Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 31 of 135
Found at i:12342435 original size:23 final size:23
Alignment explanation
Indices: 12342406--12342468 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
12342396 GTTCGTGCTC
12342406 GTTCGTTTAACGTTCGTGAACAT
1 GTTCGTTTAACGTTCGTGAACAT
12342429 GTTCGTTTAACGTTCGTGAACAT
1 GTTCGTTTAACGTTCGTGAACAT
*
12342452 GTTCGTTTAATGTTCGT
1 GTTCGTTTAACGTTCGT
12342469 TTAACGTTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (23 bp):
GTTCGTTTAACGTTCGTGAACAT
Found at i:12342445 original size:34 final size:33
Alignment explanation
Indices: 12342417--12342491 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
12342407 TTCGTTTAAC
12342417 GTTCGTGAACATGTTCGTTTAACGTTCGTGAACA
1 GTTCGTGAA-ATGTTCGTTTAACGTTCGTGAACA
** *
12342451 TGTTCGTTTAATGTTCGTTTAACGTTCGCGAACA
1 -GTTCGTGAAATGTTCGTTTAACGTTCGTGAACA
12342485 TGTTCGT
1 -GTTCGT
12342492 TTATGTTAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 30 0.81
35 7 0.19
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (33 bp):
GTTCGTGAAATGTTCGTTTAACGTTCGTGAACA
Found at i:12342492 original size:34 final size:33
Alignment explanation
Indices: 12342427--12342498 Score: 126
Period size: 34 Copynumber: 2.2 Consensus size: 33
12342417 GTTCGTGAAC
*
12342427 ATGTTCGTTTAACGTTCGTGAACATGTTCGTTT
1 ATGTTCGTTTAACGTTCGCGAACATGTTCGTTT
12342460 AATGTTCGTTTAACGTTCGCGAACATGTTCGTTT
1 -ATGTTCGTTTAACGTTCGCGAACATGTTCGTTT
12342494 ATGTT
1 ATGTT
12342499 AACTATCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.44
Consensus pattern (33 bp):
ATGTTCGTTTAACGTTCGCGAACATGTTCGTTT
Found at i:12342966 original size:29 final size:30
Alignment explanation
Indices: 12342904--12342967 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
12342894 GTACCTATTA
12342904 AGTCCCTCTATAATAGGAATTAGATCAAATT
1 AGTCCCTCTATAATA-GAATTAGATCAAATT
* *
12342935 AGTCCCTCTATCATTA-AATT-GATCAATTT
1 AGTCCCTCTAT-AATAGAATTAGATCAAATT
12342964 AGTC
1 AGTC
12342968 TCAAAGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.40
30 4 0.13
31 11 0.37
32 3 0.10
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (30 bp):
AGTCCCTCTATAATAGAATTAGATCAAATT
Found at i:12344518 original size:19 final size:18
Alignment explanation
Indices: 12344487--12344522 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12344477 TATTTAAAAG
12344487 TTTAAAAAAATAATTTTT
1 TTTAAAAAAATAATTTTT
*
12344505 TTTAAAAATTATAATTTT
1 TTTAAAAA-AATAATTTT
12344523 CAAAAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAAAAAATAATTTTT
Found at i:12344823 original size:11 final size:10
Alignment explanation
Indices: 12344804--12344948 Score: 52
Period size: 10 Copynumber: 14.5 Consensus size: 10
12344794 GTCAATTTTG
12344804 TTTTATAATGT
1 TTTTATAAT-T
*
12344815 TTTTGTAATT
1 TTTTATAATT
* *
12344825 TTTAAAATAGTT
1 TTT--TATAATT
12344837 TTATTATAA--
1 TT-TTATAATT
*
12344846 TTTTATAATA
1 TTTTATAATT
*
12344856 TGTTAT-ATT
1 TTTTATAATT
*
12344865 TTTCATAATT
1 TTTTATAATT
* *
12344875 TTATATATACT
1 TTTTATA-ATT
12344886 TTTTATAATT
1 TTTTATAATT
*
12344896 TTCTAT--TT
1 TTTTATAATT
**
12344904 TTTTGCAA--
1 TTTTATAATT
**
12344912 TTTTGCAATT
1 TTTTATAATT
*
12344922 TTCTATAATT
1 TTTTATAATT
12344932 TTTTATATATAT
1 TTTTATA-AT-T
12344944 TTTTA
1 TTTTA
12344949 GATATTTTAA
Statistics
Matches: 98, Mismatches: 23, Indels: 25
0.67 0.16 0.17
Matches are distributed among these distances:
8 19 0.19
9 8 0.08
10 37 0.38
11 21 0.21
12 12 0.12
13 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:12348114 original size:20 final size:20
Alignment explanation
Indices: 12348089--12348131 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
12348079 TTTCGACCAA
*
12348089 TTTTGGATTTT-GGTCTCAAT
1 TTTTGG-TTTTCGGACTCAAT
12348109 TTTTGGTTTTCGGACTCAAT
1 TTTTGGTTTTCGGACTCAAT
12348129 TTT
1 TTT
12348132 CTATCTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.12, G:0.19, T:0.56
Consensus pattern (20 bp):
TTTTGGTTTTCGGACTCAAT
Found at i:12368972 original size:31 final size:27
Alignment explanation
Indices: 12368936--12369015 Score: 70
Period size: 31 Copynumber: 2.7 Consensus size: 27
12368926 GATTAAATCA
12368936 AAATTAAAGTTTCATGTATACATGTGAACC
1 AAATTAAAG-TTCATGTATA-AT-TGAACC
* *
12368966 ACAATTAAAAATTCACGTGTATAATTGCACC
1 A-AATT-AAAGTTCA--TGTATAATTGAACC
*
12368997 AAATTAAAGTTCATATATA
1 AAATTAAAGTTCATGTATA
12369016 TAATTGCACA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
27 5 0.12
29 7 0.17
30 5 0.12
31 14 0.33
32 5 0.12
33 6 0.14
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTAAAGTTCATGTATAATTGAACC
Found at i:12374190 original size:11 final size:11
Alignment explanation
Indices: 12374176--12374200 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12374166 ATTATACATT
12374176 TTTTGTATTTA
1 TTTTGTATTTA
12374187 TTTTGTATTTA
1 TTTTGTATTTA
12374198 TTT
1 TTT
12374201 ACTAAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTGTATTTA
Found at i:12376466 original size:15 final size:15
Alignment explanation
Indices: 12376446--12376474 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12376436 TTGAAAGCAG
12376446 AAGCAACTTAGCTTC
1 AAGCAACTTAGCTTC
12376461 AAGCAACTTAGCTT
1 AAGCAACTTAGCTT
12376475 GAGGTAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
AAGCAACTTAGCTTC
Found at i:12376590 original size:173 final size:173
Alignment explanation
Indices: 12376296--12376638 Score: 596
Period size: 173 Copynumber: 2.0 Consensus size: 173
12376286 CCACCAAGAG
* * *
12376296 TAGCTTGAGGTAAAATAATAGTGGTGATACAACTTTATCTTGAGCTACAACTTATGATACCATAG
1 TAGCTTGAGGTAAAACAATAGTGGTGATACAACTTTATCTTGACCTACAACTTATGATACCACAG
12376361 AGACCATATTTAACCATAAAATCACAAGATATATGATAAGAATTTTCCAAAATAAATTGAATGGC
66 AGACCATATTTAACCATAAAATCACAAGATATATGATAAGAATTTTCCAAAATAAATTGAATGGC
* * *
12376426 TAAACAAGATTTGAAAGCAGAAGCAACTTAGCTTCAAGCAACT
131 TAAAAAAAATTCGAAAGCAGAAGCAACTTAGCTTCAAGCAACT
*
12376469 TAGCTTGAGGTAAAACAATAGTGGTGATACATCTTTATCTTGACCTACAACTTATGATACCACAG
1 TAGCTTGAGGTAAAACAATAGTGGTGATACAACTTTATCTTGACCTACAACTTATGATACCACAG
* *
12376534 AGACCATATTTAACCATAAAATCGCAAGATATATGATAAGAATTTTCCATAATAAATTGAATGGC
66 AGACCATATTTAACCATAAAATCACAAGATATATGATAAGAATTTTCCAAAATAAATTGAATGGC
*
12376599 TAAAAAAAATTCGAAAGCAGAAGCAACTTAGCTTCTAGCA
131 TAAAAAAAATTCGAAAGCAGAAGCAACTTAGCTTCAAGCA
12376639 CGTATTAAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 160 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (173 bp):
TAGCTTGAGGTAAAACAATAGTGGTGATACAACTTTATCTTGACCTACAACTTATGATACCACAG
AGACCATATTTAACCATAAAATCACAAGATATATGATAAGAATTTTCCAAAATAAATTGAATGGC
TAAAAAAAATTCGAAAGCAGAAGCAACTTAGCTTCAAGCAACT
Found at i:12379137 original size:21 final size:22
Alignment explanation
Indices: 12379090--12379145 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
12379080 TAAAAATATA
*
12379090 ATTTTATTATTTTAATAGTTTAT
1 ATTTTATT-TTTTAATAGATTAT
12379113 ATTTTTATTTTTTAA-AGATTA-
1 A-TTTTATTTTTTAATAGATTAT
*
12379134 ATTTAATTTTTT
1 ATTTTATTTTTT
12379146 TTATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 10 0.33
21 1 0.03
22 5 0.17
23 7 0.23
24 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
ATTTTATTTTTTAATAGATTAT
Found at i:12379625 original size:10 final size:9
Alignment explanation
Indices: 12379596--12379635 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
12379586 TCTTTAATAT
*
12379596 TTTTTATAT
1 TTTTTATAA
12379605 TTTTTAT-A
1 TTTTTATAA
12379613 TTTTTATGAA
1 TTTTTAT-AA
12379623 TTTTTATAA
1 TTTTTATAA
12379632 TTTT
1 TTTT
12379636 AAAAAAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTTATAA
Found at i:12379801 original size:28 final size:29
Alignment explanation
Indices: 12379769--12379850 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
12379759 ATATATTAAT
*
12379769 AATTTTTATAAATATTTTTTATTTTTT-G
1 AATTTTTATAAATATTTTTTATTTTTTAC
**
12379797 AATTTTTATAATATATTTTCAATTGTTTTAC
1 AATTTTTATAA-ATATTTTTTATT-TTTTAC
*
12379828 AACTTTTAT-AATA-TTTTTATTTT
1 AATTTTTATAAATATTTTTTATTTT
12379851 ATTTCTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.04
28 17 0.38
29 13 0.29
30 5 0.11
31 8 0.18
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (29 bp):
AATTTTTATAAATATTTTTTATTTTTTAC
Found at i:12379864 original size:21 final size:20
Alignment explanation
Indices: 12379838--12379886 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
12379828 AACTTTTATA
12379838 ATATTTTTATTTT-ATTTCTTT
1 ATATTTTT-TTTTAATTT-TTT
12379859 ATATTTTTTTTTGAATTTTTT
