAACAAAAAGTGCTAGGGATATTAAGATCAAACTACAAATTGGCCT
1 GAGAACTTTTGATAGATCCCAACAAAAAGTGCTAGGGATATCAAGATCAAACTACAAATTGGCCC
12648077 ATTGTACTTTTAAACATGGTTGT
66 ATTGTACTTTTAAACATGGTTGT
* * ** *
12648100 GAGAACTTTTGATGGATCCTAACGGAAAGTGCTAGGAGATATCAAGAT-AGAACTATAAATTGGC
1 GAGAACTTTTGATAGATCCCAACAAAAAGTGCTAGG-GATATCAAGATCA-AACTACAAATTGGC
12648164 CCATTGTACTTTTAA
64 CCATTGTACTTTTAA
12648179 TGTGAATTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
88 32 0.46
89 37 0.54
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (88 bp):
GAGAACTTTTGATAGATCCCAACAAAAAGTGCTAGGGATATCAAGATCAAACTACAAATTGGCCC
ATTGTACTTTTAAACATGGTTGT
Found at i:12654062 original size:75 final size:76
Alignment explanation
Indices: 12653915--12654119 Score: 222
Period size: 75 Copynumber: 2.7 Consensus size: 76
12653905 AAACAATGAA
* **
12653915 TTTAGGCC-AACCCTAAACCCTATGTCAAACCTTAAACCTTATGTCAAACCCTAAACCCTAGGTC
1 TTTAGGCCAAACCCTAAACCCTAGGTCAAACC-TAAACCTTATGTCAAACCCTAAACCCTAAATC
*
12653979 AAATCCCAAA-C
65 AAACCCCAAAGC
* * ***
12653990 TTTAGGCCAAACCCCAAACCCTAGGTCAAACACTAAACTTTATG-CAAACCAC-AAATTGTAAAT
1 TTTAGGCCAAACCCTAAACCCTAGGTCAAAC-CTAAACCTTATGTCAAACC-CTAAACCCTAAAT
12654053 CAAACCCCAAAGC
64 CAAACCCCAAAGC
* * * *
12654066 -ATAGGCCAAACCTTAAACCCTAGGTCAAACTCTAAACCTAAAGTCAAACCCTAA
1 TTTAGGCCAAACCCTAAACCCTAGGTCAAAC-CTAAACCTTATGTCAAACCCTAA
12654120 GTCTTAACTT
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
75 67 0.62
76 40 0.37
77 1 0.01
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (76 bp):
TTTAGGCCAAACCCTAAACCCTAGGTCAAACCTAAACCTTATGTCAAACCCTAAACCCTAAATCA
AACCCCAAAGC
Found at i:12654439 original size:19 final size:19
Alignment explanation
Indices: 12653923--12654460 Score: 232
Period size: 19 Copynumber: 28.7 Consensus size: 19
12653913 AATTTAGGCC
* *
12653923 AACCCTAAACCCTATGTCA
1 AACCCTAAACCTTAGGTCA
* *
12653942 AACCTTAAACCTTATGTCA
1 AACCCTAAACCTTAGGTCA
*
12653961 AACCCTAAACCCTAGGTCA
1 AACCCTAAACCTTAGGTCA
* *
12653980 AATCCC-AAACTTTAGGCCA
1 AA-CCCTAAACCTTAGGTCA
* *
12653999 AACCCCAAACCCTAGGTCA
1 AACCCTAAACCTTAGGTCA
* * *
12654018 AACACTAAACTTTATG-CA
1 AACCCTAAACCTTAGGTCA
* **
12654036 AACCAC-AAA-TTGTAAATCA
1 AACC-CTAAACCT-TAGGTCA
* * * *
12654055 AACCCCAAAGCATAGGCCA
1 AACCCTAAACCTTAGGTCA
* *
12654074 AACCTTAAACCCTAGGTCA
1 AACCCTAAACCTTAGGTCA
* * *
12654093 AACTCTAAACCTAAAGTCA
1 AACCCTAAACCTTAGGTCA
** ** *
12654112 AACCCTAAGTCTTAACT-T
1 AACCCTAAACCTTAGGTCA
* *
12654130 AACCCCAAACCCTAGGTC-
1 AACCCTAAACCTTAGGTCA
*
12654148 AA-CCT-TACCTTTAGGTCA
1 AACCCTAAACC-TTAGGTCA
**
12654166 AACTTTAAA-CTATAGGTCA
1 AACCCTAAACCT-TAGGTCA
* * **
12654185 AACCCCAAACATTAATTCA
1 AACCCTAAACCTTAGGTCA
**
12654204 AACCCTAAACCTTAACTCA
1 AACCCTAAACCTTAGGTCA
* *
12654223 AACCCAAAACAC-TATGTCA
1 AACCCTAAAC-CTTAGGTCA
* *
12654242 AAACCTAATCC-TAGGTC-
1 AACCCTAAACCTTAGGTCA
* **
12654259 AATCCTAAATCC-TAACTCA
1 AACCCTAAA-CCTTAGGTCA
** * *
12654278 AA-TGTCAAACCCTAGGT-G
1 AACCCT-AAACCTTAGGTCA
*
12654296 AA-CCTCAACCTTAGGTCA
1 AACCCTAAACCTTAGGTCA
* * ** *
12654314 AACACTAAGCCCAAAGTCA
1 AACCCTAAACCTTAGGTCA
* *
12654333 AATCCC-AAACCCTAAGTCA
1 AA-CCCTAAACCTTAGGTCA
* *
12654352 AAACCTAAACCTTAGGTCG
1 AACCCTAAACCTTAGGTCA
* * * *
12654371 AACCTTAAACCTCAAGTTA
1 AACCCTAAACCTTAGGTCA
*
12654390 AATCCC-AAACCCTAGGTCA
1 AA-CCCTAAACCTTAGGTCA
12654409 AACCCTAAACCTTAGGTCA
1 AACCCTAAACCTTAGGTCA
*
12654428 AACACTAAACCTT-GGATCA
1 AACCCTAAACCTTAGG-TCA
*
12654447 AACCCTAATCCTTA
1 AACCCTAAACCTTA
12654461 AGCCAAACTC
Statistics
Matches: 382, Mismatches: 110, Indels: 53
0.70 0.20 0.10
Matches are distributed among these distances:
16 3 0.01
17 26 0.07
18 57 0.15
19 286 0.75
20 10 0.03
ACGTcount: A:0.40, C:0.31, G:0.08, T:0.21
Consensus pattern (19 bp):
AACCCTAAACCTTAGGTCA
Found at i:12654467 original size:19 final size:18
Alignment explanation
Indices: 12654445--12654491 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12654435 AACCTTGGAT
*
12654445 CAAACCCTAATCCTTAAGC
1 CAAACCCTAATCC-TAAAC
*
12654464 CAAACTCTAATCCTAAAC
1 CAAACCCTAATCCTAAAC
*
12654482 CACACCCTAA
1 CAAACCCTAA
12654492 ATGTAACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.19
Consensus pattern (18 bp):
CAAACCCTAATCCTAAAC
Found at i:12654586 original size:7 final size:7
Alignment explanation
Indices: 12654567--12654601 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
12654557 AAACTCTAAA
12654567 CTAAA-C
1 CTAAACC
12654573 CTCAAACC
1 CT-AAACC
12654581 CTAAACC
1 CTAAACC
12654588 CTAAACC
1 CTAAACC
12654595 CTAAACC
1 CTAAACC
12654602 AAAGCCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 2 0.07
7 22 0.81
8 3 0.11
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:12654672 original size:24 final size:25
Alignment explanation
Indices: 12654640--12654738 Score: 110
Period size: 25 Copynumber: 4.0 Consensus size: 25
12654630 CTTAACCATG
*
12654640 AATCGTAAACCCTAACCCTAAACC-
1 AATCCTAAACCCTAACCCTAAACCA
*
12654664 AATCCTAAACCCTAACCTTAAACCA
1 AATCCTAAACCCTAACCCTAAACCA
* *
12654689 AATCCTAAACCCTAAACCTAAATCA
1 AATCCTAAACCCTAACCCTAAACCA
* * **
12654714 AAACCTTAACTCGAAACCCTAAACC
1 AATCCTAAAC-CCTAACCCTAAACC
12654739 TACTTTAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
24 22 0.35
25 30 0.48
26 10 0.16
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.18
Consensus pattern (25 bp):
AATCCTAAACCCTAACCCTAAACCA
Found at i:12654710 original size:6 final size:6
Alignment explanation
Indices: 12654645--12654740 Score: 54
Period size: 6 Copynumber: 15.3 Consensus size: 6
12654635 CCATGAATCG
* *
12654645 TAAACCC TAACCC TAAACC -AATCC TAAACCC T-AACC TTAAACC -AAATCC
1 TAAA-CC TAAACC TAAACC TAAACC TAAA-CC TAAACC -TAAACC TAAA-CC
* * * *
12654694 TAAACCC TAAACC TAAATC AAAACC TTAACTC GAAACCC TAAACC TA
1 TAAA-CC TAAACC TAAACC TAAACC TAAAC-C TAAA-CC TAAACC TA
12654741 CTTTAAAATC
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
5 9 0.13
6 32 0.47
7 26 0.38
8 1 0.01
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (6 bp):
TAAACC
Found at i:12654717 original size:19 final size:19
Alignment explanation
Indices: 12654677--12654718 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12654667 CCTAAACCCT
* *
12654677 AACCTTAAACCAAATCCTA
1 AACCCTAAACCAAATCCAA
12654696 AACCCTAAACCTAAAT-CAA
1 AACCCTAAACC-AAATCCAA
12654715 AACC
1 AACC
12654719 TTAACTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (19 bp):
AACCCTAAACCAAATCCAA
Found at i:12663742 original size:13 final size:13
Alignment explanation
Indices: 12663724--12663764 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
12663714 ATAACATATT
12663724 TATTAAATAATTA
1 TATTAAATAATTA
*
12663737 TATTAAATAATAA
1 TATTAAATAATTA
*
12663750 TAAT-AATAA-TA
1 TATTAAATAATTA
12663761 TATT
1 TATT
12663765 TTTGTACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 4 0.17
12 5 0.21
13 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAAATAATTA
Found at i:12665326 original size:92 final size:92
Alignment explanation
Indices: 12665230--12665420 Score: 382
Period size: 92 Copynumber: 2.1 Consensus size: 92
12665220 ATGCACATAT
12665230 TTTGAAAACTATACATATTTTTTAACTAAATATGCATTTATTTTATCTTTTCTGTACATATGATA
1 TTTGAAAACTATACATATTTTTTAACTAAATATGCATTTATTTTATCTTTTCTGTACATATGATA
12665295 ATTGCATAAGATTATAATAGTATAATC
66 ATTGCATAAGATTATAATAGTATAATC
12665322 TTTGAAAACTATACATATTTTTTAACTAAATATGCATTTATTTTATCTTTTCTGTACATATGATA
1 TTTGAAAACTATACATATTTTTTAACTAAATATGCATTTATTTTATCTTTTCTGTACATATGATA
12665387 ATTGCATAAGATTATAATAGTATAATC
66 ATTGCATAAGATTATAATAGTATAATC
12665414 TTTGAAA
1 TTTGAAA
12665421 TTAAAGTTAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 99 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (92 bp):
TTTGAAAACTATACATATTTTTTAACTAAATATGCATTTATTTTATCTTTTCTGTACATATGATA
ATTGCATAAGATTATAATAGTATAATC
Found at i:12666431 original size:39 final size:42
Alignment explanation
Indices: 12666356--12666445 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
12666346 AGTACTATAC
*
12666356 TATTATTTTAATAATAAATAATAACATATATAATAATATTTT
1 TATTATTTTAATAATAAATAATAACATATATAATAATATTAT
* **
12666398 TATTATTTTAATAATTAATGTTAA-ATA-AT-ATAATATTAT
1 TATTATTTTAATAATAAATAATAACATATATAATAATATTAT
*
12666437 TATCATTTT
1 TATTATTTT
12666446 CTTAATATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 17 0.40
40 2 0.05
41 3 0.07
42 21 0.49
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (42 bp):
TATTATTTTAATAATAAATAATAACATATATAATAATATTAT
Found at i:12666624 original size:21 final size:20
Alignment explanation
Indices: 12666598--12666662 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
12666588 TTTCAACATA
12666598 AAATATAAATATTTTAATAAT
1 AAATAT-AATATTTTAATAAT
*
12666619 AAATATTATTATTTTAATATTAAT
1 AAATA-TAATATTTT-A-A-TAAT
*
12666643 AAA-ATAATATTTTAAGAAT
1 AAATATAATATTTTAATAAT
12666662 A
1 A
12666663 GTATTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 13 0.35
22 10 0.27
23 2 0.05
24 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATATAATATTTTAATAAT
Found at i:12666674 original size:42 final size:43
Alignment explanation
Indices: 12666605--12666690 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
12666595 ATAAAATATA
* *
12666605 AATATTTTAATAATAAATATTATTATTTT-AATATTAATAAAAT
1 AATATTTTAAGAATAAATATTACTATTTTAAATATT-ATAAAAT
* *
12666648 AATATTTTAAGAAT-AGTATTACTATTTTAAATATTTTAAAAT
1 AATATTTTAAGAATAAATATTACTATTTTAAATATTATAAAAT
12666690 A
1 A
12666691 TTAATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 19 0.50
43 19 0.50
