Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 69 of 84
Found at i:14991672 original size:2 final size:2
Alignment explanation
Indices: 14991667--14991703 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14991657 TCTCTCTCTC
14991667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14991704 CTTAAGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14991848 original size:2 final size:2
Alignment explanation
Indices: 14991841--14991865 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14991831 GATTTACTTT
14991841 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14991866 TTAGAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14991945 original size:161 final size:162
Alignment explanation
Indices: 14991679--14992000 Score: 594
Period size: 161 Copynumber: 2.0 Consensus size: 162
14991669 TATATATATA
14991679 TATATATATATATATATATATATATCTTAAGAATGTTCTTTAATTTTTTTCACCCTTGCATTACT
1 TATATATATATATATATATATATATCTTAAGAATGTTCTTTAATTTTTTTCACCCTTGCATTACT
*
14991744 ACATATCACTTAATCTTGTAATGAGCCTTATGCTGGTTTTCTTCCGTATTGTGTCATTGCAGATA
66 ACATATCACTTAATCTTGTAATGAGCCTTATGCTGGTTTTCTTCCGTATTGTGTCATTACAGATA
14991809 CTTGAAATCTAGTTTTATCATTGATTTACTTT
131 CTTGAAATCTAGTTTTATCATTGATTTACTTT
*
14991841 TATATATATATATATATATATATAT-TT-AGAATGTTCTTTAATTTTTTTTCGCCCTTGCATTAC
1 TATATATATATATATATATATATATCTTAAGAATGTTCTTTAA-TTTTTTTCACCCTTGCATTAC
*
14991904 TACATATCACTTAATCTTGTAATGAGCCTTATGCTGGTTTTCTTCCGTATTGTGTCATTACAGGT
65 TACATATCACTTAATCTTGTAATGAGCCTTATGCTGGTTTTCTTCCGTATTGTGTCATTACAGAT
14991969 ACTTGAAATCTAGTTTTATCATTGATTTACTT
130 ACTTGAAATCTAGTTTTATCATTGATTTACTT
14992001 GGTTGCCTGC
Statistics
Matches: 156, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
160 14 0.09
161 117 0.75
162 25 0.16
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.48
Consensus pattern (162 bp):
TATATATATATATATATATATATATCTTAAGAATGTTCTTTAATTTTTTTCACCCTTGCATTACT
ACATATCACTTAATCTTGTAATGAGCCTTATGCTGGTTTTCTTCCGTATTGTGTCATTACAGATA
CTTGAAATCTAGTTTTATCATTGATTTACTTT
Found at i:15003305 original size:18 final size:18
Alignment explanation
Indices: 15003282--15003319 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15003272 CTCATGCCAT
15003282 AATTTC-ATTGCTAAAAAA
1 AATTTCTATT-CTAAAAAA
*
15003300 AATTTCTATTTTAAAAAA
1 AATTTCTATTCTAAAAAA
15003318 AA
1 AA
15003320 ATGAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTTCTATTCTAAAAAA
Found at i:15003774 original size:18 final size:17
Alignment explanation
Indices: 15003736--15003781 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
15003726 TTTTGCATAG
*
15003736 AAATATAATA-AATACT
1 AAATATAATATAATAAT
15003752 AAATATAATATATATAAT
1 AAATATAATATA-ATAAT
*
15003770 AAATAAAATATA
1 AAATATAATATA
15003782 CAACTTAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 15 0.58
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAATATAATAAT
Found at i:15007995 original size:22 final size:22
Alignment explanation
Indices: 15007981--15008023 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
15007971 AGAAAATAAA
15007981 AAAAAAAGAAAGAGAAAAAGAAT
1 AAAAAAA-AAAGAGAAAAAGAAT
*
15008004 AGAAAAAAAAGAGAAAAAGA
1 AAAAAAAAAAGAGAAAAAGA
15008024 GATTAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAGAGAAAAAGAAT
Found at i:15008000 original size:12 final size:12
Alignment explanation
Indices: 15007983--15008023 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
15007973 AAAATAAAAA
15007983 AAAAAGAAAGAG
1 AAAAAGAAAGAG
*
15007995 AAAAAG-AATAG
1 AAAAAGAAAGAG
15008006 AAAAA-AAAGAG
1 AAAAAGAAAGAG
15008017 AAAAAGA
1 AAAAAGA
15008024 GATTAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:15008011 original size:13 final size:12
Alignment explanation
Indices: 15007981--15008040 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
15007971 AGAAAATAAA
15007981 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
15007993 AGAAAAAGAATAG
1 AAAAAAAGAA-AG
*
15008006 AAAAAAA-AGAG
1 AAAAAAAGAAAG
*
15008017 AAAAAGAGATTAAG
1 AAAAAAAGA--AAG
15008031 TAAAAAAAGA
1 -AAAAAAAGA
15008041 TAGTGTCAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
11 8 0.22
12 11 0.30
13 8 0.22
14 2 0.05
15 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:15008021 original size:11 final size:11
Alignment explanation
Indices: 15007969--15008021 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
15007959 GTTGAGCGTG
15007969 AGAGAAAATAAA
1 AGAGAAAA-AAA
15007981 A-A-AAAAAGAA
1 AGAGAAAAA-AA
*
15007991 AGAGAAAAAGA
1 AGAGAAAAAAA
*
15008002 ATAGAAAAAAA
1 AGAGAAAAAAA
15008013 AGAGAAAAA
1 AGAGAAAAA
15008022 GAGATTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
11 20 0.59
12 6 0.18
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (11 bp):
AGAGAAAAAAA
Found at i:15011281 original size:47 final size:47
Alignment explanation
Indices: 15011220--15011312 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
15011210 TGCTATATAT
* *
15011220 AAAAGACATACTTAAGTGCTATCTAACCATTTCATTCTACACAAACG
1 AAAAGACATACTTAAGCGCTACCTAACCATTTCATTCTACACAAACG
* * *
15011267 AAAAGACGTGCTTAAGCGCTACCTAACCATTTCTTTCTACACAAAC
1 AAAAGACATACTTAAGCGCTACCTAACCATTTCATTCTACACAAAC
15011313 CCAAATGGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.27
Consensus pattern (47 bp):
AAAAGACATACTTAAGCGCTACCTAACCATTTCATTCTACACAAACG
Found at i:15012466 original size:59 final size:59
Alignment explanation
Indices: 15012298--15012553 Score: 317
Period size: 59 Copynumber: 4.4 Consensus size: 59
15012288 TTGTACAGGA
* * * *
15012298 AAAATTGATACTTTTAACTTTTTTCC-AAAATA-TTTTTTAGAAA-CTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAAGC-TTATTTTCAAGG
** * *
15012355 AAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-TCACTTTT-GAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATAT-TTTTTTAGAAAGCTTATTTTCAAGG