1 ATATTTTTTTTT-AATTTTTT
12379880 AT-TTTTT
1 ATATTTTT
12379887 GTTCACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (20 bp):
ATATTTTTTTTTAATTTTTT
Found at i:12384493 original size:16 final size:17
Alignment explanation
Indices: 12384458--12384495 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12384448 GCGTTTCTTC
* *
12384458 TTCTTCCATTTCTTTGT
1 TTCTTCCATCTCTTTAT
12384475 TTCTTCCA-CTCTTTAT
1 TTCTTCCATCTCTTTAT
12384491 TTCTT
1 TTCTT
12384496 TCCGACGCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.08, C:0.26, G:0.03, T:0.63
Consensus pattern (17 bp):
TTCTTCCATCTCTTTAT
Found at i:12389018 original size:10 final size:9
Alignment explanation
Indices: 12388980--12389031 Score: 59
Period size: 10 Copynumber: 5.3 Consensus size: 9
12388970 AACATTATAT
12388980 AATTTTAAA
1 AATTTTAAA
12388989 AATTTTGAAGA
1 AATTTT-AA-A
*
12389000 AAATTTAAA
1 AATTTTAAA
12389009 AATGTTTAAA
1 AAT-TTTAAA
12389019 AATTTATAAA
1 AATTT-TAAA
12389029 AAT
1 AAT
12389032 AAAAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
9 11 0.30
10 20 0.54
11 6 0.16
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (9 bp):
AATTTTAAA
Found at i:12389639 original size:21 final size:18
Alignment explanation
Indices: 12389613--12389659 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
12389603 AAATTTATAT
12389613 TTATAAAAATATTATTAAAAA
1 TTATAAAAATA--ATT-AAAA
*
12389634 TTATAAAAATAATTCAAA
1 TTATAAAAATAATTAAAA
12389652 TTATAAAA
1 TTATAAAA
12389660 TCAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 3 0.12
21 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TTATAAAAATAATTAAAA
Found at i:12389668 original size:12 final size:13
Alignment explanation
Indices: 12389647--12389682 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
12389637 TAAAAATAAT
12389647 TCAAATTATAAAA
1 TCAAATTATAAAA
12389660 TCAAA-TATAAAA
1 TCAAATTATAAAA
12389672 --AAATTATAAAA
1 TCAAATTATAAAA
12389683 GTGTTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 7 0.32
12 7 0.32
13 5 0.23
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (13 bp):
TCAAATTATAAAA
Found at i:12390643 original size:17 final size:18
Alignment explanation
Indices: 12390608--12390646 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
12390598 ATAACATTTT
**
12390608 TTTTGTAATTTTATTAAA
1 TTTTGTAATTTTAAGAAA
12390626 TTTTG-AATTTTAAGAAA
1 TTTTGTAATTTTAAGAAA
12390643 TTTT
1 TTTT
12390647 AAAGTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTTGTAATTTTAAGAAA
Found at i:12395696 original size:13 final size:13
Alignment explanation
Indices: 12395678--12395705 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12395668 ATTCATTTTC
12395678 AACTTCTATTATA
1 AACTTCTATTATA
12395691 AACTTCTATTATA
1 AACTTCTATTATA
12395704 AA
1 AA
12395706 ATGTCTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (13 bp):
AACTTCTATTATA
Found at i:12402691 original size:58 final size:58
Alignment explanation
Indices: 12402622--12402749 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 58
12402612 TAATTCAAAT
* * *
12402622 TTTAATAATAATTATATTAAAAATATTATTAAATT-ATATATTA-TTTTATTAAATTGTA
1 TTTAATAATAATTATATT-AAAATATAATTAAATTAAT-TAATATTTTTATTAAATTATA
*
12402680 TTTAATAATAATTATGTTAAAATATAATTAAATTAATTAATATTTTTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATAATTAAATTAATTAATATTTTTATTAAATTATA
12402738 TTTAATAATAAT
1 TTTAATAATAAT
12402750 CATTAAAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
57 19 0.30
58 45 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (58 bp):
TTTAATAATAATTATATTAAAATATAATTAAATTAATTAATATTTTTATTAAATTATA
Found at i:12405941 original size:15 final size:17
Alignment explanation
Indices: 12405920--12405960 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
12405910 TAATTTTTTA
12405920 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
12405936 -AAATTATTAAAATGAT
1 AAAATTATAAAAATGAT
12405952 AAAATTATA
1 AAAATTATA
12405961 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:12406200 original size:2 final size:2
Alignment explanation
Indices: 12406193--12406231 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
12406183 ATTATAACTT
12406193 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12406232 GAGAAAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12410062 original size:17 final size:17
Alignment explanation
Indices: 12410042--12410083 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
12410032 CATTTTAGTT
*
12410042 TTTTATTAATTTTTTAA
1 TTTTATTAATTTTTAAA
*
12410059 TTTTTTTAATTTTTAAA
1 TTTTATTAATTTTTAAA
12410076 TTTATATT
1 TTT-TATT
12410084 TTTTTTATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTAATTTTTAAA
Found at i:12410200 original size:28 final size:29
Alignment explanation
Indices: 12410159--12410219 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
12410149 AATTAATTTT
12410159 TAAAAAATTCAAAAATTCA-AAAAAATATA
1 TAAAAAATTCAAAAA-TCATAAAAAATATA
* *
12410188 TAAAAAATT-AAAAATCATTAAAAATATG
1 TAAAAAATTCAAAAATCATAAAAAATATA
12410216 TAAA
1 TAAA
12410220 TTGTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.10
28 17 0.59
29 9 0.31
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (29 bp):
TAAAAAATTCAAAAATCATAAAAAATATA
Found at i:12413509 original size:93 final size:93
Alignment explanation
Indices: 12413350--12413536 Score: 347
Period size: 93 Copynumber: 2.0 Consensus size: 93
12413340 GCTATACATG
12413350 CTACATTATCTTCGTATAAGATAGTTGATATATTTTCTTACAAAGGCAAATCACATATCTTCTAG
1 CTACATTATCTTCGTATAAGATAGTTGATATATTTTCTTACAAAGGCAAATCACATATCTTCTAG
*
12413415 ATATGTTAGGTCAACAACCTTAACCAAA
66 ATATGTTAGGTAAACAACCTTAACCAAA
*
12413443 CTACATTATCTTCGTATAAGATAGTTGATATCTTTTCTTACAAAGGCAAATCACATATCTTCTAG
1 CTACATTATCTTCGTATAAGATAGTTGATATATTTTCTTACAAAGGCAAATCACATATCTTCTAG
*
12413508 ATATGTTAGGTAAACAATCTTAACCAAA
66 ATATGTTAGGTAAACAACCTTAACCAAA
12413536 C
1 C
12413537 ACACTCTTGA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (93 bp):
CTACATTATCTTCGTATAAGATAGTTGATATATTTTCTTACAAAGGCAAATCACATATCTTCTAG
ATATGTTAGGTAAACAACCTTAACCAAA
Found at i:12417097 original size:33 final size:33
Alignment explanation
Indices: 12417030--12417098 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
12417020 ATTATTTAAT
* * **
12417030 TTATCCATCGAATTAAATAATAATTTAAAAAAA
1 TTATCCATCCAATTAAATAACAATCCAAAAAAA
*
12417063 TTATCCATCCAATTAAATAACAATCCAAAGAAA
1 TTATCCATCCAATTAAATAACAATCCAAAAAAA
12417096 TTA
1 TTA
12417099 AACCAACAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.30
Consensus pattern (33 bp):
TTATCCATCCAATTAAATAACAATCCAAAAAAA
Found at i:12428680 original size:30 final size:29
Alignment explanation
Indices: 12428590--12428681 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
12428580 AATTTTAAAA
* * *
12428590 TTACACATGAATTTTAATTTAACGTGTGATT
1 TTACACATAAAATTTAATTTAA--TGTAATT
** * *
12428621 TTTTACATAAACTTTAATTTTATGTAATT
1 TTACACATAAAATTTAATTTAATGTAATT
12428650 TTACACATAAAATATTAATTTAAT-TCAATT
1 TTACACATAAAAT-TTAATTTAATGT-AATT
12428680 TT
1 TT
12428682 CATAAATTAC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
29 17 0.35
30 15 0.31
31 17 0.35
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (29 bp):
TTACACATAAAATTTAATTTAATGTAATT
Found at i:12428892 original size:14 final size:14
Alignment explanation
Indices: 12428853--12428893 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
12428843 TAACTATACC
*
12428853 AAATCAAAATTTAT
1 AAATCAAAATTCAT
*
12428867 ATATC-AAA-TCAT
1 AAATCAAAATTCAT
12428879 AAATCAAAATTCAT
1 AAATCAAAATTCAT
12428893 A
1 A
12428894 CTTAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATCAAAATTCAT
Found at i:12438766 original size:3 final size:3
Alignment explanation
Indices: 12438758--12438790 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
12438748 ATTATAAAAC
12438758 ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
12438791 TAAAAAAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12446309 original size:23 final size:21
Alignment explanation
Indices: 12446271--12446319 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 21
12446261 AAATAATATA
12446271 ATTTTTTTAATATTTAATAAT
1 ATTTTTTTAATATTTAATAAT
*
12446292 ATTTTTTTATATTTTTTAATAAT
1 ATTTTTTTA-A-TATTTAATAAT
12446315 ATTTT
1 ATTTT
12446320 AGTAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTTAATATTTAATAAT
Found at i:12446318 original size:13 final size:13
Alignment explanation