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (43 bp):
AATATTTTAAGAATAAATATTACTATTTTAAATATTATAAAAT
Found at i:12666764 original size:13 final size:14
Alignment explanation
Indices: 12666743--12666781 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12666733 ATATAAATAT
*
12666743 AATAATATTATT-A
1 AATATTATTATTAA
12666756 AATATTATTATTAA
1 AATATTATTATTAA
*
12666770 AATATAATTATT
1 AATATTATTATT
12666782 CTTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:12666853 original size:26 final size:25
Alignment explanation
Indices: 12666790--12666853 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
12666780 TTCTTAAATA
12666790 TTAATAATTTT-AATAATAAATAATT
1 TTAAT-ATTTTAAATAATAAATAATT
* *
12666815 TCAATATACTTAAATAATAAATAACTT
1 TTAATAT-TTTAAATAATAAATAA-TT
12666842 TTAATATTTTAA
1 TTAATATTTTAA
12666854 TAGCTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 2 0.06
25 6 0.19
26 16 0.50
27 8 0.25
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAATATTTTAAATAATAAATAATT
Found at i:12666901 original size:16 final size:17
Alignment explanation
Indices: 12666870--12666904 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12666860 TATTTATATT
12666870 ATTTGAAAAAAGAAACA
1 ATTTGAAAAAAGAAACA
*
12666887 ATTTTAAAAAA-AAACA
1 ATTTGAAAAAAGAAACA
12666903 AT
1 AT
12666905 GAAATAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (17 bp):
ATTTGAAAAAAGAAACA
Found at i:12666994 original size:14 final size:14
Alignment explanation
Indices: 12666972--12667020 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
12666962 TCAAAAAATG
*
12666972 AAAACATTTTTTAA
1 AAAATATTTTTTAA
12666986 AAAATATTTTTTAA
1 AAAATATTTTTTAA
* * *
12667000 AACATCATTTTCTAC
1 AAAAT-ATTTTTTAA
12667015 AAAATA
1 AAAATA
12667021 AATAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATATTTTTTAA
Found at i:12667009 original size:15 final size:15
Alignment explanation
Indices: 12666972--12667010 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
12666962 TCAAAAAATG
12666972 AAAA-CATTTTTTAA
1 AAAATCATTTTTTAA
12666986 AAAAT-ATTTTTTAA
1 AAAATCATTTTTTAA
*
12667000 AACATCATTTT
1 AAAATCATTTT
12667011 CTACAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (15 bp):
AAAATCATTTTTTAA
Found at i:12669001 original size:21 final size:21
Alignment explanation
Indices: 12668964--12669007 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12668954 TACATGGTTA
* *
12668964 TTAACTAATTGTTCATATTTT
1 TTAACTAATTGTACATATGTT
12668985 TTAACTACA-TGTACATATGTT
1 TTAACTA-ATTGTACATATGTT
12669006 TT
1 TT
12669008 GTCTTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (21 bp):
TTAACTAATTGTACATATGTT
Found at i:12675495 original size:46 final size:46
Alignment explanation
Indices: 12675398--12675736 Score: 241
Period size: 46 Copynumber: 7.3 Consensus size: 46
12675388 TTTGTTTTGT
* * ** * * * *
12675398 GCTCTTTTCATTAAAGACTCGATAACTTGAGAAAATTAAATTCAAAT
1 GCTCTTCTCATTAGAGGTTCGACAACTTGA-AAAATTAAACTGAAAG
* * * *
12675445 GCTCTTCTCGTTAGAGGTTCGATAACTAGAAAAATTAAATTGAAAG
1 GCTCTTCTCATTAGAGGTTCGACAACTTGAAAAATTAAACTGAAAG
* * *
12675491 GCTCTTCTTATTAGAGGCTT-GACAATTTGAAAAATTAGACTGCAAA-
1 GCTCTTCTCATTAGAGG-TTCGACAACTTGAAAAATTAAACTG-AAAG
* * * * *
12675537 GCTCATCTCATTAGAGGTTGGACAACTTGGAAAATTGAACTAAAAG
1 GCTCTTCTCATTAGAGGTTCGACAACTTGAAAAATTAAACTGAAAG
* * ** * * *
12675583 GCTCCTATCATTAGAGGCACAACAACTTGAAAAACTAAACTGAAAA
1 GCTCTTCTCATTAGAGGTTCGACAACTTGAAAAATTAAACTGAAAG
* * * * * * *
12675629 GCTCTTTTAATTAGAGGCTCAATAACTTTAAAAATTAAACTAAAAG
1 GCTCTTCTCATTAGAGGTTCGACAACTTGAAAAATTAAACTGAAAG
* * ** * * * *
12675675 GCTTTTCTCATTATAGGTTATACAACTTTAAAAATCATACTGGAAG
1 GCTCTTCTCATTAGAGGTTCGACAACTTGAAAAATTAAACTGAAAG
* *
12675721 GCTTTTTTCATTAGAG
1 GCTCTTCTCATTAGAG
12675737 ATTTGATAAC
Statistics
Matches: 232, Mismatches: 56, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
45 5 0.02
46 198 0.85
47 29 0.12
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (46 bp):
GCTCTTCTCATTAGAGGTTCGACAACTTGAAAAATTAAACTGAAAG
Found at i:12675748 original size:46 final size:46
Alignment explanation
Indices: 12675650--12675749 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 46
12675640 TAGAGGCTCA
* * *
12675650 ATAACTTTAAAAATTAAACTAAAAGGCTTTTCTCATTATAGGTTAT
1 ATAACTTTAAAAATCAAACTAAAAGGCTTTTCTCATTAGAGATTAT
* * ** *
12675696 ACAACTTTAAAAATCATACTGGAAGGCTTTTTTCATTAGAGATT-T
1 ATAACTTTAAAAATCAAACTAAAAGGCTTTTCTCATTAGAGATTAT
12675741 GATAACTTT
1 -ATAACTTT
12675750 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (46 bp):
ATAACTTTAAAAATCAAACTAAAAGGCTTTTCTCATTAGAGATTAT
Found at i:12684154 original size:19 final size:20
Alignment explanation
Indices: 12684130--12684171 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
12684120 GCCTTTCCCT
*
12684130 TTTTTTACCATTTCTCTT-C
1 TTTTTTACCACTTCTCTTAC
12684149 TTTTTTACCACTTCTCTTAC
1 TTTTTTACCACTTCTCTTAC
12684169 TTT
1 TTT
12684172 CTTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTACCACTTCTCTTAC
Found at i:12686962 original size:3 final size:3
Alignment explanation
Indices: 12686956--12686981 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12686946 TATTATTATT
12686956 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
12686982 TATTTTTTTG
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:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:12692150 original size:21 final size:20
Alignment explanation
Indices: 12692126--12692169 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
12692116 GTGCTCATTG
* *
12692126 CTTTGATGATGTGACCATTAA
1 CTTTGATGACGT-AACATTAA
*
12692147 CTTTGCTGACGTAACATTAA
1 CTTTGATGACGTAACATTAA
12692167 CTT
1 CTT
12692170 GCTAACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTTGATGACGTAACATTAA
Found at i:12696887 original size:8 final size:8
Alignment explanation
Indices: 12696866--12696897 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12696856 ATATTAAAAA
12696866 AATATTTT
1 AATATTTT
12696874 --TATTTT
1 AATATTTT
12696880 AATATTTT
1 AATATTTT
12696888 AATATTTT
1 AATATTTT
12696896 AA
1 AA
12696898 ATATAGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
AATATTTT
Found at i:12697139 original size:16 final size:16
Alignment explanation
Indices: 12697120--12697162 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
12697110 ATCAGAAAAA
*
12697120 ATAATAATAAAGATAC
1 ATAAAAATAAAGATAC
* * *
12697136 ATAAAAATTAATATTC
1 ATAAAAATAAAGATAC
12697152 ATAAAAATAAA
1 ATAAAAATAAA
12697163 TTAAGAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (16 bp):
ATAAAAATAAAGATAC
Found at i:12699448 original size:30 final size:29
Alignment explanation
Indices: 12699379--12699474 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
12699369 TTTCATTAAG
* * * *
12699379 TTGAACCTTCAAATATTTATTTTCATCAAA
1 TTGAACTTTTAAATATTTATTTTTA-CTAA
12699409 TT-AAGCTTTTAAATATTTATTTTTACCTAA
1 TTGAA-CTTTTAAATATTTATTTTTA-CTAA
* * *
12699439 TTGAACTTTTAAACATATATATTTACTAAA
1 TTGAACTTTTAAATATTTATTTTTACT-AA
12699469 TTGAAC
1 TTGAAC
12699475 CCTGATTGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
29 4 0.07
30 49 0.89
31 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (29 bp):
TTGAACTTTTAAATATTTATTTTTACTAA
Found at i:12701492 original size:30 final size:30
Alignment explanation
Indices: 12701458--12701517 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
12701448 CAATTGAATT
* * *
12701458 CTTAAGCATTCATTTTGACCCAATTGAGCC
1 CTTAAACATTCATTTTCACCCAATTAAGCC
* *
12701488 CTTAAACATTTATTTTCACTCAATTAAGCC
1 CTTAAACATTCATTTTCACCCAATTAAGCC
12701518 ATTGATTGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
CTTAAACATTCATTTTCACCCAATTAAGCC
Found at i:12705099 original size:17 final size:17
Alignment explanation
Indices: 12705065--12705111 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
12705055 TCGCATGCAT
* **
12705065 AATCTCATGATATTCCA
1 AATCTCATGAAACCCCA
12705082 AATCTCATGAAACCCCA
1 AATCTCATGAAACCCCA
12705099 AAT-TCCATGAAAC
1 AATCT-CATGAAAC
12705112 ACTAAACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (17 bp):
AATCTCATGAAACCCCA
Found at i:12705153 original size:28 final size:32
Alignment explanation
Indices: 12705079--12705159 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 32
12705069 TCATGATATT
*
12705079 CCAAATCTCATGAAACCCCAAATTCCATGAAACA
1 CCAAA-CT-ATGAAACCCTAAATTCCATGAAACA
*
12705113 CTAAACTAT-AAACCCTAAA-TCC-T-AAACA
1 CCAAACTATGAAACCCTAAATTCCATGAAACA
*
12705141 CCAAACT-TGAAACCTTAAA
1 CCAAACTATGAAACCCTAAA
12705160 CCCTGAACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 1 0.02
28 20 0.48
29 1 0.02
30 3 0.07
31 9 0.21
32 2 0.05
33 2 0.05
34 4 0.10
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.20
Consensus pattern (32 bp):
CCAAACTATGAAACCCTAAATTCCATGAAACA
Found at i:12705401 original size:14 final size:14
Alignment explanation
Indices: 12705384--12705410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12705374 CATTTCATGC
12705384 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
12705398 ATATGTTTTCAAA
1 ATATGTTTTCAAA
12705411 GTAAAAATGT
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:12706213 original size:9 final size:9
Alignment explanation
Indices: 12706201--12706238 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
12706191 TAAAAATATG
12706201 AAAAATGAA
1 AAAAATGAA
*
12706210 AAAAATAAA
1 AAAAATGAA
12706219 AAAAATGTAA
1 AAAAATG-AA
12706229 AAAAAT-AA
1 AAAAATGAA
12706237 AA
1 AA
12706239 TACAAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.15
9 14 0.54
10 8 0.31