15012413 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
* * ** *
15012472 AAAATTAATACTTTTAACTTTTTCTTAAAAATATTTTTTTTTGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTAGAAAGCTTATTTTCAAGG
15012532 AAAATTGATACTTTCAACTTTT
1 AAAATTGATACTTTCAACTTTT
15012554 CCTTAAAAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
56 5 0.03
57 18 0.10
58 47 0.27
59 57 0.33
60 45 0.26
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAGAAAGCTTATTTTCAAGG
Found at i:15012536 original size:60 final size:60
Alignment explanation
Indices: 15012298--15012574 Score: 316
Period size: 60 Copynumber: 4.7 Consensus size: 60
15012288 TTGTACAGGA
* ** * *
15012298 AAAATTGATACTTTTAACTTTTT-TCCAAAATA--TTTTTTAGAAA-CTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAGAAAGC-TTATTTTCAAGG
* * *** * *
15012355 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TCACTTTT-GAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAGAAAGCTTATTTTCAAGG
**
15012413 AAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAGAAAGCTTATTTTCAAGG
* * *
15012472 AAAATTAATACTTTTAACTTTTTCTTAAAAATATTTTTTTTTGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAGAAAGCTTATTTTCAAGG
* *
15012532 AAAATTGATACTTTCAACTTTTCCTTAAAAATATATATTTTTA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATAT-TTTTTTTA
15012575 ATTTTATTTA
Statistics
Matches: 187, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
57 21 0.11
58 54 0.29
59 50 0.27
60 56 0.30
61 6 0.03
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAGAAAGCTTATTTTCAAGG
Found at i:15012596 original size:5 final size:5
Alignment explanation
Indices: 15012588--15012644 Score: 62
Period size: 5 Copynumber: 10.6 Consensus size: 5
15012578 TTATTTAAAG
15012588 AAATA AAATAA AAATA AAATAA AAATA AAGA-A AAATAA AAATAA AAATA
1 AAATA AAAT-A AAATA AAAT-A AAATA AA-ATA AAAT-A AAAT-A AAATA
15012637 AAATA AAA
1 AAATA AAA
15012645 AGTATTAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.02
5 24 0.51
6 22 0.47
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:15012603 original size:6 final size:6
Alignment explanation
Indices: 15012588--15012645 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
15012578 TTATTTAAAG
*
15012588 AAAT-A AAATAA AAAT-A AAATAA AAAT-- AAAGAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
15012632 AAAT-A AAATAA AAA
1 AAATAA AAATAA AAA
15012646 GTATTAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
4 3 0.07
5 14 0.30
6 29 0.63
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:15012604 original size:11 final size:11
Alignment explanation
Indices: 15012588--15012645 Score: 91
Period size: 11 Copynumber: 5.3 Consensus size: 11
15012578 TTATTTAAAG
15012588 AAATAAAATAA
1 AAATAAAATAA
15012599 AAATAAAATAA
1 AAATAAAATAA
*
15012610 AAAT-AAAGAA
1 AAATAAAATAA
15012620 AAATAAAAATAA
1 AAAT-AAAATAA
15012632 AAATAAAATAA
1 AAATAAAATAA
15012643 AAA
1 AAA
15012646 GTATTAAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.21
11 25 0.58
12 9 0.21
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:15012626 original size:27 final size:27
Alignment explanation
Indices: 15012592--15012643 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
15012582 TTAAAGAAAT
15012592 AAAATAAAAAT-AAAATAAAAATAAAGA
1 AAAATAAAAATAAAAAT-AAAATAAAGA
15012619 AAAATAAAAATAAAAATAAAATAAA
1 AAAATAAAAATAAAAATAAAATAAA
15012644 AAGTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (27 bp):
AAAATAAAAATAAAAATAAAATAAAGA
Found at i:15013546 original size:12 final size:13
Alignment explanation
Indices: 15013514--15013543 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15013504 AGAAGAAAGG
15013514 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
15013526 AAAAAATAAAAAT
1 AAAAAATAAAAAT
15013539 AAAAA
1 AAAAA
15013544 TAAGGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:15013575 original size:4 final size:4
Alignment explanation
Indices: 15013563--15013665 Score: 54
Period size: 4 Copynumber: 25.5 Consensus size: 4
15013553 TATATTAATT
* * * * * *
15013563 AATA GATA AAT- AATA ATATA TAATA GATA TATA AACA GATA AAAA AAT-
1 AATA AATA AATA AATA A-ATA -AATA AATA AATA AATA AATA AATA AATA
*
15013611 AA-A AATA TATA CTAATA AATA GTAAT- AATA AATA AATA AATA AAT-
1 AATA AATA AATA --AATA AATA --AATA AATA AATA AATA AATA AATA
15013656 AATA AATA AA
1 AATA AATA AA
15013666 ATACAAAATA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
3 13 0.17
4 49 0.65
5 6 0.08
6 7 0.09
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:15013592 original size:11 final size:11
Alignment explanation
Indices: 15013562--15013596 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
15013552 ATATATTAAT
*
15013562 TAATAGATAAA
1 TAATAGATATA
15013573 TAATA-ATATA
1 TAATAGATATA
15013583 TAATAGATATA
1 TAATAGATATA
15013594 TAA
1 TAA
15013597 ACAGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (11 bp):
TAATAGATATA
Found at i:15013659 original size:7 final size:7
Alignment explanation
Indices: 15013523--15013664 Score: 54
Period size: 7 Copynumber: 20.3 Consensus size: 7
15013513 GAAAAAATAA
*
15013523 AATAAAA
1 AATAAAT
15013530 AATAAA-
1 AATAAAT
15013536 AATAAA-
1 AATAAAT
15013542 AATAAGGAT
1 AATAA--AT
*
15013551 AATATATT
1 AATA-AAT
*
15013559 AATTAAT
1 AATAAAT
15013566 AGATAAAT
1 A-ATAAAT
15013574 AAT-AAT
1 AATAAAT
15013580 -ATATAAT
1 AATA-AAT
*
15013587 AGATATAT
1 A-ATAAAT
15013595 AA-ACAGAT
1 AATA-A-AT
15013603 AA-AAA-
1 AATAAAT
15013608 AATAAA-
1 AATAAAT
15013614 AATATATACT
1 AATA-A-A-T
15013624 AATAAAT
1 AATAAAT
*
15013631 AGT-AAT
1 AATAAAT
15013637 AATAAAT
1 AATAAAT
*
15013644 AA-ATA-
1 AATAAAT
15013649 AATAAAT
1 AATAAAT
15013656 AATAAAT
1 AATAAAT
15013663 AA
1 AA
15013665 AATACAAAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 38