Indices: 12446283--12446319 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
12446273 TTTTTTAATA
12446283 TTTAATAATATTT
1 TTTAATAATATTT
12446296 TTT--T-ATATTT
1 TTTAATAATATTT
12446306 TTTAATAATATTT
1 TTTAATAATATTT
12446319 T
1 T
12446320 AGTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
12 1 0.05
13 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATAATATTT
Found at i:12446348 original size:29 final size:29
Alignment explanation
Indices: 12446301--12446359 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
12446291 TATTTTTTTA
*
12446301 TATTTTTTAATAATATTTTAGTAAAATAAT
1 TATTTTTTAATAATATTTTACT-AAATAAT
*
12446331 TATTTTTT-ATATTATTTTACTAAATAAT
1 TATTTTTTAATAATATTTTACTAAATAAT
12446359 T
1 T
12446360 TTAACAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 8 0.30
29 11 0.41
30 8 0.30
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TATTTTTTAATAATATTTTACTAAATAAT
Found at i:12457775 original size:12 final size:12
Alignment explanation
Indices: 12457758--12457783 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12457748 TAATTCCTCC
12457758 AATCAAATCGAT
1 AATCAAATCGAT
12457770 AATCAAATCGAT
1 AATCAAATCGAT
12457782 AA
1 AA
12457784 CCTAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AATCAAATCGAT
Found at i:12466315 original size:20 final size:18
Alignment explanation
Indices: 12466277--12466334 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
12466267 TATATGTCAC
*
12466277 ATTAATAAATAATTT-AAA
1 ATTAAAAAAT-ATTTAAAA
12466295 ATTGATAAAAATATTTAAAAA
1 ATT-A-AAAAATATTT-AAAA
12466316 ATTAAAAAATATATTAAAA
1 ATTAAAAAATAT-TTAAAA
12466335 GGTCATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 3 0.09
19 17 0.50
20 8 0.24
21 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTAAAAAATATTTAAAA
Found at i:12466344 original size:21 final size:20
Alignment explanation
Indices: 12466299--12466345 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
12466289 TTTAAAATTG
*
12466299 ATAAAAATATTTAAAAAATT
1 ATAAAAATATTTAAAAAATC
**
12466319 A-AAAAATATATTAAAAGGTC
1 ATAAAAATAT-TTAAAAAATC
12466339 ATAAAAA
1 ATAAAAA
12466346 CAAAAACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAAATATTTAAAAAATC
Found at i:12468065 original size:6 final size:6
Alignment explanation
Indices: 12468046--12468084 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
12468036 ACAATTCATA
*
12468046 TCACTT TCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
12468085 ATTTTGATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:12468254 original size:22 final size:22
Alignment explanation
Indices: 12468226--12468271 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
12468216 TAAACATATA
*
12468226 ATATTTCACATATTCATTGTTC
1 ATATTTCACATATACATTGTTC
12468248 ATATTTCACATATACATTGTTC
1 ATATTTCACATATACATTGTTC
12468270 AT
1 AT
12468272 CACATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.48
Consensus pattern (22 bp):
ATATTTCACATATACATTGTTC
Found at i:12470334 original size:19 final size:21
Alignment explanation
Indices: 12470306--12470348 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
12470296 GAACTTGAAC
12470306 ATCTGAGATA-A-AACTTCCA
1 ATCTGAGATATATAACTTCCA
* *
12470325 ATCTGTGATATATATCTTCCA
1 ATCTGAGATATATAACTTCCA
12470346 ATC
1 ATC
12470349 GACTGACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTGAGATATATAACTTCCA
Found at i:12476221 original size:12 final size:13
Alignment explanation
Indices: 12476194--12476226 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
12476184 TAATGTGGCT
12476194 TTTTATTTATTAA
1 TTTTATTTATTAA
12476207 TTTTATTTA-TAA
1 TTTTATTTATTAA
12476219 TTTT-TTTA
1 TTTTATTTA
12476227 ATGAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 7 0.35
13 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATTTATTAA
Found at i:12478129 original size:80 final size:80
Alignment explanation
Indices: 12477996--12478158 Score: 272
Period size: 80 Copynumber: 2.0 Consensus size: 80
12477986 CTCCATATTG
* **
12477996 AATAAAAATGCATCCTCATATTCTCCACCCTCACTATCAACATCGTCCCCACCCTCAATCCTAGA
1 AATAAAAATACATCCTCATATTCTCCACCCTCACTATCAACATCAACCCCACCCTCAATCCTAGA
12478061 ATTTGCTCTCACCTT
66 ATTTGCTCTCACCTT
* * *
12478076 AATAAAAATACATCCTCATCTTCTTCACCCTCACTATCAACATCAACCCCACCCTCAGTCCTAGA
1 AATAAAAATACATCCTCATATTCTCCACCCTCACTATCAACATCAACCCCACCCTCAATCCTAGA
12478141 ATTTGCTCTCACCTT
66 ATTTGCTCTCACCTT
12478156 AAT
1 AAT
12478159 CCCGACATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.30, C:0.37, G:0.04, T:0.29
Consensus pattern (80 bp):
AATAAAAATACATCCTCATATTCTCCACCCTCACTATCAACATCAACCCCACCCTCAATCCTAGA
ATTTGCTCTCACCTT
Found at i:12479017 original size:21 final size:21
Alignment explanation
Indices: 12478991--12479039 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
12478981 CTCCTACTGC
*
12478991 TACAAGTGAC-AGTTCTATCGA
1 TACAAGTGACTA-TTCTACCGA
12479012 TACAAGTGACTATTCTACCGA
1 TACAAGTGACTATTCTACCGA
12479033 TACAAGT
1 TACAAGT
12479040 CTTACTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (21 bp):
TACAAGTGACTATTCTACCGA
Found at i:12484799 original size:15 final size:16
Alignment explanation
Indices: 12484779--12484808 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12484769 TTTTTCAATA
12484779 TTAAAATTT-AAAATT
1 TTAAAATTTCAAAATT
12484794 TTAAAATTTCAAAAT
1 TTAAAATTTCAAAAT
12484809 CAATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAATTTCAAAATT
Found at i:12485774 original size:27 final size:26
Alignment explanation
Indices: 12485723--12485774 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12485713 GCGTTCTTAT
*
12485723 TATTTGTCGTTTCCAAAACATATATA
1 TATTTGTCGTTTCCAAAACAAATATA
12485749 TATTTGGTCGTTT-CAAAACAAA-ATA
1 TATTT-GTCGTTTCCAAAACAAATATA
12485774 T
1 T
12485775 TTCCTGTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 13 0.54
27 7 0.29
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (26 bp):
TATTTGTCGTTTCCAAAACAAATATA
Found at i:12486307 original size:47 final size:47
Alignment explanation
Indices: 12486212--12486307 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 47
12486202 ATCCGACCAA
* * * *
12486212 TTTTAAATTGGTTTGGTTTCAATGTTTTAATTTGTACTTAATAATTT
1 TTTTAAATTGGTTAGGTTTCAATGATTTAATGTGCACTTAATAATTT
* * *
12486259 TTTTAATTTCGGTTAGG-TTCAATGATTTAATGTGCATTTAGT-ATTT
1 TTTTAAATT-GGTTAGGTTTCAATGATTTAATGTGCACTTAATAATTT
12486305 TTT
1 TTT
12486308 AATTAGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
46 7 0.17
47 28 0.68
48 6 0.15
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (47 bp):
TTTTAAATTGGTTAGGTTTCAATGATTTAATGTGCACTTAATAATTT
Found at i:12486711 original size:2 final size:2
Alignment explanation
Indices: 12486701--12486731 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
12486691 TATATGTAAA
12486701 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
12486732 GAAGTTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12488845 original size:29 final size:30
Alignment explanation
Indices: 12488813--12488898 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 30
12488803 ATTTTATGTA
*
12488813 CAATTGTATACATG-AATTTTAATTTGGTG
1 CAATTATATACATGAAATTTTAATTTGGTG
* *
12488842 CAATTATATACGTGAAATTTTAATTGTGGTT
1 CAATTATATACATGAAATTTTAATT-TGGTG
* * *
12488873 CAAATATATACTTGAAACTTTAATTT
1 CAATTATATACATGAAATTTTAATTT
12488899 TGATTTAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
29 12 0.24
30 11 0.22
31 26 0.53
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (30 bp):
CAATTATATACATGAAATTTTAATTTGGTG
Found at i:12489075 original size:29 final size:30
Alignment explanation
Indices: 12489033--12489091 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
12489023 TAATTTGATC
*
12489033 AAATCAAAACTTCATGTATAAAATTGCACA
1 AAATCAAAACTTCATGCATAAAATTGCACA
* *
12489063 AAATC-AAAGTTCATGCATATAATTGCACA
1 AAATCAAAACTTCATGCATAAAATTGCACA
12489092 TGAAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.27
Consensus pattern (30 bp):
AAATCAAAACTTCATGCATAAAATTGCACA
Found at i:12489734 original size:19 final size:18
Alignment explanation
Indices: 12489710--12489750 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
12489700 TTTAATTCTT
*
12489710 AAAAATTTATTAAAAATAA
1 AAAAATGTA-TAAAAATAA
12489729 AAAAATGTATAAAAATAA
1 AAAAATGTATAAAAATAA
12489747 AAAA
1 AAAA
12489751 TAAAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATGTATAAAAATAA
Found at i:12491492 original size:39 final size:37
Alignment explanation
Indices: 12491414--12491492 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