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (9 bp):
AAAAATGAA
Found at i:12706223 original size:19 final size:19
Alignment explanation
Indices: 12706201--12706238 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
12706191 TAAAAATATG
12706201 AAAAATG-AAAAAAATAAA
1 AAAAATGTAAAAAAATAAA
12706219 AAAAATGTAAAAAAATAAA
1 AAAAATGTAAAAAAATAAA
12706238 A
1 A
12706239 TACAAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAAATGTAAAAAAATAAA
Found at i:12706305 original size:24 final size:25
Alignment explanation
Indices: 12706257--12706311 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
12706247 GTGTGTTTTA
12706257 CATTTAATGCATATTTTAATCATGT
1 CATTTAATGCATATTTTAATCATGT
*
12706282 CATTTCATGCATA-TTTAAGT-ATGT
1 CATTTAATGCATATTTTAA-TCATGT
12706306 CATTTA
1 CATTTA
12706312 TTATATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (25 bp):
CATTTAATGCATATTTTAATCATGT
Found at i:12707261 original size:37 final size:37
Alignment explanation
Indices: 12707211--12707440 Score: 153
Period size: 37 Copynumber: 6.3 Consensus size: 37
12707201 GAAAATAATA
* *
12707211 AAATAGTAGATGCATTTCATCTCATGCACATCTCAAT
1 AAATAGTACATGCATTCCATCTCATGCACATCTCAAT
* **
12707248 AGATAGTACATGCATTCCATCTCATATACA--TCAAT
1 AAATAGTACATGCATTCCATCTCATGCACATCTCAAT
** * * *
12707283 AAATAGTACATGCATTCCATCTCACCCATATTTTAAT
1 AAATAGTACATGCATTCCATCTCATGCACATCTCAAT
* * * * ** *
12707320 ATATAATACATGTACTCCCGCT-ATGCACATCTGAAT
1 AAATAGTACATGCATTCCATCTCATGCACATCTCAAT
** ** ** * *
12707356 AGGTAGTACATATATTTTATTTAATGCACATCTCAAT
1 AAATAGTACATGCATTCCATCTCATGCACATCTCAAT
* * ** *
12707393 AATTAGTACATACACGCCATTTCATGCACATC-CTAAT
1 AAATAGTACATGCATTCCATCTCATGCACATCTC-AAT
12707430 AAATAGTACAT
1 AAATAGTACAT
12707441 TCACTCTATC
Statistics
Matches: 147, Mismatches: 42, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
35 30 0.20
36 22 0.15
37 95 0.65
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (37 bp):
AAATAGTACATGCATTCCATCTCATGCACATCTCAAT
Found at i:12707289 original size:35 final size:36
Alignment explanation
Indices: 12707211--12707306 Score: 131
Period size: 35 Copynumber: 2.7 Consensus size: 36
12707201 GAAAATAATA
* * *
12707211 AAATAGTAGATGCATTTCATCTCATGCACATCTCAAT
1 AAATAGTACATGCATTCCATCTCATACACA-CTCAAT
* *
12707248 AGATAGTACATGCATTCCATCTCATATACA-TCAAT
1 AAATAGTACATGCATTCCATCTCATACACACTCAAT
12707283 AAATAGTACATGCATTCCATCTCA
1 AAATAGTACATGCATTCCATCTCA
12707307 CCCATATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 28 0.53
37 25 0.47
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (36 bp):
AAATAGTACATGCATTCCATCTCATACACACTCAAT
Found at i:12709016 original size:14 final size:14
Alignment explanation
Indices: 12708997--12709082 Score: 59
Period size: 14 Copynumber: 5.8 Consensus size: 14
12708987 ACTTAATCAG
12708997 TAAAATAAAATACA
1 TAAAATAAAATACA
*
12709011 TAAAATAGTAAAAAATCA
1 T-AAA-A-TAAAATA-CA
*
12709029 GTAAAATAAAATGCA
1 -TAAAATAAAATACA
*
12709044 TAAAATAAAA-AAA
1 TAAAATAAAATACA
12709057 TAGAAATCAAAAT-CA
1 TA-AAAT-AAAATACA
*
12709072 AAAAATAAAAT
1 TAAAATAAAAT
12709083 TAAAATAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
13 8 0.14
14 19 0.33
15 11 0.19
16 6 0.11
17 7 0.12
18 5 0.09
19 1 0.02
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.20
Consensus pattern (14 bp):
TAAAATAAAATACA
Found at i:12709028 original size:33 final size:31
Alignment explanation
Indices: 12708991--12709081 Score: 109
Period size: 33 Copynumber: 3.0 Consensus size: 31
12708981 TAAGTTACTT
12708991 AATCAGTAAAATAAAATACATAAAATAGTAAAA
1 AATCAGTAAAATAAAATACATAAAATA--AAAA
*
12709024 AATCAGTAAAATAAAATGCATAAAATAAAAA
1 AATCAGTAAAATAAAATACATAAAATAAAAA
*
12709055 AAT-AG--AAATCAAAAT-CAAAAAATAAAA
1 AATCAGTAAAAT-AAAATACATAAAATAAAA
12709082 TTAAAATAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
28 15 0.27
29 5 0.09
30 2 0.04
31 7 0.13
33 26 0.47
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (31 bp):
AATCAGTAAAATAAAATACATAAAATAAAAA
Found at i:12709077 original size:42 final size:42
Alignment explanation
Indices: 12709001--12709082 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
12708991 AATCAGTAAA
* * *
12709001 ATAAAATACATAAAATAGTAAAAAATCAGTAAAATAAAATGC
1 ATAAAATACAAAAAATAGAAAAAAATCAGAAAAATAAAATGC
12709043 ATAAAATA-AAAAAATAGAAATCAAAATCA-AAAAATAAAAT
1 ATAAAATACAAAAAATAGAAA--AAAATCAGAAAAATAAAAT
12709083 TAAAATAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 10 0.29
42 18 0.51
43 7 0.20
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.20
Consensus pattern (42 bp):
ATAAAATACAAAAAATAGAAAAAAATCAGAAAAATAAAATGC
Found at i:12709082 original size:19 final size:19
Alignment explanation
Indices: 12709031--12709100 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
12709021 AAAAATCAGT
12709031 AAAATAAAATGCATAAAATAAA
1 AAAATAAAAT-C--AAAATAAA
*
12709053 AAAATAGAAATCAAAATCAA
1 AAAATA-AAATCAAAATAAA
* *
12709073 AAAATAAAATTAAAATAGA
1 AAAATAAAATCAAAATAAA
*
12709092 AAAAGAAAA
1 AAAATAAAA
12709101 AGAAAAACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 18 0.43
20 13 0.31
22 7 0.17
23 4 0.10
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAATAAAATCAAAATAAA
Found at i:12709561 original size:41 final size:41
Alignment explanation
Indices: 12709513--12709599 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
12709503 AACCTTCTAG
* * *
12709513 AACTTC-AATCCAAACTACAGAAATCTAAATCCAAA-CCTAAA
1 AACTTCAAAT-CAAAC-ACAAAAATCAAAATCAAAATCCTAAA
*
12709554 AACTTCAAATCAAACCCAAAAATCAAAATCAAAATCCTAAA
1 AACTTCAAATCAAACACAAAAATCAAAATCAAAATCCTAAA
12709595 AACTT
1 AACTT
12709600 TACTGCTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 15 0.38
41 22 0.55
42 3 0.08
ACGTcount: A:0.54, C:0.25, G:0.01, T:0.20
Consensus pattern (41 bp):
AACTTCAAATCAAACACAAAAATCAAAATCAAAATCCTAAA
Found at i:12709569 original size:20 final size:21
Alignment explanation
Indices: 12709539--12709599 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
12709529 ACAGAAATCT
12709539 AAATCCAAACCTAAAAACTTC-
1 AAAT-CAAACCTAAAAACTTCA
*
12709560 AAATCAAACCCAAAAA--TCA
1 AAATCAAACCTAAAAACTTCA
12709579 AAATCAAAATCCTAAAAACTT
1 AAATC-AAA-CCTAAAAACTT
12709600 TACTGCTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 14 0.42
21 11 0.33
23 1 0.03
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATCAAACCTAAAAACTTCA
Found at i:12709582 original size:19 final size:18
Alignment explanation
Indices: 12709533--12709586 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 18
12709523 CAAACTACAG
*
12709533 AAATCTAAATCCAAACCTAA
1 AAATC-AAAT-CAAACCCAA
12709553 AAACTTCAAATCAAACCCAA
1 AAA--TCAAATCAAACCCAA
12709573 AAATCAAAATCAAA
1 AAATC-AAATCAAA
12709587 ATCCTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 8 0.27
20 14 0.47
21 4 0.13
22 2 0.07
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATCAAATCAAACCCAA
Found at i:12709933 original size:3 final size:3
Alignment explanation
Indices: 12709925--12710114 Score: 82
Period size: 3 Copynumber: 67.3 Consensus size: 3
12709915 AAAGCTAAAG
* * * *
12709925 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
12709973 AGT AGT AGT AGT -AT AGT AGT AGT AAT -GT AAT -AT ACT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
12710017 AAT -AT AAT -AT GAC AAT -AT AAT AAT AAT -AT AAT -AT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12710059 GAT -AT GAT AGT -AT AAT AAT AAT AA- AAT AAT ATAT CAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
**
12710102 GCT AAT AAT AAT A
1 AAT AAT AAT AAT A
12710115 GTAAAGACAA
Statistics
Matches: 151, Mismatches: 22, Indels: 28
0.75 0.11 0.14
Matches are distributed among these distances:
2 22 0.15
3 127 0.84
4 2 0.01
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:12709957 original size:24 final size:23
Alignment explanation
Indices: 12709925--12710114 Score: 96
Period size: 21 Copynumber: 8.6 Consensus size: 23
12709915 AAAGCTAAAG
12709925 AATAATAATAATAATAATAATAAT
1 AATAATAATAAT-ATAATAATAAT
* * *
12709949 AATAATAATAATAGTAGTAGTAGT
1 AATAATAATAATA-TAATAATAAT
* * * * * * *
12709973 AGTAGTAGTAGTATAGTAGTAGT
1 AATAATAATAATATAATAATAAT
*
12709996 AAT-GTAAT-ATACT-ATAATAAT
1 AATAATAATAATA-TAATAATAAT
*
12710017 AAT-ATAAT-ATGACAAT-ATAAT
1 AATAATAATAAT-ATAATAATAAT
12710038 AATAAT-ATAATATAATAAT-AT
1 AATAATAATAATATAATAATAAT
* * *
12710059 GAT-ATGATAGTATAATAATAAT
1 AATAATAATAATATAATAATAAT
* *
12710081 AA-AATAAT-ATATCATACTAAT
1 AATAATAATAATATAATAATAAT
**
12710102 GCTAATAATAATA
1 AATAATAATAATA
12710115 GTAAAGACAA
Statistics
Matches: 129, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
20 2 0.02
21 56 0.43
22 27 0.21
23 16 0.12
24 28 0.22
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.35
Consensus pattern (23 bp):
AATAATAATAATATAATAATAAT
Found at i:12710023 original size:5 final size:5
Alignment explanation
Indices: 12709995--12710091 Score: 58
Period size: 5 Copynumber: 18.4 Consensus size: 5
12709985 ATAGTAGTAG
* *
12709995 TAATG TAATA TACTA TAATAA TAATA TAATA TGACAATA TAATAA TAATA
1 TAATA TAATA TAATA TAAT-A TAATA TAATA T---AATA TAAT-A TAATA
*
12710045 TAATA T-A-A TAATA TGATATGA TAGTA TAATAA TAATA -AA-A TAATA
1 TAATA TAATA TAATA T-A-AT-A TAATA TAAT-A TAATA TAATA TAATA
12710090 TA
1 TA
12710092 TCATACTAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
3 3 0.04
4 6 0.08
5 38 0.51
6 17 0.23
7 3 0.04
8 7 0.09
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:12710033 original size:13 final size:13
Alignment explanation