0.69 0.06 0.25
Matches are distributed among these distances:
5 6 0.06
6 32 0.30
7 34 0.32
8 21 0.20
9 8 0.08
10 5 0.05
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:15013674 original size:19 final size:17
Alignment explanation
Indices: 15013634--15013705 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 17
15013624 AATAAATAGT
15013634 AATAATAAAT-AAATAAATA
1 AATAA-AAATAAAAT-AA-A
15013653 AATAATAAATAAAATACAA
1 AATAA-AAATAAAATA-AA
*
15013672 AATACAGAATAAAAT-AA
1 AATA-AAAATAAAATAAA
15013689 AAT-AAAATAAAATAAA
1 AATAAAAATAAAATAAA
15013705 A
1 A
15013706 CAAATTGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
15 9 0.19
16 3 0.06
17 5 0.11
19 24 0.51
20 6 0.13
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAAATAAA
Found at i:15013687 original size:5 final size:5
Alignment explanation
Indices: 15013659--15013705 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
15013649 AATAAATAAT
15013659 AAATA AAATACA AAATA CAGAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAAT--A AAATA -A-AATA AAATA AAATA AAATA AAATA AAA
15013706 CAAATTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 27 0.71
6 2 0.05
7 9 0.24
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:15013716 original size:15 final size:15
Alignment explanation
Indices: 15013679--15013709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15013669 CAAAATACAG
*
15013679 AATAAAATAAAATAA
1 AATAAAATAAAACAA
15013694 AATAAAATAAAACAA
1 AATAAAATAAAACAA
15013709 A
1 A
15013710 TTGAAATGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (15 bp):
AATAAAATAAAACAA
Found at i:15014086 original size:83 final size:83
Alignment explanation
Indices: 15013940--15014210 Score: 285
Period size: 83 Copynumber: 3.2 Consensus size: 83
15013930 AATAAAGCCT
15013940 CTCTAATCAGAGGCTCAACGACTTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTCAA
1 CTCTAATCAGAGGCTCAACGAC-TTTGAAAATAAAT----AAAGCTCCTCTAATCAGAGGCTCAA
* *
15014005 TGACTTTTGGAAATAAACGGCTC
61 CGACTTTTGGAAATAAACAGCTC
* * *
15014028 CTCTAATTAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAAACAGAAGCTCAACGACT
1 CTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACT
* *
15014093 TTTGAAAAATAAACAAAACTC
66 TTTG-GAAATAAAC--AGCTC
* * * * * * * *
15014114 CTCTAAACAGAGGCTTAACAACTTTTAAAA-ATAA-AAGGCTCCTTTAATTAGAGGCTCAACGAT
1 CTCTAATCAGAGGCTCAACGACTTTGAAAATA-AATAAAGCTCCTCTAATCAGAGGCTCAACGAC
**
15014177 TTTTGGAAAGTAAATTGCTC
65 TTTTGGAAA-TAAACAGCTC
15014197 CTCTAATCAGAGGC
1 CTCTAATCAGAGGC
15014211 ATTACAACTT
Statistics
Matches: 155, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
83 47 0.30
84 11 0.07
85 33 0.21
86 30 0.19
87 13 0.08
88 21 0.14
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (83 bp):
CTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACT
TTTGGAAATAAACAGCTC
Found at i:15014102 original size:44 final size:44
Alignment explanation
Indices: 15013893--15014210 Score: 300
Period size: 41 Copynumber: 7.4 Consensus size: 44
15013883 CTGATCAAAA
* * *
15013893 CTCCTCTAAGCAGAGG-TTAACGACTTTGGAAAACATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAA-ATAAATAAAG
*
15013937 C-CTCTCTAATCAGAGGCTCAACGACTTTTGAAAATAAATAAACAAAG
1 CTC-CTCTAATCAGAGGCTCAACGACTTTTG--AA-AAATAAATAAAG
* * **
15013984 CTCCTCTAATCAGAGGCTCAATGACTTTTG-GAAAT-AA-ACGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
*
15014025 CTCCTCTAATTAGAGGCTCAACGAC-TTTG-AAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
* * * *
15014067 CTCCTCTAAACAGAAGCTCAACGACTTTTGAAAAATAAACAAAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
* * * *
15014111 CTCCTCTAAACAGAGGCTTAACAACTTTT-AAAAAT-AA-AAGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
* * * * * *
15014152 CTCCTTTAATTAGAGGCTCAACGATTTTTGGAAAGTAAAT--TG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
15014194 CTCCTCTAATCAGAGGC
1 CTCCTCTAATCAGAGGC
15014211 ATTACAACTT
Statistics
Matches: 227, Mismatches: 34, Indels: 28
0.79 0.12 0.10
Matches are distributed among these distances:
40 8 0.04
41 52 0.23
42 48 0.21
43 17 0.07
44 50 0.22
45 11 0.05
47 38 0.17
48 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (44 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAAAG
Found at i:15014146 original size:127 final size:132
Alignment explanation
Indices: 15013893--15014185 Score: 375
Period size: 127 Copynumber: 2.2 Consensus size: 132
15013883 CTGATCAAAA
** * * *
15013893 CTCCTCTAAGCAGAGG-TTAACGACTTTGGAAAACATAAATAAAGCCTCTCTAATCAGAGGCTCA
1 CTCCTCTAATTAGAGGCTCAACGACTTTGGAAAACATAAATAAAGCCTCTCTAAACAGAAGCTCA
* * ** **
15013957 ACGACTTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTGGAAATAAA
66 ACGACTTTTG-AAATAAATAAACAAAACTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAA
*
15014022 CGG
130 AGG
15014025 CTCCTCTAATTAGAGGCTCAACGACTTT-G-AAA-ATAAATAAAG-CTCCTCTAAACAGAAGCTC
1 CTCCTCTAATTAGAGGCTCAACGACTTTGGAAAACATAAATAAAGCCT-CTCTAAACAGAAGCTC
*
15014086 AACGACTTTTG-AA-AAATAAACAAAACTCCTCTAAACAGAGGCTTAACAACTTTTAAAAATAAA
65 AACGACTTTTGAAATAAATAAACAAAACTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAA
15014149 AGG
130 AGG
* *
15014152 CTCCTTTAATTAGAGGCTCAACGATTTTTGGAAA
1 CTCCTCTAATTAGAGGCTCAACGA-CTTTGGAAA
15014186 GTAAATTGCT
Statistics
Matches: 141, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
127 68 0.48
128 5 0.04
129 3 0.02
130 37 0.26
131 3 0.02
132 15 0.11
133 10 0.07
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (132 bp):
CTCCTCTAATTAGAGGCTCAACGACTTTGGAAAACATAAATAAAGCCTCTCTAAACAGAAGCTCA
ACGACTTTTGAAATAAATAAACAAAACTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAAA
GG
Found at i:15014218 original size:83 final size:82
Alignment explanation
Indices: 15013893--15014229 Score: 243
Period size: 83 Copynumber: 3.9 Consensus size: 82
15013883 CTGATCAAAA
