Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 123 of 132
Found at i:37700174 original size:21 final size:19
Alignment explanation
Indices: 37700143--37700181 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
37700133 TATTCGATTT
*
37700143 TTTATCTATTTTATTTTAC
1 TTTATCTATTTAATTTTAC
37700162 TTTATACTAATTTAATTTTA
1 TTTAT-CT-ATTTAATTTTA
37700182 TGTTGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATCTATTTAATTTTAC
Found at i:37704502 original size:16 final size:17
Alignment explanation
Indices: 37704481--37704517 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
37704471 TTATATTTTT
*
37704481 TAAAAATTAATTTAA-A
1 TAAAAATTAATCTAATA
37704497 TAAAAATTAATCTAATA
1 TAAAAATTAATCTAATA
37704514 TAAA
1 TAAA
37704518 CATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAATTAATCTAATA
Found at i:37710601 original size:59 final size:59
Alignment explanation
Indices: 37710526--37710785 Score: 317
Period size: 59 Copynumber: 4.4 Consensus size: 59
37710516 TGGACTCGCG
* ** * *
37710526 GGGGGCAAAATGGTAATTTTCCGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTC
* * * ***
37710585 GAGGGTAACATAGTAATTTTTGGTGAAATATTAGGTCAAAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAAT-CGGGGTCAAAAATGGAATTTTGGAAAGTTC
* * *
37710645 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTC
*
37710704 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGG-CTAAAAATATG-ATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTC-AAAAAT-GGAATTTTGGAAAGTTC
* * *
37710763 AGGGGTAAAATAGCAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
37710786 ACAGTCCAAG
Statistics
Matches: 173, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
59 121 0.70
60 52 0.30
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTC
Found at i:37710666 original size:30 final size:29
Alignment explanation
Indices: 37710623--37710782 Score: 127
Period size: 29 Copynumber: 5.5 Consensus size: 29
37710613 TATTAGGTCA
37710623 AAAATGG-AATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTGGAAAGTTCGGGGGT
*
37710651 AAAATGGTAATTTTTGGTGAAA-TT-GGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
*
37710681 AAAAATGG-AATTTTGGAAAGTTTGGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
*
37710710 AAAATGGTAATTTTTGGTGAAA--TCGGGGCT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
* * *
37710740 AAAAAT-ATGATTTTGGAAAGTTCAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* *
37710769 AAAATAGCAATTTT
1 AAAATGGTAATTTT
37710783 TGGACAGTCC
Statistics
Matches: 106, Mismatches: 11, Indels: 29
0.73 0.08 0.20
Matches are distributed among these distances:
27 8 0.08
28 23 0.22
29 28 0.26
30 23 0.22
31 16 0.15
32 8 0.08
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTCGGGGGT
Found at i:37710786 original size:30 final size:29
Alignment explanation
Indices: 37710632--37710786 Score: 101
Period size: 30 Copynumber: 5.2 Consensus size: 29
37710622 AAAAATGGAA
*
37710632 TTTTGGAAAGTTCGGGGGTAAAATGGTAAT
1 TTTTGGAAAGTTC-GGGGTAAAATAGTAAT
*
37710662 TTTTGGTGAAA-TT-GGGGTTAAAA-ATGGAA-
1 TTTT-G-GAAAGTTCGGGG-TAAAATA-GTAAT
* *
37710691 TTTTGGAAAGTTTGGGGGTAAAATGGTAAT
1 TTTTGGAAAG-TTCGGGGTAAAATAGTAAT
*
37710721 TTTTGGTGAAA--TCGGGGCTAAAAATA-TGA-
1 TTTT-G-GAAAGTTCGGGG-T-AAAATAGTAAT
*
37710750 TTTTGGAAAGTTCAGGGGTAAAATAGCAAT
1 TTTTGGAAAGTTC-GGGGTAAAATAGTAAT
37710780 TTTTGGA
1 TTTTGGA
37710787 CAGTCCAAGG
Statistics
Matches: 98, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
27 8 0.08
28 8 0.08
29 31 0.32
30 34 0.35
31 9 0.09
32 8 0.08
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
TTTTGGAAAGTTCGGGGTAAAATAGTAAT
Found at i:37711463 original size:6 final size:6
Alignment explanation
Indices: 37711416--37711537 Score: 85
Period size: 6 Copynumber: 21.0 Consensus size: 6
37711406 TTTTGGGCTT
* * * *
37711416 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
37711462 TTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
37711509 -GTAAA TTTAAT TTTAGAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
37711538 AATTATTTTA
Statistics
Matches: 89, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
4 3 0.03
5 14 0.16
6 67 0.75
7 5 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:37711497 original size:41 final size:41
Alignment explanation
Indices: 37711452--37711537 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
37711442 AAATTTAAAC
*
37711452 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* * *
37711493 TAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
37711534 TAAA
1 TAAA
37711538 AATTATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (41 bp):
TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:37711518 original size:17 final size:17
Alignment explanation
Indices: 37711422--37711502 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
37711412 GCTTTTTAAT
* *
37711422 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
37711438 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
37711456 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
37711473 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
37711491 TTTAAATTTAAA
1 TTTAAATTTAAA
37711503 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.05
17 34 0.60
18 20 0.35
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:37711523 original size:17 final size:18
Alignment explanation
Indices: 37711493--37711537 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
37711483 AAAATGAATT
*
37711493 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAA
*
37711510 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAGAAA
37711528 TAAATTTAAA
1 TAAATTTAAA
37711538 AATTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:37711555 original size:24 final size:24
Alignment explanation
Indices: 37711469--37711561 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 24
37711459 AAATTTAAAA
* *
37711469 TAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTAAAAATTATTT
37711493 TAAATTTAAATTTAAAGTAAATTTAATTT
1 TAAATTTAAATTT-AA--AAA-TT-ATTT
*
37711522 TAGAA-ATAAATTTAAAAATTATTT
1 TA-AATTTAAATTTAAAAATTATTT
*
37711546 TAAACTTAAA-TTAAAA
1 TAAATTTAAATTTAAAA
37711562 TTGACTCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
23 8 0.14
24 23 0.40
25 4 0.07
26 3 0.05
27 3 0.05
28 3 0.05
29 12 0.21
30 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (24 bp):
TAAATTTAAATTTAAAAATTATTT
Found at i:37714957 original size:46 final size:45
Alignment explanation
Indices: 37714907--37715033 Score: 161
Period size: 44 Copynumber: 2.8 Consensus size: 45
37714897 AAAAGTTTTA
* * * *
37714907 CAGATGAAATCTACCTTTGGTTGTGGATTACACAACGAATAACCCG
1 CAGATGGAATTTACCTTTGGCTGTGGATTACACAAC-AATAACCAG
*
37714953 CAGATGGAATTTACCTCTGGCTGTGG-TTACACAACAAGT-ACCAG
1 CAGATGGAATTTACCTTTGGCTGTGGATTACACAACAA-TAACCAG
*
37714997 CAGATGGAATTTGCCTTTGGCTGTGGA-TACACAACAA
1 CAGATGGAATTTACCTTTGGCTGTGGATTACACAACAA
37715034 ATATATTTGC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 40 0.56
45 10 0.14
46 22 0.31
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
CAGATGGAATTTACCTTTGGCTGTGGATTACACAACAATAACCAG
Found at i:37716755 original size:59 final size:58
Alignment explanation
Indices: 37716662--37716880 Score: 280
Period size: 59 Copynumber: 3.7 Consensus size: 58
37716652 TATGGATACC
* * *
37716662 CGGGGGCAAAATGGT-AATTTTGGTGAAATCGAGGTTGAAAATGGAATTTTAAAGGTTT
1 CGGGGGTAAAATGGTAAATTTTAGTGAAATCGAGGTTAAAAATGGAATTTTAAAGG-TT
* *
37716720 CGGGGGTAAAATAGT-AATTTTCAGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAAATTTT-AGTGAAATCGAGGTTAAAAATGGAATTTTA-AAGGTT
* * *
37716779 CAGGGGTAAAATGGTAAATTTTAGTGAAATCGGGGTTAAAAATGAAATTTTTAAAGGTT
1 CGGGGGTAAAATGGTAAATTTTAGTGAAATCGAGGTTAAAAATGGAA-TTTTAAAGGTT
** * *
37716838 CGAAGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAAT
1 CGGGGGTAAAATGGTAAATTTTAGTGAAATCGAGGTTAAAAAT
37716881 AGGATTTAGG
Statistics
Matches: 143, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
58 19 0.13
59 110 0.77
60 14 0.10
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAAATTTTAGTGAAATCGAGGTTAAAAATGGAATTTTAAAGGTT
Found at i:37716769 original size:30 final size:28
Alignment explanation
Indices: 37716669--37716829 Score: 85
Period size: 30 Copynumber: 5.5 Consensus size: 28
37716659 ACCCGGGGGC
*
37716669 AAAATGGTAATTTTGGTGAAATCGAGGTT
1 AAAATGG-AATTTTAGTGAAATCGAGGTT
** *** * *
37716698 GAAAATGGAATTTTAAAGGTTTCGGGGGT
1 -AAAATGGAATTTTAGTGAAATCGAGGTT
*
37716727 AAAATAGTAATTTTCAGTGAAATCGAGGTT
1 AAAAT-GGAATTTT-AGTGAAATCGAGGTT
* *
37716757 AAAAATGGAATTTTA--GAAGCTTC-AGGGGT
1 -AAAATGGAATTTTAGTGAA--ATCGA-GGTT
*