Indices: 12710015--12710090 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
12710005 TACTATAATA
12710015 ATAATATAATATG
1 ATAATATAATATG
*
12710028 ACAATATAATA--
1 ATAATATAATATG
*
12710039 ATAATATAATATA
1 ATAATATAATATG
*
12710052 ATAATATGATATG
1 ATAATATAATATG
* *
12710065 ATAGTATAATAATA
1 ATAATATAAT-ATG
*
12710079 ATAAAATAATAT
1 ATAATATAATAT
12710091 ATCATACTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 10 0.20
13 31 0.61
14 10 0.20
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (13 bp):
ATAATATAATATG
Found at i:12710053 original size:37 final size:35
Alignment explanation
Indices: 12710011--12710089 Score: 113
Period size: 37 Copynumber: 2.2 Consensus size: 35
12710001 AATATACTAT
12710011 AATAATAATATAATATGACAATATAATAATAATATA
1 AATAATAATATAATATGACAATATAATAATAATA-A
* * *
12710047 ATATAATAATATGATATGATAGTATAATAATAATAA
1 A-ATAATAATATAATATGACAATATAATAATAATAA
12710083 AATAATA
1 AATAATA
12710090 TATCATACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 6 0.15
36 3 0.08
37 30 0.77
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (35 bp):
AATAATAATATAATATGACAATATAATAATAATAA
Found at i:12710587 original size:55 final size:55
Alignment explanation
Indices: 12710493--12710644 Score: 164
Period size: 55 Copynumber: 2.8 Consensus size: 55
12710483 TAACCAAGAC
* * * ** *
12710493 GAAACTACAAGTTTGGGAAATGATCTGAACTAAACCAAGATAGGATGACTAG-GAT
1 GAAACCACAAGTTTGGAAAATGATCTGGACTAAGTCAAGATAGGATGAC-AGAAAT
* * * *
12710548 GAAACCACAAGTTTGGAAAATGATCTGGATTGAGTCAAGATTGGATGACCGAAAT
1 GAAACCACAAGTTTGGAAAATGATCTGGACTAAGTCAAGATAGGATGACAGAAAT
* *
12710603 -AGAATCACAAGTTTGAAAAATGATCTGGACTAAGTCAAGATA
1 GA-AACCACAAGTTTGGAAAATGATCTGGACTAAGTCAAGATA
12710645 AAAAATGAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 2 0.03
55 78 0.98
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (55 bp):
GAAACCACAAGTTTGGAAAATGATCTGGACTAAGTCAAGATAGGATGACAGAAAT
Found at i:12716668 original size:3 final size:3
Alignment explanation
Indices: 12716662--12716696 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
12716652 AGTAGTAGTA
*
12716662 GTG GTG GTG GTG GTG GTG GTG GTG ATG GTG GTG GT
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GT
12716697 AGTAGTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.34
Consensus pattern (3 bp):
GTG
Found at i:12716701 original size:3 final size:3
Alignment explanation
Indices: 12716695--12716723 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12716685 GATGGTGGTG
12716695 GTA GTA GTA GTA GTA GTA GTA -TA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
12716724 ATGTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
GTA
Found at i:12716738 original size:5 final size:5
Alignment explanation
Indices: 12716722--12716876 Score: 107
Period size: 5 Copynumber: 29.4 Consensus size: 5
12716712 AGTATAGTAG
* * * *
12716722 TAATG TAATA TACTA TAATAA TAATA TAATA TACTA TAATG TAATA TAATAA
1 TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAAT-A
* * * * *
12716774 TAATAA TAGTAA TAATAA TAAGA TACTA TAATA CAATA TGATA -ATATAA
1 TAAT-A TAAT-A TAAT-A TAATA TAATA TAATA TAATA TAATA TA-AT-A
* *
12716823 TAATA TAATA TAATA TAATA TAATA -ATATGA TAAAA TAATAA TAAAA
1 TAATA TAATA TAATA TAATA TAATA TA-AT-A TAATA TAAT-A TAATA
12716870 TAATA TA
1 TAATA TA
12716877 TCATACTAAT
Statistics
Matches: 120, Mismatches: 21, Indels: 18
0.75 0.13 0.11
Matches are distributed among these distances:
4 1 0.01
5 83 0.69
6 34 0.28
7 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:12716742 original size:3 final size:3
Alignment explanation
Indices: 12716736--12716899 Score: 92
Period size: 3 Copynumber: 60.0 Consensus size: 3
12716726 GTAATATACT
* *
12716736 ATA ATA ATA AT- ATA AT- ATA CT- ATA AT- GTA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
12716779 ATA GTA ATA ATA ATA A-G ATA CT- ATA AT- ACA AT- ATG ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
12716822 ATA AT- ATA AT- ATA AT- ATA AT- ATA ATA AT- ATG ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
12716864 ATA A-A ATA ATA TATC ATA CTA ATG CTA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
12716900 GTAAAGATAA
Statistics
Matches: 121, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
2 29 0.24
3 90 0.74
4 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:12716752 original size:8 final size:8
Alignment explanation
Indices: 12716739--12716876 Score: 111
Period size: 8 Copynumber: 16.4 Consensus size: 8
12716729 ATATACTATA
12716739 ATAATAAT
1 ATAATAAT
12716747 ATAATATACT
1 ATAATA-A-T
12716757 ATAATGTAAT
1 ATAA--TAAT
12716767 ATAATAAT
1 ATAATAAT
*
12716775 AATAATAGT
1 -ATAATAAT
12716784 AATAATAAT
1 -ATAATAAT
*
12716793 A-AGATACT
1 ATA-ATAAT
12716801 ATAATACAAT
1 ATAAT--AAT
*
12716811 ATGATAAT
1 ATAATAAT
12716819 ATAATAAT
1 ATAATAAT
12716827 ATAAT-AT
1 ATAATAAT
12716834 A-ATATAAT
1 ATA-ATAAT
12716842 ATAATAAT
1 ATAATAAT
* *
12716850 ATGATAAA
1 ATAATAAT
12716858 ATAATAAT
1 ATAATAAT
*
12716866 AAAATAAT
1 ATAATAAT
12716874 ATA
1 ATA
12716877 TCATACTAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
6 1 0.01
7 6 0.06
8 62 0.58
9 18 0.17
10 16 0.15
11 1 0.01
12 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:12716817 original size:13 final size:13
Alignment explanation
Indices: 12716742--12716875 Score: 71
Period size: 13 Copynumber: 9.9 Consensus size: 13
12716732 TACTATAATA
*
12716742 ATAATATAATATACT
1 ATAATATAATAT--G
* *
12716757 ATAATGTAATATA
1 ATAATATAATATG
*
12716770 ATAATAATAATAGTA
1 ATAAT-ATAATA-TG
12716785 ATAATAATAAGATACT-
1 ATAAT-AT-A-ATA-TG
*
12716801 ATAATACAATATG
1 ATAATATAATATG
12716814 ATAATATAATAAT-
1 ATAATATAAT-ATG
*
12716827 ATAATATAATATA
1 ATAATATAATATG
12716840 AT-ATAATAATATG
1 ATAAT-ATAATATG
*
12716853 ATAAAATAATA--
1 ATAATATAATATG
*
12716864 ATAAAATAATAT
1 ATAATATAATAT
12716876 ATCATACTAA
Statistics
Matches: 101, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
11 11 0.11
12 5 0.05
13 44 0.44
14 9 0.09
15 22 0.22
16 6 0.06
17 4 0.04
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (13 bp):
ATAATATAATATG
Found at i:12718213 original size:10 final size:9
Alignment explanation
Indices: 12718176--12718221 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
12718166 AAAAATTCTT
12718176 TAAAAAAAA
1 TAAAAAAAA
12718185 TAAGAGAAGAAA
1 TAA-A-AA-AAA
*
12718197 GAAAAAAAA
1 TAAAAAAAA
12718206 TAAAAAAAA
1 TAAAAAAAA
12718215 TAAAAAA
1 TAAAAAA
12718222 GGTTATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 21 0.66
10 3 0.09
11 3 0.09
12 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:12719423 original size:18 final size:17
Alignment explanation
Indices: 12719371--12719427 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
12719361 TGAAAGAAAG
* *
12719371 AGAAAATAAGGAA-AAA
1 AGAAAAAAAAGAACAAA
* **
12719387 AGAAAAAAATGAATGAA
1 AGAAAAAAAAGAACAAA
12719404 AGAAAAAAAAGAAACAAA
1 AGAAAAAAAAG-AACAAA
12719422 AGAAAA
1 AGAAAA
12719428 TAAGCAGAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 11 0.33
17 12 0.36
18 10 0.30
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (17 bp):
AGAAAAAAAAGAACAAA
Found at i:12719423 original size:35 final size:35
Alignment explanation
Indices: 12719361--12719453 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
12719351 AAAAAAAGGG
* *
12719361 TGAAAGAAAGAGAAAATAAGGAAAAAAGAAAAAAA
1 TGAAAGAAAGAGAAAAAAAGAAAAAAAGAAAAAAA
* *
12719396 TGAATGAAAGA-AAAAAAAGAAACAAAAGAAAATAA
1 TGAAAGAAAGAGAAAAAAAGAAA-AAAAGAAAAAAA
* *
12719431 -G-CAG-AAGAAAAAAAAAGAAAAAA
1 TGAAAGAAAGAGAAAAAAAGAAAAAA
12719454 TGAATATTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.14
33 12 0.24
34 10 0.20
35 21 0.42
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.05
Consensus pattern (35 bp):
TGAAAGAAAGAGAAAAAAAGAAAAAAAGAAAAAAA
Found at i:12719427 original size:17 final size:15
Alignment explanation
Indices: 12719371--12719453 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 15
12719361 TGAAAGAAAG
*
12719371 AGAAAATAAGGAAAAA
1 AGAAAA-AAAGAAAAA
*
12719387 AGAAAAAAATGAATGAA
1 AGAAAAAAA-GAA-AAA
12719404 AGAAAAAAAAGAAACAAA
1 AG-AAAAAAAG-AA-AAA
* *
12719422 AGAAAATAAGCAGAAGA
1 AGAAAAAAAG-A-AAAA
12719439 A-AAAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
12719453 A
1 A
12719454 TGAATATTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 4 0.08
15 3 0.06
16 16 0.30
17 16 0.30
18 14 0.26
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (15 bp):
AGAAAAAAAGAAAAA
Found at i:12721134 original size:34 final size:32
Alignment explanation
Indices: 12721096--12721175 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 32
12721086 GTCCTCTTTA
*
12721096 GTGGTGATATCCGAAGTCATTTGAATTATT-TTCG
1 GTGGTGATATCCGAAGTCATTT--ATT-TTAATCG
*
12721130 GTGGTGATAGT-CAAAGTCATTTATTTTAATCG
1 GTGGTGATA-TCCGAAGTCATTTATTTTAATCG
*
12721162 ATGGTGATATCCGA
1 GTGGTGATATCCGA
12721176 GCCCTCTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
31 3 0.08
32 16 0.41
34 19 0.49
35 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (32 bp):
GTGGTGATATCCGAAGTCATTTATTTTAATCG
Found at i:12721438 original size:32 final size:32
Alignment explanation
Indices: 12721364--12721444 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
12721354 AGTCCCTTTT
* *
12721364 AGTGG-TATATCCAAAGTTGTTTGTTTTGTTC
1 AGTGGCTATATCTAAAGTTGTTTGTTTTCTTC
*
12721395 AGTGGCGATATCTAAAGTTGTTTGTTTTCTTC
1 AGTGGCTATATCTAAAGTTGTTTGTTTTCTTC
*
12721427 -GATGGTTATATCTAAAGT
1 AG-TGGCTATATCTAAAGT
