Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 80 of 185
Found at i:24683104 original size:20 final size:21
Alignment explanation
Indices: 24683079--24683117 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24683069 TTATTAATAA
*
24683079 TGTAATTAAAAAAA-TAAAAT
1 TGTAATAAAAAAAACTAAAAT
24683099 TGTAATAAAAAAAACTAAA
1 TGTAATAAAAAAAACTAAA
24683118 TAATAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
TGTAATAAAAAAAACTAAAAT
Found at i:24685931 original size:100 final size:100
Alignment explanation
Indices: 24685753--24685952 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 100
24685743 TTTGATCAAA
* * *
24685753 GTAGCTTTGTTTCCACACACAAACAGTTCATTTCTTAGATTGTCTTGAATCCCTTCAAAGCAAAA
1 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGATTATCTTGAATCCCTTCAAAGCAAAA
24685818 CATTTTCTCAAACATAATCAATAAAATTGAAAATG
66 CATTTTCTCAAACATAATCAATAAAATTGAAAATG
** * *
24685853 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCCTATTATCTTGGATCCCTTCAAAGGAAAA
1 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGATTATCTTGAATCCCTTCAAAGCAAAA
* **
24685918 CATTTTCTGAAACATAATTGATAAAATTGAAAATG
66 CATTTTCTCAAACATAATCAATAAAATTGAAAATG
24685953 ATCAAAACAA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (100 bp):
GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGATTATCTTGAATCCCTTCAAAGCAAAA
CATTTTCTCAAACATAATCAATAAAATTGAAAATG
Found at i:24697177 original size:9 final size:10
Alignment explanation
Indices: 24697154--24697179 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24697144 GGTATTGTAA
24697154 AAAAATCAAT
1 AAAAATCAAT
24697164 AAAAATCAAT
1 AAAAATCAAT
24697174 AAAAAT
1 AAAAAT
24697180 TTCGTGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:24703752 original size:20 final size:20
Alignment explanation
Indices: 24703706--24703752 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
24703696 AGCTCGTTTC
*
24703706 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
24703726 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
24703746 CAGCTCA
1 CAGCTCA
24703753 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:24706509 original size:16 final size:16
Alignment explanation
Indices: 24706488--24706530 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
24706478 TTGGATTTTA
* *
24706488 AAAAAAAGAGAAATTC
1 AAAAAAAGAAAAAATC
*
24706504 AAAAAAAAAAAAAATC
1 AAAAAAAGAAAAAATC
24706520 AAAAAAAGAAA
1 AAAAAAAGAAA
24706531 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAAGAAAAAATC
Found at i:24707543 original size:6 final size:6
Alignment explanation
Indices: 24707524--24707628 Score: 54
Period size: 6 Copynumber: 17.2 Consensus size: 6
24707514 GAAAGAAAAC
* ** * *
24707524 AAAAGA AAACGA AAAAG- AAAAGA AATTGC AAAAGA AAAAGA AATCA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA
** * * *
24707571 AAAAG- TGAAGA AAAAGA AAATGAA GAAAAGA AAATTGA AAAAGA AAAGCGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A -AAAAGA AAA-AGA AAAAGA AAA-AGA
24707622 AAAAGA A
1 AAAAGA A
24707629 TTTGAAAAGA
Statistics
Matches: 71, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
5 9 0.13
6 45 0.63
7 13 0.18
8 4 0.06
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAAGA
Found at i:24707596 original size:15 final size:15
Alignment explanation
Indices: 24707571--24707617 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
24707561 AAGAAATCAA
24707571 AAAAGTGAAGAAAAAG
1 AAAA-TGAAGAAAAAG
24707587 AAAATGAAG-AAAAG
1 AAAATGAAGAAAAAG
*
24707601 AAAAT--TGAAAAAG
1 AAAATGAAGAAAAAG
24707614 AAAA
1 AAAA
24707618 GCGAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.03
13 9 0.31
14 10 0.34
15 5 0.17
16 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (15 bp):
AAAATGAAGAAAAAG
Found at i:24707614 original size:13 final size:12
Alignment explanation
Indices: 24707524--24707628 Score: 65
Period size: 12 Copynumber: 8.6 Consensus size: 12
24707514 GAAAGAAAAC
*
24707524 AAAAGAAAACGA
1 AAAAGAAAATGA
24707536 AAAAGAAAA-GA
1 AAAAGAAAATGA
**
24707547 AATTGCAAAA-GA
1 AAAAG-AAAATGA
*
24707559 AAAAG-AAATCAA
1 AAAAGAAAAT-GA
**
24707571 AAAAGTGAA-GA
1 AAAAGAAAATGA
24707582 AAAAGAAAATGAA
1 AAAAGAAAATG-A
24707595 GAAAAGAAAATTGA
1 -AAAAGAAAA-TGA
*
24707609 AAAAGAAAAGCGA
1 AAAAGAAAA-TGA
24707622 AAAAGAA
1 AAAAGAA
24707629 TTTGAAAAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
10 3 0.04
11 13 0.18
12 25 0.34
13 21 0.28
14 10 0.14
15 2 0.03
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:24707616 original size:18 final size:18
Alignment explanation
Indices: 24707519--24707618 Score: 64
Period size: 18 Copynumber: 5.6 Consensus size: 18
24707509 AAATTGAAAG
*
24707519 AAAACAAAAGAAAA-CGA
1 AAAAGAAAAGAAAATCGA
* *
24707536 AAAAGAAAAG-AAATTGC
1 AAAAGAAAAGAAAATCGA
*
24707553 AAAAGAAAA-AGAAATCAA
1 AAAAGAAAAGA-AAATCGA
** *
24707571 AAAAGTGAAGAAAA-AGAA
1 AAAAGAAAAGAAAATCG-A
*
24707589 AATGAAGAAAAGAAAATTGA
1 AA--AAGAAAAGAAAATCGA
24707609 AAAAGAAAAG
1 AAAAGAAAAG
24707619 CGAAAAAGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
16 3 0.05
17 19 0.31
18 25 0.40
19 1 0.02
20 13 0.21
21 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAGAAAATCGA
Found at i:24710667 original size:21 final size:22
Alignment explanation
Indices: 24710642--24710683 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
24710632 AAAGAGATTG
*
24710642 AAAAAGAAAT-TAAAAGAAAAC
1 AAAAAGAAATGAAAAAGAAAAC
24710663 AAAAAGAAATGAAAAAGAAAA
1 AAAAAGAAATGAAAAAGAAAA
24710684 AGAAATTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAAAGAAATGAAAAAGAAAAC
Found at i:24710682 original size:6 final size:6
Alignment explanation
Indices: 24710653--24710791 Score: 61
Period size: 6 Copynumber: 22.8 Consensus size: 6
24710643 AAAAGAAATT
* * ** *
24710653 AAAAG- AAAACA AAAAG- AAATGA AAAAGA AAAAGA AATTGC AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * * * * *
24710699 AAAAGA AATCA-A AAAAGT GAGAGA AAAAGA AAATGAA GAAAAGA AAATTGA
1 AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA AAAAG-A -AAAAGA AAA-AGA
** * *
24710750 AAAAGA AATTGA GAATGA AAAA-A AAAATTGA AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA--GA AAAAGA AAAAG
24710792 TGAAAAAAGA
Statistics
Matches: 96, Mismatches: 28, Indels: 19
0.67 0.20 0.13
Matches are distributed among these distances:
5 14 0.15
6 65 0.68
7 8 0.08
8 9 0.09
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.09
Consensus pattern (6 bp):
AAAAGA
Found at i:24710696 original size:18 final size:18
Alignment explanation
Indices: 24710658--24710791 Score: 80
Period size: 18 Copynumber: 7.6 Consensus size: 18
24710648 AAATTAAAAG
*
24710658 AAAACAAAAAGAAA-TGA
1 AAAAGAAAAAGAAATTGA
*
24710675 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATTGA
**
24710693 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATTGA
** * **
24710711 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAATTGA
* *
24710729 AAATG---AAGAAA-AGA
1 AAAAGAAAAAGAAATTGA
*
24710743 AAATTGAAAAAGAAATTGA
1 AAA-AGAAAAAGAAATTGA
* * *
24710762 GAATGAAAAAAAAAATTGA
1 AAAAG-AAAAAGAAATTGA
24710781 AAAAGAAAAAG
1 AAAAGAAAAAG
24710792 TGAAAAAAGA
Statistics
Matches: 91, Mismatches: 19, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
14 6 0.07
15 7 0.08
17 13 0.14
18 46 0.51
19 19 0.21
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (18 bp):
AAAAGAAAAAGAAATTGA
Found at i:24710751 original size:27 final size:27
Alignment explanation
Indices: 24710721--24710809 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 27
24710711 AAAAGTGAGA
24710721 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
* *
24710748 GAAAAAGAAATTGAGAATGAAAAAAAAAATT
1 GAAAAAGAAAAT--GAA-G-AAAAGAAAATT
24710779 GAAAAAGAAAAAGTGAA-AAAAG-AAATT
1 GAAAAAG-AAAA-TGAAGAAAAGAAAATT
24710806 GAAA
1 GAAA
24710810 GAGAGCTTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
27 20 0.38
28 4 0.08
29 3 0.06
30 1 0.02
31 20 0.38
32 3 0.06
33 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:24710777 original size:19 final size:19