* *
15013893 CTCCTCTAAGCAGAGG-TTAACGAC-TTTGGAAAACATAAATAAAGC-CTCTCTAATCAGAGGCT
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGG--AA-AT-AA-AAAGCTC-CTCTAATCAGAGGCT
* * *
15013955 CAACGACTTTTGAAAATAAATAAACAAAG
60 -TACAACTTTT---AA-AAAT-AATAAAG
* ** * * *
15013984 CTCCTCTAATCAGAGGCTCAATGACTTTTGGAAATAAACGGCTCCTCTAATTAGAGGCTCAACGA
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGGAAATAAAAAGCTCCTCTAATCAGAGGCT-TACAA
*
15014049 C-TTTGAAAATAAATAAAG
65 CTTTTAAAAAT-AATAAAG
* * * * *
15014067 CTCCTCTAAACAGAAGCTCAACGACTTTTGAAAAATAAACAAAACTCCTCTAAACAGAGGCTTAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTTG-GAAAT-AA-AAAGCTCCTCTAATCAGAGGCTT-A
*
15014132 CAACTTTTAAAAATAA-AAGG
62 CAACTTTTAAAAATAATAAAG
* * * **
15014152 CTCCTTTAATTAGAGGCTCAACGATTTTTGGAAAGTAAATTGCTCCTCTAATCAGAGGCATTACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGGAAA-TAAAAAGCTCCTCTAATCAGAGGC-TTACA
*
15014217 ACTTTGAAAAATA
64 ACTTTTAAAAATA
15014230 GATTACTCTT
Statistics
Matches: 204, Mismatches: 32, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
83 70 0.34
84 12 0.06
85 31 0.15
86 23 0.11
87 11 0.05
88 24 0.12
89 3 0.01
90 2 0.01
91 17 0.08
92 6 0.03
93 5 0.02
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (82 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTTGGAAATAAAAAGCTCCTCTAATCAGAGGCTTACAAC
TTTTAAAAATAATAAAG
Found at i:15015254 original size:8 final size:8
Alignment explanation
Indices: 15015235--15015279 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
15015225 TCATTCACTT
15015235 TTTTTTCA
1 TTTTTTCA
*
15015243 -TTTTTCC
1 TTTTTTCA
15015250 TTTTTTCA
1 TTTTTTCA
*
15015258 TTTTTTTA
1 TTTTTTCA
15015266 TTTTTTCA
1 TTTTTTCA
15015274 TTTTTT
1 TTTTTT
15015280 TCAAGTATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:15015255 original size:9 final size:9
Alignment explanation
Indices: 15015234--15015282 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
15015224 TTCATTCACT
15015234 TTTTTTTCA
1 TTTTTTTCA
15015243 --TTTTTC-
1 TTTTTTTCA
*
15015249 CTTTTTTCA
1 TTTTTTTCA
15015258 TTTTTTT-A
1 TTTTTTTCA
15015266 -TTTTTTCA
1 TTTTTTTCA
15015274 TTTTTTTCA
1 TTTTTTTCA
15015283 AGTATAGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
7 12 0.35
8 8 0.24
9 14 0.41
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:15015279 original size:15 final size:15
Alignment explanation
Indices: 15015235--15015279 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
15015225 TCATTCACTT
**
15015235 TTTTTTCATTTTTCC
1 TTTTTTCATTTTTTA
15015250 TTTTTTCATTTTTTTA
1 TTTTTTCA-TTTTTTA
15015266 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
15015280 TCAAGTATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCATTTTTTA
Found at i:15025389 original size:30 final size:29
Alignment explanation
Indices: 15025355--15025446 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 29
15025345 ACTTTTCCCC
15025355 AAAAAGGATTTTTGAAAACTTATTTTTAAG
1 AAAAA-GATTTTTGAAAACTTATTTTTAAG
* * * *
15025385 AAAAATTGATACTTT--CAACTT-TTTCTCA-
1 AAAAA--GAT-TTTTGAAAACTTATTTTTAAG
*
15025413 AAAAAGATTTTTGAAAACTCATTTTTAAG
1 AAAAAGATTTTTGAAAACTTATTTTTAAG
15025442 AAAAA
1 AAAAA
15025447 TTGATACTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
25 3 0.07
26 3 0.07
27 4 0.09
28 10 0.22
29 10 0.22
30 10 0.22
31 3 0.07
32 3 0.07
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (29 bp):
AAAAAGATTTTTGAAAACTTATTTTTAAG
Found at i:15025522 original size:30 final size:30
Alignment explanation
Indices: 15025488--15025581 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
15025478 TTTTTTAGAA
15025488 AACTTATTTTCAAGGAAAATTGATACTTTC
1 AACTTATTTTCAAGGAAAATTGATACTTTC
** *
15025518 AACTT-TTTCTCAA--AAATATT--TTTTTTGG
1 AACTTATTT-TCAAGGAAA-ATTGATACTTT-C
15025546 AAGCTTATTTTCAAGGAAAATTGATACTTTC
1 AA-CTTATTTTCAAGGAAAATTGATACTTTC
15025577 AACTT
1 AACTT
15025582 TTCCTTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 13 0.27
30 18 0.37
31 5 0.10
32 4 0.08
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (30 bp):
AACTTATTTTCAAGGAAAATTGATACTTTC
Found at i:15025603 original size:59 final size:58
Alignment explanation
Indices: 15025213--15025601 Score: 432
Period size: 57 Copynumber: 6.7 Consensus size: 58
15025203 TTTTGTACAG
* * *
15025213 GGAAAATTGATACTTTCAACTTTTTCC-C-AAAATATTTTTTAG-AAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAAC-TTATTTTCAA
* * **** *
15025270 GAAAAATTGATAATTTCAACTTTTCCTCAAAAATCCACTTTTGAAAAC-TATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTTCAA
* * * *
15025327 GGAAAATTGATAATTTCAACTTTTCCCCAAAAAGGA--TTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAACTTATTTTCAA
* * ** * *
15025384 GAAAAATTGATACTTTCAACTTTTTCTCAAAAA-AGATTTTTGAAAACTCATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTTCAA
* * *
15025441 GAAAAATTGATACTTTTAACTTTTCTTCAAAAATATTTTTTTTAGAAAACTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTT-GAAAACTTATTTTCAA
* * *
15025501 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGGAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAACTTATTTTCAA
*
15025560 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
15025602 TGAATTTTAT
Statistics
Matches: 287, Mismatches: 35, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
55 1 0.00
56 16 0.06
57 144 0.50
58 17 0.06
59 56 0.20
60 53 0.18
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTATTTTCAA
Found at i:15025650 original size:15 final size:15
Alignment explanation
Indices: 15025618--15025658 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
15025608 TTATTTAAAG
*
15025618 AAATAAAA-AAATAA
1 AAATAAAATAAAGAA
15025632 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
15025647 AAATAAAATAAA
1 AAATAAAATAAA
15025659 AAGTATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (15 bp):