37716786 AAAATGGTAAATTTTAGTGAAATCGGGGTT
1 AAAATGG--AATTTTAGTGAAATCGAGGTT
*
37716816 AAAAATGAAATTTT
1 -AAAATGGAATTTT
37716830 TAAAGGTTCG
Statistics
Matches: 96, Mismatches: 23, Indels: 25
0.67 0.16 0.17
Matches are distributed among these distances:
27 3 0.03
28 13 0.14
29 32 0.33
30 34 0.35
31 11 0.11
32 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTAGTGAAATCGAGGTT
Found at i:37716813 original size:29 final size:29
Alignment explanation
Indices: 37716722--37716878 Score: 82
Period size: 30 Copynumber: 5.3 Consensus size: 29
37716712 AAAGGTTTCG
*
37716722 GGGGTAAAATAGT-AATTTTCAGTGAAATC
1 GGGGTAAAATGGTAAATTTT-AGTGAAATC
* *
37716751 GAGGTTAAAAATGG--AATTTTA--GAAGCTTC
1 G-GGGT-AAAATGGTAAATTTTAGTGAA--ATC
37716780 AGGGGTAAAATGGTAAATTTTAGTGAAATC
1 -GGGGTAAAATGGTAAATTTTAGTGAAATC
37716810 GGGGTTAAAAAT-G-AAATTTT--T-AAAGGTTC
1 GGGG-T-AAAATGGTAAATTTTAGTGAAA---TC
* *
37716839 GAAGGTAAAATGGTAAATTTTGGTGAAATC
1 G-GGGTAAAATGGTAAATTTTAGTGAAATC
37716869 GGGGTTAAAA
1 GGGG-TAAAA
37716879 ATAGGATTTA
Statistics
Matches: 100, Mismatches: 7, Indels: 41
0.68 0.05 0.28
Matches are distributed among these distances:
26 3 0.03
27 4 0.04
28 12 0.12
29 25 0.25
30 38 0.38
31 11 0.11
32 4 0.04
33 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (29 bp):
GGGGTAAAATGGTAAATTTTAGTGAAATC
Found at i:37716831 original size:30 final size:29
Alignment explanation
Indices: 37716677--37716829 Score: 82
Period size: 29 Copynumber: 5.2 Consensus size: 29
37716667 GCAAAATGGT
* * * *
37716677 AATTTTGGTGAAATCGAGGTTGAAAATGG
1 AATTTTAGTGAAATCGGGGTTAAAAATGA
** *** * *
37716706 AATTTTAAAGGTTTCGGGGGT-AAAATAGT
1 AATTTTAGTGAAATCGGGGTTAAAAAT-GA
* *
37716735 AATTTTCAGTGAAATCGAGGTTAAAAATGG
1 AATTTT-AGTGAAATCGGGGTTAAAAATGA
*
37716765 AATTTTA--GAAGCTTCAGGGG-T-AAAATGGTA
1 AATTTTAGTGAA--ATC-GGGGTTAAAAAT-G-A
37716795 AATTTTAGTGAAATCGGGGTTAAAAATGA
1 AATTTTAGTGAAATCGGGGTTAAAAATGA
37716824 AATTTT
1 AATTTT
37716830 TAAAGGTTCG
Statistics
Matches: 91, Mismatches: 21, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
27 3 0.03
28 10 0.11
29 36 0.40
30 29 0.32
31 10 0.11
32 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (29 bp):
AATTTTAGTGAAATCGGGGTTAAAAATGA
Found at i:37716919 original size:59 final size:60
Alignment explanation
Indices: 37716662--37716919 Score: 262
Period size: 59 Copynumber: 4.4 Consensus size: 60
37716652 TATGGATACC
* * *
37716662 CGGGGGCAAAATGGT-AATTTTGGTGAAATCGAGGTTGAAAATGGAATTTTA-AAGGTTT
1 CGGGGGTAAAATGGTAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTT
* * *
37716720 CGGGGGTAAAATAGT-AATTTTCAGTGAAATCGAGGTTAAAAATGGAATTTTAG-AAGCTT
1 CGGGGGTAAAATGGTAAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTT
* * * * * *
37716779 CAGGGGTAAAATGGTAAATTTTAGTGAAATCGGGGTTAAAAATGAAATTTT-TAAAGGTT
1 CGGGGGTAAAATGGTAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTT
** * *
37716838 CGAAGGTAAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATAGG-A-TTTAGGAAATTTT
1 CGGGGGTAAAATGGTAAATTTTGGTGAAATCGAGGTTAAAAAT-GGAATTTTA-GAAAGTTT
* * *
37716898 GGGGGGCAAAAT-GTAATTTTTG
1 CGGGGGTAAAATGGTAAATTTTG
37716920 AAAGTTTTAG
Statistics
Matches: 168, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
58 22 0.13
59 126 0.75
60 20 0.12
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (60 bp):
CGGGGGTAAAATGGTAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAAGTTT
Found at i:37716956 original size:30 final size:30
Alignment explanation
Indices: 37716894--37717071 Score: 223
Period size: 30 Copynumber: 5.9 Consensus size: 30
37716884 ATTTAGGAAA
* *
37716894 TTTTGGGGGGCAAAATGTAATTTTTG-AAAG
1 TTTT-GGGGTCAAAATGTAATTTTGGAAAAG
*
37716924 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
*
37716954 TTTTGGGGTCAAAATGCAATTTTTGGAAAAG
1 TTTTGGGGTCAAAATGTAA-TTTTGGAAAAG
* **
37716985 TTTTGGGGTCAAAATATAATTTTGGAAGCG
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
*
37717015 TTTTGGGGTCAAAATGTAATTTTGGAAAAA
1 TTTTGGGGTCAAAATGTAATTTTGGAAAAG
* * *
37717045 ATTTGGGGTTAAAATGCAATTTCTGGA
1 TTTTGGGGTCAAAATGTAATTT-TGGA
37717072 TTGTTTGGGG
Statistics
Matches: 129, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.14
30 79 0.61
31 32 0.25
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (30 bp):
TTTTGGGGTCAAAATGTAATTTTGGAAAAG
Found at i:37716996 original size:61 final size:61
Alignment explanation
Indices: 37716894--37717071 Score: 227
Period size: 61 Copynumber: 2.9 Consensus size: 61
37716884 ATTTAGGAAA
* *
37716894 TTTTGGGGGGCAAAATGTAATTTTT-G-AAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTT-GGGGTCAAAATGTAATTTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAG
* * **
37716954 TTTTGGGGTCAAAATGCAATTTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAGCG
1 TTTTGGGGTCAAAATGTAATTTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAG
** * *
37717015 TTTTGGGGTCAAAATGTAA-TTTTGGAAAAAATTTGGGGTTAAAATGCAATTTCTGGA
1 TTTTGGGGTCAAAATGTAATTTTTGGAAAAGTTTTGGGGTCAAAATGTAATTT-TGGA
37717072 TTGTTTGGGG
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
59 18 0.17
60 33 0.32
61 52 0.50
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (61 bp):
TTTTGGGGTCAAAATGTAATTTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAG
Found at i:37717027 original size:91 final size:91
Alignment explanation
Indices: 37716894--37717071 Score: 259
Period size: 91 Copynumber: 2.0 Consensus size: 91
37716884 ATTTAGGAAA
* * **
37716894 TTTTGGGGGGCAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTTG
1 TTTTGGGGGGCAAAATATAATTTTGGAAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAAATTTG
*
37716959 GGGTCAAAATGCAATTTTTGGAAAAG
66 GGGTCAAAATGCAATTTCTGGAAAAG
* * *
37716985 TTTT-GGGGTCAAAATATAATTTTGGAAGCGTTTTGGGGTCAAAATGTAATTTTGGAAAAAATTT
1 TTTTGGGGGGCAAAATATAATTTTGGAA-AGTTTTAGGGTCAAAATGTAATTTTGGAAAAAATTT
*
37717049 GGGGTTAAAATGCAATTTCTGGA
65 GGGGTCAAAATGCAATTTCTGGA
37717072 TTGTTTGGGG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 20 0.26
91 57 0.74
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (91 bp):
TTTTGGGGGGCAAAATATAATTTTGGAAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAAATTTG
GGGTCAAAATGCAATTTCTGGAAAAG
Found at i:37718674 original size:19 final size:20
Alignment explanation
Indices: 37718661--37718702 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
37718651 GTGGTGGATG
37718661 GCAGA-GGAGCTGGTGGTCA
1 GCAGATGGAGCTGGTGGTCA
37718680 GCAGATGGAGCTGGTGGTCA
1 GCAGATGGAGCTGGTGGTCA
37718700 GCA
1 GCA
37718703 ACAGTAGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.21, C:0.17, G:0.45, T:0.17
Consensus pattern (20 bp):
GCAGATGGAGCTGGTGGTCA
Found at i:37718903 original size:17 final size:16
Alignment explanation
Indices: 37718883--37718951 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 16
37718873 GACTTTCTTT
37718883 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
37718900 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
*
37718916 TTCAAATTTAAATTTGAA
1 TT-AAATTTAAA-TTAAA
* *
37718934 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
37718950 TT
1 TT
37718952 TAAGATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
16 10 0.22
17 29 0.64
18 6 0.13
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:37718909 original size:6 final size:6
Alignment explanation
Indices: 37718900--37718954 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
37718890 TATAATAACA
* * *
37718900 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTGAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
37718945 ATAAAT TTAA
1 TTAAAT TTAA
37718955 GATTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 14 0.35
6 26 0.65
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:37718915 original size:11 final size:11
Alignment explanation
Indices: 37718899--37718961 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
37718889 TTATAATAAC
37718899 ATTAAATTTAA
1 ATTAAATTTAA
*
37718910 ATTAAATTCAA
1 ATTAAATTTAA
*
37718921 ATTTAAATTTGA
1 A-TTAAATTTAA
*
37718933 ATTGAATTTAA
1 ATTAAATTTAA
*
37718944 AATAAATTTAA
1 ATTAAATTTAA
37718955 GATTAAA
1 -ATTAAA
37718962 ATAAATTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 28 0.67
12 14 0.33
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:37719451 original size:19 final size:18
Alignment explanation
Indices: 37719410--37719444 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37719400 TCAGCTTTTG
37719410 TTTTTAAACCAGATCTGA
1 TTTTTAAACCAGATCTGA
*
37719428 TTTTTGAACCAGATCTG
1 TTTTTAAACCAGATCTG
37719445 TGCTTTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTTTAAACCAGATCTGA
Found at i:37720605 original size:17 final size:18