Alignment explanation
Indices: 24710749--24710790 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24710739 AAGAAAATTG
* * *
24710749 AAAAAGAAATTGAGAATGA
1 AAAAAAAAATTGAAAAAGA
24710768 AAAAAAAAATTGAAAAAGA
1 AAAAAAAAATTGAAAAAGA
24710787 AAAA
1 AAAA
24710791 GTGAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATTGAAAAAGA
Found at i:24710843 original size:33 final size:33
Alignment explanation
Indices: 24710806--24710868 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
24710796 AAAAGAAATT
24710806 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
24710839 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
24710869 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:24712682 original size:30 final size:30
Alignment explanation
Indices: 24712647--24712720 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
24712637 AGTTTTTCCC
*
24712647 AGCTCGATTT-AGCTCACA-TGAGCTTATTTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTACTTT
*
24712677 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTACTTT
24712707 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
24712721 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTACTTT
Found at i:24727055 original size:6 final size:6
Alignment explanation
Indices: 24727044--24727069 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24727034 TAAATAAGTT
24727044 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
24727070 CCAAACTACA
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:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:24730964 original size:47 final size:47
Alignment explanation
Indices: 24730878--24730996 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 47
24730868 TATTTGAATA
* * * *
24730878 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
24730927 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
24730974 GATGTGAAAGTGTATAAATGTGA
1 AATGTGAAAGTGTATATATGTGA
24730997 TAAGTCCCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 50 0.81
49 12 0.19
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:24753632 original size:16 final size:16
Alignment explanation
Indices: 24753593--24753635 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
24753583 GTATGGGAGC
*
24753593 ATACATGAATGGCTGG
1 ATACATGGATGGCTGG
24753609 ATACATGGATGGCTGG
1 ATACATGGATGGCTGG
*
24753625 ATTCATGGATG
1 ATACATGGATG
24753636 TGGCTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (16 bp):
ATACATGGATGGCTGG
Found at i:24756061 original size:20 final size:20
Alignment explanation
Indices: 24756038--24756089 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
24756028 ATACCAACTA
** *
24756038 AAAAATATCGATACTTTTGT
1 AAAAATATCGATACTGGTGC
*
24756058 AAAAATATCAATACTGGTGC
1 AAAAATATCGATACTGGTGC
24756078 AAAAATATCGAT
1 AAAAATATCGAT
24756090 GCCACGGGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAAATATCGATACTGGTGC
Found at i:24762934 original size:30 final size:30
Alignment explanation
Indices: 24762900--24762977 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
24762890 TATCGGCCAT
*
24762900 AGCCCAATGCAGTAACAGAGTGTGGGCCTC
1 AGCCCAATACAGTAACAGAGTGTGGGCCTC
* *
24762930 AGCCCAATACTGTAACAGAGTGTGGGCCTT
1 AGCCCAATACAGTAACAGAGTGTGGGCCTC
24762960 AGCCCAATACAGTAACAG
1 AGCCCAATACAGTAACAG
24762978 TGCAAATGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (30 bp):
AGCCCAATACAGTAACAGAGTGTGGGCCTC
Found at i:24763374 original size:27 final size:27
Alignment explanation
Indices: 24763344--24763604 Score: 316
Period size: 27 Copynumber: 9.7 Consensus size: 27
24763334 CATGTCCTAG
24763344 GGGTATTTCAGTAATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
* *
24763371 GGGTATTTCAGTAATATTACCCATCAA
1 GGGTATTTCAGTAATTTTACCCATCGA
24763398 GGGTATTTC-GATAATTTTACCCATCGA
1 GGGTATTTCAG-TAATTTTACCCATCGA
*
24763425 GGGTATTT-TGATAATTTTACCCATCGA
1 GGGTATTTCAG-TAATTTTACCCATCGA
* *
24763452 GGGTATTTCGGTAATTTT-CCCAT-TA
1 GGGTATTTCAGTAATTTTACCCATCGA
* * *
24763477 GGAGTATTT-TGATAATTTTTCCCATCAA
1 GG-GTATTTCAG-TAATTTTACCCATCGA
* *
24763505 AGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
*
24763532 GGGTATTTTAGTAATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
* * *
24763559 GGTTATTTCGGTCATTTTACCCATCGA
1 GGGTATTTCAGTAATTTTACCCATCGA
*
24763586 GGGTATTTCAGTTATTTTA
1 GGGTATTTCAGTAATTTTA
24763605 GAGGCCCATT
Statistics
Matches: 204, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
25 4 0.02
26 19 0.09
27 177 0.87
28 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCCATCGA
Found at i:24763531 original size:107 final size:108
Alignment explanation
Indices: 24763344--24763597 Score: 372
Period size: 107 Copynumber: 2.4 Consensus size: 108
24763334 CATGTCCTAG
* *
24763344 GGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCAGTAATATTACCCATCAAGGGTATTTCGA
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGTAATATTACCCATCAAAGGTATTTCGA
24763409 TAATTTTACCCATCGAGGGTATTTT-GATAATTTTACCCATCGA
66 TAATTTTACCCATCGAGGGTATTTTAG-TAATTTTACCCATCGA
* * * *
24763452 GGGTATTTCGGTAATTTT-CCCAT-TAGGAGTATTT-TGATAATTTTTCCCATCAAAGGTATTTC
1 GGGTATTTCGGTAATTTTACCCATCGAGG-GTATTTCAG-TAATATTACCCATCAAAGGTATTTC
*
24763514 GGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGA
64 GATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGA
* *
24763559 GGTTATTTCGGTCATTTTACCCATCGAGGGTATTTCAGT
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGT
24763598 TATTTTAGAG
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
106 4 0.03
107 91 0.71
108 30 0.23
109 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (108 bp):
GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCAGTAATATTACCCATCAAAGGTATTTCGA
TAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGA
Found at i:24764296 original size:28 final size:28
Alignment explanation
Indices: 24764265--24764320 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24764255 ACCAACTAAG
24764265 AATCAAAACAGAGAGAGAGGAGAACATT
1 AATCAAAACAGAGAGAGAGGAGAACATT
24764293 AATCAAAACAGAGAGAGAGGAGAACATT
1 AATCAAAACAGAGAGAGAGGAGAACATT
24764321 TAGTTAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.25, T:0.11
Consensus pattern (28 bp):
AATCAAAACAGAGAGAGAGGAGAACATT
Found at i:24766157 original size:20 final size:22
Alignment explanation
Indices: 24766124--24766172 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
24766114 GAACGAATCC
24766124 AAAATGAAATTGAGA-AAAGAA-A
1 AAAAT-AAATTGAGAGAAA-AAGA
24766146 AAAATAAA-TGAGAGAAAAAGA
1 AAAATAAATTGAGAGAAAAAGA
24766167 AAAATA
1 AAAATA
24766173 GATAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.28
21 13 0.52
22 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAATAAATTGAGAGAAAAAGA
Found at i:24769358 original size:43 final size:43
Alignment explanation
Indices: 24769293--24769437 Score: 116
Period size: 42 Copynumber: 3.4 Consensus size: 43
24769283 CCAACATCCT
* * * * *
24769293 AGACGAGGTCTTTCATGT-AATCAAATACCGATGCCACTGTCCT
1 AGACAAGGTCTTACACGTAAATCAAATA-CGATGCCAATGTCCC
* * *
24769336 AGATAAGGTCTTACACG-AAATCATATATGATGCCAATGTCCC
1 AGACAAGGTCTTACACGTAAATCAAATACGATGCCAATGTCCC
* * * *
24769378 AGACATGGTCTTACACGTAAATCTCAAAT-CAATGCCAACGTCCT
1 AGACAAGGTCTTACACGTAAA--TCAAATACGATGCCAATGTCCC
* *
24769422 AGACATGGCCTTACAC
1 AGACAAGGTCTTACAC
24769438 AAAATCACAT
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 27 0.33
43 24 0.29
44 26 0.32
45 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
AGACAAGGTCTTACACGTAAATCAAATACGATGCCAATGTCCC
Found at i:24769388 original size:42 final size:43
Alignment explanation
Indices: 24769280--24769449 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 43
24769270 AGCTCGTACA
** * * * * *
24769280 ATGCCAACATCCTAGACGA-GGTCTTTCATGTAATCAAATACCG
1 ATGCCAATGTCCTAGAC-ATGGTCTTACACGAAATCATATATCG
* * *
24769323 ATGCCACTGTCCTAGATAAGGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATATCG
* * *
24769365 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCA
1 ATGCCAATGTCCTAGACATGGTCTTACACG-AAATCAT-ATATCG
* * * *
24769409 ATGCCAACGTCCTAGACATGGCCTTACACAAAATCACATAT
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATAT
24769450 TAGAATCCTA
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
42 29 0.29
43 46 0.46
44 26 0.26
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATATCG
Found at i:24769426 original size:44 final size:42
Alignment explanation
Indices: 24769323--24769444 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 42
24769313 TCAAATACCG
* * * *
24769323 ATGCC-ACTGTCCTAGATAAGGTCTTACACGAAATCATATATG
1 ATGCCAAC-GTCCTAGACATGGTCTTACACGAAATCATAAATA
* *
24769365 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCA
1 ATGCCAACGTCCTAGACATGGTCTTACACG-AAATCAT-AAAT-A
* *
24769409 ATGCCAACGTCCTAGACATGGCCTTACACAAAATCA
1 ATGCCAACGTCCTAGACATGGTCTTACACGAAATCA
24769445 CATATTAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 25 0.38
43 14 0.22
44 26 0.40
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACATGGTCTTACACGAAATCATAAATA
Found at i:24770777 original size:46 final size:46
Alignment explanation
Indices: 24770705--24770795 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
24770695 TATTGCAAGC
*
24770705 TGAACTTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTGT
1 TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTGT
24770751 TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTG
1 TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTG
24770796 CTGGACTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (46 bp):
TGAAATTTAATTTAATTAAACTCATCTTAGTTAATAATTGAGTTGT
Found at i:24776621 original size:12 final size:12
Alignment explanation
Indices: 24776606--24776631 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24776596 ACCACCATTA
24776606 CATCGACCACTG
1 CATCGACCACTG
24776618 CATCGACCACTG
1 CATCGACCACTG
24776630 CA
1 CA
24776632 CCTATGACAG
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:0.27, C:0.42, G:0.15, T:0.15
Consensus pattern (12 bp):
CATCGACCACTG
Found at i:24779524 original size:19 final size:19
Alignment explanation
Indices: 24779496--24779534 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
24779486 TAATATTTAG
*
24779496 TTTAAGTATTAAATGTGTC
1 TTTAAGTATTAAATATGTC
* *
24779515 TTTAATTATTTAATATGTC
1 TTTAAGTATTAAATATGTC
24779534 T
1 T
24779535 AAGTATTTTT
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:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTAAGTATTAAATATGTC
Found at i:24784231 original size:30 final size:30
Alignment explanation
Indices: 24784197--24784274 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
24784187 ATAGCCGAAT
* * *
24784197 CCATCCCGTTTCATAATTTGATGGTCGTTA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
*
24784227 CCATCCCTTTTCATTATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCGATGGTCGTCA
*
24784257 CCATCCCTTTTCACAATT
1 CCATCCCTTTTCATAATT
24784275 GATAGCAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATGGTCGTCA
Found at i:24785095 original size:4 final size:4
Alignment explanation
Indices: 24785086--24785113 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
24785076 TTTGTTTTAC
24785086 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
24785114 CTTATTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:24785751 original size:21 final size:21
Alignment explanation
Indices: 24785725--24785778 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
24785715 TCATCTTCGG
*
24785725 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTTCTGTAGCAA
*
24785746 CAACTTCCTCTTCTGTAGCAA
1 CAACTTCTTCTTCTGTAGCAA
24785767 CAACTTCCTTCT
1 CAACTT-CTTCT
24785779 CAATAATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (21 bp):
CAACTTCTTCTTCTGTAGCAA
Found at i:24807389 original size:19 final size:18
Alignment explanation
Indices: 24807353--24807392 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24807343 TTTCCACTCG
*
24807353 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
24807371 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
24807390 TTT
1 TTT
24807393 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:24808472 original size:14 final size:14
Alignment explanation
Indices: 24808453--24808507 Score: 85
Period size: 14 Copynumber: 3.9 Consensus size: 14
24808443 ACTAGCTCTC
24808453 TTTTTTTTCACAATT
1 TTTTTTTTCACAA-T
24808468 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
*
24808482 TTTTTTTTCA-AAA
1 TTTTTTTTCACAAT
24808495 TTTTTTTTCACAA
1 TTTTTTTTCACAA
24808508 CTTGATATCC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
13 12 0.32
14 13 0.34
15 13 0.34
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:24808473 original size:15 final size:15
Alignment explanation
Indices: 24808453--24808502 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
24808443 ACTAGCTCTC
24808453 TTTTTTTTCACAATT
1 TTTTTTTTCACAATT
24808468 TTTTTTTTCACAA-T
1 TTTTTTTTCACAATT
*
24808482 TTTTTTTTCAAAATT
1 TTTTTTTTCACAATT
24808497 TTTTTT
1 TTTTTT
24808503 CACAACTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
14 13 0.39
15 20 0.61
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTTTCACAATT
Found at i:24808567 original size:12 final size:12
Alignment explanation
Indices: 24808550--24808603 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
24808540 ACCAAAAAAA
24808550 TTTTTTTTGAAT
1 TTTTTTTTGAAT
24808562 TTTTTTTTGAA-
1 TTTTTTTTGAAT
24808573 TTTTTTTTGAAT
1 TTTTTTTTGAAT
* *
24808585 TTTTTTTCGAGT
1 TTTTTTTTGAAT
24808597 TTTTTTT
1 TTTTTTT
24808604 CGAGAAACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.28
12 28 0.72
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:24808577 original size:23 final size:23
Alignment explanation
Indices: 24808548--24808603 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
24808538 AAACCAAAAA
*
24808548 AATTTTTTTTGAATTTTTTTTTG
1 AATTTTTTTTGAATTTTTTTTCG
24808571 AATTTTTTTTGAATTTTTTTTCG
1 AATTTTTTTTGAATTTTTTTTCG
*
24808594 AGTTTTTTTT
1 AATTTTTTTT
24808604 CGAGAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (23 bp):
AATTTTTTTTGAATTTTTTTTCG
Found at i:24808607 original size:12 final size:11
Alignment explanation
Indices: 24808548--24808603 Score: 85
Period size: 11 Copynumber: 4.9 Consensus size: 11
24808538 AAACCAAAAA
24808548 AATTTTTTTTG
1 AATTTTTTTTG
24808559 AATTTTTTTTTG
1 AA-TTTTTTTTG
24808571 AATTTTTTTTG
1 AATTTTTTTTG
24808582 AATTTTTTTTCG
1 AATTTTTTTT-G
*
24808594 AGTTTTTTTT
1 AATTTTTTTT
24808604 CGAGAAACTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
11 21 0.50
12 21 0.50
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:24812602 original size:50 final size:51
Alignment explanation
Indices: 24812538--24812722 Score: 223
Period size: 51 Copynumber: 3.6 Consensus size: 51
24812528 TATCATTCAA
* * * *
24812538 TACACGTAGAAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAATCCTTCCGG
* *
24812588 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAATCCTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAATCCTTCCGG
* * * *
24812639 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTAT-CTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AATCCT-TCCGG
* *
24812690 TACACGGAGTAGCCTGCACTTAGTACTACACAC
1 TACACGTAGTAGCCTGCACATAGTACTACACAC
24812723 ATGTTTATAG
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
50 38 0.33
51 75 0.65
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAATCCTTCCGG
Found at i:24812995 original size:14 final size:14
Alignment explanation
Indices: 24812976--24813004 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24812966 TATTTCATAT
24812976 TCAACCATTTCTCA
1 TCAACCATTTCTCA
24812990 TCAACCATTTCTCA
1 TCAACCATTTCTCA
24813004 T
1 T
24813005 ATATTATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (14 bp):
TCAACCATTTCTCA
Found at i:24820977 original size:22 final size:24
Alignment explanation