AAATAAAATAAAGAA
Found at i:15025697 original size:4 final size:4
Alignment explanation
Indices: 15025681--15025721 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
15025671 ATTCTAATCT
15025681 AATA AA-A AA-A AATA AAT- AAT- AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A
15025722 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 12 0.34
4 23 0.66
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:15025715 original size:22 final size:20
Alignment explanation
Indices: 15025680--15025732 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 20
15025670 AATTCTAATC
15025680 TAATAAAAAAAAATAAATAA
1 TAATAAAAAAAAATAAATAA
15025700 TAATAAATAAATAAATAAATAA
1 TAATAAA-AAA-AAATAAATAA
15025722 TGAA-AAAAAAA
1 T-AATAAAAAAA
15025733 CCTGAGAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 14 0.47
23 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
TAATAAAAAAAAATAAATAA
Found at i:15025941 original size:15 final size:15
Alignment explanation
Indices: 15025921--15025963 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15025911 AGACTAATCA
15025921 TTCCCTTTCTCTTT-C
1 TTCCC-TTCTCTTTCC
15025936 TTCCCTTC-CTTTCC
1 TTCCCTTCTCTTTCC
15025950 TCTCCCTTCTCTTT
1 T-TCCCTTCTCTTT
15025964 AAACCACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 5 0.20
15 12 0.48
16 4 0.16
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (15 bp):
TTCCCTTCTCTTTCC
Found at i:15026560 original size:11 final size:11
Alignment explanation
Indices: 15026530--15026564 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
15026520 ATATATTAAT
*
15026530 TAATAGATAAA
1 TAATAGATATA
15026541 TAATA-ATATA
1 TAATAGATATA
15026551 TAATAGATATA
1 TAATAGATATA
15026562 TAA
1 TAA
15026565 ACAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (11 bp):
TAATAGATATA
Found at i:15026571 original size:26 final size:26
Alignment explanation
Indices: 15026517--15026572 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
15026507 AAAAATAAAG
*
15026517 ATAATATATTAATTAATAGATAAATA
1 ATAATATATTAATTAATAGATAAAAA
*
15026543 ATAATATA-TAA-TAGATATATAAACAA
1 ATAATATATTAATTA-ATAGATAAA-AA
15026569 ATAA
1 ATAA
15026573 AAAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 2 0.08
25 11 0.42
26 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (26 bp):
ATAATATATTAATTAATAGATAAAAA
Found at i:15026653 original size:19 final size:18
Alignment explanation
Indices: 15026603--15026671 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 18
15026593 AAATAGTAAT
*
15026603 AATAAATAAATAAAATATA
1 AATAAAAAAATAAAATA-A
15026622 AA-AATACAAAATACAGAAT-A
1 AATAA-A-AAAATA-A-AATAA
15026642 AATAAAAAAATAAAATAA
1 AATAAAAAAATAAAATAA
15026660 AATAAAACAAAT
1 AATAAAA-AAAT
15026672 TGAAATGGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
17 3 0.07
18 11 0.26
19 13 0.31
20 9 0.21
21 3 0.07
22 3 0.07
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (18 bp):
AATAAAAAAATAAAATAA
Found at i:15026655 original size:12 final size:13
Alignment explanation
Indices: 15026603--15026661 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
15026593 AAATAGTAAT
*
15026603 AATAAATAAATAA
1 AATAAAAAAATAA
*
15026616 AATATAAAAATACA
1 AATAAAAAAATA-A
* *
15026630 AA-ATACAGAAT-A
1 AATA-AAAAAATAA
15026642 AATAAAAAAATAA
1 AATAAAAAAATAA
15026655 AATAAAA
1 AATAAAA
15026662 TAAAACAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
12 8 0.23
13 20 0.57
14 7 0.20
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:15032259 original size:16 final size:16
Alignment explanation
Indices: 15032235--15032267 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15032225 TTGATTATAA
15032235 ATTAAACAATCATACT
1 ATTAAACAATCATACT
*
15032251 ATTATACAATCATACT
1 ATTAAACAATCATACT
15032267 A
1 A
15032268 ACAATTGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAACAATCATACT
Found at i:15032585 original size:20 final size:20
Alignment explanation
Indices: 15032562--15032601 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15032552 ATACAAATTT
15032562 ATTAATAAAAA-AATGTCATA
1 ATTAATAAAAATAATG-CATA
15032582 ATTAATAAAAATAATGCATA
1 ATTAATAAAAATAATGCATA
15032602 TGTATCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
ATTAATAAAAATAATGCATA
Found at i:15033667 original size:34 final size:34
Alignment explanation
Indices: 15033605--15033669 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
15033595 TAAGATAATT
*
15033605 TTTTTAAAAGAGTAAGATAGTTGCTTTTAATAGC
1 TTTTTAAAAGAGTAAGATAGTTGATTTTAATAGC
15033639 TTTTTAAAAGAGTAAGATAG-TGTATTTTAAT
1 TTTTTAAAAGAGTAAGATAGTTG-ATTTTAAT
15033670 TACAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 2 0.07
34 27 0.93
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (34 bp):
TTTTTAAAAGAGTAAGATAGTTGATTTTAATAGC
Found at i:15033680 original size:34 final size:34
Alignment explanation
Indices: 15033608--15033680 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
15033598 GATAATTTTT
* ***
15033608 TTAAAAGAGTAAGATAGTTGCTTTTAATAGCTTT
1 TTAAAAGAGTAAGATAGTTGATTTTAATAGCAAA
15033642 TTAAAAGAGTAAGATAG-TGTATTTTAATTA-CAAA
1 TTAAAAGAGTAAGATAGTTG-ATTTTAA-TAGCAAA
15033676 TTAAA
1 TTAAA
15033681 TTATTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.06
34 29 0.88
35 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (34 bp):
TTAAAAGAGTAAGATAGTTGATTTTAATAGCAAA
Found at i:15042277 original size:31 final size:31
Alignment explanation
Indices: 15042242--15042303 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
15042232 TCTAAGTTAG
15042242 GGTTTAAGGTTTAGT-TT-GGGATTTAGGGTTT
1 GGTTTAAGGTTT-GTCTTAGGG-TTTAGGGTTT
*
15042273 GGTTTATGGTTTGTCTTAGGGTTTAGGGTTT
1 GGTTTAAGGTTTGTCTTAGGGTTTAGGGTTT
15042304 CATGAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 23 0.82
32 3 0.11