Alignment explanation
Indices: 37720585--37720626 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
37720575 AATGGTATAC
37720585 AAATTTAAATTCAAAA-T
1 AAATTTAAATTCAAAACT
* * *
37720602 AAATCTAATTTTAAAACT
1 AAATTTAAATTCAAAACT
37720620 AAATTTA
1 AAATTTA
37720627 TTGGGCCCGG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTTAAATTCAAAACT
Found at i:37726309 original size:44 final size:44
Alignment explanation
Indices: 37726229--37726319 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
37726219 AAGATTCATG
*
37726229 TTTTCATGAACCTAACTAACCATAAAGCTTTCCCCTTTTTTT-C
1 TTTTCATGAACCTAACTAACCATAAAGCTTTACCCTTTTTTTAC
* *
37726272 TTTTCATGAACCTAACCTAACTATAAAGTTTTACCCTTTTTTTAC
1 TTTTCATGAACCTAA-CTAACCATAAAGCTTTACCCTTTTTTTAC
37726317 TTT
1 TTT
37726320 CTTTTTTGGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 15 0.35
44 24 0.56
45 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.45
Consensus pattern (44 bp):
TTTTCATGAACCTAACTAACCATAAAGCTTTACCCTTTTTTTAC
Found at i:37731925 original size:13 final size:13
Alignment explanation
Indices: 37731894--37731924 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
37731884 GCTAAATCAA
37731894 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
37731907 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
37731920 A-TTTT
1 ACTTTT
37731925 TTTATCGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:37732936 original size:21 final size:20
Alignment explanation
Indices: 37732898--37732970 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
37732888 CTTTTTAAAC
37732898 AAAAAATTCAAAATATTTTT
1 AAAAAATTCAAAATATTTTT
37732918 AAAAAA-TCTAAAATAATTTTT
1 AAAAAATTC-AAAAT-ATTTTT
* *
37732939 --AAATTTCAAAATATTTAT
1 AAAAAATTCAAAATATTTTT
*
37732957 AAAAATTTCAAAAT
1 AAAAAATTCAAAAT
37732971 TTATATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.11
19 10 0.22
20 25 0.54
21 6 0.13
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTTT
Found at i:37738117 original size:10 final size:9
Alignment explanation
Indices: 37738104--37738170 Score: 52
Period size: 10 Copynumber: 7.6 Consensus size: 9
37738094 TTTTTGAGTA
37738104 TTTTATATAT
1 TTTTATA-AT
37738114 TTTTATGAAT
1 TTTTAT-AAT
*
37738124 TTTAATAAT
1 TTTTATAAT
*
37738133 TTTT-TAAA
1 TTTTATAAT
*
37738141 TTTTATGTAT
1 TTTTAT-AAT
37738151 TTTTAT--T
1 TTTTATAAT
37738158 TTTT-TAAT
1 TTTTATAAT
37738166 TTTTA
1 TTTTA
37738171 ATTTATATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
6 1 0.02
7 5 0.11
8 12 0.26
9 7 0.15
10 20 0.43
11 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:37738152 original size:18 final size:18
Alignment explanation
Indices: 37738103--37738156 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
37738093 TTTTTTGAGT
*
37738103 ATTTTATATATTTTTATGA
1 ATTTTAT-TATTTTTATAA
*
37738122 ATTTTAATAATTTTT-TAA
1 ATTTT-ATTATTTTTATAA
37738140 ATTTTATGTATTTTTAT
1 ATTTTAT-TATTTTTAT
37738157 TTTTTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
19 12 0.41
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTTATTATTTTTATAA
Found at i:37738152 original size:27 final size:25
Alignment explanation
Indices: 37738114--37738197 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 25
37738104 TTTTATATAT
37738114 TTTTATGAATTTTAATAATTTTTTAAA
1 TTTTATGAATTTT--TAATTTTTTAAA
* *
37738141 TTTTATGTATTTTT-ATTTTTTTAA
1 TTTTATGAATTTTTAATTTTTTAAA
* *
37738165 TTTT-T-AATTTAT-ATTCTTTTAAT
1 TTTTATGAATTTTTAATT-TTTTAAA
37738188 TTTTA-GAATT
1 TTTTATGAATT
37738198 ATAATCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
22 8 0.17
23 10 0.21
24 17 0.35
25 1 0.02
27 12 0.25
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTATGAATTTTTAATTTTTTAAA
Found at i:37738174 original size:22 final size:22
Alignment explanation
Indices: 37738131--37738192 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
37738121 AATTTTAATA
* * *
37738131 ATTTTTTAAATTTTATGTATTTTT
1 ATTTTTTTAATTTT-T-AATTTAT
37738155 ATTTTTTTAATTTTTAATTTAT
1 ATTTTTTTAATTTTTAATTTAT
*
37738177 ATTCTTTTAATTTTTA
1 ATTTTTTTAATTTTTA
37738193 GAATTATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 20 0.59
23 1 0.03
24 13 0.38
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTTTTAATTTTTAATTTAT
Found at i:37749467 original size:4 final size:4
Alignment explanation
Indices: 37749458--37749490 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
37749448 TTTGGTTCCT
*
37749458 AGGC AGGC AGGC AGGC AGGC AGGC AGGT AGGC A
1 AGGC AGGC AGGC AGGC AGGC AGGC AGGC AGGC A
37749491 TGGCCGCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.48, T:0.03
Consensus pattern (4 bp):
AGGC
Found at i:37763482 original size:22 final size:22
Alignment explanation
Indices: 37763463--37763505 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37763453 CTTTTTTTAC
37763463 CGTTGTTTTGTTGCCATTTTGA
1 CGTTGTTTTGTTGCCATTTTGA
* *
37763485 TGTTGTTTTGTTGTCATTTTG
1 CGTTGTTTTGTTGCCATTTTG
37763506 CTATTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.09, G:0.23, T:0.60
Consensus pattern (22 bp):
CGTTGTTTTGTTGCCATTTTGA
Found at i:37763950 original size:20 final size:19
Alignment explanation
Indices: 37763886--37763950 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
37763876 CCATAACTTA
* *
37763886 TTAATAGTATTTTATAATAT
1 TTAATAATATTTTAT-ACAT
*
37763906 TTAATACT-TTTTATAC-T
1 TTAATAATATTTTATACAT
**
37763923 TTTTTAATATTTTATGACAT
1 TTAATAATATTTTAT-ACAT
37763943 TTAATAAT
1 TTAATAAT
37763951 TTTATGGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 6 0.17
18 7 0.20
19 8 0.23
20 14 0.40
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
TTAATAATATTTTATACAT
Found at i:37763961 original size:17 final size:19
Alignment explanation
Indices: 37763924--37763972 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
37763914 TTTTATACTT
37763924 TTTTAAT-ATTTTATGACA
1 TTTTAATAATTTTATGACA
*
37763942 -TTTAATAATTTTATG-GA
1 TTTTAATAATTTTATGACA
37763959 TTTTATATAATTTT
1 TTTTA-ATAATTTT
37763973 CAAAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 12 0.44
19 8 0.30
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (19 bp):
TTTTAATAATTTTATGACA
Found at i:37764097 original size:11 final size:12
Alignment explanation
Indices: 37764077--37764109 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
37764067 TATTTAATAA
37764077 TTTAATAATTTT
1 TTTAATAATTTT
37764089 TTTAA-AATTTT
1 TTTAATAATTTT
37764100 TTTATATAAT
1 TTTA-ATAAT
37764110 CCCTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 6 0.32
13 3 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTAATAATTTT
Found at i:37764108 original size:51 final size:53
Alignment explanation
Indices: 37764004--37764109 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 53
37763994 GGCTAAATTT
* * *
37764004 TTTATAATAATTTTAATAATTTCATTTTAATTATTTTTATATATTTTTCTATAA
1 TTTATAATAATTTTAATAATTTCA-TATAATTATTTTTAAATATTTTTATATAA
*
37764058 TTTATAA-AATATTTAATAATTT-A-ATAATT-TTTTTAAAATTTTTTTATATAA
1 TTTATAATAAT-TTTAATAATTTCATATAATTATTTTT-AAATATTTTTATATAA
37764109 T
1 T
37764110 CCCTAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
50 5 0.11
51 19 0.41
53 4 0.09
54 18 0.39
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (53 bp):
TTTATAATAATTTTAATAATTTCATATAATTATTTTTAAATATTTTTATATAA
Found at i:37767927 original size:13 final size:13
Alignment explanation
Indices: 37767909--37767939 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
37767899 TCTTCCTAAT
37767909 TTAAAATTTTCTA
1 TTAAAATTTTCTA
37767922 TTAAAATTTTCTA
1 TTAAAATTTTCTA
37767935 TTAAA
1 TTAAA
37767940 CTAATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAAATTTTCTA
Found at i:37769805 original size:26 final size:26
Alignment explanation
Indices: 37769775--37769828 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
37769765 GTTGGAATCT
37769775 AATGTGACTATTGAACACCAAAAACG
1 AATGTGACTATTGAACACCAAAAACG
*
37769801 AATGTGACTATTGAACACCAAAACCG
1 AATGTGACTATTGAACACCAAAAACG
37769827 AA
1 AA
37769829 ACAAAGGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (26 bp):
AATGTGACTATTGAACACCAAAAACG
Found at i:37779942 original size:29 final size:29
Alignment explanation
Indices: 37779886--37779961 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
37779876 AATAATTTAT
* *
37779886 ATTTTTATTAATTTTTAAATAATTAAATCA-A
1 ATTTTTATT-A-TTTTAAAAAATAAAAT-ATA
37779917 ATTTTTATTATTTTAAAAAATAAAATATA
1 ATTTTTATTATTTTAAAAAATAAAATATA
37779946 A-TTTTATTATTATTAA
1 ATTTTTATTATT-TTAA
37779962 TTTAAACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 11 0.27
29 20 0.49
30 1 0.02