12491404 ACATATATAT
* *
12491414 TTATATATTTTTTGAATTTTAAGAAATTTTTTTAAAA
1 TTATATATCTTTTGAATTTTAAGAAATTATTTTAAAA
12491451 TTATATATCTTTT-AATTTGT-AGATACATTATTTTAATAA
1 TTATATATCTTTTGAATTT-TAAGA-A-ATTATTTTAA-AA
12491490 TTA
1 TTA
12491493 GAATAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
36 8 0.22
37 14 0.39
38 9 0.25
39 5 0.14
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (37 bp):
TTATATATCTTTTGAATTTTAAGAAATTATTTTAAAA
Found at i:12493132 original size:6 final size:6
Alignment explanation
Indices: 12493121--12493180 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
12493111 TTAGATTTAT
** *
12493121 TTTAAA TTTAAA TTTGCA -TAAAA TTTAAA -TT-AA TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
*
12493167 TTTAAA ATTAAA TT
1 TTTAAA TTTAAA TT
12493181 AGATAAACTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
4 2 0.05
5 5 0.12
6 31 0.74
7 4 0.10
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:12493135 original size:17 final size:17
Alignment explanation
Indices: 12493094--12493170 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 17
12493084 CAATGAGATA
* *
12493094 TAAATTTAGTTTTTAAGT
1 TAAATTTA-TTTTAAATT
*
12493112 TAGATTTATTTTAAATT
1 TAAATTTATTTTAAATT
*** *
12493129 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAATT
* *
12493146 TAAATTAATTATAAATT
1 TAAATTTATTTTAAATT
12493163 TAAATTTA
1 TAAATTTA
12493171 AAATTAAATT
Statistics
Matches: 44, Mismatches: 15, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
17 37 0.84
18 7 0.16
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:12493953 original size:15 final size:15
Alignment explanation
Indices: 12493935--12493964 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12493925 AATAATATTA
12493935 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
12493950 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
12493965 TTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:12495183 original size:58 final size:58
Alignment explanation
Indices: 12495115--12495415 Score: 229
Period size: 58 Copynumber: 5.2 Consensus size: 58
12495105 CAGAAATTAT
* * * * *
12495115 ATTTTGACCCCCGAATTTTCCAAAATCCCGTTTTTAACCCAATTTTACCAAAAATTATC
1 ATTTT-ACCCCCAAACTTTCCAAAATTCCATTTTTAACCCAATTTTACCAAAAATTACC
** * * * **
12495174 ATTTTACCCCTGAACTTCCCAAAATTCCATTTTTGATCTCGAAACTT-CC-AAAATTACC
1 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTT-AAC-CCAATTTTACCAAAAATTACC
** ** * *
12495232 ATTTTACCCCTCAAACTACCCAAAATTCCATTTTTAACCCCAAAACTT-CTAAAAATTACA
1 ATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAA-CCC-AATTTTACCAAAAATTACC
* * * * * *
12495292 ATTTTACCCCTAAAATTTCCAAAATTCCA-TTTTAACCTCGATTTCATCACAAATTACC
1 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACC-CAATTTTACCAAAAATTACC
* * *
12495350 ATTTTACCCCTAAACTTTCCAAAA-TCTCATTTTTAACCCCGATTTCACC-AAAATT-CC
1 ATTTTACCCCCAAACTTTCCAAAATTC-CATTTTTAA-CCCAATTTTACCAAAAATTACC
12495407 ATTTTACCC
1 ATTTTACCC
12495416 TCGAAAGTCA
Statistics
Matches: 199, Mismatches: 32, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
57 17 0.09
58 89 0.45
59 68 0.34
60 25 0.13
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (58 bp):
ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCAATTTTACCAAAAATTACC
Found at i:12495197 original size:29 final size:28
Alignment explanation
Indices: 12495173--12495415 Score: 154
Period size: 29 Copynumber: 8.4 Consensus size: 28
12495163 CAAAAATTAT
*
12495173 CATTTTACCCCTGAACTTCCCAAAATTC
1 CATTTTACCCCTAAACTTCCCAAAATTC
* * *
12495201 CATTTTTGATCTCGAAACTT-CCAAAATTAC
1 CA-TTTT-ACCCCTAAACTTCCCAAAATT-C
*
12495231 CATTTTACCCCTCAAACTACCCAAAATTC
1 CATTTTACCCCT-AAACTTCCCAAAATTC
* **
12495260 CATTTTTAACCCCAAAACTTCTAAAAATTAC
1 CA-TTTT-ACCCCTAAACTTCCCAAAATT-C
* * *
12495291 AATTTTACCCCTAAAATTTCCAAAATTC
1 CATTTTACCCCTAAACTTCCCAAAATTC
* ** * *
12495319 CATTTTA-ACCTCGATTTCATCACAAATTAC
1 CATTTTACCCCTAAACTTC-CCA-AAATT-C
*
12495349 CATTTTACCCCTAAACTTTCCAAAA-TC
1 CATTTTACCCCTAAACTTCCCAAAATTC
* *
12495376 TCATTTTTAACCCC--GATTTCACCAAAATTC
1 -CA-TTTT-ACCCCTAAACTTC-CCAAAATTC
12495406 CATTTTACCC
1 CATTTTACCC
12495416 TCGAAAGTCA
Statistics
Matches: 164, Mismatches: 34, Indels: 35
0.70 0.15 0.15
Matches are distributed among these distances:
27 11 0.07
28 24 0.15
29 60 0.37
30 56 0.34
31 13 0.08
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (28 bp):
CATTTTACCCCTAAACTTCCCAAAATTC
Found at i:12495262 original size:59 final size:59
Alignment explanation
Indices: 12495165--12495387 Score: 258
Period size: 58 Copynumber: 3.8 Consensus size: 59
12495155 AATTTTACCA
* * * *
12495165 AAAATTATCATTTTACCCCTGAACTTCCCAAAATTCCATTTTTGATCTCGAAACTTC-C
1 AAAATTACCATTTTACCCCTAAACTTCCCAAAATTCCATTTTTAACCTCGAAACTTCTC
* * * *
12495223 AAAATTACCATTTTACCCCTCAAACTACCCAAAATTCCATTTTTAACCCCAAAACTTCTA
1 AAAATTACCATTTTACCCCT-AAACTTCCCAAAATTCCATTTTTAACCTCGAAACTTCTC
* * * *
12495283 AAAATTACAATTTTACCCCTAAAATTTCCAAAATTCCA-TTTTAACCTCG--ATTTCATC
1 AAAATTACCATTTTACCCCTAAACTTCCCAAAATTCCATTTTTAACCTCGAAACTTC-TC
*
12495340 ACAAATTACCATTTTACCCCTAAACTTTCCAAAA-TCTCATTTTTAACC
1 A-AAATTACCATTTTACCCCTAAACTTCCCAAAATTC-CATTTTTAACC
12495388 CCGATTTCAC
Statistics
Matches: 141, Mismatches: 18, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
56 4 0.03
57 4 0.03
58 60 0.43
59 54 0.38
60 19 0.13
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTCCCAAAATTCCATTTTTAACCTCGAAACTTCTC
Found at i:12508020 original size:201 final size:201
Alignment explanation
Indices: 12507589--12508192 Score: 960
Period size: 201 Copynumber: 3.0 Consensus size: 201
12507579 AGTTGTTCGA
* * **
12507589 CAAAACAAGCGAGGCGGTTATCTTTCTGATGAGATACAGATTAGAACACCAACTCAGCGCTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAA
**
12507654 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTTAAAGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT-AAAA
* * *
12507719 AGGTTAGCTTCCTGATGAGACACAGAGAAGTAGACCAGATTCGTCTTCCTAAGGAGATCTAGAGA
130 AGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGA
*
12507784 AGCAAAT
195 AGCGAAT
* * * *
12507791 CAAAATAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAA
*
12507856 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACATTGAGAAGCAGGTCGAAGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAA
* *
12507921 TGTTAGCTTCCTGATGAGACACAGAGAAATGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
12507986 GCGAAT
196 GCGAAT
*
12507992 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCACTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAA
* * *
12508057 CACGAGTAAATCTTCGAACCCAGCTT-CTAGATGAGACACTGAGAAGCAAGTCGAAGCAATATAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCT-GATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* *
12508121 AGGTTAGCTTCCTAATGAGACACAG-GGAGTGGACCAGATTTCGTCTTCCTGAGGAGATCCAGAG
130 AGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGA-TTCGTCTTCCTGAGGAGATCCAGAG
12508185 AAGCGAAT
194 AAGCGAAT
12508193 TAAATGATTG
Statistics
Matches: 370, Mismatches: 30, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
200 13 0.04
201 243 0.66
202 114 0.31
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (201 bp):
CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAA
CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAA
GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
GCGAAT
Found at i:12508613 original size:17 final size:17
Alignment explanation
Indices: 12508573--12508648 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
12508563 CAATGAGATA
*
12508573 TAAATTTAGTTTT-AAGT
1 TAAATTTA-TTTTAAATT
*
12508590 TAGATTTATTTTAAATT
1 TAAATTTATTTTAAATT
** *
12508607 TAAATTTACATAAAATT
1 TAAATTTATTTTAAATT
*
12508624 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
12508641 TAAATTTA
1 TAAATTTA
12508649 AAATTAAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
16 4 0.08
17 44 0.92
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:12508659 original size:5 final size:6
Alignment explanation
Indices: 12508599--12508658 Score: 63
Period size: 6 Copynumber: 10.3 Consensus size: 6
12508589 TTAGATTTAT
* *
12508599 TTTAAA TTTAAA TTTACA -TAAAA TTTAAA TTT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
*
12508645 TTTAAA ATTAAA TT
1 TTTAAA TTTAAA TT
12508659 AGATAAACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 3 0.07
5 4 0.09
6 34 0.77
7 3 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:12509433 original size:15 final size:15