Indices: 24820951--24820994 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24820941 TATATAATCT
*
24820951 ATATATT-TT-TTTTATTCTATGA
1 ATATATTGTTATTTTATACTATGA
24820973 ATATATTGTTATTTTATACTAT
1 ATATATTGTTATTTTATACTAT
24820995 TATAACTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
ATATATTGTTATTTTATACTATGA
Found at i:24825354 original size:8 final size:9
Alignment explanation
Indices: 24825314--24825346 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
24825304 ATTCGATCAA
*
24825314 AAAAAAATC
1 AAAAAATTC
24825323 AAAAAATTC
1 AAAAAATTC
24825332 AAAAAATTC
1 AAAAAATTC
24825341 AAAAAA
1 AAAAAA
24825347 AATTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAATTC
Found at i:24827900 original size:44 final size:44
Alignment explanation
Indices: 24827837--24827921 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
24827827 ATATCGCATC
24827837 ATTACAAGACATAGTTCATTTCAACACTTACCATTATTTTCATA
1 ATTACAAGACATAGTTCATTTCAACACTTACCATTATTTTCATA
*
24827881 ATTACAATACATAGTTCATTTCAACACTTACCATTATTTTC
1 ATTACAAGACATAGTTCATTTCAACACTTACCATTATTTTC
24827922 CTTTTCATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (44 bp):
ATTACAAGACATAGTTCATTTCAACACTTACCATTATTTTCATA
Found at i:24830968 original size:14 final size:14
Alignment explanation
Indices: 24830949--24830978 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24830939 ATCTTCATAA
24830949 ATTTCTTCCATCAC
1 ATTTCTTCCATCAC
24830963 ATTTCTTCCATCAC
1 ATTTCTTCCATCAC
24830977 AT
1 AT
24830979 CTCAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTCTTCCATCAC
Found at i:24849614 original size:20 final size:21
Alignment explanation
Indices: 24849583--24849622 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
24849573 ACTTCCACTC
24849583 TCTCACTTTTTCCTTTCTTTT
1 TCTCACTTTTTCCTTTCTTTT
*
24849604 TCTCA-TTTTTCTTTTCTTT
1 TCTCACTTTTTCCTTTCTTT
24849623 CTCTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTCACTTTTTCCTTTCTTTT
Found at i:24855258 original size:22 final size:22
Alignment explanation
Indices: 24855207--24855272 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
24855197 GGTATTTGGG
* *
24855207 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
24855228 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
24855250 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
24855273 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:24859827 original size:13 final size:13
Alignment explanation
Indices: 24859809--24859845 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
24859799 AAACCGTATG
24859809 CAATTTTTTTTTT
1 CAATTTTTTTTTT
24859822 CAA-TTTTTTTTT
1 CAATTTTTTTTTT
24859834 CAAATTTTTTTT
1 C-AATTTTTTTT
24859846 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 5 0.23
14 7 0.32
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:24859830 original size:12 final size:12
Alignment explanation
Indices: 24859813--24859870 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
24859803 CGTATGCAAT
24859813 TTTTTTTTTCAA
1 TTTTTTTTTCAA
24859825 TTTTTTTTTCAA
1 TTTTTTTTTCAA
*
24859837 ATTTTTTTTC--
1 TTTTTTTTTCAA
24859847 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
24859860 CTCTTTTTTTT
1 -T-TTTTTTTT
24859871 ACGTACCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 9 0.23
12 21 0.54
14 1 0.03
15 8 0.21
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:24859866 original size:22 final size:22
Alignment explanation
Indices: 24859825--24859867 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24859815 TTTTTTTCAA
* *
24859825 TTTTTTTTTCAAATTTTTTTTC
1 TTTTTTTTTCAAACTCTTTTTC
*
24859847 TTTTTTTTTCGAACTCTTTTT
1 TTTTTTTTTCAAACTCTTTTT
24859868 TTTACGTACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTTTTCAAACTCTTTTTC
Found at i:24860230 original size:22 final size:22
Alignment explanation
Indices: 24860171--24860236 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
24860161 GGTATTTGGG
* *
24860171 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
24860192 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* * *
24860214 ATTTGGTATGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
24860237 TCAAAGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 19 0.50
22 14 0.37
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:24861998 original size:21 final size:21
Alignment explanation
Indices: 24861972--24862014 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24861962 TCATCTTCAG
*
24861972 CAACTTCTTCTTCT-TCAGCAA
1 CAACTTCCTCTTCTGT-AGCAA
24861993 CAACTTCCTCTTCTGTAGCAA
1 CAACTTCCTCTTCTGTAGCAA
24862014 C
1 C
24862015 TTCCTTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (21 bp):
CAACTTCCTCTTCTGTAGCAA
Found at i:24861999 original size:18 final size:18
Alignment explanation
Indices: 24861965--24862019 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
24861955 TTCCTTTTCA
** *
24861965 TCTTCAGCAACTTCTTCT
1 TCTTCAGCAACAACTTCC
24861983 TCTTCAGCAACAACTTCC
1 TCTTCAGCAACAACTTCC
* * *
24862001 TCTTCTGTAGCAACTTCC
1 TCTTCAGCAACAACTTCC
24862019 T
1 T
24862020 TCTCAACAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (18 bp):
TCTTCAGCAACAACTTCC
Found at i:24863405 original size:10 final size:10
Alignment explanation
Indices: 24863381--24863429 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
24863371 AGCTCGTTTC
*
24863381 CAGCTCACTT
1 CAGCTCAATT
* *
24863391 GAGCTCAAGT
1 CAGCTCAATT
24863401 CAGCTC-ATT
1 CAGCTCAATT
24863410 CGAGCTCAATT
1 C-AGCTCAATT
24863421 CAGCTCAAT
1 CAGCTCAAT
24863430 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:24863406 original size:20 final size:20
Alignment explanation
Indices: 24863381--24863427 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24863371 AGCTCGTTTC
24863381 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
24863401 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
24863421 CAGCTCA
1 CAGCTCA
24863428 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:24864988 original size:11 final size:11
Alignment explanation
Indices: 24864974--24865010 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
24864964 CAAAAAAATC
24864974 AAAATTCAAAA
1 AAAATTCAAAA
24864985 AAAATTCAAAA
1 AAAATTCAAAA
24864996 AAAATTCAAAA
1 AAAATTCAAAA
24865007 AAAA
1 AAAA
24865011 AGAAGTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATTCAAAA
Found at i:24865036 original size:9 final size:9
Alignment explanation
Indices: 24865022--24865047 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24865012 GAAGTGAGCA
24865022 AAAAAAAAG
1 AAAAAAAAG
24865031 AAAAAAAAG
1 AAAAAAAAG
24865040 AAAAAAAA
1 AAAAAAAA
24865048 AGAAGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24865036 original size:10 final size:10
Alignment explanation
Indices: 24865021--24865051 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
24865011 AGAAGTGAGC
24865021 AAAAAAAAAG
1 AAAAAAAAAG
24865031 -AAAAAAAAG
1 AAAAAAAAAG
24865040 AAAAAAAAAG
1 AAAAAAAAAG
24865050 AA
1 AA
24865052 GTGAAAGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:24865058 original size:19 final size:20
Alignment explanation
Indices: 24865002--24865058 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
24864992 AAAAAAAATT
24865002 CAAAAAAAAAGAAGTG--AG
1 CAAAAAAAAAGAAGTGAAAG
***
24865020 CAAAAAAAAAGAAAAAAAAG
1 CAAAAAAAAAGAAGTGAAAG
24865040 -AAAAAAAAAGAAGTGAAAG
1 CAAAAAAAAAGAAGTGAAAG
24865059 TCTTGCGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 13 0.42
19 16 0.52
20 2 0.06
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (20 bp):
CAAAAAAAAAGAAGTGAAAG
Found at i:24866119 original size:15 final size:15
Alignment explanation
Indices: 24866094--24866140 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
24866084 AGAAAAGAAT
24866094 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
24866110 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
24866125 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
24866140 A
1 A