31 9 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTTTATTATTTTAAAAAATAAAATATA
Found at i:37779974 original size:81 final size:81
Alignment explanation
Indices: 37779857--37780012 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
37779847 AAATTAAATT
* * * * * * **
37779857 AATAAAATTTTATTATTTTAATAATTTATATTTTTATTAATTTTTAAATAATTAAATCAAATTTT
1 AATAAAATTTTATTA-TTTAATAATTTAAACTTTTATAAATTATAAAATAATTAAATAAAAAATT
37779922 TATTATTTTAAAAAATAA
65 T-TTATTTTAAAAAATAA
* * *
37779940 AATATAATTTTATTA-TTATTAATTTAAACTTTTATAAATTATAAAATATTTAAATAAAAAATTT
1 AATAAAATTTTATTATTTAATAATTTAAACTTTTATAAATTATAAAATAATTAAATAAAAAATTT
37780004 TTATTTTAA
66 TTATTTTAA
37780013 GAATTGTCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 9 0.15
81 39 0.63
83 14 0.23
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (81 bp):
AATAAAATTTTATTATTTAATAATTTAAACTTTTATAAATTATAAAATAATTAAATAAAAAATTT
TTATTTTAAAAAATAA
Found at i:37788891 original size:23 final size:21
Alignment explanation
Indices: 37788848--37788895 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
37788838 AAAAATTATA
37788848 AAAAATTGAAAATAAACATATT
1 AAAAATTGAAAATAAACATA-T
* * *
37788870 AAAACTTGAGAAATATATATAT
1 AAAAATTGA-AAATAAACATAT
37788892 AAAA
1 AAAA
37788896 TCAAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
AAAAATTGAAAATAAACATAT
Found at i:37789067 original size:26 final size:26
Alignment explanation
Indices: 37789028--37789080 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
37789018 ACATATATAT
*
37789028 TTTAGATATCAAATTGAATAAAA-AAA
1 TTTAAATATCAAATTGAA-AAAATAAA
*
37789054 TTTAAATATTAAATTGAAAAAATAAA
1 TTTAAATATCAAATTGAAAAAATAAA
37789080 T
1 T
37789081 ATACTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (26 bp):
TTTAAATATCAAATTGAAAAAATAAA
Found at i:37789219 original size:19 final size:18
Alignment explanation
Indices: 37789174--37789221 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
37789164 ATAACTTGTT
37789174 TATAAAATTTAATTTGAA
1 TATAAAATTTAATTTGAA
*
37789192 TACATAAA-TTATATTTGAGA
1 TATA-AAATTTA-ATTTGA-A
37789212 TATAAAATTT
1 TATAAAATTT
37789222 GCCTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 6 0.25
19 12 0.50
20 6 0.25
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (18 bp):
TATAAAATTTAATTTGAA
Found at i:37789916 original size:31 final size:31
Alignment explanation
Indices: 37789881--37789946 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
37789871 AATAAAAGGA
37789881 TACACGAGTTTTTCACACTTTGTCAGCACAG
1 TACACGAGTTTTTCACACTTTGTCAGCACAG
*
37789912 TACACGAGTTTTTCACACTTTGTCATCACAG
1 TACACGAGTTTTTCACACTTTGTCAGCACAG
37789943 TACA
1 TACA
37789947 GAGGGGATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (31 bp):
TACACGAGTTTTTCACACTTTGTCAGCACAG
Found at i:37789966 original size:5 final size:5
Alignment explanation
Indices: 37789958--37789990 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
37789948 AGGGGATGCC
37789958 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCT
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCT
37789991 TTGCCAGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.21, G:0.18, T:0.61
Consensus pattern (5 bp):
TCTGT
Found at i:37798373 original size:27 final size:27
Alignment explanation
Indices: 37798335--37798386 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
37798325 GATCAGTAAA
37798335 ATTAAAAAAATATATATTATTTTTTTG
1 ATTAAAAAAATATATATTATTTTTTTG
37798362 ATTAAAAAAATATATATTATTTTTT
1 ATTAAAAAAATATATATTATTTTTT
37798387 GTACCGCTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
ATTAAAAAAATATATATTATTTTTTTG
Found at i:37798453 original size:15 final size:13
Alignment explanation
Indices: 37798422--37798467 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
37798412 TGATGAGAAT
*
37798422 TGAAAAAAATAAG
1 TGAAAAAAAAAAG
37798435 TGAAACAAAAAAAG
1 TGAAA-AAAAAAAG
*
37798449 CTGAAAAAAAAAAT
1 -TGAAAAAAAAAAG
37798463 TGAAA
1 TGAAA
37798468 TAGAACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 10 0.34
14 14 0.48
15 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (13 bp):
TGAAAAAAAAAAG
Found at i:37799321 original size:24 final size:23
Alignment explanation
Indices: 37799294--37799338 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
37799284 ATGGTTGAAA
37799294 AATACAATAA-TTAAATATTTTTAG
1 AATA-AATAATTTAAA-ATTTTTAG
*
37799318 AATATATAATTTAAAATTTTT
1 AATAAATAATTTAAAATTTTT
37799339 GACACATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AATAAATAATTTAAAATTTTTAG
Found at i:37800416 original size:46 final size:45
Alignment explanation
Indices: 37800311--37800416 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 45
37800301 ATACTCGCAC
*
37800311 TAAAGTTTAAAAATTATAAATTTAATTCAATAATTAATAAAAGGT
1 TAAAGTTTAAAAATTATAAATTTAATTCAATAATTAATAAAAGAT
* * *
37800356 AAAAATGTTT-AAAATTATAAATTTAATTTAATAATTAATAAAATAT
1 -TAAA-GTTTAAAAATTATAAATTTAATTCAATAATTAATAAAAGAT
37800402 TAAAGTATTAAAAAT
1 TAAAGT-TTAAAAAT
37800417 GTTATGTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
44 2 0.04
45 5 0.10
46 41 0.79
47 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (45 bp):
TAAAGTTTAAAAATTATAAATTTAATTCAATAATTAATAAAAGAT
Found at i:37800686 original size:17 final size:18
Alignment explanation
Indices: 37800654--37800687 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37800644 TAGAAGTCTG
37800654 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
37800672 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
37800688 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:37801864 original size:23 final size:24
Alignment explanation
Indices: 37801822--37801866 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
37801812 ATGGTTGAAA
37801822 AATATAATAATTAAATATTTTTAG
1 AATATAATAATTAAATATTTTTAG
37801846 AATAT-ATAATTTAAA-ATTTTT
1 AATATAATAA-TTAAATATTTTT
37801867 GACACATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATATAATAATTAAATATTTTTAG
Found at i:37803204 original size:17 final size:18
Alignment explanation
Indices: 37803172--37803205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37803162 TAGAAGTCTG
37803172 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
37803190 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
37803206 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:37804809 original size:30 final size:30
Alignment explanation
Indices: 37804769--37804826 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
37804759 ATATTATTTT
* *
37804769 ATTAATTTTTTATTATTTTTAAAGTGTTAA
1 ATTAAATTTTTATTATTTTAAAAGTGTTAA
37804799 ATTAAATTTTTATTATTTTAAAAGTGTT
1 ATTAAATTTTTATTATTTTAAAAGTGTT
37804827 GTAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (30 bp):
ATTAAATTTTTATTATTTTAAAAGTGTTAA
Found at i:37808803 original size:16 final size:18
Alignment explanation
Indices: 37808782--37808815 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
37808772 GTAAAATGTA
37808782 AATTTAT-TATTT-TAAT
1 AATTTATATATTTATAAT
37808798 AATTTATATATTTATAAT
1 AATTTATATATTTATAAT
37808816 TTTTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATATATTTATAAT
Found at i:37819470 original size:10 final size:10
Alignment explanation
Indices: 37819447--37819494 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
37819437 TAATCTTTGA
*
37819447 AAAAAAATAAT
1 AAAAAAAT-TT
37819458 AAAAAAATTT
1 AAAAAAATTT
37819468 AAAAAAAGTTT
1 AAAAAAA-TTT
* *
37819479 ATAAAATTTT
1 AAAAAAATTT
37819489 AAAAAA
1 AAAAAA
37819495 TAGCATGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 16 0.50
11 16 0.50
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:37820140 original size:3 final size:3
Alignment explanation
Indices: 37820132--37820178 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
37820122 TAAATACACC
37820132 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37820179 TTGGTATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37833607 original size:57 final size:58
Alignment explanation
Indices: 37833465--37833595 Score: 180
Period size: 59 Copynumber: 2.3 Consensus size: 58
37833455 TTTAAAAATA
* *
37833465 TTTT-CTAATTTAGTACTTAAATTTTTTTGATCTAATTTAGTACTTGAACTTAGCATT
1 TTTTCCTAATTTGGTACTTAAATTTTTTCGATCTAATTTAGTACTTGAACTTAGCATT
* *
37833522 TTTTCTTAATTTGGTACTTAAATTTTTTTCGA-CTCAATTTGGTACTTGAACTT-G-ATT
1 TTTTCCTAATTTGGTACTTAAA-TTTTTTCGATCT-AATTTAGTACTTGAACTTAGCATT
37833579 TTTTCCTAATTTGGTAC
1 TTTTCCTAATTTGGTAC
37833596 CTATACTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
57 23 0.35
58 18 0.27
59 25 0.38
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.53
Consensus pattern (58 bp):
TTTTCCTAATTTGGTACTTAAATTTTTTCGATCTAATTTAGTACTTGAACTTAGCATT