Alignment explanation
Indices: 12509415--12509444 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12509405 AATAATATTA
12509415 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
12509430 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
12509445 TTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:12510666 original size:29 final size:29
Alignment explanation
Indices: 12510634--12510971 Score: 184
Period size: 29 Copynumber: 11.6 Consensus size: 29
12510624 AATTTTACCA
12510634 AAAATTACCATTTTACCCTCGAACTTCCC
1 AAAATTACCATTTTACCCTCGAACTTCCC
*
12510663 AAAATT-CCATTTTTACCCT-GAAACTTCCA
1 AAAATTACCA-TTTTACCCTCG-AACTTCCC
* *
12510692 AAAATTACCATTTTACCCCCAAACTTCCC
1 AAAATTACCATTTTACCCTCGAACTTCCC
** ***
12510721 AAAATT-CCATTTTGACCCTAAAACTTTTA
1 AAAATTACCATTTT-ACCCTCGAACTTCCC
* *
12510750 AAAATTACCATTTTACCC-CTAAACTTTCC
1 AAAATTACCATTTTACCCTC-GAACTTCCC
* *
12510779 AAAATT-CCATTTTTAACCTCG-ATTTCACC
1 AAAATTACCA-TTTTACCCTCGAACTTC-CC
* * * *
12510808 AAAAATCACCGTTTTA-CCTCCAAACTTTCC
1 -AAAATTACCATTTTACCCT-CGAACTTCCC
* * *
12510838 AAAA-TCCCACTTTTGA-CCTTG-ATTTCACC
1 AAAATTACCA-TTTT-ACCCTCGAACTTC-CC
* *
12510867 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTACCATTTTACCCTCGAACTTCCC
* * *
12510897 AAAA-TCCCATTTTTAACCTCG-ATTTCACC
1 AAAATTACCA-TTTTACCCTCGAACTTC-CC
* *
12510926 AAAATT-CCATTTTTACCCTCGGAA-GT-CA
1 AAAATTACCA-TTTTACCCTC-GAACTTCCC
*
12510954 AAAATTACCATTTCACCC
1 AAAATTACCATTTTACCC
12510972 CCGGGCATCC
Statistics
Matches: 240, Mismatches: 42, Indels: 55
0.71 0.12 0.16
Matches are distributed among these distances:
28 43 0.18
29 140 0.58
30 44 0.18
31 13 0.05
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACTTCCC
Found at i:12510810 original size:87 final size:86
Alignment explanation
Indices: 12510585--12510825 Score: 210
Period size: 87 Copynumber: 2.8 Consensus size: 86
12510575 CAGAAATTAT
* * *
12510585 ATTTTCACCCTCG-AACTTTCCAAAA-TCCTTTTTTAACCCAATTTTACCAAAAATTACCATTTT
1 ATTTTTACCCT-GAAACTTTCCAAAATTCCATTTTTAACCCAATTTCACC-AAAATTACCATTTT
** *
12510648 ACCCTCGAACTTCCCAAAATTCC
64 ACCCTAAAACTTCCAAAAATTCC
* *
12510671 ATTTTTACCCTGAAAC-TTCCAAAAATTACCA-TTTTACCCCCAAACTTC-CCAAAATT-CCATT
1 ATTTTTACCCTGAAACTTTCC-AAAATT-CCATTTTTA-ACCC-AATTTCACCAAAATTACCATT
**
12510732 TTGACCCTAAAACTTTTAAAAATTACC
62 TT-ACCCTAAAACTTCCAAAAATT-CC
* * *
12510759 A-TTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATCACCGTTT
1 ATTTTTA-CCCTGAAACTTTCCAAAATTCCATTTTTAACC-CAATTTCACC-AAAATTACCATTT
12510822 TACC
63 TACC
12510826 TCCAAACTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
85 5 0.04
86 33 0.26
87 51 0.41
88 26 0.21
89 10 0.08
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.34
Consensus pattern (86 bp):
ATTTTTACCCTGAAACTTTCCAAAATTCCATTTTTAACCCAATTTCACCAAAATTACCATTTTAC
CCTAAAACTTCCAAAAATTCC
Found at i:12510833 original size:59 final size:58
Alignment explanation
Indices: 12510598--12510943 Score: 343
Period size: 58 Copynumber: 6.0 Consensus size: 58
12510588 TTCACCCTCG
* * * *
12510598 AACTTTCCAAAA-TCCTTTTTTAACC-CAATTTTACCAAAAATTACCATTTTACCCTCG
1 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCC-CA
* * *
12510655 AACTTCCCAAAATTCCATTTTTACCCT-GAAACTT--CCAAAAATTACCATTTTACCCCCA
1 AACTTTCCAAAATTCCATTTTTAACCTCG--ATTTCACCAAAAATTACCATTTTA-CCCCA
* * * ** *
12510713 AACTTCCCAAAATTCCATTTTGACCCTAAAACTTT---TAAAAATTACCATTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAACCT-CGA-TTTCACCAAAAATTACCATTTTACCCC-A
* *
12510771 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATCACCGTTTTACCTCCA
1 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACC-CCA
* * * * *
12510830 AACTTTCCAAAATCCCACTTTTGACCTTGATTTCACCAAAAATTACCATTTTACCCCCG
1 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTA-CCCCA
*
12510889 AACTTTCCAAAATCCCATTTTTAACCTCGATTTCACC-AAAATT-CCATTTTTACCC
1 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCA-TTTTACCC
12510944 TCGGAAGTCA
Statistics
Matches: 246, Mismatches: 28, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
56 3 0.01
57 22 0.09
58 109 0.44
59 105 0.43
60 7 0.03
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (58 bp):
AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCA
Found at i:12513541 original size:17 final size:18
Alignment explanation
Indices: 12513509--12513550 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
12513499 TATCACATCA
*
12513509 ATAAATAATTTAAAAATT
1 ATAAATAATGTAAAAATT
12513527 ATAAA-AATGTAAAAATT
1 ATAAATAATGTAAAAATT
12513544 A-AAATAA
1 ATAAATAA
12513551 ATCAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 14 0.64
18 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAAATAATGTAAAAATT
Found at i:12515036 original size:23 final size:23
Alignment explanation
Indices: 12515012--12515267 Score: 285
Period size: 23 Copynumber: 11.3 Consensus size: 23
12515002 TGCTGGGCAA
*
12515012 CAGAGAGCACACAAAGTGCTAAA
1 CAGAGAGCACACAAAGTGCTAAT
*
12515035 CAGAGAGTACACAAA--G-T-A-
1 CAGAGAGCACACAAAGTGCTAAT
*
12515053 C--TGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
*
12515074 CAGAGAGCACACGAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* *
12515097 CGGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* * *
12515120 AACAGAGAGCACGA-GACGTGCTAAA
1 --CAGAGAGCAC-ACAAAGTGCTAAT
*
12515145 CAGAGAGCACACATAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
*
12515168 CAGAGAGCACACGAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* *
12515191 CTGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
*
12515214 CAGAGAGCACACGAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
* *
12515237 CGGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAT
12515260 CAGAGAGC
1 CAGAGAGC
12515268 GCGCTAATGT
Statistics
Matches: 193, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
16 10 0.05
18 2 0.01
19 2 0.01
20 2 0.01
21 2 0.01
22 1 0.01
23 157 0.81
25 16 0.08
26 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAT
Found at i:12515070 original size:39 final size:39
Alignment explanation
Indices: 12515016--12515090 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
12515006 GGGCAACAGA
*
12515016 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
12515055 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
12515091 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:12515171 original size:94 final size:92
Alignment explanation
Indices: 12515055--12515267 Score: 338
Period size: 94 Copynumber: 2.3 Consensus size: 92
12515045 ACAAAGTACT
12515055 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
1 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
*
12515120 AACAGAGAGCACGA-GACGTGCTAAACAGA
66 --CAGAGAGCAC-ACGAAGTGCTAAACAGA
* *
12515149 GAGCACACATAGTGCTAATCAGAGAGCACACGAAGTGCTAATCTGAGAGCACACACAGTGCTAAT
1 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
* *
12515214 CAGAGAGCACACGAAGTGCTAATCGGA
66 CAGAGAGCACACGAAGTGCTAAACAGA
*
12515241 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACAAAGTGCTAATCAGAGAGC
12515268 GCGCTAATGT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
91 1 0.01
92 48 0.43
94 63 0.56
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.13
Consensus pattern (92 bp):
GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
CAGAGAGCACACGAAGTGCTAAACAGA
Found at i:12515267 original size:46 final size:46
Alignment explanation
Indices: 12515055--12515267 Score: 338
Period size: 46 Copynumber: 4.6 Consensus size: 46
12515045 ACAAAGTACT
*
12515055 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
* * *
12515101 GAGCACACACAGTGCTAATAACAGAGAGCACGA-GACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCAC-ACGAAGTGCTAATCGGA
* *
12515149 GAGCACACATAGTGCTAATCAGAGAGCACACGAAGTGCTAATCTGA
1 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
12515195 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
12515241 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
12515268 GCGCTAATGT
Statistics
Matches: 153, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
45 1 0.01
46 111 0.73
48 40 0.26
49 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.13
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGA
Found at i:12516383 original size:7 final size:7
Alignment explanation
Indices: 12516371--12516396 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12516361 CATAAACACA
12516371 TATAAGC
1 TATAAGC
12516378 TATAAGC