24866141 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:24866187 original size:12 final size:12
Alignment explanation
Indices: 24866170--24866230 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
24866160 AGTGAAAAGC
24866170 AAAAAGAGATTG
1 AAAAAGAGATTG
*
24866182 AAAAAGAAATTG
1 AAAAAGAGATTG
*
24866194 --AAAGAG-TGG
1 AAAAAGAGATTG
*
24866203 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
24866215 AAAGAGAGCTTG
1 AAAAAGAGATTG
24866227 AAAA
1 AAAA
24866231 GAAATCGAGT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 2 0.05
10 5 0.14
11 5 0.14
12 25 0.68
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:24866207 original size:21 final size:22
Alignment explanation
Indices: 24866172--24866221 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
24866162 TGAAAAGCAA
*
24866172 AAAGAGATTGAAAAAGAAATTG
1 AAAGAGATGGAAAAAGAAATTG
24866194 AAAGAG-TGGAAAAAGAAATTG
1 AAAGAGATGGAAAAAGAAATTG
24866215 AAAGAGA
1 AAAGAGA
24866222 GCTTGAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (22 bp):
AAAGAGATGGAAAAAGAAATTG
Found at i:24867926 original size:10 final size:10
Alignment explanation
Indices: 24867902--24867950 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
24867892 AGCTCGTTTC
*
24867902 CAGCTCACTT
1 CAGCTCAATT
* *
24867912 GAGCTCAAGT
1 CAGCTCAATT
24867922 CAGCTC-ATT
1 CAGCTCAATT
24867931 CGAGCTCAATT
1 C-AGCTCAATT
24867942 CAGCTCAAT
1 CAGCTCAAT
24867951 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:24867927 original size:20 final size:20
Alignment explanation
Indices: 24867902--24867948 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24867892 AGCTCGTTTC
24867902 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
24867922 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
24867942 CAGCTCA
1 CAGCTCA
24867949 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:24869907 original size:33 final size:33
Alignment explanation
Indices: 24869865--24869931 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
24869855 CTTAATCACT
*
24869865 AAGCACAAACTCTTGAAATTTTAGGCCTAAGTA
1 AAGCACAAACTCTTGAAATTCTAGGCCTAAGTA
*
24869898 AAGCACAAACTCTTGAAATTCTAGGCTTAAGTA
1 AAGCACAAACTCTTGAAATTCTAGGCCTAAGTA
24869931 A
1 A
24869932 CAGTAACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (33 bp):
AAGCACAAACTCTTGAAATTCTAGGCCTAAGTA
Found at i:24884144 original size:14 final size:14
Alignment explanation
Indices: 24884116--24884164 Score: 70
Period size: 12 Copynumber: 3.8 Consensus size: 14
24884106 ACTAGCTCTC
24884116 TTTTTTCACAA--T
1 TTTTTTCACAATTT
24884128 TTTTTTCACAATTT
1 TTTTTTCACAATTT
24884142 TTTTTT--CAATTT
1 TTTTTTCACAATTT
24884154 TTTTTTCACAA
1 TTTTTTCACAA
24884165 CTTGATATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 23 0.70
14 10 0.30
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTCACAATTT
Found at i:24884219 original size:12 final size:12
Alignment explanation
Indices: 24884202--24884244 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
24884192 TGGAAACTAG
24884202 TTTTTTTTCGAA
1 TTTTTTTTCGAA
24884214 TTTTTTTTTC-AA
1 -TTTTTTTTCGAA
*
24884226 TTTTTTTTCGAG
1 TTTTTTTTCGAA
24884238 TTTTTTT
1 TTTTTTT
24884245 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 9 0.32
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:24887648 original size:265 final size:265
Alignment explanation
Indices: 24887175--24887706 Score: 1019
Period size: 265 Copynumber: 2.0 Consensus size: 265
24887165 TATGTAGGAA
24887175 AATCTTGATTTTAAAGGATTTAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCA
1 AATCTTGATTTTAAAGGATTTAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCA
* *
24887240 AATATTTGGTGGCATTGTAGCTACTGGAGAGAATGCATGGGCACATTCGTCTGGTGTTCTTCCAA
66 AATATTTGGGGGCATTGTAGCTACTGGAGAGAATGCATGGGCACATTCGTCTGGTATTCTTCCAA
24887305 GTGGGGTTCCTATGGGAGATGATACACCTAATGAGGGATTTGGTGATTCAGATGAACATAGTAAT
131 GTGGGGTTCCTATGGGAGATGATACACCTAATGAGGGATTTGGTGATTCAGATGAACATAGTAAT
24887370 GAGAATGAAGGTAGTCCTCCTAATGAGGTACCCTCAAACCCTTCTCATGAAACTCCTAATCAAAG
196 GAGAATGAAGGTAGTCCTCCTAATGAGGTACCCTCAAACCCTTCTCATGAAACTCCTAATCAAAG
24887435 AAAAC
261 AAAAC
24887440 AATCTTGATTTTAAAGGATTTAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCA
1 AATCTTGATTTTAAAGGATTTAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCA
*
24887505 AATGTTTGGGGGCATTGTAGCTACTGGAGAGAATGCATGGGCACATTCGTCTGGTATTCTTCCAA
66 AATATTTGGGGGCATTGTAGCTACTGGAGAGAATGCATGGGCACATTCGTCTGGTATTCTTCCAA
*
24887570 GTGGGGTTCCTATGGGAGATGATACACCTAATGAGGGATTTGGTGATTTAGATGAACATAGTAAT
131 GTGGGGTTCCTATGGGAGATGATACACCTAATGAGGGATTTGGTGATTCAGATGAACATAGTAAT
*
24887635 GAGAATGAAGGTAGTCTTCCTAATGAGGTACCCTCAAACCCTTCTCATGAAACTCCTAATCAAAG
196 GAGAATGAAGGTAGTCCTCCTAATGAGGTACCCTCAAACCCTTCTCATGAAACTCCTAATCAAAG
24887700 AAAAC
261 AAAAC
24887705 AA
1 AA
24887707 ACACTTGGGG
Statistics
Matches: 262, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
265 262 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (265 bp):
AATCTTGATTTTAAAGGATTTAAGAAGAAAGGAATTGAACCACGATTGAATGAGTTAATGTGGCA
AATATTTGGGGGCATTGTAGCTACTGGAGAGAATGCATGGGCACATTCGTCTGGTATTCTTCCAA
GTGGGGTTCCTATGGGAGATGATACACCTAATGAGGGATTTGGTGATTCAGATGAACATAGTAAT
GAGAATGAAGGTAGTCCTCCTAATGAGGTACCCTCAAACCCTTCTCATGAAACTCCTAATCAAAG
AAAAC
Found at i:24900122 original size:21 final size:20
Alignment explanation
Indices: 24900075--24900129 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
24900065 ACCATTGCTT
*
24900075 CTAATCTCACTGCTACAGTA
1 CTAATCTCACCGCTACAGTA
*
24900095 TTCAATCTCACCGCTACAGTAA
1 CT-AATCTCACCGCTACAGT-A
24900117 CTAATCTCACCGC
1 CTAATCTCACCGC
24900130 CACCACTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.29, C:0.35, G:0.09, T:0.27
Consensus pattern (20 bp):
CTAATCTCACCGCTACAGTA
Found at i:24900418 original size:40 final size:40
Alignment explanation
Indices: 24900369--24900457 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
24900359 GCTAAACTTT
* *
24900369 AATTCTATTAAACTTATCTTAGTTAATAATCGAGTTGCTGG
1 AATT-TATTAAACTCAACTTAGTTAATAATCGAGTTGCTGG
* * *
24900410 ACTTTATTAAACTCAACTTAGTTAATAATTGAGTTGTTGG
1 AATTTATTAAACTCAACTTAGTTAATAATCGAGTTGCTGG
24900450 AATTTATT
1 AATTTATT
24900458 TTTATTAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 39 0.93
41 3 0.07
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (40 bp):
AATTTATTAAACTCAACTTAGTTAATAATCGAGTTGCTGG
Found at i:24900699 original size:54 final size:54
Alignment explanation
Indices: 24900593--24900699 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
24900583 TTGATTGTAG
* * *
24900593 GTGACTAATCAGCTGGAAACAATTATGAACAAGGGTTGTTACAACATGTTAAAT
1 GTGACTAATCAGCTGGAAACAATTATCAACAAGGGCTGTTACAACATATTAAAT
* * * *
24900647 GTGACTAATCAGTTGGAATCGATTA-CATACAAGGGGCTGTTACATCA-ATTAAA
1 GTGACTAATCAGCTGGAAACAATTATCA-ACAA-GGGCTGTTACAACATATTAAA
24900700 GGAGAGCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.70
55 12 0.27
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (54 bp):
GTGACTAATCAGCTGGAAACAATTATCAACAAGGGCTGTTACAACATATTAAAT
Found at i:24900745 original size:24 final size:24
Alignment explanation
Indices: 24900687--24900747 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
24900677 AAGGGGCTGT
*
24900687 TACATCAATTAAAGGAGAGCATTA
1 TACATCATTTAAAGGAGAGCATTA
24900711 TACATCATTTAAAGGAGAGCATTA
1 TACATCATTTAAAGGAGAGCATTA
* *
24900735 TTCATCCTTTAAA
1 TACATCATTTAAA
24900748 ATTTAGCAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (24 bp):
TACATCATTTAAAGGAGAGCATTA
Found at i:24902533 original size:20 final size:19
Alignment explanation
Indices: 24902510--24902560 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
24902500 AGTGAACATG
*
24902510 AAATGAAATTGAGAGAAGAA
1 AAATGAAATTGA-AAAAGAA
24902530 AAATGAAA--GAAAAAGAA
1 AAATGAAATTGAAAAAGAA
*
24902547 AAATGAGATTGAAA
1 AAATGAAATTGAAA
24902561 TTGAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 13 0.48
18 2 0.07
19 4 0.15
20 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.14
Consensus pattern (19 bp):
AAATGAAATTGAAAAAGAA