Found at i:37833607 original size:59 final size:58
Alignment explanation
Indices: 37833465--37833595 Score: 189
Period size: 58 Copynumber: 2.3 Consensus size: 58
37833455 TTTAAAAATA
*
37833465 TTTT-CTAATTTAGTACTTAAATTTTTTTGATCTAATTTAGTACTTGAACTTAGCATT
1 TTTTCCTAATTTGGTACTTAAATTTTTTTGATCTAATTTAGTACTTGAACTTAGCATT
* *
37833522 TTTTCTTAATTTGGTACTTAAATTTTTTTCGA-CTCAATTTGGTACTTGAACTT-G-ATT
1 TTTTCCTAATTTGGTACTTAAATTTTTTT-GATCT-AATTTAGTACTTGAACTTAGCATT
37833579 TTTTCCTAATTTGGTAC
1 TTTTCCTAATTTGGTAC
37833596 CTATACTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
57 23 0.34
58 25 0.37
59 19 0.28
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.53
Consensus pattern (58 bp):
TTTTCCTAATTTGGTACTTAAATTTTTTTGATCTAATTTAGTACTTGAACTTAGCATT
Found at i:37833618 original size:59 final size:59
Alignment explanation
Indices: 37833465--37833624 Score: 168
Period size: 59 Copynumber: 2.7 Consensus size: 59
37833455 TTTAAAAATA
* * * *
37833465 TTTT-CTAATTTAGTACTTAAATTTTTT-TGA-TCTAATTTAGTACTTGAACTTAGCATT
1 TTTTCCTAATTTGGTACCTAAATTTTTTAAGACTC-AATTTGGTACTTGAACTTAGCATT
* * **
37833522 TTTTCTTAATTTGGTACTTAAATTTTTTTCGACTCAATTTGGTACTTGAACTT-G-ATT
1 TTTTCCTAATTTGGTACCTAAATTTTTTAAGACTCAATTTGGTACTTGAACTTAGCATT
* *
37833579 TTTTCCTAATTTGGTACCTATACTTTTTTAAAGATTCAATTTGGTA
1 TTTTCCTAATTTGGTACCTA-AATTTTTT-AAGACTCAATTTGGTA
37833625 TCTAAAATTA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
57 25 0.28
58 29 0.33
59 32 0.36
60 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.52
Consensus pattern (59 bp):
TTTTCCTAATTTGGTACCTAAATTTTTTAAGACTCAATTTGGTACTTGAACTTAGCATT
Found at i:37833816 original size:31 final size:31
Alignment explanation
Indices: 37833779--37833968 Score: 141
Period size: 31 Copynumber: 6.3 Consensus size: 31
37833769 AAAAAGATTG
*
37833779 GGTACCAAATTAGGTAAAAGAGTCAAGTTTA
1 GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
*
37833810 GGTACCAAATT-GGACCCAAA-A---AAGTTTA
1 GGTACCAAATTAGGA--AAAAGAGTCAAGTTTA
* * * * *
37833838 AGTACTAACTTA-AAAAAAGTGTCAAGTTTA
1 GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
*
37833868 GGTACCAAATTAGGAAAAAGTGTCAAGTTT-
1 GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
* *
37833898 GAGTACTAAATT-GGACCAAAA-A--AAAGTTTA
1 G-GTACCAAATTAGGA--AAAAGAGTCAAGTTTA
* * *
37833928 GATACCAAATTAGGAAAAAGTGTTAAGTTTA
1 GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
37833959 GGTACCAAAT
1 GGTACCAAAT
37833969 GTTATATTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 32
0.70 0.11 0.18
Matches are distributed among these distances:
26 3 0.02
28 20 0.16
29 14 0.11
30 26 0.21
31 53 0.43
32 7 0.06
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (31 bp):
GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
Found at i:37834100 original size:23 final size:24
Alignment explanation
Indices: 37834067--37834135 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 24
37834057 GAGAAGGGAT
37834067 AAGTGTCAAGTTTAGGTACCAAAA
1 AAGTGTCAAGTTTAGGTACCAAAA
*
37834091 AA-TGTCAAGTTTAGGTA-TAAAA
1 AAGTGTCAAGTTTAGGTACCAAAA
*
37834113 AAGTATCAAGTTTAGGTACCAAA
1 AAGTGTCAAGTTTAGGTACCAAA
37834136 TGTTAGATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 6 0.15
23 29 0.73
24 5 0.12
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (24 bp):
AAGTGTCAAGTTTAGGTACCAAAA
Found at i:37839083 original size:23 final size:25
Alignment explanation
Indices: 37839049--37839094 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
37839039 CTAATTAGAA
37839049 AATTATTATTT-AGA-TTTAATTAT
1 AATTATTATTTAAGATTTTAATTAT
37839072 AATTATCT-TTTAAGATTTTAATT
1 AATTAT-TATTTAAGATTTTAATT
37839095 TGGATCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
AATTATTATTTAAGATTTTAATTAT
Found at i:37842275 original size:270 final size:270
Alignment explanation
Indices: 37841763--37842312 Score: 1005
Period size: 270 Copynumber: 2.0 Consensus size: 270
37841753 CTTATTAAAT
37841763 TTAATTCGATGAAATCGGTTTAAAATTTTAATTATTGGTTAATTTAGTTCAAAATTAAATAATTA
1 TTAATTCGATGAAATCGGTTTAAAATTTTAATTATTGGTTAATTTAGTTCAAAATTAAATAATTA
*
37841828 TGTGAATTAATCGATATTATTATAATGAACTTAAACAAGTATTATGAAAATTAAAAATATTTGAA
66 TGTGAATTAATCGATACTATTATAATGAACTTAAACAAGTATTATGAAAATTAAAAATATTTGAA
*
37841893 AAATGTCAACAAAAAATATAAATTAATGTTTAATGTAATTATATTTTTAATTTAGTGTTTTTATT
131 AAATGTCAACAAAAAATAAAAATTAATGTTTAATGTAATTATATTTTTAATTTAGTGTTTTTATT
* *
37841958 GTGTAATTTTTTGTTTCTTTATTTGTTTGATTTTTTGAATTAAAAAATATAAATTTTGATTAATT
196 GTGTAATTTTTTGTTTCTTTATTTGTTTGATATTTTGAATTAAAAAATATAAATTTCGATTAATT
*
37842023 CAATTAATTG
261 CAATTAATTA
*
37842033 TTAATTCGATGAAATCGGTTTAAAATTTTAATTATTGGTTAATTTAGTTTAAAATTAAATAATTA
1 TTAATTCGATGAAATCGGTTTAAAATTTTAATTATTGGTTAATTTAGTTCAAAATTAAATAATTA
37842098 TGTGAATTAATCGATACTATTATAATGAACTTAAACAAGTATTATGAAAATTAAAAATATTTGAA
66 TGTGAATTAATCGATACTATTATAATGAACTTAAACAAGTATTATGAAAATTAAAAATATTTG-A
*
37842163 AAAATGTCAACAAAAAATAAAAATTAATGTTTAATGTAATTATATTTTTAATTTAGTGTTTTTCT
130 AAAATGTCAACAAAAAATAAAAATTAATGTTTAATGTAATTATATTTTTAATTTAGTGTTTTTAT
37842228 TGTGTAATTTTTTGTTTCTTTATTTGTTT-A-ATTTTGAATTAAAAAAATATAAATTTCGATTAA
195 TGTGTAATTTTTTGTTTCTTTATTTGTTTGATATTTTGAATT-AAAAAATATAAATTTCGATTAA
37842291 TTCAATTAATTA
259 TTCAATTAATTA
37842303 TTAATTCGAT
1 TTAATTCGAT
37842313 CATATTTGAA
Statistics
Matches: 271, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
269 9 0.03
270 169 0.62
271 93 0.34
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (270 bp):
TTAATTCGATGAAATCGGTTTAAAATTTTAATTATTGGTTAATTTAGTTCAAAATTAAATAATTA
TGTGAATTAATCGATACTATTATAATGAACTTAAACAAGTATTATGAAAATTAAAAATATTTGAA
AAATGTCAACAAAAAATAAAAATTAATGTTTAATGTAATTATATTTTTAATTTAGTGTTTTTATT
GTGTAATTTTTTGTTTCTTTATTTGTTTGATATTTTGAATTAAAAAATATAAATTTCGATTAATT
CAATTAATTA
Found at i:37845221 original size:31 final size:31
Alignment explanation
Indices: 37845151--37845213 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
37845141 ATTTGGTCCA
37845151 TAAACTATTCTAAAGTTTTCATGTAAGTCAC
1 TAAACTATTCTAAAGTTTTCATGTAAGTCAC
* *
37845182 TAAACTATTC-AGAAGTTTTTATTTAAGTCAC
1 TAAACTATTCTA-AAGTTTTCATGTAAGTCAC
37845213 T
1 T
37845214 GGGCTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
TAAACTATTCTAAAGTTTTCATGTAAGTCAC
Found at i:37855343 original size:5 final size:6
Alignment explanation
Indices: 37855325--37855350 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37855315 CGAGAAAAAT
37855325 AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
37855351 CTAGGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:37869129 original size:3 final size:3
Alignment explanation
Indices: 37869121--37869159 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
37869111 CCATTCATTT
37869121 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
37869160 ACTTATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:37872389 original size:14 final size:14
Alignment explanation
Indices: 37872370--37872397 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37872360 TTTTTATAAG
37872370 ATTTTATAATATTA
1 ATTTTATAATATTA
37872384 ATTTTATAATATTA
1 ATTTTATAATATTA
37872398 TAAAAATCAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTATAATATTA
Found at i:37887774 original size:12 final size:13
Alignment explanation
Indices: 37887757--37887787 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
37887747 GGAGTAGTGT
37887757 AAAATATTAAAAA
1 AAAATATTAAAAA
37887770 AAATATATTAAAAA
1 AAA-ATATTAAAAA
37887784 AAAA
1 AAAA
37887788 CAAATGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATATTAAAAA
Found at i:37887779 original size:14 final size:14
Alignment explanation
Indices: 37887760--37887786 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37887750 GTAGTGTAAA
37887760 ATATTAAAAAAAAT
1 ATATTAAAAAAAAT
37887774 ATATTAAAAAAAA
1 ATATTAAAAAAAA
37887787 ACAAATGACA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATATTAAAAAAAAT
Found at i:37891039 original size:23 final size:23
Alignment explanation
Indices: 37890965--37891178 Score: 133
Period size: 23 Copynumber: 9.5 Consensus size: 23
37890955 TAAACGGAAC
* * *
37890965 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
37890987 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
37891009 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
37891035 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
37891055 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
37891074 AATCAAAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
37891097 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
37891120 AATAACAGAGAGCATGA-GACGTGCT
1 -A-AACAGAGAGCA-CACAAAGTGCT
*