1 TATAAGC
12516385 TATAAGC
1 TATAAGC
12516392 TATAA
1 TATAA
12516397 TTCAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (7 bp):
TATAAGC
Found at i:12524331 original size:31 final size:31
Alignment explanation
Indices: 12524296--12524366 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
12524286 CAAATTAAGT
12524296 CCTAAACTTGACAA-TTGTTCTCACATTGAGA
1 CCTAAACTTGACAACTT-TTCTCACATTGAGA
* *
12524327 CCTAAACTTGACAACTTTTCTTATATTGAGA
1 CCTAAACTTGACAACTTTTCTCACATTGAGA
*
12524358 TCTAAACTT
1 CCTAAACTT
12524367 TTTTTGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (31 bp):
CCTAAACTTGACAACTTTTCTCACATTGAGA
Found at i:12531115 original size:6 final size:6
Alignment explanation
Indices: 12531078--12531153 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
12531068 TCCAACAAAG
* * * * *
12531078 TTTAAA TTT-AT TTTAAA ATTAAG TTT-AT TTTAAA TTTAAA TTGAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
12531125 TTTAAA TTT--A TTATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA
12531154 ATACATTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
4 3 0.05
5 9 0.16
6 35 0.64
7 8 0.15
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:12531142 original size:30 final size:30
Alignment explanation
Indices: 12531092--12531155 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
12531082 AATTTATTTT
* *
12531092 AAAA-TTAAGTTTATTTTAAATTTAAATTG
1 AAAATTTAAATTTATTATAAATTTAAATTG
*
12531121 AAAATTTAAATTTATTATAAATTTAAATTT
1 AAAATTTAAATTTATTATAAATTTAAATTG
12531151 AAAAT
1 AAAAT
12531156 ACATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
AAAATTTAAATTTATTATAAATTTAAATTG
Found at i:12531144 original size:17 final size:17
Alignment explanation
Indices: 12531078--12531151 Score: 75
Period size: 17 Copynumber: 4.6 Consensus size: 17
12531068 TCCAACAAAG
*
12531078 TTTAAATTTATTTTAAA
1 TTTAAATTTATTATAAA
* * *
12531095 ATTAAGTTTATTTTAAA
1 TTTAAATTTATTATAAA
*
12531112 TTTAAA--T-TGA-AAA
1 TTTAAATTTATTATAAA
12531125 TTTAAATTTATTATAAA
1 TTTAAATTTATTATAAA
12531142 TTTAAATTTA
1 TTTAAATTTA
12531152 AAATACATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
13 9 0.20
14 1 0.02
15 2 0.04
16 2 0.04
17 32 0.70
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTATAAA
Found at i:12531161 original size:17 final size:17
Alignment explanation
Indices: 12531106--12531163 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
12531096 TTAAGTTTAT
*
12531106 TTTAAATTTAAATTGAAAA
1 TTTAAATTTAAAAT--AAA
**
12531125 TTTAAATTTATTATAAA
1 TTTAAATTTAAAATAAA
*
12531142 TTTAAATTTAAAATACA
1 TTTAAATTTAAAATAAA
12531159 TTTAA
1 TTTAA
12531164 TAAATGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 22 0.67
19 11 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:12532988 original size:30 final size:30
Alignment explanation
Indices: 12532952--12533103 Score: 184
Period size: 30 Copynumber: 5.1 Consensus size: 30
12532942 TATAAGTCCA
*
12532952 TAAACTTTTCCAAAATTATATTTTGACCCC
1 TAAACTTTTCCAAAATTACATTTTGACCCC
12532982 TAAACTTTTCCAAAATTACATTTTGACCCC
1 TAAACTTTTCCAAAATTACATTTTGACCCC
*
12533012 TAAA-TTTTCCAAAATTACATTTTGACCCT
1 TAAACTTTTCCAAAATTACATTTTGACCCC
* * *
12533041 TAAACTTTACCCAAAATTACCATTAT-ACTCC
1 TAAACTTT-TCCAAAATTA-CATTTTGACCCC
* * *
12533072 TAAAC-TTTCTAAAATTCCATTTTAAACCCC
1 TAAACTTTTCCAAAATTACATTTT-GACCCC
12533102 TA
1 TA
12533104 TTTCACCAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
28 5 0.05
29 35 0.33
30 44 0.42
31 17 0.16
32 5 0.05
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAACTTTTCCAAAATTACATTTTGACCCC
Found at i:12533029 original size:29 final size:29
Alignment explanation
Indices: 12532952--12533159 Score: 165
Period size: 30 Copynumber: 7.0 Consensus size: 29
12532942 TATAAGTCCA
*
12532952 TAAACTTTTCCAAAATTATATTTTGACCCC
1 TAAA-TTTTCCAAAATTACATTTTGACCCC
12532982 TAAACTTTTCCAAAATTACATTTTGACCCC
1 TAAA-TTTTCCAAAATTACATTTTGACCCC
*
12533012 TAAATTTTCCAAAATTACATTTTGACCCT
1 TAAATTTTCCAAAATTACATTTTGACCCC
* * *
12533041 TAAACTTTACCCAAAATTACCATTAT-ACTCC
1 TAAA-TTT-TCCAAAATTA-CATTTTGACCCC
* * * *
12533072 TAAACTTTCTAAAATTCCATTTTAAACCCC
1 TAAATTTTCCAAAATTACATTTT-GACCCC
*
12533102 T--ATTTCACCAAAAATTACCATTTTG-CCCC
1 TAAATTT-TCC-AAAATTA-CATTTTGACCCC
* ** *
12533131 CAAA-AGTCCAAAATTACTATTTTGCCCCC
1 TAAATTTTCCAAAATTAC-ATTTTGACCCC
12533160 CGGGCATCTA
Statistics
Matches: 145, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 21 0.14
29 46 0.32
30 49 0.34
31 23 0.16
32 5 0.03
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAATTTTCCAAAATTACATTTTGACCCC
Found at i:12534438 original size:24 final size:22
Alignment explanation
Indices: 12534411--12534455 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12534401 TGACAAAGAA
*
12534411 AAGATATTTTTCTTGTTTATTTTG
1 AAGAT-TTTTTATT-TTTATTTTG
12534435 AAGATTTTTTATTTTTATTTT
1 AAGATTTTTTATTTTTATTTT
12534456 TACAAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (22 bp):
AAGATTTTTTATTTTTATTTTG
Found at i:12544622 original size:22 final size:21
Alignment explanation
Indices: 12544591--12544634 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
12544581 CTATGTAAAA
*
12544591 TATTTTTTTATAGTATATTTT
1 TATTTTTTTACAGTATATTTT
*
12544612 TATTTGTTTTACAGTTTATTTT
1 TATTT-TTTTACAGTATATTTT
12544634 T
1 T
12544635 GAGATTCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (21 bp):
TATTTTTTTACAGTATATTTT
Found at i:12545309 original size:60 final size:61
Alignment explanation
Indices: 12545204--12545378 Score: 160
Period size: 61 Copynumber: 2.9 Consensus size: 61
12545194 TTAATATAAC
* * ** * *
12545204 ATTTGATACCTGAATTTGACATTTTTTTTTCTAATTTGGTATCTAAATTTTTTTTGGCCCA
1 ATTTGATACATGAACTTGACAACTTTTTTTCAAATTTGGTATCTAAACTTTTTTTGGCCCA
* * * *
12545265 ATTTGATACATGAACTTGATAACTTTTTTT-AAATTTGGTGTCTAAACTTTTTTTGGGTCTA
1 ATTTGATACATGAACTTGACAACTTTTTTTCAAATTTGGTATCTAAACTTTTTTT-GGCCCA
* * * * *
12545326 ATTTGGTACTTGAACTT-A-ATA-TTTTTTTCCCAATTTGGTACCTAAGCTTTTTT
1 ATTTGATACATGAACTTGACA-ACTTTTTTT-CAAATTTGGTATCTAAACTTTTTT
12545379 AAGGTTCAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
59 8 0.09
60 23 0.24
61 63 0.67
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (61 bp):
ATTTGATACATGAACTTGACAACTTTTTTTCAAATTTGGTATCTAAACTTTTTTTGGCCCA
Found at i:12545580 original size:4 final size:4
Alignment explanation
Indices: 12545571--12545595 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12545561 TCAATTAATA
12545571 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
12545596 GAATCAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:12555071 original size:32 final size:32
Alignment explanation
Indices: 12555030--12555093 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
12555020 AGCTCCACAC
12555030 ACTAACTTACAAATTCCACATCACTGGTTGAT
1 ACTAACTTACAAATTCCACATCACTGGTTGAT
12555062 ACTAACTTACAAATTCCACATCACTGGTTGAT
1 ACTAACTTACAAATTCCACATCACTGGTTGAT
12555094 CCATCGGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (32 bp):
ACTAACTTACAAATTCCACATCACTGGTTGAT
Found at i:12559006 original size:20 final size:19
Alignment explanation
Indices: 12558960--12559007 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
12558950 TAACAAACAG
12558960 AAAATAATAAAAAATAAATA
1 AAAATAA-AAAAAATAAATA
*
12558980 AATATAAAAACAAATAAA-A
1 AAAATAAAAA-AAATAAATA
12558999 AACAATAAA
1 AA-AATAAA
12559008 TGGACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAATAAAAAAAATAAATA
Found at i:12559056 original size:33 final size:32
Alignment explanation
Indices: 12558977--12559063 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 32
12558967 TAAAAAATAA
12558977 ATAAATATAAAAACAAATAAAAAACAATAAATGG
1 ATAAAT-TAAAAA-AAATAAAAAACAATAAATGG
*
12559011 ACTAAATTAAAAAAAATAAGAAAACAATAAA-GT
1 A-TAAATTAAAAAAAATAA-AAAACAATAAATGG
*
12559044 ATAAATTGAAAAAATATAAA
1 ATAAATT-AAAAAAAATAAA
12559064 TTAAAAGGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.15
33 18 0.38
34 18 0.38
35 5 0.10
ACGTcount: A:0.70, C:0.05, G:0.06, T:0.20
Consensus pattern (32 bp):
ATAAATTAAAAAAAATAAAAAACAATAAATGG
Found at i:12559145 original size:25 final size:24
Alignment explanation
Indices: 12559099--12559145 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
12559089 AATGACTTAA
*
12559099 TTAAAATTAAAAACAAATTAAAGG
1 TTAAAATTAAAAACAAAGTAAAGG
*
12559123 TTAAAATTAAAAAACAGAGTAAA
1 TTAAAATT-AAAAACAAAGTAAA
12559146 TAATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (24 bp):
TTAAAATTAAAAACAAAGTAAAGG