12721445 CATTCAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.14
32 37 0.86
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (32 bp):
AGTGGCTATATCTAAAGTTGTTTGTTTTCTTC
Found at i:12721708 original size:24 final size:24
Alignment explanation
Indices: 12721667--12721713 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
12721657 CGAAGTCGTT
* *
12721667 TAAGTTATCTTTGGTGGTGATATC
1 TAAGTTATATTCGGTGGTGATATC
*
12721691 TAAGTTATATTCGTTGGTGATAT
1 TAAGTTATATTCGGTGGTGATAT
12721714 TCGAGGTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.47
Consensus pattern (24 bp):
TAAGTTATATTCGGTGGTGATATC
Found at i:12721838 original size:57 final size:57
Alignment explanation
Indices: 12721700--12721839 Score: 131
Period size: 57 Copynumber: 2.5 Consensus size: 57
12721690 CTAAGTTATA
* * ** * *
12721700 TTCGTTGGTGATATTCGAGGTCATTTGTTTTTACTCAATGGTGATATCTGAGTCTCT
1 TTCGATGGTGATATTCGAAGTCATTTGTTTTTACTCAATGAAGATATCTAAGTCTCC
* *** * * *
12721757 TTTGGCAGTGATATTTGATA-TCATTTTTTTTTACTCAGTGAAGATATCTAAGTAC-CC
1 TTCGATGGTGATATTCGA-AGTCATTTGTTTTTACTCAATGAAGATATCTAAGT-CTCC
12721814 TTCGATGGTGATATTCGAAGTCATTT
1 TTCGATGGTGATATTCGAAGTCATTT
12721840 ATATTTTTTT
Statistics
Matches: 63, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
56 1 0.02
57 61 0.97
58 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (57 bp):
TTCGATGGTGATATTCGAAGTCATTTGTTTTTACTCAATGAAGATATCTAAGTCTCC
Found at i:12721937 original size:79 final size:79
Alignment explanation
Indices: 12721852--12722018 Score: 189
Period size: 78 Copynumber: 2.1 Consensus size: 79
12721842 ATTTTTTTGG
* ***
12721852 TGGTGATATCCGAA-TATAC-AAGTCTAAATTTACAAT-TTTTCTTTGGTGGTGATATCCAAAGA
1 TGGTGATATCCGAAGTAT-CTAAGTCTAAATCTAC-ATCTTTT-TTCAATGGTGATATCCAAAGA
* *
12721914 TATCTGCATCTACTCGA
63 TATCTACATCCACTCGA
* * *
12721931 TGGTGATAT-CTAAGTATCTAAGTCTAAATCTACATCTTTTTTCAATGGTGATATTCGAAGATAT
1 TGGTGATATCCGAAGTATCTAAGTCTAAATCTACATCTTTTTTCAATGGTGATATCCAAAGATAT
*
12721995 CTACCTCCACTCGA
66 CTACATCCACTCGA
12722009 TGGTGATATC
1 TGGTGATATC
12722019 TGAGTCCTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 45 0.61
79 29 0.39
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (79 bp):
TGGTGATATCCGAAGTATCTAAGTCTAAATCTACATCTTTTTTCAATGGTGATATCCAAAGATAT
CTACATCCACTCGA
Found at i:12722781 original size:18 final size:18
Alignment explanation
Indices: 12722758--12722795 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
12722748 AAAAATACCT
12722758 TTAAGGGTATTTTTGTAA
1 TTAAGGGTATTTTTGTAA
12722776 TTAAGGGTATTTTTGTAA
1 TTAAGGGTATTTTTGTAA
12722794 TT
1 TT
12722796 TATCATTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (18 bp):
TTAAGGGTATTTTTGTAA
Found at i:12726735 original size:33 final size:32
Alignment explanation
Indices: 12726698--12726827 Score: 102
Period size: 33 Copynumber: 3.9 Consensus size: 32
12726688 AAAGCTTCCC
* *
12726698 AAAATGTAAATTCAAAAGTTATGAAAGCTTTTG
1 AAAATGCAAATTCAAAAGTTTTGAAAG-TTTTG
* * *
12726731 AAAATGCAAATCCAAAAATTTTTAAAGTTTCT-
1 AAAATGCAAATTCAAAAGTTTTGAAAGTTT-TG
* **
12726763 AGAAATACAAATTCAAAAGGTTTCAAAAGGTTTTG
1 A-AAATGCAAATTCAAAA-GTTTTGAAA-GTTTTG
* *
12726798 -AAATGTATATTCAAAAGCTTTTGAAAGTTT
1 AAAATGCAAATTCAAAAG-TTTTGAAAGTTT
12726828 CTAGAGATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
32 9 0.12
33 56 0.74
34 7 0.09
35 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (32 bp):
AAAATGCAAATTCAAAAGTTTTGAAAGTTTTG
Found at i:12726802 original size:66 final size:67
Alignment explanation
Indices: 12726705--12726832 Score: 154
Period size: 67 Copynumber: 1.9 Consensus size: 67
12726695 CCCAAAATGT
* *
12726705 AAATTCAAAAGTTATGAAAGCTTTTGAAAATGCAAATCCAAAA-ATTTTTAAAGTTTCTAGAAAT
1 AAATTCAAAAGTTATAAAAGCTTTTGAAAATGCAAATCCAAAAGATTTTGAAAGTTTCTAGAAAT
12726769 AC
66 AC
* * * * *
12726771 AAATTCAAAAGGTT-TCAAAAGGTTTTG-AAATGTATATTCAAAAGCTTTTGAAAGTTTCTAGA
1 AAATTCAAAA-GTTAT-AAAAGCTTTTGAAAATGCAAATCCAAAAGATTTTGAAAGTTTCTAGA
12726833 GATTTATATC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 24 0.46
67 28 0.54
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (67 bp):
AAATTCAAAAGTTATAAAAGCTTTTGAAAATGCAAATCCAAAAGATTTTGAAAGTTTCTAGAAAT
AC
Found at i:12727852 original size:18 final size:19
Alignment explanation
Indices: 12727806--12727861 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
12727796 TTCAAAGTTT
*
12727806 GGTTTTAGGGTTTGGGA-TA
1 GGTTTTAGGGTTT-AGATTA
12727825 -GTTTTAGGGTTTAGATTA
1 GGTTTTAGGGTTTAGATTA
*
12727843 GGTTTT-GGGTTTAGTTTA
1 GGTTTTAGGGTTTAGATTA
12727861 G
1 G
12727862 CATTTGGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 2 0.06
18 26 0.79
19 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (19 bp):
GGTTTTAGGGTTTAGATTA
Found at i:12727867 original size:18 final size:18
Alignment explanation
Indices: 12727831--12727877 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12727821 GATAGTTTTA
* **
12727831 GGGTTTAGATTAGGTTTT
1 GGGTTTAGTTTAGCATTT
12727849 GGGTTTAGTTTAGCATTT
1 GGGTTTAGTTTAGCATTT
*
12727867 GGGGTTAGTTT
1 GGGTTTAGTTT
12727878 GAGGTCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (18 bp):
GGGTTTAGTTTAGCATTT
Found at i:12727984 original size:27 final size:27
Alignment explanation
Indices: 12727939--12728010 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
12727929 TTAGGGTTTG
* *
12727939 GGATTT-GGTTTATAGTTTATGGTTTA
1 GGATTTAGGTTTATAGTTTAAGATTTA
*
12727965 TGATTTAGGTTTA-AGATTTAAGATTTA
1 GGATTTAGGTTTATAG-TTTAAGATTTA
* *
12727992 GGGTTTAGGTTTAGAGTTT
1 GGATTTAGGTTTATAGTTT
12728011 GAGGTTTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 7 0.18
27 29 0.76
28 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (27 bp):
GGATTTAGGTTTATAGTTTAAGATTTA
Found at i:12728004 original size:6 final size:6
Alignment explanation
Indices: 12727953--12728117 Score: 52
Period size: 7 Copynumber: 25.7 Consensus size: 6
12727943 TTGGTTTATA
* * *
12727953 GTTTATG GTTTATG ATTTAG GTTTAAG ATTTAAG ATTTAGG GTTTAG GTTTAG
1 GTTTA-G GTTTA-G GTTTAG GTTT-AG GTTT-AG GTTTA-G GTTTAG GTTTAG
* *
12728006 AGTTTGAG GTTTA- -TATTAGG GTTTAG AGTTT-G ATTTAAA GTTTGAG
1 -GTTT-AG GTTTAG GT-TTA-G GTTTAG -GTTTAG GTTT-AG GTTT-AG
* * * * * *
12728052 ATTTA- GTTTAA GTTTAAG GTTAAG ATTCAG GTTTAG GTTTAG AGTTCGAG
1 GTTTAG GTTTAG GTTT-AG GTTTAG GTTTAG GTTTAG GTTTAG -GTT-TAG
12728102 GTTTAGG GTTT-G GTTT
1 GTTTA-G GTTTAG GTTT
12728118 TGGGGTTTAG
Statistics
Matches: 123, Mismatches: 19, Indels: 34
0.70 0.11 0.19
Matches are distributed among these distances:
4 1 0.01
5 15 0.12
6 37 0.30
7 65 0.53
8 5 0.04
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (6 bp):
GTTTAG
Found at i:12728004 original size:20 final size:19
Alignment explanation
Indices: 12727953--12728018 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
12727943 TTGGTTTATA
*
12727953 GTTTATGGTTTATGATTTAG
1 GTTTA-GGTTTAAGATTTAG
*
12727973 GTTTAAGATTTAAGATTTAGG
1 GTTT-AGGTTTAAGATTTA-G
12727994 GTTTAGGTTT-AGAGTTTGAG
1 GTTTAGGTTTAAGA-TTT-AG
12728014 GTTTA
1 GTTTA
12728019 TATTAGGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.08
20 29 0.74
21 7 0.18
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (19 bp):
GTTTAGGTTTAAGATTTAG
Found at i:12728105 original size:20 final size:18
Alignment explanation
Indices: 12728063--12728108 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
12728053 TTTAGTTTAA
12728063 GTTTAAGGTTAAGATTCAG
1 GTTT-AGGTTAAGATTCAG
*
12728082 GTTTAGGTTTAGAGTTCGAG
1 GTTTAGGTTAAGA-TTC-AG
12728102 GTTTAGG
1 GTTTAGG
12728109 GTTTGGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
19 7 0.29
20 9 0.38
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.39
Consensus pattern (18 bp):
GTTTAGGTTAAGATTCAG
Found at i:12741944 original size:32 final size:32
Alignment explanation
Indices: 12741908--12741983 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
12741898 TCAAGGTTTT
12741908 AATTGGACTAAGACTCTTTAGGTAT-GAATTTC
1 AATTGGACTAAGACTCTTT-GGTATAGAATTTC
* ** *
12741940 AATTGGAGTGGGACTCTTTGGTATAAGAGTTTC
1 AATTGGACTAAGACTCTTTGGTAT-AGAATTTC
*
12741973 AATTAGACTAA
1 AATTGGACTAA
12741984 AACATCTTGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
31 5 0.15
32 16 0.47
33 13 0.38
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (32 bp):
AATTGGACTAAGACTCTTTGGTATAGAATTTC
Found at i:12747678 original size:9 final size:9
Alignment explanation
Indices: 12747661--12747707 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
12747651 TTTAATTATT
12747661 ATTATCAAA
1 ATTATCAAA
*
12747670 ATTAACAAAA
1 ATTATC-AAA
12747680 ATTATCAAA
1 ATTATCAAA
*
12747689 ATTAACAAA
1 ATTATCAAA
12747698 ATTATCAAA
1 ATTATCAAA
12747707 A
1 A
12747708 ATTTTATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (9 bp):
ATTATCAAA
Found at i:12747710 original size:19 final size:19
Alignment explanation
Indices: 12747661--12747707 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
12747651 TTTAATTATT
12747661 ATTATCAAAATTAACAAAA
1 ATTATCAAAATTAACAAAA
12747680 ATTATCAAAATTAAC-AAA
1 ATTATCAAAATTAACAAAA
12747698 ATTATCAAAA
1 ATTATCAAAA
12747708 ATTTTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (19 bp):
ATTATCAAAATTAACAAAA
Found at i:12748769 original size:16 final size:16
Alignment explanation
Indices: 12748744--12748774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12748734 CGGATTAGAA
12748744 AAGAAAAGAAAAAAAG
1 AAGAAAAGAAAAAAAG
*
12748760 AAGAAGAGAAAAAAA
1 AAGAAAAGAAAAAAA
12748775 AGAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAAAAAAG
Found at i:12748771 original size:14 final size:14
Alignment explanation
Indices: 12748742--12748782 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12748732 AACGGATTAG
12748742 AAAAGAA-AAGAAA
1 AAAAGAAGAAGAAA
12748755 AAAAGAAGAAGAGAA
1 AAAAGAAGAAGA-AA
12748770 AAAA-AAGAA-AAA
1 AAAAGAAGAAGAAA
12748782 A
1 A
12748783 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 9 0.35
15 6 0.23
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAGAAA
Found at i:12748787 original size:3 final size:3
Alignment explanation
Indices: 12748781--12748831 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
12748771 AAAAAGAAAA
* *
12748781 AAT AAT AAA AAT -AT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12748828 AAT A
1 AAT A
12748832 CAAAATAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12749115 original size:50 final size:49
Alignment explanation
Indices: 12749028--12749384 Score: 382
Period size: 50 Copynumber: 7.3 Consensus size: 49
12749018 ACTTTTAAAA
*
12749028 AAAAATTT-ATATTGAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
1 AAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
* * **
12749076 AAAAATTTCATCTTGAAAAAGGCTACTCTAAGTAAAGGCTCAATAACTTT
1 AAAAATTTCATCTTGAAAAA-GCTCCTCTAAGTAGAGGCTCAACGACTTT
* * * *
12749126 AAAAA-TTCATCTTGGAAAAGCTCCTCTAAGTAAAGGTTCAATGACTTT
1 AAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
* ** * * **
12749174 AAAAATTTCATCTTGAAAAATGCTACTCTAAACAAATGCTCAATAACTTT
1 AAAAATTTCATCTTGAAAAA-GCTCCTCTAAGTAGAGGCTCAACGACTTT
*
12749224 AAAAA-TTCATCTT-AGAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTT
1 AAAAATTTCATCTTGA-AAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
* * * * *
12749272 AAAAATTTTATCTTGGAAAAGGCTACTCTAAGCAGAGGCTCAACGAATTT
1 AAAAATTTCATCTT-GAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
* * * ** *
12749322 AAAAATTTCATCGTGGAAAAGGCTCCTCTAAGCAGAGGCTTGACGATTTT
1 AAAAATTTCATC-TTGAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
12749372 AAAAA-TTCATCTT
1 AAAAATTTCATCTT
12749385 TTCTCGAGAC
Statistics
Matches: 265, Mismatches: 35, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
48 69 0.26
49 61 0.23
50 133 0.50
51 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (49 bp):
AAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTT
Found at i:12749150 original size:98 final size:98
Alignment explanation
Indices: 12749028--12749384 Score: 484
Period size: 98 Copynumber: 3.6 Consensus size: 98
12749018 ACTTTTAAAA
* * *
12749028 AAAAATTTATATTGAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTTGAA
1 AAAAATTCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTTGAA
*
12749093 AAAGGCTACTCTAAGTAAAGGCTCAATAACTTT
66 AAAGGCTACTCTAAGCAAAGGCTCAATAACTTT
* * *
12749126 AAAAATTCATCTTGGAAAAGCTCCTCTAAGTAAAGGTTCAATGACTTTAAAAATTTCATCTTGAA
1 AAAAATTCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTTGAA
* * *
12749191 AAATGCTACTCTAAACAAATGCTCAATAACTTT
66 AAAGGCTACTCTAAGCAAAGGCTCAATAACTTT
* * * *
12749224 AAAAATTCATCTTAGAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTTATCTTGGA
1 AAAAATTCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTTGAA
* *
12749289 AAAGGCTACTCTAAGCAGAGGCTCAACGAA-TTT
66 AAAGGCTACTCTAAGCAAAGGCTCAA-TAACTTT
* * ** *
12749322 AAAAATTTCATCGTGGAAAAGGCTCCTCTAAGCAGAGGCTTGACGATTTTAAAAA-TTCATCTT
1 AAAAA-TTCATCTTGGAAAA-GCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTT
12749385 TTCTCGAGAC
Statistics
Matches: 226, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
98 176 0.78
99 21 0.09
100 29 0.13
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (98 bp):
AAAAATTCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTTGAA
AAAGGCTACTCTAAGCAAAGGCTCAATAACTTT
Found at i:12749373 original size:148 final size:147
Alignment explanation
Indices: 12749041--12749384 Score: 424
Period size: 148 Copynumber: 2.3 Consensus size: 147
12749031 AATTTATATT
*
12749041 GAAAAAGCTCCTCTAAGTAGAGGCTCAACGACTTTAAAAATTTCATCTTGAAAAAGGCTACTCTA
1 GAAAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTAAAAA-TTCATCTTGAAAAAGGCTACTCTA
* * * * * *
12749106 AGTAAAGGCTCAATAACTTTAAAAATTCATCTTGGAAAAGCTCCTCTAAGTAAAGGTTCAATGAC
65 AGTAAAGGCTCAACAACTTTAAAAATTCATCTTGGAAAAGCTACTCTAAGCAAAGGCTCAACGAA
*
12749171 TTTAAAAATTTCATC-TT
130 TTTAAAAATTTCATCGTG
* * * * ** *
12749188 GAAAAATGCTACTCTAAACAAATGCTCAATAACTTTAAAAATTCATCTT-AGAAAA-GCTCCTCT
1 GAAAAA-GCTCCTCTAAGCAGAGGCTCAACGACTTTAAAAATTCATCTTGA-AAAAGGCTACTCT
* * *
12749251 AAGTAGAGGCTCAACAACTTTAAAAATTTTATCTTGGAAAAGGCTACTCTAAGCAGAGGCTCAAC
64 AAGTAAAGGCTCAACAACTTTAAAAA-TTCATCTTGGAAAA-GCTACTCTAAGCAAAGGCTCAAC
12749316 GAATTTAAAAATTTCATCGTG
127 GAATTTAAAAATTTCATCGTG
* ** *
12749337 GAAAAGGCTCCTCTAAGCAGAGGCTTGACGATTTTAAAAATTCATCTT
1 GAAAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTAAAAATTCATCTT
12749385 TTCTCGAGAC
Statistics
Matches: 164, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
146 32 0.20
147 31 0.19
148 95 0.58
149 6 0.04
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (147 bp):
GAAAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTAAAAATTCATCTTGAAAAAGGCTACTCTAA
GTAAAGGCTCAACAACTTTAAAAATTCATCTTGGAAAAGCTACTCTAAGCAAAGGCTCAACGAAT
TTAAAAATTTCATCGTG
Found at i:12761798 original size:30 final size:31
Alignment explanation
Indices: 12761764--12761827 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
12761754 TAATATGCAT
* * *
12761764 AAATATTA-ATAATAAAATTTAAAATAACAA
1 AAATAATATATAAAAAAATTTAAAAAAACAA
*
12761794 AAATAATATATAAAAAAATTTAAAAAAATAA
1 AAATAATATATAAAAAAATTTAAAAAAACAA
12761825 AAA
1 AAA
12761828 ATGAACCGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (31 bp):
AAATAATATATAAAAAAATTTAAAAAAACAA
Found at i:12768735 original size:47 final size:48
Alignment explanation
Indices: 12768675--12768767 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 48
12768665 TTTGCCTTAA
**
12768675 CATATATAATATGAGTTGTGTTGGATTCGGTTGAAATGCATTAGTTAG
1 CATATATAATATGAGTTGTGTTGGATTAAGTTGAAATGCATTAGTTAG
*
12768723 CATATAT-TTATGAGTTGTGTTGGATTAAGTTGAAATGCATTAGTT
1 CATATATAATATGAGTTGTGTTGGATTAAGTTGAAATGCATTAGTT
12768768 GAGGAGAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 35 0.83
48 7 0.17
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (48 bp):
CATATATAATATGAGTTGTGTTGGATTAAGTTGAAATGCATTAGTTAG
Found at i:12771786 original size:7 final size:6
Alignment explanation
Indices: 12771777--12771812 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
12771767 GCATTTTCGT
*
12771777 TTTTTA TTTTCTA TTTCTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT
12771813 GAAAACAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:12772282 original size:7 final size:7
Alignment explanation
Indices: 12772272--12772501 Score: 65
Period size: 7 Copynumber: 32.7 Consensus size: 7
12772262 TAAATAGTTG
12772272 ATTAAAT
1 ATTAAAT
12772279 ATTAAAT
1 ATTAAAT
*
12772286 -TT-CAT
1 ATTAAAT
12772291 ATT-AAT
1 ATTAAAT
12772297 -TT-AAT
1 ATTAAAT
* *
12772302 AGTCAAT
1 ATTAAAT
12772309 ACTTAATATT
1 A-TTAA-A-T
*
12772319 ATAAAAT
1 ATTAAAT
*
12772326 ATAAAAT
1 ATTAAAT
*
12772333 ATT-TA-
1 ATTAAAT
12772338 ATTAAAT
1 ATTAAAT
12772345 ATTATATAAT
1 A-T-TA-AAT
12772355 ATTAAAT
1 ATTAAAT
*
12772362 ATGAAAT
1 ATTAAAT
*
12772369 ATT-TA-
1 ATTAAAT
12772374 ATTAAAT
1 ATTAAAT
12772381 ATT-AA-
1 ATTAAAT
12772386 ATTAGATGAT
1 ATTA-A--AT
12772396 ATTAAAT
1 ATTAAAT
*
12772403 ATTTAATT
1 A-TTAAAT
*
12772411 ATTTTAAT
1 A-TTAAAT
*
12772419 ATTAACT
1 ATTAAAT
*
12772426 ACTAAAT
1 ATTAAAT
12772433 ATTAAAT
1 ATTAAAT
12772440 -TT-AAT
1 ATTAAAT
*
12772445 ATTAATT
1 ATTAAAT
*
12772452 AATT-ATT
1 -ATTAAAT
* *
12772459 TTTATAT
1 ATTAAAT
*
12772466 ATTATAT
1 ATTAAAT
*
12772473 ATTGTATAAC
1 A-T-TA-AAT
12772483 ATTAAAT
1 ATTAAAT
12772490 ATTAAAT
1 ATTAAAT
12772497 ATTAA
1 ATTAA
12772502 TTATATTATT
Statistics
Matches: 168, Mismatches: 29, Indels: 52
0.67 0.12 0.21
Matches are distributed among these distances:
5 19 0.11
6 19 0.11
7 82 0.49
8 24 0.14
9 12 0.07
10 12 0.07
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (7 bp):
ATTAAAT
Found at i:12772346 original size:12 final size:12
Alignment explanation
Indices: 12772329--12772411 Score: 61
Period size: 12 Copynumber: 7.1 Consensus size: 12
12772319 ATAAAATATA
12772329 AAATATTTAATT
1 AAATATTTAATT
12772341 AAATA-TT-A-T
1 AAATATTTAATT
*
12772350 ATAATATTAAATAT
1 A-AATATTTAAT-T
12772364 GAAATATTTAATT
1 -AAATATTTAATT
*
12772377 AAATATTAAATT
1 AAATATTTAATT
*
12772389 AGATGA--T-ATT
1 AAAT-ATTTAATT
12772399 AAATATTTAATT
1 AAATATTTAATT
12772411 A
1 A
12772412 TTTTAATATT
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
9 3 0.05
10 11 0.20
11 4 0.07
12 24 0.44
13 2 0.04
14 10 0.18
15 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (12 bp):
AAATATTTAATT
Found at i:12772346 original size:19 final size:19
Alignment explanation
Indices: 12772322--12772387 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
12772312 TAATATTATA
*
12772322 AAATATAAAATATTTAATT
1 AAATATTAAATATTTAATT
* *
12772341 AAATATTATATA-AT-ATT
1 AAATATTAAATATTTAATT
*
12772358 AAATATGAAATATTTAATT
1 AAATATTAAATATTTAATT
12772377 AAATATTAAAT
1 AAATATTAAAT
12772388 TAGATGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 13 0.34
18 2 0.05
19 23 0.61
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATATTAAATATTTAATT
Found at i:12772454 original size:45 final size:49
Alignment explanation
Indices: 12772394--12772522 Score: 132
Period size: 50 Copynumber: 2.7 Consensus size: 49