37891145 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
37891168 AATCAGAGAGC
1 AAACAGAGAGC
37891179 GCGCTAGTGT
Statistics
Matches: 148, Mismatches: 28, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 76 0.51
24 2 0.01
25 27 0.18
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:37891073 original size:39 final size:39
Alignment explanation
Indices: 37891019--37891093 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
37891009 GGGCAACAGA
* *
37891019 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAAAGAGCACACAAAGTACT
* *
37891058 GAGCACACAAAGTGCTAATCAAAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAAAGAGCACACAAAGT
37891094 GCTAATCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAAAGAGCACACAAAGTACT
Found at i:37895578 original size:17 final size:19
Alignment explanation
Indices: 37895552--37895592 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
37895542 TAATCCATTA
*
37895552 TTTTAGTTTTTA-GCTTTT
1 TTTTAGTTTTAATGCTTTT
*
37895570 TTTTA-TTTTAATTCTTTT
1 TTTTAGTTTTAATGCTTTT
37895588 TTTTA
1 TTTTA
37895593 CCTCGACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTAGTTTTAATGCTTTT
Found at i:37903249 original size:6 final size:6
Alignment explanation
Indices: 37903238--37903276 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
37903228 ATATAATCAC
*
37903238 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAAGA AGA
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGA
37903277 TTATTATTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:37903704 original size:26 final size:26
Alignment explanation
Indices: 37903653--37903705 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
37903643 ATTTCACAAT
*
37903653 TTAAAAATAATAAAAAATATTTTAAA
1 TTAAAAATAATAAAAAATATTATAAA
* *
37903679 TTAAAACTAATTATAAAATA-TATAAA
1 TTAAAAATAA-TAAAAAATATTATAAA
37903705 T
1 T
37903706 ATGAAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
TTAAAAATAATAAAAAATATTATAAA
Found at i:37915583 original size:3 final size:3
Alignment explanation
Indices: 37915575--37915605 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37915565 AGGTTGTGGG
37915575 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
37915606 GCTGACGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:37921366 original size:131 final size:131
Alignment explanation
Indices: 37921125--37921382 Score: 338
Period size: 131 Copynumber: 2.0 Consensus size: 131
37921115 ACCCTTAACC
* * * *
37921125 TATAGCATATAGGCCATTAATGAGAGAGTATGGTACCTCTTGAGCGCTTCCATTTTGTGAAACTG
1 TATAGCATATAGGCCATTAATGAGAGAGCATGGTACCACTTGAGCGCTCCCACTTTGTGAAACTG
* * * * *
37921190 ATAGCATATTCAAACACTTGATCTCTCAACAGAGTCAAAGGATAATTTAAGAAATAAAACAAGGC
66 ATAGCATATTCAAACACTTCACCTCTCAACAAAATCAAAGAATAATTTAAGAAATAAAACAAGGC
37921255 A
131 A
* * *
37921256 TATAGCATATAGGCCGTTAATGAGAGAGCATGGTATCACTTGTGCGCTCCCACTTTGTGAAACT-
1 TATAGCATATAGGCCATTAATGAGAGAGCATGGTACCACTTGAGCGCTCCCACTTTGTGAAACTG
* * * ** *
37921320 ATTAGCATATTCAAGCACTTCACCTCTCGATAAAATCGGAGAATAATTTAATAAATAAAACAA
66 A-TAGCATATTCAAACACTTCACCTCTCAACAAAATCAAAGAATAATTTAAGAAATAAAACAA
37921383 AGTAGAGACA
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
130 1 0.01
131 107 0.99
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (131 bp):
TATAGCATATAGGCCATTAATGAGAGAGCATGGTACCACTTGAGCGCTCCCACTTTGTGAAACTG
ATAGCATATTCAAACACTTCACCTCTCAACAAAATCAAAGAATAATTTAAGAAATAAAACAAGGC
A
Found at i:37923619 original size:3 final size:3
Alignment explanation
Indices: 37923611--37923648 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37923601 GCCTTTCTTT
37923611 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
37923649 TTTTCTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37928908 original size:21 final size:21
Alignment explanation
Indices: 37928884--37928926 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37928874 GAGTCGATGG
*
37928884 GTGA-TATGAAGTCAGCTCTCT
1 GTGATTATGAAG-CAGCACTCT
*
37928905 GTGATTGTGAAGCAGCACTCT
1 GTGATTATGAAGCAGCACTCT
37928926 G
1 G
37928927 CTTGGAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (21 bp):
GTGATTATGAAGCAGCACTCT
Found at i:37936484 original size:30 final size:31
Alignment explanation
Indices: 37936448--37936509 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
37936438 ACATTTCAGC
37936448 CCCTCAA-TTTTGAAAATGTGACAAAACAAT
1 CCCTCAACTTTTGAAAATGTGACAAAACAAT
37936478 CCCTCAACTTTTGAAAATGTGACAAAACAAT
1 CCCTCAACTTTTGAAAATGTGACAAAACAAT
37936509 C
1 C
37936510 ATTTTCCGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (31 bp):
CCCTCAACTTTTGAAAATGTGACAAAACAAT
Found at i:37936641 original size:30 final size:31
Alignment explanation
Indices: 37936600--37936671 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
37936590 ATTACGTTTA
* *
37936600 ACAAAACAGTCACTCAACTT-T-GAAAATGTG
1 ACAAAATAGTCACTAAACTTATCGAAAA-GTG
*
37936630 ACAAAATAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAATAGTCACTAAACTTATCGAAAAGTG
37936661 ACAAAATAGTC
1 ACAAAATAGTC
37936672 CTCTTGTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 17 0.46
31 15 0.41
32 5 0.14
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (31 bp):
ACAAAATAGTCACTAAACTTATCGAAAAGTG
Found at i:37938042 original size:30 final size:31
Alignment explanation
Indices: 37937974--37938044 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
37937964 ATAACAAGAG
* *
37937974 GACTATTTTGTCACTTTTCGATAACTTTAGT
1 GACTGTTTTGTCACTTTTCGATAACTTGAGT
*
37938005 GACTGTTTTGTCACATTTTC-A-AAGTTGAGT
1 GACTGTTTTGTCAC-TTTTCGATAACTTGAGT
*
37938035 GATTGTTTTG
1 GACTGTTTTG
37938045 CTACACGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.46
31 14 0.40
32 5 0.14
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (31 bp):
GACTGTTTTGTCACTTTTCGATAACTTGAGT
Found at i:37942549 original size:17 final size:18
Alignment explanation
Indices: 37942529--37942562 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37942519 AAAAAAATTT
*
37942529 ACAATAAATAT-TAAAAC
1 ACAAAAAATATATAAAAC
37942546 ACAAAAAATATATAAAA
1 ACAAAAAATATATAAAA
37942563 GTAAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (18 bp):
ACAAAAAATATATAAAAC
Found at i:37959693 original size:34 final size:35
Alignment explanation
Indices: 37959631--37959700 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
37959621 CAGTTAAACA
*
37959631 TAAATTCACAATTCACAAAAAAATTTCCATGATCT
1 TAAATTCACAATTCACAAAAAAATTTCCATAATCT
37959666 TAAATTCACAATTCACAAAAAAA-TTCCATAATCT
1 TAAATTCACAATTCACAAAAAAATTTCCATAATCT
37959700 T
1 T
37959701 TTAGCCGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 11 0.32
35 23 0.68
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (35 bp):
TAAATTCACAATTCACAAAAAAATTTCCATAATCT
Found at i:37966291 original size:18 final size:17
Alignment explanation
Indices: 37966268--37966301 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
37966258 TAAAAATTGT
37966268 AATAATTATATATTTAAA
1 AATAATTATA-ATTTAAA
37966286 AATAATTATAATTTAA
1 AATAATTATAATTTAA
37966302 TATAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:37966925 original size:16 final size:16
Alignment explanation
Indices: 37966901--37966952 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
37966891 ATTTTTTTAC
37966901 TTATGGTTGAAATTAT
1 TTATGGTTGAAATTAT
*
37966917 TTATAGTTGAAATTAT
1 TTATGGTTGAAATTAT
37966933 TT-TCGGATTGAAATTAT
1 TTAT-GG-TTGAAATTAT
37966950 TTA
1 TTA
37966953 AGAATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.03
16 18 0.58
17 12 0.39
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (16 bp):
TTATGGTTGAAATTAT
Found at i:37985112 original size:13 final size:14
Alignment explanation
Indices: 37985079--37985112 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37985069 AGAAATTCAA
*
37985079 ATAAAAAATTATAT
1 ATAAAAAATAATAT
*
37985093 TTAAAAAATAATAT
1 ATAAAAAATAATAT
37985107 ATAAAA
1 ATAAAA
37985113 GTTATTGATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAAAATAATAT
Found at i:37986360 original size:6 final size:6
Alignment explanation
Indices: 37986340--37986374 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
37986330 AAATTGTAGC
*
37986340 AATCAA AATCGAA AATAAA AATCAA AATCAA AATC
1 AATCAA AATC-AA AATCAA AATCAA AATCAA AATC
37986375 GAATAAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.66, C:0.14, G:0.03, T:0.17
Consensus pattern (6 bp):
AATCAA
Found at i:37989388 original size:19 final size:19
Alignment explanation
Indices: 37989366--37989404 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37989356 GATAAAATTA
37989366 TATTTAGTTGATAATTTTT
1 TATTTAGTTGATAATTTTT
* **
37989385 TATTTGGTTTTTAATTTTT
1 TATTTAGTTGATAATTTTT