Found at i:24904864 original size:40 final size:40
Alignment explanation
Indices: 24904782--24904867 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
24904772 GAACTTTAAT
**
24904782 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTGGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTACAC
*
24904822 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGTTACAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTACAC
24904862 TTTATT
1 TTTATT
24904868 TTTATTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTACAC
Found at i:24905115 original size:24 final size:24
Alignment explanation
Indices: 24905088--24905162 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
24905078 AAGGGGCTGT
24905088 TACATCAATTAAAGGAGAGCATTA
1 TACATCAATTAAAGGAGAGCATTA
*
24905112 TACATCATTTAAA-G-GAGC-TGT-
1 TACATCAATTAAAGGAGAGCAT-TA
24905133 TACATCAATTAAAGGAGAGCATTA
1 TACATCAATTAAAGGAGAGCATTA
24905157 TACATC
1 TACATC
24905163 CTTTAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 13 0.30
22 6 0.14
23 6 0.14
24 19 0.43
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (24 bp):
TACATCAATTAAAGGAGAGCATTA
Found at i:24905132 original size:45 final size:45
Alignment explanation
Indices: 24905078--24905169 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
24905068 AGTTACATAC
*
24905078 AAGGGGCTGTTACATCAATTAAAGGAGAGCATTATACATCATTTA
1 AAGGAGCTGTTACATCAATTAAAGGAGAGCATTATACATCATTTA
*
24905123 AAGGAGCTGTTACATCAATTAAAGGAGAGCATTATACATCCTTTA
1 AAGGAGCTGTTACATCAATTAAAGGAGAGCATTATACATCATTTA
24905168 AA
1 AA
24905170 ATTCAGCGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (45 bp):
AAGGAGCTGTTACATCAATTAAAGGAGAGCATTATACATCATTTA
Found at i:24905138 original size:21 final size:21
Alignment explanation
Indices: 24905078--24905149 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
24905068 AGTTACATAC
*
24905078 AAGGGGCTGTTACATCAATTA
1 AAGGAGCTGTTACATCAATTA
*
24905099 AAGGAGAGCAT-TATACATCATTTA
1 AA-G-GAGC-TGT-TACATCAATTA
24905123 AAGGAGCTGTTACATCAATTA
1 AAGGAGCTGTTACATCAATTA
24905144 AAGGAG
1 AAGGAG
24905150 AGCATTATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
21 19 0.44
22 6 0.14
23 5 0.12
24 13 0.30
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (21 bp):
AAGGAGCTGTTACATCAATTA
Found at i:24907084 original size:12 final size:12
Alignment explanation
Indices: 24907069--24907102 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
24907059 TTATTTTCTT
24907069 TCTCTTTTTCAA
1 TCTCTTTTTCAA
24907081 TCTCTTTTTCAA
1 TCTCTTTTTCAA
*
24907093 TCTATTTTTC
1 TCTCTTTTTC
24907103 TTGTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
TCTCTTTTTCAA
Found at i:24907089 original size:24 final size:25
Alignment explanation
Indices: 24907062--24907130 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 25
24907052 ATCATTTTTA
*
24907062 TTTTCTTTCTCTTTTTCAATCT-CT
1 TTTTCTTTCTATTTTTCAATCTACT
** * *
24907086 TTTTCAATCTATTTTTC-TTGTACT
1 TTTTCTTTCTATTTTTCAATCTACT
*
24907110 TTTTCTTTCTTTTCTTTCAAT
1 TTTTCTTTCTATT-TTTCAAT
24907131 TTCAATTGAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
23 2 0.06
24 26 0.79
25 4 0.12
26 1 0.03
ACGTcount: A:0.12, C:0.20, G:0.01, T:0.67
Consensus pattern (25 bp):
TTTTCTTTCTATTTTTCAATCTACT
Found at i:24918052 original size:50 final size:52
Alignment explanation
Indices: 24917994--24918112 Score: 188
Period size: 50 Copynumber: 2.3 Consensus size: 52
24917984 TTAATAAATT
* *
24917994 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
24918044 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
24918096 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
24918113 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 27 0.43
51 12 0.19
52 24 0.38
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:24927395 original size:39 final size:40
Alignment explanation
Indices: 24927350--24927521 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
24927340 GCTCCTCGTT
* * *
24927350 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
24927390 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
24927429 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
24927469 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
24927509 CAAATGCCTTCGG
1 CAAATGCCTTCGG
24927522 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:24927450 original size:40 final size:39
Alignment explanation
Indices: 24927352--24927574 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
24927342 TCCTCGTTCA
* * * *
24927352 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
24927391 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
24927430 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
24927470 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
24927510 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
24927551 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24927575 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:24927534 original size:80 final size:79
Alignment explanation
Indices: 24927350--24927574 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
24927340 GCTCCTCGTT
* * * * *
24927350 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
24927414 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
24927429 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
24927494 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
24927509 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
24927573 GA
63 GA
24927575 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:24927583 original size:41 final size:41
Alignment explanation
Indices: 24927506--24927583 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24927496 TTTGTATCTC
* * *
24927506 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24927547 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24927584 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24931111 original size:10 final size:10
Alignment explanation
Indices: 24931096--24931204 Score: 54
Period size: 10 Copynumber: 10.9 Consensus size: 10
24931086 ACGAGCTCAA
24931096 TGAGCTGAAT
1 TGAGCTGAAT
24931106 TGAGCTCG--T
1 TGAGCT-GAAT
24931115 GTGAGCTGAAT
1 -TGAGCTGAAT
24931126 TGAGCTCG--T
1 TGAGCT-GAAT
24931135 GTGAGCTGAAT
1 -TGAGCTGAAT
24931146 TGAGCTCG--T
1 TGAGCT-GAAT
*
24931155 GTGAGCTGACT
1 -TGAGCTGAAT
24931166 TGAGCTCGAA-
1 TGAGCT-GAAT
* *
24931176 TGAGTTGACT
1 TGAGCTGAAT
*
24931186 TGAGCTCG-AG
1 TGAGCT-GAAT
24931196 TGAGCTGAA
1 TGAGCTGAA
24931205 CCGCATGGAG
Statistics
Matches: 77, Mismatches: 6, Indels: 32
0.67 0.05 0.28
Matches are distributed among these distances:
9 9 0.12
10 59 0.77
11 9 0.12
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:24931119 original size:20 final size:20
Alignment explanation
Indices: 24931096--24931204 Score: 164
Period size: 20 Copynumber: 5.5 Consensus size: 20
24931086 ACGAGCTCAA
24931096 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGTG
24931116 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGTG
24931136 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGAATTGAGCTCGTG
* **
24931156 TGAGCTGACTTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGTG
* * *
24931176 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGTG
24931196 TGAGCTGAA
1 TGAGCTGAA
24931205 CCGCATGGAG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGTG
Found at i:24933026 original size:103 final size:104
Alignment explanation
Indices: 24932847--24933111 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
24932837 AATCGTTATT
* * * *
24932847 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
24932912 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
24932950 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
24933015 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
24933054 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
24933112 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:24933473 original size:30 final size:29