Found at i:12559329 original size:15 final size:16
Alignment explanation
Indices: 12559295--12559330 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12559285 AAAATGAATT
*
12559295 AAAATTAAAAAAGGAC
1 AAAATTAAAAAAGGAA
12559311 AAAATTAAAAAA-GAA
1 AAAATTAAAAAAGGAA
12559326 AAAAT
1 AAAAT
12559331 GCAGAAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAATTAAAAAAGGAA
Found at i:12561879 original size:52 final size:52
Alignment explanation
Indices: 12561801--12562095 Score: 369
Period size: 52 Copynumber: 5.7 Consensus size: 52
12561791 TAAATGAAAA
* * * *
12561801 AGGTCTGATGACTATGTGTCATCGTGAGTATGTAAATCCTTTATGGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* *
12561853 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTTTG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* * *
12561905 AGGTCCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* * * * *
12561957 AGGTCTGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* * * * * *
12562009 AGGTCCGATGATTATGTGTCATTGTGAGCATATAGATCTTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* * *
12562060 AGGTCCGAAGACTTTATGTCATCGTGAGTAT-TAAAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAAT
12562096 GGGAAATGAG
Statistics
Matches: 210, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
50 4 0.02
51 25 0.12
52 181 0.86
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
Found at i:12574888 original size:20 final size:21
Alignment explanation
Indices: 12574846--12574890 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
12574836 TATGCACATG
12574846 ATTTATAAACATTTACAAGTC
1 ATTTATAAACATTTACAAGTC
*
12574867 ATTTA-AAACACTTTAGAA-TC
1 ATTTATAAACA-TTTACAAGTC
12574887 ATTT
1 ATTT
12574891 TTAATTGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTTATAAACATTTACAAGTC
Found at i:12575506 original size:12 final size:13
Alignment explanation
Indices: 12575478--12575512 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
12575468 ACAGTAATAT
*
12575478 ACATACATAACAT
1 ACATACATAACAG
12575491 ACATAC-TAACAG
1 ACATACATAACAG
12575503 ACATACATAA
1 ACATACATAA
12575513 GAGTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (13 bp):
ACATACATAACAG
Found at i:12575554 original size:43 final size:44
Alignment explanation
Indices: 12575470--12575554 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 44
12575460 TATTGTAAAC
* * *
12575470 AGTAATATACATACATAACATACATACTAACAGACATACATAAG
1 AGTAATATACATACATAACATACATACAAACAAACAGACATAAG
*
12575514 AGTAATATAC-TACGTAACATAC-TAACAAACAAACAGACATA
1 AGTAATATACATACATAACATACAT-ACAAACAAACAGACATA
12575555 TTCATAACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.03
43 25 0.69
44 10 0.28
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.21
Consensus pattern (44 bp):
AGTAATATACATACATAACATACATACAAACAAACAGACATAAG
Found at i:12584461 original size:14 final size:14
Alignment explanation
Indices: 12584442--12584469 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12584432 GGAAATGGAA
12584442 GAATTGAGCATTAC
1 GAATTGAGCATTAC
12584456 GAATTGAGCATTAC
1 GAATTGAGCATTAC
12584470 CTGATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
GAATTGAGCATTAC
Found at i:12587743 original size:5 final size:5
Alignment explanation
Indices: 12587733--12587758 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12587723 AAATAAACCA
12587733 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
12587759 GGGTGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:12592963 original size:18 final size:20
Alignment explanation
Indices: 12592940--12592978 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12592930 TTCTCTTAAT
*
12592940 TTTCAAA-TA-ATATACAAA
1 TTTCAAACTATATATAAAAA
12592958 TTTCAAACTATATATAAAAA
1 TTTCAAACTATATATAAAAA
12592978 T
1 T
12592979 AAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTCAAACTATATATAAAAA
Found at i:12594199 original size:19 final size:20
Alignment explanation
Indices: 12594156--12594203 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
12594146 TATTTTAACC
12594156 TTTTAAATA-TATAATTATA
1 TTTTAAATATTATAATTATA
**
12594175 AATTAAATATTATAATTA-A
1 TTTTAAATATTATAATTATA
12594194 TTTTAAATAT
1 TTTTAAATAT
12594204 GAATTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAAATATTATAATTATA
Found at i:12594421 original size:7 final size:7
Alignment explanation
Indices: 12594409--12594434 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12594399 ATATATATTT
12594409 TAGATTA
1 TAGATTA
12594416 TAGATTA
1 TAGATTA
12594423 TAGATTA
1 TAGATTA
12594430 TAGAT
1 TAGAT
12594435 ACAGATGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (7 bp):
TAGATTA
Found at i:12600938 original size:32 final size:33
Alignment explanation
Indices: 12600875--12600944 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
12600865 ATAAGCTTAG
**
12600875 TTAAATTAGTTTATTTTATTAATTTTGTTTTGA
1 TTAAATTAGTTTATTTTATTAATTTCATTTTGA
*
12600908 TTAAATTTG-TTATTTT-TCTAATTTCATTTTGA
1 TTAAATTAGTTTATTTTAT-TAATTTCATTTTGA
*
12600940 CTAAA
1 TTAAA
12600945 ATTATTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 1 0.03
32 23 0.72
33 8 0.25
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (33 bp):
TTAAATTAGTTTATTTTATTAATTTCATTTTGA
Found at i:12604759 original size:21 final size:22
Alignment explanation
Indices: 12604734--12604781 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12604724 TAAAGTGAAA
*
12604734 TAAAAAGT-AAATGAAAAATTT
1 TAAAAAGTCAAATGAAAAATAT
*
12604755 TAAAAAGTCAACTGAAAAATAT
1 TAAAAAGTCAAATGAAAAATAT
12604777 TAAAA
1 TAAAA
12604782 TTAAAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (22 bp):
TAAAAAGTCAAATGAAAAATAT
Found at i:12606296 original size:20 final size:19
Alignment explanation
Indices: 12606263--12606302 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
12606253 GAAGGGAGGC
12606263 TTTCCATTTCTTTTCTTTTT
1 TTTCCATTTCTTTT-TTTTT
12606283 TTTCC-TTT-TTTTTTTTT
1 TTTCCATTTCTTTTTTTTT
12606300 TTT
1 TTT
12606303 GCTGAAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 3 0.15
20 5 0.25
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTCCATTTCTTTTTTTTT
Found at i:12606864 original size:160 final size:162
Alignment explanation
Indices: 12606600--12606920 Score: 556
Period size: 160 Copynumber: 2.0 Consensus size: 162
12606590 AAGAGGATAA
* * * *
12606600 CAGAACGACAGAGAAAAAGAAGAAGAAAAAATGAACGCATCAACCTCTATACCTGTTTGTTATTG
1 CAGAACGACAGAGAAAAAGAAGAAGAAAAAATGAACACACCAACCTCTATACCTGCTTATTATTG
12606665 TGATTGCCCACAATACACAAATAAACAAAATGAAGCATGTC-TTTTTTATTTGTCACATATAC-A
66 TGATTGCCCACAATACACAAATAAACAAAATGAAGCATGTCTTTTTTTATTTGTCACATATACAA
*
12606728 AAAAAAACATGAAAAGATGAACCATCTTTTTG
131 AAAAAAAAATGAAAAGATGAACCATCTTTTTG
*
12606760 CAGAACGACAGAGAAAAAGAAGAAGAAAAAATGAACACACCAACCTCTATATCTGCTTATTATTG
1 CAGAACGACAGAGAAAAAGAAGAAGAAAAAATGAACACACCAACCTCTATACCTGCTTATTATTG
* *
12606825 TGGTTGCCCACAATACATAAATAAACAAAATGAAGCATGTCTTTTTTTATTTGTCACATATACAA
66 TGATTGCCCACAATACACAAATAAACAAAATGAAGCATGTCTTTTTTTATTTGTCACATATACAA
12606890 AAAAAAAAATGAAAAGATGAACCATCTTTTT
131 AAAAAAAAATGAAAAGATGAACCATCTTTTT
12606921 TTTTTGTAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
160 99 0.66
161 21 0.14
162 31 0.21
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (162 bp):
CAGAACGACAGAGAAAAAGAAGAAGAAAAAATGAACACACCAACCTCTATACCTGCTTATTATTG
TGATTGCCCACAATACACAAATAAACAAAATGAAGCATGTCTTTTTTTATTTGTCACATATACAA
AAAAAAAAATGAAAAGATGAACCATCTTTTTG
Found at i:12607279 original size:17 final size:17
Alignment explanation
Indices: 12607257--12607311 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
12607247 ACATTTTTTT
12607257 AATTAATTAAAAAATTC
1 AATTAATTAAAAAATTC
12607274 AATTAATT----AATT-
1 AATTAATTAAAAAATTC
*
12607286 AATTAAATTAAAAAAATC
1 AATT-AATTAAAAAATTC
12607304 AATTAATT
1 AATTAATT
12607312 TACTTGATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
12 4 0.13
13 8 0.26
17 15 0.48
18 4 0.13
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTAATTAAAAAATTC
Found at i:12607297 original size:30 final size:29
Alignment explanation
Indices: 12607255--12607311 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
12607245 TAACATTTTT
*
12607255 TTAATTAATTAAAAAATTCAATTAATTAA
1 TTAATTAATTAAAAAAATCAATTAATTAA
12607284 TTAATTAAATTAAAAAAATCAATTAATT
1 TTAATT-AATTAAAAAAATCAATTAATT
12607312 TACTTGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (29 bp):
TTAATTAATTAAAAAAATCAATTAATTAA
Found at i:12607446 original size:15 final size:14