37989404 T
1 T
37989405 CATATTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
TATTTAGTTGATAATTTTT
Found at i:37990130 original size:24 final size:23
Alignment explanation
Indices: 37990097--37990151 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
37990087 ATTTAATCTG
37990097 TAATA-ATTAAAATTTTATTAATT
1 TAATATATTAAAATTTTATT-ATT
*
37990120 TAATATATTAAATTTTTATTATT
1 TAATATATTAAAATTTTATTATT
37990143 TAA-ATATTA
1 TAATATATTA
37990152 TGTTATACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 6 0.20
23 11 0.37
24 13 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATATATTAAAATTTTATTATT
Found at i:38001938 original size:26 final size:26
Alignment explanation
Indices: 38001904--38001953 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
38001894 AAATGGATAC
* *
38001904 TTTAGGTACCAAAATGAGAAAATATA
1 TTTAAGTACCAAAATAAGAAAATATA
38001930 TTTAAGTACCAAAATAAGAAAATA
1 TTTAAGTACCAAAATAAGAAAATA
38001954 AGTACATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.26
Consensus pattern (26 bp):
TTTAAGTACCAAAATAAGAAAATATA
Found at i:38010759 original size:191 final size:192
Alignment explanation
Indices: 38010432--38010777 Score: 509
Period size: 191 Copynumber: 1.8 Consensus size: 192
38010422 AGTTGAAGTC
* * * * * *
38010432 TTGGAGAACAAAAGAAATGGAGATGTATATTATTATTGGCTACTGATATCATGATGAAATACTTT
1 TTGGAGAACAAAAGAAATAGAGATGTATATTATTATAGGCTACAGAGAACATGATGAAACACTTT
*
38010497 CGTCGTGCACCACAAATCTCAAATCAAGAGTATCATAAAACTACAAGTCAAAGTTGTGGTTACAA
66 CGTCGTGCACCACAAATCTCAAATCAAGAGTATCATAAAACTACAAGTCAAAGTTGAGGTTACAA
*
38010562 GTTAAACTTCTTTAAGGGCTACTAAACACGACAACATGTCATATACCCTTTGCAAAAATCTT
131 GTTAAACTTCTTTAAGGGATACTAAACACGACAACATGTCATATACCCTTTGCAAAAATCTT
* * *
38010624 TTGGAGAACAAAAG-AATAGAGGATGTCTATTATTA-AGGGTACAGAGAACATGATGAAGCACTT
1 TTGGAGAACAAAAGAAATAGA-GATGTATATTATTATAGGCTACAGAGAACATGATGAAACAC-T
* * * *
38010687 TTC-TCGTGCACCATAAATCTCAAATCAAGTGTATCATAAGATTACAAGTCAAAGTTGAGGTTAC
64 TTCGTCGTGCACCACAAATCTCAAATCAAGAGTATCATAAAACTACAAGTCAAAGTTGAGGTTAC
*
38010751 ATGTTAAACTTCTTTAAGGGATACTAA
129 AAGTTAAACTTCTTTAAGGGATACTAA
38010778 GTGCAAACAT
Statistics
Matches: 136, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
191 105 0.77
192 31 0.23
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (192 bp):
TTGGAGAACAAAAGAAATAGAGATGTATATTATTATAGGCTACAGAGAACATGATGAAACACTTT
CGTCGTGCACCACAAATCTCAAATCAAGAGTATCATAAAACTACAAGTCAAAGTTGAGGTTACAA
GTTAAACTTCTTTAAGGGATACTAAACACGACAACATGTCATATACCCTTTGCAAAAATCTT
Found at i:38013119 original size:20 final size:20
Alignment explanation
Indices: 38013094--38013141 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
38013084 CATACCAAAT
38013094 TTTTTAAAGATTTATCAATA
1 TTTTTAAAGATTTATCAATA
* * *
38013114 TTTTTAAAGGTTTATTAGTA
1 TTTTTAAAGATTTATCAATA
38013134 TTTTTAAA
1 TTTTTAAA
38013142 TATATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTTTAAAGATTTATCAATA
Found at i:38013149 original size:20 final size:20
Alignment explanation
Indices: 38013094--38013149 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
38013084 CATACCAAAT
* * *
38013094 TTTTTAAAGATTTATCAATA
1 TTTTTAAAGATATATTAGTA
* *
38013114 TTTTTAAAGGTTTATTAGTA
1 TTTTTAAAGATATATTAGTA
*
38013134 TTTTTAAATATATATT
1 TTTTTAAAGATATATT
38013150 TTTTCAATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTTAAAGATATATTAGTA
Found at i:38013234 original size:20 final size:19
Alignment explanation
Indices: 38013174--38013312 Score: 59
Period size: 20 Copynumber: 6.9 Consensus size: 19
38013164 CCCTATCAAC
*
38013174 CCAAAATTTTCTAAG-GTTA
1 CCAAAA-TTTCTAAGATTTA
*
38013193 CATCAAAATATCTAAAGATTTA
1 C--CAAAATTTCT-AAGATTTA
** *
38013215 TTACAATTTCTAAGACTTTA
1 CCAAAATTTCTAAGA-TTTA
*
38013235 CCAAAATTTCTAAGAAATTA
1 CCAAAATTTCTAAG-ATTTA
** * *
38013255 CCAATTTTTTTAAGTTTATA
1 CCAAAATTTCTAAGATT-TA
*
38013275 CCAAAATATT-TAAGTACTTA
1 CCAAAAT-TTCTAAG-ATTTA
38013295 -CAATAATTTCTAAAGATT
1 CCAA-AATTTCT-AAGATT
38013313 CCCTTAGTGT
Statistics
Matches: 88, Mismatches: 20, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
19 11 0.12
20 59 0.67
21 15 0.17
22 3 0.03
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (19 bp):
CCAAAATTTCTAAGATTTA
Found at i:38013408 original size:20 final size:20
Alignment explanation
Indices: 38013385--38013463 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
38013375 TTTGATGCAA
38013385 CCTTAAAATATTTGGTAAAT
1 CCTTAAAATATTTGGTAAAT
*
38013405 CCTT-AGATATTTTGAG-ATAAT
1 CCTTAAAATA-TTTG-GTA-AAT
38013426 -CTTAAAAT-TTTGGTAAAT
1 CCTTAAAATATTTGGTAAAT
*
38013444 TCTTATAAA-ATTTGGTAAAT
1 CCTTA-AAATATTTGGTAAAT
38013464 TTTAGAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
18 4 0.08
19 13 0.27
20 25 0.51
21 7 0.14
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (20 bp):
CCTTAAAATATTTGGTAAAT
Found at i:38013430 original size:40 final size:39
Alignment explanation
Indices: 38013351--38013448 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 39
38013341 CAACATTTAG
* * *
38013351 AAATTTTAGTAATTCATTAGATATTTTGATGCAACCTTA
1 AAATTTTGGTAAATCCTTAGATATTTTGATGCAACCTTA
* *
38013390 AAATATTTGGTAAATCCTTAGATATTTTGA-GATAATCTTA
1 AAAT-TTTGGTAAATCCTTAGATATTTTGATG-CAACCTTA
*
38013430 AAATTTTGGTAAATTCTTA
1 AAATTTTGGTAAATCCTTA
38013449 TAAAATTTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
39 19 0.37
40 32 0.63
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (39 bp):
AAATTTTGGTAAATCCTTAGATATTTTGATGCAACCTTA
Found at i:38019353 original size:43 final size:43
Alignment explanation
Indices: 38019292--38019379 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
38019282 GACATTACAC
*
38019292 AACCATCAATATAAAATTAATGAAAAAATGTTAAAAATCTTGA
1 AACCAGCAATATAAAATTAATGAAAAAATGTTAAAAATCTTGA
*
38019335 AACCAGCAATATAAAATTAATGAAAAAATGTTAGAAATCTTGA
1 AACCAGCAATATAAAATTAATGAAAAAATGTTAAAAATCTTGA
38019378 AA
1 AA
38019380 TAAACAACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (43 bp):
AACCAGCAATATAAAATTAATGAAAAAATGTTAAAAATCTTGA
Found at i:38023201 original size:53 final size:53
Alignment explanation
Indices: 38023121--38023240 Score: 215
Period size: 53 Copynumber: 2.2 Consensus size: 53
38023111 CGGGGCGAAG
38023121 TAAATAAA-AAATTTAAGGACCCTAAATTAAATTATCTAAATTTTTATAATTTT
1 TAAA-AAATAAATTTAAGGACCCTAAATTAAATTATCTAAATTTTTATAATTTT
38023174 TAAAAAATAAATTTAAGGACCCTAAATTAAATTATCTAAATTTTTATAATTTT
1 TAAAAAATAAATTTAAGGACCCTAAATTAAATTATCTAAATTTTTATAATTTT
38023227 TAAAAAATTAAATT
1 TAAAAAA-TAAATT
38023241 AAATTTTTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
52 3 0.05
53 56 0.86
54 6 0.09
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (53 bp):
TAAAAAATAAATTTAAGGACCCTAAATTAAATTATCTAAATTTTTATAATTTT
Found at i:38023262 original size:29 final size:29
Alignment explanation
Indices: 38023210--38023266 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
38023200 TTAAATTATC
38023210 TAAATTTTTATAATTTTTAAAAAATTAAAT
1 TAAATTTTTATAA-TTTTAAAAAATTAAAT
*
38023240 TAAATTTTTATCA-TTTAAGAAAATTAA
1 TAAATTTTTATAATTTTAA-AAAATTAA
38023267 TGTGTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 8 0.32
30 12 0.48
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TAAATTTTTATAATTTTAAAAAATTAAAT
Found at i:38024582 original size:11 final size:11
Alignment explanation
Indices: 38024504--38024583 Score: 54
Period size: 11 Copynumber: 7.4 Consensus size: 11
38024494 GTTTCACTAC
38024504 TATTTTGTTGT
1 TATTTTGTTGT
* * *
38024515 T-GTTTGCTAT
1 TATTTTGTTGT
* *
38024525 CATTTTGATGT
1 TATTTTGTTGT
38024536 TATTTTGTTGT
1 TATTTTGTTGT
* *
38024547 CATTTTGTTAT
1 TATTTTGTTGT
* ** *
38024558 TATATTACTAT
1 TATTTTGTTGT
38024569 TATTTTGTTGT
1 TATTTTGTTGT
38024580 TATT
1 TATT
38024584 GTTTGTATAT
Statistics
Matches: 49, Mismatches: 19, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
10 6 0.12
11 43 0.88
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.65
Consensus pattern (11 bp):
TATTTTGTTGT
Found at i:38024594 original size:22 final size:22
Alignment explanation
Indices: 38024508--38024594 Score: 52
Period size: 22 Copynumber: 3.9 Consensus size: 22
38024498 CACTACTATT
*
38024508 TTGTTGTTGTTTGCTATCATTTTG
1 TTGTTATTGTTTG-TAT-ATTTTG
* * *
38024532 ATGTTATTTTGTTGT-CATTTTG
1 TTGTTATTGT-TTGTATATTTTG
* * **
38024554 TTATTA-TATTACTATTATTTTG
1 TTGTTATTGTTTGTA-TATTTTG
38024576 TTGTTATTGTTTGTATATT
1 TTGTTATTGTTTGTATATT
38024595 GTATAACTCT
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 25 0.56
23 5 0.11
24 8 0.18
25 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.15, T:0.64
Consensus pattern (22 bp):
TTGTTATTGTTTGTATATTTTG
Found at i:38030306 original size:15 final size:15