ACGTcount: A:0.13, C:0.02, G:0.35, T:0.50
Consensus pattern (31 bp):
GGTTTAAGGTTTGTCTTAGGGTTTAGGGTTT
Found at i:15042320 original size:17 final size:17
Alignment explanation
Indices: 15042298--15042336 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15042288 TTAGGGTTTA
15042298 GGGTTTCATGAAATTTG
1 GGGTTTCATGAAATTTG
* **
15042315 GGGTTTTATGGGATTTG
1 GGGTTTCATGAAATTTG
15042332 GGGTT
1 GGGTT
15042337 CATAAGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.44
Consensus pattern (17 bp):
GGGTTTCATGAAATTTG
Found at i:15043394 original size:3 final size:3
Alignment explanation
Indices: 15043386--15043426 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15043376 CCTTAAGCAA
15043386 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15043427 ACAAAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15044712 original size:5 final size:6
Alignment explanation
Indices: 15044696--15044721 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15044686 GGATAGAAAG
15044696 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
15044722 ATAAATAAAG
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:15044890 original size:17 final size:18
Alignment explanation
Indices: 15044843--15044890 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
15044833 TGAGTGCAAT
15044843 TTAAATTT-TATGC-ATG
1 TTAAATTTCTATGCTATG
*
15044859 TTTAATTTCCT-TGCTA-G
1 TTAAATTT-CTATGCTATG
15044876 TTAAATTTCTATGCT
1 TTAAATTTCTATGCT
15044891 TATTTTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 9 0.35
17 15 0.58
18 2 0.08
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.52
Consensus pattern (18 bp):
TTAAATTTCTATGCTATG
Found at i:15045165 original size:12 final size:12
Alignment explanation
Indices: 15045148--15045179 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15045138 TAAACAATTA
15045148 AACAATAATAAT
1 AACAATAATAAT
15045160 AACAATAATAAT
1 AACAATAATAAT
*
15045172 AATAATAA
1 AACAATAA
15045180 ACTTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (12 bp):
AACAATAATAAT
Found at i:15045350 original size:38 final size:38
Alignment explanation
Indices: 15045293--15045377 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
15045283 TTCATAAATT
** * * *
15045293 TGTGAAACCTTAACCCGAAACCTTAAGTGAAACCCTAA
1 TGTGAAACCTTAAAACGAAACCCTAAATGAAAACCTAA
15045331 TGTGAAACCTTAAAACGAAACCCTAAATGAAAACCTAA
1 TGTGAAACCTTAAAACGAAACCCTAAATGAAAACCTAA
**
15045369 AATGAAACC
1 TGTGAAACC
15045378 CTAGGTGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.19
Consensus pattern (38 bp):
TGTGAAACCTTAAAACGAAACCCTAAATGAAAACCTAA
Found at i:15045367 original size:12 final size:12
Alignment explanation
Indices: 15045309--15045394 Score: 64
Period size: 12 Copynumber: 6.9 Consensus size: 12
15045299 ACCTTAACCC
* *
15045309 GAAACCTTAAGT
1 GAAACCCTAAAT
*
15045321 GAAACCCTAATGT
1 GAAACCCTAA-AT
* *
15045334 GAAACCTTAAAAC
1 GAAACCCT-AAAT
15045347 GAAACCCTAAAT
1 GAAACCCTAAAT
*
15045359 GAAAACCTAAAAT
1 GAAACCCT-AAAT
**
15045372 GAAACCCTAGGT
1 GAAACCCTAAAT
*
15045384 GAAGCCCTAAA
1 GAAACCCTAAA
15045395 CCTTAGGTAA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
12 29 0.50
13 27 0.47
14 2 0.03
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.17
Consensus pattern (12 bp):
GAAACCCTAAAT
Found at i:15045386 original size:25 final size:25
Alignment explanation
Indices: 15045310--15045386 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
15045300 CCTTAACCCG
* *
15045310 AAACCTTAAGTGAAACCCTAATGTG-
1 AAACCTAAAATGAAACCCTAA-GTGA
* *
15045335 AAACCTTAAAACGAAACCCTAAATGA
1 AAACC-TAAAATGAAACCCTAAGTGA
*
15045361 AAACCTAAAATGAAACCCTAGGTGA
1 AAACCTAAAATGAAACCCTAAGTGA
15045386 A
1 A
15045387 GCCCTAAACC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 25 0.58
26 18 0.42
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.18
Consensus pattern (25 bp):
AAACCTAAAATGAAACCCTAAGTGA
Found at i:15045392 original size:25 final size:25
Alignment explanation
Indices: 15045320--15045394 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
15045310 AAACCTTAAG
*
15045320 TGAAACCCTAATGTGAAACCTTAAAA
1 TGAAACCCTAA-GTGAAACCCTAAAA
* * *
15045346 CGAAACCCTAAATGAAAACCTAAAA
1 TGAAACCCTAAGTGAAACCCTAAAA
* *
15045371 TGAAACCCTAGGTGAAGCCCTAAA
1 TGAAACCCTAAGTGAAACCCTAAA
15045395 CCTTAGGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 30 0.75
26 10 0.25
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (25 bp):
TGAAACCCTAAGTGAAACCCTAAAA
Found at i:15048736 original size:4 final size:4
Alignment explanation
Indices: 15048714--15048747 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
15048704 GAGGTTTTGT
* *
15048714 ATTC ATGC ATTC GTTC ATTC ATTC ATTC ATTC AT
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC AT
15048748 CCACTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.47
Consensus pattern (4 bp):
ATTC
Found at i:15051189 original size:20 final size:19
Alignment explanation
Indices: 15051140--15051205 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
15051130 CCATTCAGAG
*
15051140 AAAAGAAAAAGTGAACAAATGA
1 AAAAGAAAAAGTGAA-GAA--A
15051162 AAAAGAAAAAGTGAAGAAA
1 AAAAGAAAAAGTGAAGAAA
*
15051181 AAAATGAAAGAA-AGAAGAAA
1 AAAA-GAAA-AAGTGAAGAAA
15051201 AAAAG
1 AAAAG
15051206 CAAGAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.15
20 15 0.38
21 4 0.10
22 15 0.38
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.06
Consensus pattern (19 bp):
AAAAGAAAAAGTGAAGAAA
Found at i:15051212 original size:12 final size:11
Alignment explanation
Indices: 15051174--15051219 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
15051164 AAGAAAAAGT
15051174 GAAGAAA-AAA
1 GAAGAAAGAAA
*
15051184 -ATGAAAGAAA
1 GAAGAAAGAAA
*
15051194 GAAGAAAAAAA
1 GAAGAAAGAAA
15051205 GCAAGAAAGAAA
1 G-AAGAAAGAAA
15051217 GAA