Alignment explanation
Indices: 24933439--24933503 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
24933429 TAATCCACCA
24933439 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
24933469 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
24933499 CCCAA
1 CCCAA
24933504 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:24933477 original size:31 final size:30
Alignment explanation
Indices: 24933446--24933503 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24933436 CCACCCAACT
24933446 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
24933476 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
24933504 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:24940513 original size:103 final size:104
Alignment explanation
Indices: 24940334--24940598 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
24940324 AATCGTTATT
* * * *
24940334 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
24940399 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
24940437 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
24940502 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
24940541 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
24940599 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:24940959 original size:30 final size:29
Alignment explanation
Indices: 24940925--24940989 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
24940915 TAATCCACCA
24940925 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
24940955 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
24940985 CCCAA
1 CCCAA
24940990 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:24940963 original size:31 final size:30
Alignment explanation
Indices: 24940932--24940989 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24940922 CCACCCAACT
24940932 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
24940962 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
24940990 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:24946442 original size:20 final size:22
Alignment explanation
Indices: 24946407--24946456 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
24946397 TGAAATGATG
24946407 AAAATACAAATGAAATGT-CCT
1 AAAATACAAATGAAATGTACCT
*
24946428 AAAATACAACT-AAATGTACCT
1 AAAATACAAATGAAATGTACCT
24946449 -AAATACAA
1 AAAATACAA
24946457 GCAATTAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (22 bp):
AAAATACAAATGAAATGTACCT
Found at i:24950068 original size:20 final size:20
Alignment explanation
Indices: 24950043--24950083 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24950033 GCGAGGATTA
24950043 ATGACAATGTGTGGGAACAT
1 ATGACAATGTGTGGGAACAT
24950063 ATGACAATGTGTGGGAACAT
1 ATGACAATGTGTGGGAACAT
24950083 A
1 A
24950084 CTCAAAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (20 bp):
ATGACAATGTGTGGGAACAT
Found at i:24959028 original size:58 final size:58
Alignment explanation
Indices: 24958938--24959053 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
24958928 TCTTTTCAAA
24958938 AGACAAAAAATGGAAAGTTTTGGTTTTGCAGATCCTCGACAATGGATGGAATGATGTT
1 AGACAAAAAATGGAAAGTTTTGGTTTTGCAGATCCTCGACAATGGATGGAATGATGTT
24958996 AGACAAAAAATGGAAAGTTTTGGTTTTGCAGATCCTCGACAATGGATGGAATGATGTT
1 AGACAAAAAATGGAAAGTTTTGGTTTTGCAGATCCTCGACAATGGATGGAATGATGTT
24959054 TGAAGTGGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (58 bp):
AGACAAAAAATGGAAAGTTTTGGTTTTGCAGATCCTCGACAATGGATGGAATGATGTT
Found at i:24959078 original size:7 final size:7
Alignment explanation
Indices: 24959068--24959094 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24959058 GTGGGTAGTG
24959068 CGAGAGC
1 CGAGAGC
24959075 CGAGAGC
1 CGAGAGC
24959082 CGAGAGC
1 CGAGAGC
24959089 CGAGAG
1 CGAGAG
24959095 GAGAGACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.44, T:0.00
Consensus pattern (7 bp):
CGAGAGC
Found at i:24962601 original size:26 final size:26
Alignment explanation
Indices: 24962559--24962634 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 26
24962549 CTGCAATGAT
*
24962559 AACCTTTGTGGCATAATATGAAAGAA
1 AACCTTTGTGGCGTAATATGAAAGAA
24962585 AGA-CTTTGTGGCGTAATATGAAAGAA
1 A-ACCTTTGTGGCGTAATATGAAAGAA
*
24962611 AACCCTTTGTGGCGGAATATGAAA
1 AA-CCTTTGTGGCGTAATATGAAA
24962635 AGAATGCCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
25 1 0.02
26 24 0.53
27 20 0.44
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (26 bp):
AACCTTTGTGGCGTAATATGAAAGAA
Found at i:24962629 original size:27 final size:27
Alignment explanation
Indices: 24962560--24962651 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
24962550 TGCAATGATA
*
24962560 ACCTTTGTGGCATAATATGAAAGAAAG
1 ACCTTTGTGGCGTAATATGAAAGAAAG
24962587 A-CTTTGTGGCGTAATATGAAAGAAA-
1 ACCTTTGTGGCGTAATATGAAAGAAAG
* *
24962612 ACCCTTTGTGGCGGAATATGAAAAGAATG
1 A-CCTTTGTGGCGTAATATG-AAAGAAAG
*
24962641 -CCTTTATGGCG
1 ACCTTTGTGGCG
24962652 AATTATAAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
25 1 0.02
26 23 0.40
27 27 0.47
28 6 0.11
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (27 bp):
ACCTTTGTGGCGTAATATGAAAGAAAG
Found at i:24964482 original size:36 final size:35
Alignment explanation
Indices: 24964366--24964493 Score: 125
Period size: 35 Copynumber: 3.6 Consensus size: 35
24964356 TACTCTCTGT
* * *
24964366 TTGGTGTGTTTTGAG-TGAATTAGCTCTTATGAGCA
1 TTGGTGTG-TTTCAGTTGGATTGGCTCTTATGAGCA
* ** * *
24964401 TTGGTGTG-TTCCGGAGGTATTAGCTGTTATGAGCA
1 TTGGTGTGTTTCAGTTGG-ATTGGCTCTTATGAGCA
24964436 TTGGTGTGTTTCAGTTGGATTGGCTCTTATGAGCA
1 TTGGTGTGTTTCAGTTGGATTGGCTCTTATGAGCA
**
24964471 TCTGGTGTGTTTTGGTTGGATTG
1 T-TGGTGTGTTTCAGTTGGATTG
24964494 ACGATGTACT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
33 3 0.04
34 1 0.01
35 48 0.62
36 25 0.32
ACGTcount: A:0.15, C:0.09, G:0.33, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCAGTTGGATTGGCTCTTATGAGCA
Found at i:24966755 original size:21 final size:21
Alignment explanation
Indices: 24966730--24966769 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24966720 CATTCTTGAT
* *
24966730 AATAATTAATAATATTGATTA
1 AATAATAAATAATAGTGATTA
24966751 AATAATAAATAATAGTGAT
1 AATAATAAATAATAGTGAT
24966770 ATTTTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
AATAATAAATAATAGTGATTA
Found at i:24967975 original size:11 final size:11
Alignment explanation
Indices: 24967961--24967990 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24967951 GGTCCTAAAT
24967961 TGTTTCTAAGG
1 TGTTTCTAAGG
24967972 TGTTTCTAAGG
1 TGTTTCTAAGG
*
24967983 TATTTCTA
1 TGTTTCTA
24967991 CAACCGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (11 bp):
TGTTTCTAAGG
Found at i:24971512 original size:25 final size:25
Alignment explanation
Indices: 24971484--24971562 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
24971474 TCGTGAAAAT
*
24971484 ATACCGATTTACAGCTTATG-AGAGC
1 ATACCGATTTACAGCTCATGTA-AGC
* *
24971509 ATACCAATTTATAGCTCATGTAAGC
1 ATACCGATTTACAGCTCATGTAAGC
* *
24971534 ATACCGATTTACAGCTCGTATAAGC
1 ATACCGATTTACAGCTCATGTAAGC
24971559 ATAC
1 ATAC
24971563 ATGTACAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (25 bp):
ATACCGATTTACAGCTCATGTAAGC
Found at i:24983516 original size:21 final size:22
Alignment explanation
Indices: 24983471--24983516 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
24983461 AGGGAAAAAT
*
24983471 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
24983493 AAAA-TGAAAAAGGTGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
24983514 AAA
1 AAA
24983517 GCGATAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:24983615 original size:36 final size:33
Alignment explanation
Indices: 24983550--24983616 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
24983540 GTGAATGAAG
* *
24983550 TGAGTGAAAAGGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAGAAGAGAGAGCTAAAACAAGGAA
*
24983583 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAA-AAGAAGAGAGAGCT-AAA-ACAAGG
24983617 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 8 0.29