12772384 AAATTAGATG
*
12772394 ATATTAAATA-T--TTAATTATTTTAATATTA-ACTA-CTA-AATATTAA
1 ATATTAAATATTAATTAATTATTTTAATATTATA-TATCTATAACATTAA
*
12772438 AT-TT-AATATTAATTAATTATTTTTATATATTATATATTGTATAACATTAA
1 ATATTAAATATTAATTAATTA-TTTTA-ATATTATATA-TCTATAACATTAA
12772488 ATATTAAATATTAATTATATTA-TTTAATATTATAT
1 ATATTAAATATTAATTA-ATTATTTTAATATTATAT
12772523 TAATGAATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
42 4 0.06
43 3 0.04
44 2 0.03
45 7 0.10
46 5 0.07
47 8 0.11
48 1 0.01
49 2 0.03
50 18 0.25
51 6 0.08
52 11 0.15
53 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (49 bp):
ATATTAAATATTAATTAATTATTTTAATATTATATATCTATAACATTAA
Found at i:12772521 original size:15 final size:15
Alignment explanation
Indices: 12772501--12772534 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12772491 TTAAATATTA
* *
12772501 ATTATATTATTTAAT
1 ATTATATTAATGAAT
12772516 ATTATATTAATGAAT
1 ATTATATTAATGAAT
12772531 ATTA
1 ATTA
12772535 CTGAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTATATTAATGAAT
Found at i:12772522 original size:24 final size:24
Alignment explanation
Indices: 12772438--12772526 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 24
12772428 TAAATATTAA
12772438 ATTTAATATTA-ATTAA-T-TATT
1 ATTTAATATTATATTAATTATATT
* **
12772459 -TTTATATATTATA-TATTGTATAAC
1 ATTTA-ATATTATATTAAT-TATATT
*
12772483 ATTAAATATTAAATATTAATTATATT
1 ATTTAATATT--ATATTAATTATATT
12772509 ATTTAATATTATATTAAT
1 ATTTAATATTATATTAAT
12772527 GAATATTACT
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
20 4 0.08
21 8 0.16
22 1 0.02
23 1 0.02
24 15 0.29
25 3 0.06
26 16 0.31
27 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (24 bp):
ATTTAATATTATATTAATTATATT
Found at i:12772541 original size:25 final size:24
Alignment explanation
Indices: 12772495--12772542 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
12772485 TAAATATTAA
* * *
12772495 ATATTAATTATATTATTTAATATT
1 ATATTAATAATATTACTGAATATT
12772519 ATATTAATGAATATTACTGAATAT
1 ATATTAAT-AATATTACTGAATAT
12772543 AATTTAGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (24 bp):
ATATTAATAATATTACTGAATATT
Found at i:12772739 original size:11 final size:11
Alignment explanation
Indices: 12772723--12772752 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12772713 ATAATAAAAT
12772723 AATATTATTTA
1 AATATTATTTA
*
12772734 AGTATTATTTA
1 AATATTATTTA
12772745 AATATTAT
1 AATATTAT
12772753 AATTGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
AATATTATTTA
Found at i:12773417 original size:17 final size:17
Alignment explanation
Indices: 12773398--12773429 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12773388 TGTTATTGGT
12773398 TTTTA-TTATTTTTTTA
1 TTTTATTTATTTTTTTA
12773414 TTTTATTTATTTTTTT
1 TTTTATTTATTTTTTT
12773430 GAAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTATTTATTTTTTTA
Found at i:12774309 original size:5 final size:5
Alignment explanation
Indices: 12774301--12774334 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
12774291 CTGTTTTCTT
12774301 TTTTA TTTTA TTTTA TTTTA GTTTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA --TTTTA TTTTA TT
12774335 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.81
7 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:12774912 original size:5 final size:5
Alignment explanation
Indices: 12774904--12774934 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
12774894 TTTTAAATTA
12774904 AAAAT AAAAT AAAACT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT
12774935 TAGTTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:12774916 original size:11 final size:11
Alignment explanation
Indices: 12774897--12774934 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12774887 CATTTATTTT
*
12774897 TAAATTAAAAA
1 TAAAATAAAAA
*
12774908 TAAAATAAAAC
1 TAAAATAAAAA
12774919 TAAAAT-AAAA
1 TAAAATAAAAA
12774929 TAAAAT
1 TAAAAT
12774935 TAGTTTCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:12779044 original size:55 final size:55
Alignment explanation
Indices: 12778984--12779138 Score: 170
Period size: 55 Copynumber: 2.8 Consensus size: 55
12778974 TTCGTTAAAT
* * *
12778984 AAATAATTTCAAAAATTAAAAAAAAAAGTTGAAATATCAATTTTTTCTT-AAACAA
1 AAATAACTTCAAAAATTAAAGAAAAAAGTTGAAATATCAATTTTTCCTTGAAA-AA
* * * * ** *
12779039 AAATAACTTCAAAAATTAGAGTAAAGAGTTAAAATATCAAGCTTTCCTTGAAAGA
1 AAATAACTTCAAAAATTAAAGAAAAAAGTTGAAATATCAATTTTTCCTTGAAAAA
* * *
12779094 AAATAACTTCAAAATTTTAAGAAAAAA-TTGAAATATCGATTTTTC
1 AAATAACTTCAAAAATTAAAGAAAAAAGTTGAAATATCAATTTTTC
12779139 ATCAAAGGAA
Statistics
Matches: 80, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
54 14 0.17
55 63 0.79
56 3 0.04
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.32
Consensus pattern (55 bp):
AAATAACTTCAAAAATTAAAGAAAAAAGTTGAAATATCAATTTTTCCTTGAAAAA
Found at i:12779065 original size:107 final size:108
Alignment explanation
Indices: 12778898--12779137 Score: 265
Period size: 107 Copynumber: 2.2 Consensus size: 108
12778888 AAGTATGAGG
* * * *
12778898 AAAAAATTGAAATGTCAAATTTTTTTTTTAAAACAAAATAATTTTAAGAAATAAGGAAAGAGTTA
1 AAAAAATTGAAATATC-AA-TTTTTTCTTAAAACAAAATAACTTCAAGAAATAAGGAAAGAGTTA
* * * *
12778963 AAATATTAA-ATTTCGTT-AAA-TAAATAATTTCAAAAATTAAAA
64 AAATATCAAGATTTCCTTGAAAGAAAATAACTTCAAAAATTAAAA
*
12779005 AAAAAAGTTGAAATATCAATTTTTTCTT-AAACAAAAATAACTTCAA-AAATTAGAGTAAAGAGT
1 AAAAAA-TTGAAATATCAATTTTTTCTTAAAAC-AAAATAACTTCAAGAAA-TA-AGGAAAGAGT
* * * *
12779068 TAAAATATCAAGCTTTCCTTGAAAGAAAATAACTTCAAAATTTTAAG
62 TAAAATATCAAGATTTCCTTGAAAGAAAATAACTTCAAAAATTAAAA
*
12779115 AAAAAATTGAAATATCGATTTTT
1 AAAAAATTGAAATATCAATTTTT
12779138 CATCAAAGGA
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
105 7 0.06
106 21 0.19
107 27 0.24
108 15 0.13
109 19 0.17
110 23 0.21
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (108 bp):
AAAAAATTGAAATATCAATTTTTTCTTAAAACAAAATAACTTCAAGAAATAAGGAAAGAGTTAAA
ATATCAAGATTTCCTTGAAAGAAAATAACTTCAAAAATTAAAA
Found at i:12779159 original size:109 final size:107
Alignment explanation
Indices: 12778954--12779160 Score: 238
Period size: 109 Copynumber: 1.9 Consensus size: 107
12778944 AGAAATAAGG
* * * *
12778954 AAAGAGTTAAAATATTAAATTTCGTTAAATAAATAATTTCAAAAATTAAAAAAAAAAGTTGAAAT
1 AAAGAGTTAAAATATCAAATTTCCTTAAAAAAATAACTTCAAAAATTAAAAAAAAAAGTTGAAAT
* *
12779019 ATCAATTTTTTCTTAAACAAAAATAACTTCAAAAATTAGAGT
66 ATCAATTTTTTCTCAAACAAAAACAACTTCAAAAATTAGAGT
* * * *
12779061 AAAGAGTTAAAATATCAAGCTTTCCTTGAAAGAAAATAACTTCAAAATTTTAAGAAAAAA-TTGA
1 AAAGAGTTAAAATATCAA-ATTTCCTT-AAA-AAAATAACTTCAAAAATTAAAAAAAAAAGTTGA
* ** *
12779125 AATATCGA-TTTTTCATCAAAGGAAAACAATTTCAAA
63 AATATCAATTTTTTC-TCAAACAAAAACAACTTCAAA
12779161 GGATTTAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
107 17 0.21
108 12 0.15
109 30 0.37
110 23 0.28
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (107 bp):
AAAGAGTTAAAATATCAAATTTCCTTAAAAAAATAACTTCAAAAATTAAAAAAAAAAGTTGAAAT
ATCAATTTTTTCTCAAACAAAAACAACTTCAAAAATTAGAGT
Found at i:12779252 original size:17 final size:17
Alignment explanation
Indices: 12779220--12779263 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
12779210 AAGGAAAAAG
12779220 TTAAAATATCAATTTTTT
1 TTAAAAT-TCAATTTTTT
12779238 CTTAAAATT-AATTTTTT
1 -TTAAAATTCAATTTTTT
12779255 TCTAAAATT
1 T-TAAAATT
12779264 TTAAAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.04
17 15 0.62
18 1 0.04
19 7 0.29
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAAATTCAATTTTTT
Found at i:12781201 original size:12 final size:12
Alignment explanation
Indices: 12781184--12781208 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12781174 AAAACATAGG
12781184 TACCTATACTAA
1 TACCTATACTAA
12781196 TACCTATACTAA
1 TACCTATACTAA
12781208 T
1 T
12781209 GATGAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TACCTATACTAA
Found at i:12784645 original size:46 final size:46
Alignment explanation
Indices: 12784590--12784748 Score: 146
Period size: 46 Copynumber: 3.5 Consensus size: 46
12784580 TTCGAATGAG
* *
12784590 AATCTTTAAAAAATTGGATGTGAATCTCTAAAGTTTTTCTAATAAA
1 AATCTTTAAAATATTGGATGTGAATCTCTAAAGTTTTTCAAATAAA
* ** *
12784636 AATCTTTAAAATCTTATATGTGAATC-CTTAAAGTTTTTCAAATGAA
1 AATCTTTAAAATATTGGATGTGAATCTC-TAAAGTTTTTCAAATAAA
** * * * ***
12784682 AAT-TTTTGAATTTTGGATGTGACTCTCTAAAATTTTT-AAATGTG
1 AATCTTTAAAATATTGGATGTGAATCTCTAAAGTTTTTCAAATAAA
*
12784726 AATCTTTGAAAT-TTGGATGTGAA
1 AATCTTTAAAATATTGGATGTGAA
12784749 CCTTGAAATT
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
44 18 0.20
45 32 0.35
46 42 0.46
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.42
Consensus pattern (46 bp):
AATCTTTAAAATATTGGATGTGAATCTCTAAAGTTTTTCAAATAAA
Found at i:12784780 original size:20 final size:21
Alignment explanation
Indices: 12784721--12784774 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
12784711 AAATTTTTAA
* *
12784721 ATGTGAATCTTTGAAATTTGG
1 ATGTGAATCCTTGAAATTTTG
12784742 ATGTGAA-CCTTGAAATTTTG
1 ATGTGAATCCTTGAAATTTTG
12784762 ATGTGAATCCTTG
1 ATGTGAATCCTTG
12784775 CATTTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (21 bp):
ATGTGAATCCTTGAAATTTTG
Found at i:12784952 original size:17 final size:17
Alignment explanation
Indices: 12784930--12784979 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
12784920 TTGAATACAT
12784930 TATGAATCTTCAAATCA
1 TATGAATCTTCAAATCA
* * *
12784947 TATGAATCTTGAATTCT
1 TATGAATCTTCAAATCA
*
12784964 TGTGAATCTTCAAATC
1 TATGAATCTTCAAATC
12784980 CTTTAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (17 bp):