1 GAA
15051220 AAGATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 11 0.38
12 10 0.34
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (11 bp):
GAAGAAAGAAA
Found at i:15051218 original size:20 final size:20
Alignment explanation
Indices: 15051174--15051221 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
15051164 AAGAAAAAGT
15051174 GAAGAAAAAAATGAAAGAAA
1 GAAGAAAAAAATGAAAGAAA
*
15051194 GAAGAAAAAAA-GCAAGAAA
1 GAAGAAAAAAATGAAAGAAA
15051213 GAAAGAAAA
1 G-AAGAAAA
15051222 GATGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (20 bp):
GAAGAAAAAAATGAAAGAAA
Found at i:15051571 original size:14 final size:13
Alignment explanation
Indices: 15051552--15051584 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
15051542 GTATAATAAT
15051552 AAAAAGAAAAAGAA
1 AAAAAGAAAAA-AA
15051566 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
15051579 AAAAAG
1 AAAAAG
15051585 GGAATGTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:15052389 original size:22 final size:22
Alignment explanation
Indices: 15052353--15052447 Score: 109
Period size: 22 Copynumber: 4.3 Consensus size: 22
15052343 TAATTGGTAT
* * *
15052353 ATAAGCCCAGTTTAGCTAGCAC
1 ATAAGCCTAGATTAGCTGGCAC
* * *
15052375 GTAAGCTTAGATTAGCTGGCAT
1 ATAAGCCTAGATTAGCTGGCAC
*
15052397 ATAAACCTAGATTAGCTGGCAC
1 ATAAGCCTAGATTAGCTGGCAC
* *
15052419 ACAAGCCTAGATTAGTTGGCAC
1 ATAAGCCTAGATTAGCTGGCAC
15052441 ATAAGCC
1 ATAAGCC
15052448 CAATTTAGCT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (22 bp):
ATAAGCCTAGATTAGCTGGCAC
Found at i:15052399 original size:44 final size:44
Alignment explanation
Indices: 15052351--15052458 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 44
15052341 ATTAATTGGT
** *
15052351 ATATAAGCCCAGTTTAGCTAGCACGTAAGCTTAGATTAGCTGGC
1 ATATAAGCCCAGTTTAGCTAGCACACAAGCCTAGATTAGCTGGC
* * * * *
15052395 ATATAAACCTAGATTAGCTGGCACACAAGCCTAGATTAGTTGGC
1 ATATAAGCCCAGTTTAGCTAGCACACAAGCCTAGATTAGCTGGC
* *
15052439 ACATAAGCCCAATTTAGCTA
1 ATATAAGCCCAGTTTAGCTA
15052459 ATATATAAGC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
ATATAAGCCCAGTTTAGCTAGCACACAAGCCTAGATTAGCTGGC
Found at i:15052732 original size:33 final size:30
Alignment explanation
Indices: 15052683--15052798 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 30
15052673 ATTACCAATC
* *
15052683 ACCAATAAAAATTTAAGCCTAGTTTAGTTAGT
1 ACCAATGAAAATTTAAGCC-AGTTTAGAT-GT
* *
15052715 ACCTAATGAAAATTTAAGTCAGTTTAGATGGC
1 ACC-AATGAAAATTTAAGCCAGTTTAGAT-GT
* *
15052747 ACCAATGAAAATTTAAACCCAGTTTAGCTGAT
1 ACCAATGAAAATTT-AAGCCAGTTTAGATG-T
*
15052779 ACCCAATGAAAATTGAAGCC
1 A-CCAATGAAAATTTAAGCC
15052799 CAATTTATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
31 12 0.17
32 31 0.45
33 26 0.38
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (30 bp):
ACCAATGAAAATTTAAGCCAGTTTAGATGT
Found at i:15052757 original size:31 final size:32
Alignment explanation
Indices: 15052682--15052798 Score: 105
Period size: 33 Copynumber: 3.6 Consensus size: 32
15052672 GATTACCAAT
* *
15052682 CACCAATAAAAATTTAAGCCTAGTTTAGTTAG
1 CACCAATGAAAATTTAAGCCTAGTTTAGATAG
* * *
15052714 TACCTAATGAAAATTTAAGTC-AGTTTAGATGG
1 CACC-AATGAAAATTTAAGCCTAGTTTAGATAG
* *
15052746 CACCAATGAAAATTTAAACCCAGTTTAGCTGATA-
1 CACCAATGAAAATTTAAGCCTAGTTTA---GATAG
*
15052780 C-CCAATGAAAATTGAAGCC
1 CACCAATGAAAATTTAAGCC
15052799 CAATTTATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
31 14 0.20
32 21 0.30
33 30 0.43
34 1 0.01
35 3 0.04
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (32 bp):
CACCAATGAAAATTTAAGCCTAGTTTAGATAG
Found at i:15052823 original size:16 final size:16
Alignment explanation
Indices: 15052802--15052840 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
15052792 TGAAGCCCAA
15052802 TTTATATTAAGTCCAG
1 TTTATATTAAGTCCAG
*
15052818 TTTATATTAAGTCTAG
1 TTTATATTAAGTCCAG
15052834 TTTATAT
1 TTTATAT
15052841 AGCACCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (16 bp):
TTTATATTAAGTCCAG
Found at i:15052943 original size:16 final size:16
Alignment explanation
Indices: 15052922--15052954 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15052912 CTAATGAAAT
15052922 TTAAGTCCAGTTTATA
1 TTAAGTCCAGTTTATA
*
15052938 TTAAGTCTAGTTTATA
1 TTAAGTCCAGTTTATA
15052954 T
1 T
15052955 AGCACCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (16 bp):
TTAAGTCCAGTTTATA
Found at i:15053008 original size:114 final size:114
Alignment explanation
Indices: 15052808--15053049 Score: 466
Period size: 114 Copynumber: 2.1 Consensus size: 114
15052798 CCAATTTATA
15052808 TTAAGTCCAGTTTATATTAAGTCTAGTTTATATAGCACCTAATGAAAATTTAAACCCAATTTAGC
1 TTAAGTCCAGTTTATATTAAGTCTAGTTTATATAGCACCTAATGAAAATTTAAACCCAATTTAGC
*
15052873 TGGCACCAAATAAAAAATTTAAAACCAGATTATCTTGTACTAATGAAAT
66 TGGCACCAAATAAAAAATTTAAAACCAGATTATCTTGTACCAATGAAAT
15052922 TTAAGTCCAGTTTATATTAAGTCTAGTTTATATAGCACCTAATGAAAATTTAAACCCAATTTAGC
1 TTAAGTCCAGTTTATATTAAGTCTAGTTTATATAGCACCTAATGAAAATTTAAACCCAATTTAGC
15052987 TGGCACCAAATAAAAAATTTAAAACCAGATTATCTTGTACCAATGAAAT
66 TGGCACCAAATAAAAAATTTAAAACCAGATTATCTTGTACCAATGAAAT
*
15053036 TTAAGTCCAATTTA
1 TTAAGTCCAGTTTA
15053050 ACTGGCACCG
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 126 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (114 bp):
TTAAGTCCAGTTTATATTAAGTCTAGTTTATATAGCACCTAATGAAAATTTAAACCCAATTTAGC
TGGCACCAAATAAAAAATTTAAAACCAGATTATCTTGTACCAATGAAAT
Found at i:15053120 original size:33 final size:33
Alignment explanation
Indices: 15053052--15053144 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
15053042 CCAATTTAAC
* * *
15053052 TGGCACCGAAT-AAAATTTAAGCTCAGTTTAGT
1 TGGCACCCAATCAAAATTTAAGCTCAGTCTAAT
* *
15053084 TGGCATCCAGTCAAAATTTAAGCTCTA-TCTAAT
1 TGGCACCCAATCAAAATTTAAGCTC-AGTCTAAT
* * *
15053117 TGGCACCCAATGAAAACTTAAGCCCAGT