Alignment explanation
Indices: 38030288--38030379 Score: 57
Period size: 15 Copynumber: 6.2 Consensus size: 15
38030278 AATTCATATT
38030288 TTAATAATAATTATA
1 TTAATAATAATTATA
*
38030303 TTAAAAAT-ATTAT-
1 TTAATAATAATTATA
* *
38030316 TAAATTATATATTAT-
1 TTAATAATA-ATTATA
* *
38030331 TTTATTA-AATTATA
1 TTAATAATAATTATA
*
38030345 TTTAATAATAATCATA
1 -TTAATAATAATTATA
* *
38030361 TTAAAATATAATTAAA
1 TTAATA-ATAATTATA
38030377 TTA
1 TTA
38030380 TTTATTATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
13 10 0.17
14 6 0.10
15 27 0.46
16 16 0.27
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAATAATAATTATA
Found at i:38030370 original size:26 final size:26
Alignment explanation
Indices: 38030283--38030442 Score: 72
Period size: 26 Copynumber: 5.8 Consensus size: 26
38030273 TTTCTAATTC
*
38030283 ATAT-TTTAATAATAATTATATTAAAA
1 ATATATTTAATAATAATCATATT-AAA
* **
38030309 ATATTATTAAATTATATATTATTTTATTAAA
1 ATA-TATTTAA-TA-ATA--ATCATATTAAA
*
38030340 TTATATTTAATAATAATCATATTAAA
1 ATATATTTAATAATAATCATATTAAA
* * **
38030366 ATATAATTAAATTATTTATTATTTTTATTAAA
1 ATAT-ATTTAA-TA---A-TAATCATATTAAA
* *
38030398 TTATATTTAATAATAATCTTATTAAA
1 ATATATTTAATAATAATCATATTAAA
* * *
38030424 ATTTA-GTAACAATAATCAT
1 ATATATTTAATAATAATCAT
38030443 CCACCTAAAA
Statistics
Matches: 102, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
25 11 0.11
26 29 0.28
27 7 0.07
28 9 0.09
29 4 0.04
30 11 0.11
31 11 0.11
32 20 0.20
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
ATATATTTAATAATAATCATATTAAA
Found at i:38030425 original size:58 final size:57
Alignment explanation
Indices: 38030278--38030425 Score: 217
Period size: 58 Copynumber: 2.5 Consensus size: 57
38030268 GATTTTTTCT
*
38030278 AATTCATATTTTAATAATAAT-TATATTAAAAATATTATTAAATTATATATTATTTTATTA
1 AATT-ATA-TTTAATAATAATCT-TATT-AAAATATAATTAAATTATATATTATTTTATTA
* *
38030338 AATTATATTTAATAATAATCATATTAAAATATAATTAAATTATTTATTATTTTTATTA
1 AATTATATTTAATAATAATCTTATTAAAATATAATTAAATTATATATTA-TTTTATTA
38030396 AATTATATTTAATAATAATCTTATTAAAAT
1 AATTATATTTAATAATAATCTTATTAAAAT
38030426 TTAGTAACAA
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
57 22 0.27
58 53 0.65
59 3 0.04
60 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (57 bp):
AATTATATTTAATAATAATCTTATTAAAATATAATTAAATTATATATTATTTTATTA
Found at i:38041259 original size:35 final size:34
Alignment explanation
Indices: 38041206--38041277 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
38041196 ATTTAAATCG
*
38041206 AATAAATATAAAATCTAAAATCT-AAAATTTTAA
1 AATAAAAATAAAATCTAAAATCTAAAAATTTTAA
* *
38041239 AATAAAAATAAAATAACTAAATTCTAAAAATTTTCA
1 AATAAAAATAAAAT--CTAAAATCTAAAAATTTTAA
38041275 AAT
1 AAT
38041278 CTTTTCCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 13 0.39
35 8 0.24
36 12 0.36
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (34 bp):
AATAAAAATAAAATCTAAAATCTAAAAATTTTAA
Found at i:38051830 original size:6 final size:6
Alignment explanation
Indices: 38051805--38051843 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
38051795 ACAATTCATA
* * *
38051805 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
38051844 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:38053768 original size:42 final size:42
Alignment explanation
Indices: 38053709--38053792 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
38053699 CAAATATTTT
*
38053709 TAAACCCAAATATAATTTCATTCTTCAAA-AACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAAC
*
38053751 TAAACCCAAATATAATTTTATTCCTAAATAACACTCATAAAC
1 TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
38053793 AATTCCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 36 0.92
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAAC
Found at i:38059593 original size:6 final size:6
Alignment explanation
Indices: 38059582--38059621 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
38059572 CGTCGCTATG
*
38059582 GAGGAA GAGGAA GAGGAA GAGGAA GA-GAG GAGGAGA GAGG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGA-A GAGG
38059622 CGTCTGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:38065543 original size:16 final size:15
Alignment explanation
Indices: 38065514--38065559 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
38065504 AAAAAAATTG
38065514 AATATAAT-ATATTT
1 AATATAATAATATTT
38065528 AATATAAATAATATTT
1 AATAT-AATAATATTT
*
38065544 AAAATGAATAATATTT
1 AATAT-AATAATATTT
38065560 TGTAAGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 5 0.18
15 3 0.11
16 20 0.71
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AATATAATAATATTT
Found at i:38068303 original size:18 final size:18
Alignment explanation
Indices: 38068282--38068322 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38068272 ATATTAGTTA
38068282 AAATAAAAATATACATTT
1 AAATAAAAATATACATTT
* * *
38068300 AAATTAAATTATATATTT
1 AAATAAAAATATACATTT
38068318 AAATA
1 AAATA
38068323 TTATATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATAAAAATATACATTT
Found at i:38070726 original size:14 final size:15
Alignment explanation
Indices: 38070701--38070733 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
38070691 GAGTACATTA
38070701 AAATATTATAAAAAT
1 AAATATTATAAAAAT
38070716 AAATA-TATAAAAAT
1 AAATATTATAAAAAT
38070730 AAAT
1 AAAT
38070734 GATGATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATTATAAAAAT
Found at i:38070834 original size:22 final size:23
Alignment explanation
Indices: 38070791--38070840 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
38070781 ACCAAATATC
*
38070791 AATTCAAAATATATATTTAAATA
1 AATTCAAAATATATATTAAAATA
* * *
38070814 AATTTAAAA-ATATGTTAAAATC
1 AATTCAAAATATATATTAAAATA
38070836 AATTC
1 AATTC
38070841 TTTTTGGTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTCAAAATATATATTAAAATA
Found at i:38071963 original size:31 final size:31
Alignment explanation
Indices: 38071928--38071996 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
38071918 CTTAACAACC
38071928 CAATGACTTAAATAAAAACTTTTAAATAATT
1 CAATGACTTAAATAAAAACTTTTAAATAATT
* * * *
38071959 CAATGACTTAAATGAAAAGTTTTGAATATTT
1 CAATGACTTAAATAAAAACTTTTAAATAATT
38071990 CAATGAC
1 CAATGAC
38071997 CAACTTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAATT
Found at i:38080391 original size:22 final size:23
Alignment explanation
Indices: 38080349--38080392 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
38080339 AAAGTTGTAA
*
38080349 ATTTCTTTTCAATTTTCAATTTT
1 ATTTCTTTTCAATTTTAAATTTT
38080372 ATTTCTTTT-AATTTTAAATTT
1 ATTTCTTTTCAATTTTAAATTT
38080393 AAATTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTCTTTTCAATTTTAAATTTT
Found at i:38080398 original size:23 final size:24
Alignment explanation
Indices: 38080346--38080398 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
38080336 TAAAAAGTTG
*
38080346 TAAATTTCTTTTCAATTTTCAATT
1 TAAATTTCTTTTCAATTTTAAATT
*
38080370 T-TATTTCTTTT-AATTTTAAATT
1 TAAATTTCTTTTCAATTTTAAATT
38080392 TAAATTT
1 TAAATTT
38080399 ATCAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 11 0.44
23 13 0.52
24 1 0.04
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (24 bp):
TAAATTTCTTTTCAATTTTAAATT
Found at i:38088264 original size:4 final size:4
Alignment explanation
Indices: 38088255--38088290 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
38088245 TCAGTTATGC
*
38088255 TACA TACA TACA TACA TATA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA
38088291 AAGATTGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:38090404 original size:9 final size:9
Alignment explanation
Indices: 38090390--38090446 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
38090380 TATCTCTTTT
38090390 AAATTTTAA
1 AAATTTTAA
38090399 AAA-TTTAA
1 AAATTTTAA
38090407 AAATTTGTAA
1 AAATTT-TAA
38090417 AACATTATT-A
1 AA-ATT-TTAA
38090427 AAATTTATAA
1 AAATTT-TAA
*
38090437 AAATATTAA
1 AAATTTTAA
38090446 A
1 A
38090447 TAAAGTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
8 9 0.22
9 13 0.32
10 14 0.34
11 4 0.10
12 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (9 bp):
AAATTTTAA
Found at i:38090428 original size:21 final size:19
Alignment explanation
Indices: 38090390--38090446 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
38090380 TATCTCTTTT
38090390 AAATTT-TAAAAAT-TTAA
1 AAATTTATAAAAATATTAA
*
38090407 AAATTTGTAAAACATTATT-A
1 AAATTTATAAAA-A-TATTAA
38090427 AAATTTATAAAAATATTAA
1 AAATTTATAAAAATATTAA
38090446 A
1 A
38090447 TAAAGTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 6 0.18
18 9 0.26
19 4 0.12
20 13 0.38
21 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTTATAAAAATATTAA
Done.