34 12 0.43
35 2 0.07
36 6 0.21
ACGTcount: A:0.46, C:0.09, G:0.33, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAGAAGAGAGAGCTAAAACAAGGAA
Found at i:24992477 original size:20 final size:20
Alignment explanation
Indices: 24992431--24992477 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24992421 AGCTCGTTTC
*
24992431 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
24992451 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
24992471 CAGCTCA
1 CAGCTCA
24992478 ATCTCAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:24994787 original size:23 final size:23
Alignment explanation
Indices: 24994752--24994815 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
24994742 ACTCCATCAC
* *
24994752 TTTTTCCTTTCTTTTT-ATTATT
1 TTTTTCTTTTCTTTTTCAATATT
*
24994774 TTTTTCTTTCTCTTTTTCAATCTT
1 TTTTTCTTT-TCTTTTTCAATATT
*
24994798 TTTTTCTTGTACTTTTTC
1 TTTTTCTT-TTCTTTTTC
24994816 TTTCTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.23
23 7 0.20
24 19 0.54
25 1 0.03
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTCTTTTCTTTTTCAATATT
Found at i:24998726 original size:27 final size:27
Alignment explanation
Indices: 24998688--24998739 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
24998678 TGTTTGTAGG
* *
24998688 TACATGCATGGACATCATTGAAGATAA
1 TACATGCATGGACAGCAATGAAGATAA
24998715 TACATGCATGGACAGCAATGAAGAT
1 TACATGCATGGACAGCAATGAAGAT
24998740 GCTTCAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (27 bp):
TACATGCATGGACAGCAATGAAGATAA
Found at i:25000426 original size:12 final size:11
Alignment explanation
Indices: 25000409--25000465 Score: 69
Period size: 12 Copynumber: 4.9 Consensus size: 11
25000399 AGCATCTTCG
25000409 AAAAAAAATTC
1 AAAAAAAATTC
*
25000420 AAAAAAATTTTC
1 AAAAAAA-ATTC
25000432 AAAAAAAATTC
1 AAAAAAAATTC
*
25000443 GAAAAAAAATTTT
1 -AAAAAAAA-TTC
25000456 AAAAAAAATT
1 AAAAAAAATT
25000466 TAGTTTCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 12 0.30
12 26 0.65
13 2 0.05
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:25000447 original size:24 final size:23
Alignment explanation
Indices: 25000409--25000465 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 23
25000399 AGCATCTTCG
25000409 AAAAAAAATTC-AAAAAAATTTT
1 AAAAAAAATTCAAAAAAAATTTT
25000431 CAAAAAAAATTCGAAAAAAAATTTT
1 -AAAAAAAATTC-AAAAAAAATTTT
25000456 AAAAAAAATT
1 AAAAAAAATT
25000466 TAGTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.34
24 10 0.31
25 11 0.34
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (23 bp):
AAAAAAAATTCAAAAAAAATTTT
Found at i:25000522 original size:14 final size:15
Alignment explanation
Indices: 25000503--25000540 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
25000493 GATATCAAGT
25000503 TGAAAAAAAA-TTCG
1 TGAAAAAAAATTTCG
25000517 TGAAAAAAAATTTCG
1 TGAAAAAAAATTTCG
25000532 TGAAAAAAA
1 TGAAAAAAA
25000541 GAAGAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (15 bp):
TGAAAAAAAATTTCG
Found at i:25004326 original size:46 final size:46
Alignment explanation
Indices: 25004275--25004367 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
25004265 TAGTGTGGCA
25004275 TTCATCATATACCAAGGTTCCTATCA-TCATTGATAGTGGGTCGAGG
1 TTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAGG
*
25004321 TTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTTGAGG
1 TTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGG
25004367 T
1 T
25004368 CTTTTCTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (46 bp):
TTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGG
Found at i:25006111 original size:10 final size:10
Alignment explanation
Indices: 25006096--25006133 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
25006086 AGCATTTTCA
25006096 AAAAAAAATC
1 AAAAAAAATC
25006106 AAAAAAAAT-
1 AAAAAAAATC
25006115 AAAAAAAATTC
1 AAAAAAAA-TC
25006126 AAAAAAAA
1 AAAAAAAA
25006134 GTTTTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.31
10 10 0.38
11 8 0.31
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:25006120 original size:20 final size:20
Alignment explanation
Indices: 25006095--25006133 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25006085 TAGCATTTTC
25006095 AAAAAAAAATCAAAAAAAAT
1 AAAAAAAAATCAAAAAAAAT
*
25006115 AAAAAAAATTCAAAAAAAA
1 AAAAAAAAATCAAAAAAAA
25006134 GTTTTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (20 bp):
AAAAAAAAATCAAAAAAAAT
Found at i:25006210 original size:15 final size:15
Alignment explanation
Indices: 25006172--25006210 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
25006162 ATCAAGTTGA
25006172 AAAAAAAAACTTGTG
1 AAAAAAAAACTTGTG
*
25006187 CAAAAAAAA-TTCGTG
1 AAAAAAAAACTT-GTG
25006202 AAAAAAAAA
1 AAAAAAAAA
25006211 AGACGAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (15 bp):
AAAAAAAAACTTGTG
Found at i:25009916 original size:46 final size:46
Alignment explanation
Indices: 25009865--25009958 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 46
25009855 ATAGTGTGGC
25009865 GTTCATCATATACCAAGGTTCCTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
25009911 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
25009957 GT
1 GT
25009959 CTTTTCTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 45 0.96
47 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:25010377 original size:50 final size:51
Alignment explanation
Indices: 25010313--25010441 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 51
25010303 TGATGGTCAT
* * * *
25010313 ATGTGTAGTACTATGTGCAGGCTACTACGTGTGCCAGAAAG-ATAGGTCGC
1 ATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAAGCATAGATCAC
* * * * *
25010363 ATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATCAC
1 ATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAAGCATAGATCAC
*
25010414 GTGTGTAGTACTATGTGCAGGCTACTAC
1 ATGTGTAGTACTATGTGCAGGCTACTAC
25010442 ATGTATCGGA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 36 0.55
51 30 0.45
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
ATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAAGCATAGATCAC
Found at i:25010454 original size:51 final size:50
Alignment explanation
Indices: 25010313--25010479 Score: 165
Period size: 51 Copynumber: 3.3 Consensus size: 50
25010303 TGATGGTCAT
* * * *
25010313 ATGTGTAGTACTATGTGCAGGCTACTACGTGTGCCAGAAAGATAGGTCGC
1 ATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATAGATCAC
* * * * *
25010363 ATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGATCAC
1 ATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-ATAGATCAC
* * * * *
25010414 GTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAG-TGATGGTCAC
1 ATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGAT-A-GATCAC
*
25010465 ATGTGAAGTACTATG
1 ATGTGTAGTACTATG
25010480 AGTAGGACTA
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 36 0.38
51 57 0.61
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
ATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATAGATCAC
Found at i:25010550 original size:44 final size:46
Alignment explanation
Indices: 25010500--25010587 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
25010490 TGTGAACTGG
* *
25010500 TATCATTAATTA-TAA-GGTGGTTGCTATGTACTG-ATCCCACCGGA
1 TATCATTAATTACAAAGGGTGGCTGCTATGTACTGAAT-CCACCGGA
* *
25010544 TATCATTGATTACAAAGGGTGGCTGCTATGTGCTGAATCCACCG
1 TATCATTAATTACAAAGGGTGGCTGCTATGTACTGAATCCACCG
25010588 TGTATCTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 11 0.30
45 2 0.05
46 22 0.59
47 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (46 bp):
TATCATTAATTACAAAGGGTGGCTGCTATGTACTGAATCCACCGGA
Found at i:25010776 original size:16 final size:16
Alignment explanation
Indices: 25010755--25010786 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25010745 TGATTGAAAG
*
25010755 TGAAAAAGTGGAATTA
1 TGAAAAAGTAGAATTA
25010771 TGAAAAAGTAGAATTA
1 TGAAAAAGTAGAATTA
25010787 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAGAATTA
Done.