Alignment explanation
Indices: 12607426--12607473 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
12607416 AATAAAACAA
12607426 AAAACATGAATAATT
1 AAAACAT-AATAATT
*
12607441 AAAACATAATATTT
1 AAAACATAATAATT
* *
12607455 CAAATATAAATAATT
1 AAAACAT-AATAATT
12607470 AAAA
1 AAAA
12607474 TATATCTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAACATAATAATT
Found at i:12607474 original size:15 final size:15
Alignment explanation
Indices: 12607434--12607477 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
12607424 AAAAAACATG
*
12607434 AATAATTAAAACAT-
1 AATAATTAAAATATA
* *
12607448 AATATTTCAAATATA
1 AATAATTAAAATATA
12607463 AATAATTAAAATATA
1 AATAATTAAAATATA
12607478 TCTTACGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATTAAAATATA
Found at i:12613513 original size:19 final size:22
Alignment explanation
Indices: 12613483--12613525 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
12613473 TAAATACATT
12613483 TTAATATAAAA-TTTCAA-AGA
1 TTAATATAAAATTTTCAAGAGA
12613503 TTAAT-TAAAATTTTCAAGAGA
1 TTAATATAAAATTTTCAAGAGA
12613524 TT
1 TT
12613526 GATCAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAATATAAAATTTTCAAGAGA
Found at i:12613924 original size:5 final size:5
Alignment explanation
Indices: 12613916--12613944 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
12613906 AAAAAAAAAA
12613916 GAAAG GAAAG GAAAG GAAAG GAAA- GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
12613945 AGGGCAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:12613936 original size:15 final size:14
Alignment explanation
Indices: 12613913--12613945 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
12613903 AAGAAAAAAA
12613913 AAAGAAAGGAAAGG
1 AAAGAAAGGAAAGG
12613927 AAAGGAAAGGAAA-G
1 AAA-GAAAGGAAAGG
12613941 AAAGA
1 AAAGA
12613946 GGGCAGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 7 0.39
15 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAAGAAAGGAAAGG
Found at i:12615104 original size:22 final size:24
Alignment explanation
Indices: 12615062--12615106 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
12615052 AAAATTATAA
12615062 AAAAATATAAAATATTAAAATGGT
1 AAAAATATAAAATATTAAAATGGT
*
12615086 AAAAAT-TATAAT-TTAAAATGG
1 AAAAATATAAAATATTAAAATGG
12615107 ATCCCTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (24 bp):
AAAAATATAAAATATTAAAATGGT
Found at i:12616442 original size:19 final size:19
Alignment explanation
Indices: 12616420--12616464 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12616410 TTATATTAGG
12616420 ATTTAATATTTAATATAT-T
1 ATTTAATATTTAA-ATATGT
* *
12616439 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
12616458 ATTTAAT
1 ATTTAAT
12616465 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:12624022 original size:19 final size:20
Alignment explanation
Indices: 12623998--12624044 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
12623988 TCAACTTAAT
*
12623998 ATTTATTTTTTA-TTACTCA
1 ATTTATTTTTTATTTAATCA
*
12624017 ATTTATTATTTATTTAATCA
1 ATTTATTTTTTATTTAATCA
*
12624037 ATTAATTT
1 ATTTATTT
12624045 AGTAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATTTTTTATTTAATCA
Found at i:12624039 original size:20 final size:19
Alignment explanation
Indices: 12623998--12624039 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12623988 TCAACTTAAT
* *
12623998 ATTTATTTTTTATTACTCA
1 ATTTATTATTTATTAATCA
12624017 ATTTATTATTTATTTAATCA
1 ATTTATTATTTA-TTAATCA
12624037 ATT
1 ATT
12624040 AATTTAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTATTATTTATTAATCA
Found at i:12624807 original size:22 final size:22
Alignment explanation
Indices: 12624764--12624808 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12624754 ATTTCATAAT
* **
12624764 TTTTATAAAATATTTTTCAAGA
1 TTTTATAAAATATATTAAAAGA
*
12624786 TTTTATAATATATATTAAAAGA
1 TTTTATAAAATATATTAAAAGA
12624808 T
1 T
12624809 AAAAATATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTATAAAATATATTAAAAGA
Found at i:12625064 original size:21 final size:20
Alignment explanation
Indices: 12625026--12625067 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12625016 TTTACTTGAA
*
12625026 CAAATTTATTTGACTCGACT
1 CAAATTTATTTCACTCGACT
*
12625046 CAAATTTAATTTCATTCGACT
1 CAAATTT-ATTTCACTCGACT
12625067 C
1 C
12625068 GATTCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (20 bp):
CAAATTTATTTCACTCGACT
Found at i:12627622 original size:17 final size:17
Alignment explanation
Indices: 12627600--12627633 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12627590 AAAAAAATTC
12627600 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
12627617 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
12627634 TCATGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:12628166 original size:30 final size:32
Alignment explanation
Indices: 12628132--12628191 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
12628122 GTTTCTACTG
*
12628132 TATTAAAATTTT-A-AAAAATATATTTTTAAA
1 TATTAAAATTTTAATAAAAAAATATTTTTAAA
12628162 TATTAAAATTTTGAATAAAAAAATATTTTT
1 TATTAAAATTTT-AATAAAAAAATATTTTT
12628192 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.46
32 1 0.04
33 13 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (32 bp):
TATTAAAATTTTAATAAAAAAATATTTTTAAA
Found at i:12631136 original size:85 final size:85
Alignment explanation
Indices: 12630993--12631163 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
12630983 CCGGTGATTT
12630993 TCTAACAAACGTGTTGAACTGCATGTATGAGGCCTAACAAATTTTCTTATCTCCCACTTTTCCAA
1 TCTAACAAACGTGTTGAACTGCATGTATGAGGCCTAACAAATTTTCTTATCTCCCACTTTTCCAA
12631058 CTTCTGGATAAATGCAGCTC
66 CTTCTGGATAAATGCAGCTC
12631078 TCTAACAAACGTGTTGAACTGCATGTATGAGGCCTAACAAATTTTCTTATCTCCCACTTTTCCAA
1 TCTAACAAACGTGTTGAACTGCATGTATGAGGCCTAACAAATTTTCTTATCTCCCACTTTTCCAA
12631143 CTTCTGGATAAATGCAGCTC
66 CTTCTGGATAAATGCAGCTC
12631163 T
1 T
12631164 TACCCGCCAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (85 bp):
TCTAACAAACGTGTTGAACTGCATGTATGAGGCCTAACAAATTTTCTTATCTCCCACTTTTCCAA
CTTCTGGATAAATGCAGCTC
Found at i:12632500 original size:24 final size:24
Alignment explanation
Indices: 12632473--12632523 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
12632463 GTCTTATTGA
12632473 ATATTAATTCAATTTTT-CAATT-TT
1 ATATT-ATT-AATTTTTACAATTCTT
*
12632497 ATATTATTATTTTTTACAATTCTT
1 ATATTATTAATTTTTACAATTCTT
12632521 ATA
1 ATA
12632524 AAAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (24 bp):
ATATTATTAATTTTTACAATTCTT
Found at i:12632648 original size:26 final size:27
Alignment explanation
Indices: 12632606--12632658 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
12632596 TTATTAATTT
12632606 TAATTTTTGTATTATATT-TTGATGTA
1 TAATTTTTGTATTATATTATTGATGTA
* *
12632632 TAATTTTT-TTTTGATATTATTTATGTA
1 TAATTTTTGTATT-ATATTATTGATGTA
12632659 AAAAACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.13
26 13 0.57
27 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.64
Consensus pattern (27 bp):
TAATTTTTGTATTATATTATTGATGTA
Found at i:12632737 original size:27 final size:27
Alignment explanation
Indices: 12632698--12632776 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
12632688 TAATGTGGGG
*
12632698 TTGGTG-CAGCCTACCAGGTAGGCACTT
1 TTGGTGCCA-CCTATCAGGTAGGCACTT
12632725 TTGGTGCCACCTATCAGGTAGGCACTT
1 TTGGTGCCACCTATCAGGTAGGCACTT
*
12632752 TTGGTGCCACCTGTCAGGTAGGCAC
1 TTGGTGCCACCTATCAGGTAGGCAC
12632777 CACCCTATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 47 0.96
28 2 0.04
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.27
Consensus pattern (27 bp):
TTGGTGCCACCTATCAGGTAGGCACTT
Found at i:12637684 original size:21 final size:22
Alignment explanation
Indices: 12637660--12637702 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
12637650 AGACCATGAA
*
12637660 TATAAATATTA-TTATACATAT
1 TATAAATATTATTTAAACATAT
**
12637681 TATATTTATTATTTAAACATAT
1 TATAAATATTATTTAAACATAT
12637703 CGGGTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAAATATTATTTAAACATAT
Found at i:12638320 original size:23 final size:25
Alignment explanation
Indices: 12638276--12638325 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
12638266 TCATTATTTC
*
12638276 AAATATTCAAAAAATTATAATTATA
1 AAATATTCAAAAAATGATAATTATA
12638301 AAATATT-AAAAAATGA-AATTATA
1 AAATATTCAAAAAATGATAATTATA
12638324 AA
1 AA
12638326 CTTATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
AAATATTCAAAAAATGATAATTATA
Done.