TATGAATCTTCAAATCA
Found at i:12784971 original size:34 final size:34
Alignment explanation
Indices: 12784933--12785116 Score: 118
Period size: 34 Copynumber: 5.4 Consensus size: 34
12784923 AATACATTAT
* *
12784933 GAATCTTCAAATCATATGAATCTTGAATTCTTGT
1 GAATCTTCAAATCATATGAATCTTAAATTCTTGC
* * * * *
12784967 GAATCTTCAAATCCTTTAAATATTTAATTCTTGC
1 GAATCTTCAAATCATATGAATCTTAAATTCTTGC
* * * * *
12785001 AAATCGTCAAATCTTGTGAACCTTAAATTCTTGC
1 GAATCTTCAAATCATATGAATCTTAAATTCTTGC
** * ** * *
12785035 GAATCTGAAAATCTTACAAAT-TTGAAAGTCTTGT
1 GAATCTTCAAATCATATGAATCTT-AAATTCTTGC
* * * *
12785069 GAATCTTTAAATTATTAAGAATCTAAAATTCTTGC
1 GAATCTTCAAATCA-TATGAATCTTAAATTCTTGC
*
12785104 AAATCTTGCAAAT
1 GAATCTT-CAAAT
12785117 TTTCGATTTC
Statistics
Matches: 111, Mismatches: 35, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
33 2 0.02
34 85 0.77
35 19 0.17
36 5 0.05
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (34 bp):
GAATCTTCAAATCATATGAATCTTAAATTCTTGC
Found at i:12785049 original size:17 final size:17
Alignment explanation
Indices: 12785009--12785074 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
12784999 GCAAATCGTC
* * *
12785009 AAATCTTGTGAACCTTA
1 AAATCTTGCGAATCTGA
*
12785026 AATTCTTGCGAATCTGA
1 AAATCTTGCGAATCTGA
* * *
12785043 AAATCTTACAAATTTGA
1 AAATCTTGCGAATCTGA
* *
12785060 AAGTCTTGTGAATCT
1 AAATCTTGCGAATCT
12785075 TTAAATTATT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (17 bp):
AAATCTTGCGAATCTGA
Found at i:12785381 original size:16 final size:16
Alignment explanation
Indices: 12785336--12785382 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
12785326 GAATCTTTTG
*
12785336 AAATT-TTGTGAATTT
1 AAATTCTTGTGAATCT
*
12785351 GAATTCTTGTGAATCT
1 AAATTCTTGTGAATCT
12785367 AAATTCTTGTGAATCT
1 AAATTCTTGTGAATCT
12785383 TTGAATTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (16 bp):
AAATTCTTGTGAATCT
Found at i:12785498 original size:22 final size:22
Alignment explanation
Indices: 12785422--12785525 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 22
12785412 AAAATTTGTA
* *
12785422 AACCTTTGAATTTCAAAATGCA
1 AACCTTTGAATTTCAAATTGCG
*
12785444 AACCTTTG-ATTT-TAATTGCG
1 AACCTTTGAATTTCAAATTGCG
* *
12785464 AA-TTCTTGAATTTCAAATTGTG
1 AACCT-TTGAATTTCAAATTGCG
* ** * *
12785486 AACCTTTGTATTTTGAGTTGGG
1 AACCTTTGAATTTCAAATTGCG
*
12785508 AACCTTTAAATTTCAAAT
1 AACCTTTGAATTTCAAAT
12785526 CTTTGAATTT
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.02
20 10 0.16
21 8 0.13
22 41 0.67
23 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (22 bp):
AACCTTTGAATTTCAAATTGCG
Found at i:12786444 original size:28 final size:28
Alignment explanation
Indices: 12786404--12786484 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
12786394 CACTGCCAAG
12786404 GCCATAGCCATCCGAAAGCTTTAACAAC
1 GCCATAGCCATCCGAAAGCTTTAACAAC
12786432 GCCATAGCCATCCGAAAGCTTTAACAA-
1 GCCATAGCCATCCGAAAGCTTTAACAAC
* *
12786459 --CATACCCATCCAAAAGCTTTAACAAC
1 GCCATAGCCATCCGAAAGCTTTAACAAC
12786485 AATCATGGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.46
28 27 0.54
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (28 bp):
GCCATAGCCATCCGAAAGCTTTAACAAC
Found at i:12786468 original size:25 final size:25
Alignment explanation
Indices: 12786406--12786485 Score: 115
Period size: 25 Copynumber: 3.1 Consensus size: 25
12786396 CTGCCAAGGC
12786406 CATAGCCATCCGAAAGCTTTAACAA
1 CATAGCCATCCGAAAGCTTTAACAA
12786431 CGCCATAGCCATCCGAAAGCTTTAACAA
1 ---CATAGCCATCCGAAAGCTTTAACAA
* *
12786459 CATACCCATCCAAAAGCTTTAACAA
1 CATAGCCATCCGAAAGCTTTAACAA
12786484 CA
1 CA
12786486 ATCATGGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
25 25 0.50
28 25 0.50
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (25 bp):
CATAGCCATCCGAAAGCTTTAACAA
Found at i:12786945 original size:20 final size:20
Alignment explanation
Indices: 12786920--12786958 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12786910 AGAGAATCTG
12786920 AAGAGGATGGGTGAAGAGAA
1 AAGAGGATGGGTGAAGAGAA
12786940 AAGAGGATGGGTGAAGAGA
1 AAGAGGATGGGTGAAGAGA
12786959 GAGAATAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (20 bp):
AAGAGGATGGGTGAAGAGAA
Found at i:12787545 original size:109 final size:105
Alignment explanation
Indices: 12787323--12787616 Score: 281
Period size: 109 Copynumber: 2.7 Consensus size: 105
12787313 GAAGGAAAAT
* * *
12787323 GTTAAATTATCAAATTTTTCTTGAATAAAAATAATTTCAAAAAGTGTGAA-GAAAAAGTTAAAAT
1 GTTAAAATATC-AATTTTTCTTAAATAAAAATAATTTCAAAAA-T-T-AAGGAAAAAGTTGAAAT
* * * * *
12787387 ATCAATTTTTTCTTAAAAAACAAATTTTAAGAAATGAAGAGAGA
62 ATCAATTTTTCCTTAAAAAAAAAACTTCAAGAAATGAAGAAAGA
* * * * * *
12787431 GTTAAAATTTTAATTTTTCTTTAAATAAAAATTATTTCAAAAATTAAGGAAAAAATTGAACTATT
1 GTTAAAATATCAATTTTTC-TTAAATAAAAATAATTTCAAAAATTAAGGAAAAAGTTGAAATATC
*
12787496 AATTTTTCCTTAAACAAAAATAACTTCAA-AAATTAGAGGAAAGA
65 AATTTTTCCTTAAA-AAAAA-AACTTCAAGAAA-T-GAAGAAAGA
* **
12787540 GTTAAAATATCAATATTTCCTTAAA-AGAAAATAATTTC-AAAATTTTGAGAAAAAGTTGAAATA
1 GTTAAAATATCAAT-TTTTCTTAAATA-AAAATAATTTCAAAAATTAAG-GAAAAAGTTGAAATA
*
12787603 TCAAATTTTCCTTA
63 TCAATTTTTCCTTA
12787617 CAATTAAATT
Statistics
Matches: 152, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
105 2 0.01
106 27 0.18
107 16 0.11
108 44 0.29
109 59 0.39
110 4 0.03
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (105 bp):
GTTAAAATATCAATTTTTCTTAAATAAAAATAATTTCAAAAATTAAGGAAAAAGTTGAAATATCA
ATTTTTCCTTAAAAAAAAAACTTCAAGAAATGAAGAAAGA
Found at i:12787571 original size:55 final size:54
Alignment explanation
Indices: 12787295--12787616 Score: 257
Period size: 54 Copynumber: 5.9 Consensus size: 54
12787285 AAAAAATAAT
* * * * *
12787295 AAAAATGATTTCATAAAA--GAAGGAAAATGTTAAATTATCAAATTTTT-CTTGAAT
1 AAAAATAATTTCA-AAAATTGAA-GAAAAAGTTAAAATATC-AATTTTTCCTTAAAC
*
12787349 AAAAATAATTTCAAAAAGTGTGAAGAAAAAGTTAAAATATCAATTTTTTCTTAAA-
1 AAAAATAATTTCAAAAA-T-TGAAGAAAAAGTTAAAATATCAATTTTTCCTTAAAC
* * * * * * * *
12787404 AAACA-AATTTTAAGAAA-TGAAGAGAGAGTTAAAATTTTAATTTTTCTTTAAAT
1 AAAAATAATTTCAA-AAATTGAAGAAAAAGTTAAAATATCAATTTTTCCTTAAAC
* * * * *
12787457 AAAAATTATTTCAAAAATT-AAGGAAAAAATTGAACTATTAATTTTTCCTTAAAC
1 AAAAATAATTTCAAAAATTGAA-GAAAAAGTTAAAATATCAATTTTTCCTTAAAC
* * * *
12787511 AAAAATAACTTCAAAAATTAGAGGAAAGAGTTAAAATATCAATATTTCCTTAAA-
1 AAAAATAATTTCAAAAATT-GAAGAAAAAGTTAAAATATCAATTTTTCCTTAAAC
* * *
12787565 AGAAAATAATTTCAAAATTTTG-AGAAAAAGTTGAAATATCAAATTTTCCTTA
1 A-AAAATAATTTCAAAA-ATTGAAGAAAAAGTTAAAATATCAATTTTTCCTTA
12787617 CAATTAAATT
Statistics
Matches: 215, Mismatches: 39, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
52 29 0.13
53 13 0.06
54 93 0.43
55 54 0.25
56 23 0.11
57 3 0.01
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (54 bp):
AAAAATAATTTCAAAAATTGAAGAAAAAGTTAAAATATCAATTTTTCCTTAAAC
Found at i:12789169 original size:19 final size:19
Alignment explanation
Indices: 12789129--12789170 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
12789119 TTATTTCTAA
*
12789129 TTGTTTTTGTTGGTTGTCT
1 TTGTTTTTGTTGGTTATCT
12789148 TTGTTTTTGTTGTGTTAT-T
1 TTGTTTTTGTTG-GTTATCT
12789167 TTGT
1 TTGT
12789171 CAATTGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.02, C:0.02, G:0.24, T:0.71
Consensus pattern (19 bp):
TTGTTTTTGTTGGTTATCT
Found at i:12789301 original size:19 final size:19
Alignment explanation
Indices: 12789270--12789311 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
12789260 TCAACTAAAC
12789270 AATAAAAATAAATAAATAA
1 AATAAAAATAAATAAATAA
12789289 AATAATAAA-AAATAAATAA
1 AATAA-AAATAAATAAATAA
12789308 AATA
1 AATA
12789312 CTTTTAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAATAAATAA
Found at i:12791952 original size:17 final size:16
Alignment explanation
Indices: 12791924--12791965 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
12791914 ATGTCTAATA
12791924 AAAGATAAAAAAAAAG
1 AAAGATAAAAAAAAAG
*
12791940 AAAGATGAAAAAAAA-
1 AAAGATAAAAAAAAAG
12791955 AAAGA-AAAAAA
1 AAAGATAAAAAA
12791966 TGAGAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 14 0.58
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAGATAAAAAAAAAG
Found at i:12791968 original size:21 final size:21
Alignment explanation
Indices: 12791930--12791997 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 21
12791920 AATAAAAGAT
*
12791930 AAAAAAAAAG--AAAGATGAA
1 AAAAAAAAAGAAAAAAATGAA
12791949 AAAAAAAAAGAAAAAAATGAGA
1 AAAAAAAAAGAAAAAAATGA-A
* *
12791971 AAAGAAGAGAAAGAAACATATGAA
1 AAA-AA-A-AAAGAAAAAAATGAA
12791995 AAA
1 AAA
12791998 GATGTGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 10 0.25
21 7 0.17
22 4 0.10
23 2 0.05
24 5 0.12
25 12 0.30
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.06
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAATGAA
Found at i:12792378 original size:20 final size:21
Alignment explanation
Indices: 12792341--12792380 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12792331 ATTACATGTT
12792341 GTCCTAAGTTATAGTTTAATG
1 GTCCTAAGTTATAGTTTAATG
12792362 GTCCT-AGTTAATA-TTTAAT
1 GTCCTAAGTT-ATAGTTTAAT
12792381 CTTAATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
GTCCTAAGTTATAGTTTAATG
Found at i:12792559 original size:16 final size:17
Alignment explanation
Indices: 12792540--12792573 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12792530 GTTTTACATT
12792540 TCATG-CATTTTTGTTA
1 TCATGTCATTTTTGTTA
*
12792556 TCATGTCATTTTTTTTA
1 TCATGTCATTTTTGTTA
12792573 T
1 T
12792574 AGACTGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.62
Consensus pattern (17 bp):
TCATGTCATTTTTGTTA
Done.