1 TGGCACCCAATCAAAATTTAAGCTCAGT
15053145 GAAAACTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
32 9 0.19
33 38 0.79
34 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (33 bp):
TGGCACCCAATCAAAATTTAAGCTCAGTCTAAT
Found at i:15053147 original size:17 final size:17
Alignment explanation
Indices: 15053122--15053154 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15053112 CTAATTGGCA
15053122 CCCAATGAAAACTTAAG
1 CCCAATGAAAACTTAAG
*
15053139 CCCAGTGAAAACTTAA
1 CCCAATGAAAACTTAA
15053155 ACCCTATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (17 bp):
CCCAATGAAAACTTAAG
Found at i:15053368 original size:8 final size:8
Alignment explanation
Indices: 15053341--15053428 Score: 52
Period size: 8 Copynumber: 10.6 Consensus size: 8
15053331 CAAAACAAAT
*
15053341 AAAAACAA
1 AAAAAGAA
* *
15053349 ATAAATAA
1 AAAAAGAA
15053357 AAAAAGAA
1 AAAAAGAA
15053365 AAAATA-AA
1 AAAA-AGAA
*
15053373 TAAAAGTAA
1 AAAAAG-AA
*
15053382 AATAAACAA
1 AA-AAAGAA
* * *
15053391 ACATACAA
1 AAAAAGAA
15053399 ATAAAAGAA
1 A-AAAAGAA
15053408 AAAAAGAA
1 AAAAAGAA
*
15053416 AACAAGAA
1 AAAAAGAA
15053424 AAAAA
1 AAAAA
15053429 TGTTCTTCTT
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
7 1 0.02
8 45 0.74
9 12 0.20
10 3 0.05
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.09
Consensus pattern (8 bp):
AAAAAGAA
Found at i:15053383 original size:15 final size:15
Alignment explanation
Indices: 15053337--15053427 Score: 55
Period size: 15 Copynumber: 6.2 Consensus size: 15
15053327 AAAGCAAAAC
* *
15053337 AAATAAAAACA-AAT
1 AAATAAAAAAAGAAA
15053351 AAATAAAAAAAGAAA
1 AAATAAAAAAAGAAA
*
15053366 AAATAAATAAAAG-TA
1 AAATAAA-AAAAGAAA
* * *
15053381 AAATAAACAAACATAC
1 AAATAAAAAAAGA-AA
*
15053397 AAAT-AAAAGA-AAA
1 AAATAAAAAAAGAAA
* *
15053410 AAAGAAAACAAGAAA
1 AAATAAAAAAAGAAA
15053425 AAA
1 AAA
15053428 ATGTTCTTCT
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
13 4 0.07
14 18 0.31
15 27 0.47
16 9 0.16
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (15 bp):
AAATAAAAAAAGAAA
Found at i:15053790 original size:17 final size:17
Alignment explanation
Indices: 15053768--15053804 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15053758 TAATAATAAT
15053768 AATAAAAAAAATAAAAA
1 AATAAAAAAAATAAAAA
**
15053785 AATAAAAAATGTAAAAA
1 AATAAAAAAAATAAAAA
15053802 AAT
1 AAT
15053805 GCTTGGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AATAAAAAAAATAAAAA
Found at i:15055704 original size:19 final size:18
Alignment explanation
Indices: 15055676--15055733 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
15055666 TCCTAAAATA
*
15055676 AAACCCTAGGTGAAACCCT
1 AAACCTTAGGT-AAACCCT
*
15055695 AAACTTTAGGT-AA--CT
1 AAACCTTAGGTAAACCCT
15055710 AAACCTTAGGTAAAACCCT
1 AAACCTTAGGT-AAACCCT
15055729 AAACC
1 AAACC
15055734 CTAAATCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 12 0.38
17 4 0.12
19 16 0.50
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (18 bp):
AAACCTTAGGTAAACCCT
Found at i:15055713 original size:15 final size:15
Alignment explanation
Indices: 15055693--15055722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15055683 AGGTGAAACC
*
15055693 CTAAACTTTAGGTAA
1 CTAAACCTTAGGTAA
15055708 CTAAACCTTAGGTAA
1 CTAAACCTTAGGTAA
15055723 AACCCTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (15 bp):
CTAAACCTTAGGTAA
Found at i:15061024 original size:33 final size:33
Alignment explanation
Indices: 15060977--15061092 Score: 105
Period size: 33 Copynumber: 3.5 Consensus size: 33
15060967 GTTATTTTAC
*
15060977 TTTTAGA-TTATGGTTTCGTCCGAGTTATTTCAT
1 TTTTAGACTT-TGGTTTCGTCCGAGTAATTTCAT
* *
15061010 TTGTT-GACTTTGGTTTTGT-CAAGTCCAA-TTCAT
1 TT-TTAGACTTTGGTTTCGTCCGAGT--AATTTCAT
* * * *
15061043 TTTTGGACTTTGGTTTTGTCCGTGTAATTTAAT
1 TTTTAGACTTTGGTTTCGTCCGAGTAATTTCAT
15061076 TTTTAGACTTTGGTTTC
1 TTTTAGACTTTGGTTTC
15061093 ACTCAAGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
32 8 0.12
33 52 0.76
34 8 0.12
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (33 bp):
TTTTAGACTTTGGTTTCGTCCGAGTAATTTCAT
Found at i:15061230 original size:59 final size:59
Alignment explanation
Indices: 15061138--15061357 Score: 191
Period size: 59 Copynumber: 3.7 Consensus size: 59
15061128 TCCAAATCAT
* * *
15061138 TTTATTTTATAAAACTTTAGGAAAAATTGATCTTTCAAC-TCTAATTATTTTAAAATTTC
1 TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTCTAATTA-TTTAAAAATTC
*
15061197 TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTTTTTTAATTATTTAAAAATTC
1 TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAAC---TTCTAATTATTTAAAAATTC
** * * * *
15061259 TTT-TCATGT-AAAATTTAGGAAATATTGATCTTTTATCTTTTTTTTTAA-TATTTAAAAATTC
1 TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAAC-----TTCTAATTATTTAAAAATTC
* ***
15061320 TTT-TATTGTAAAAATTTA-GAAAAAAAAATCTTTCAACT
1 TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAACT
15061358 ATTTTCCCAA
Statistics
Matches: 137, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
59 37 0.27
60 25 0.18
61 37 0.27
62 30 0.22
63 7 0.05
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTCTAATTATTTAAAAATTC
Found at i:15061312 original size:61 final size:61
Alignment explanation
Indices: 15061137--15061362 Score: 234
Period size: 61 Copynumber: 3.7 Consensus size: 61
15061127 ATCCAAATCA
* * *
15061137 TTTTATTTTATAAAACTTTAGGAAAAATTGATCTTTCAAC----TCTAATTATTTTAAAATTTC
1 TTTTATTGTA-AAAA-TTTAGGAAAAATTGATCTTTCAACTTTTTTTAATTA-TTTAAAAATTC
*
15061197 TTTATTTTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTTTTTTAATTATTTAAAAATTC
1 TTT-TATTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTTTTTTAATTATTTAAAAATTC
* * *
15061259 TTTTCA-TGT-AAAATTTAGGAAATATTGATCTTTTATCTTTTTTTTTAA-TATTTAAAAATTC
1 TTTT-ATTGTAAAAATTTAGGAAAAATTGATCTTTCAAC--TTTTTTTAATTATTTAAAAATTC
*** *
15061320 TTTTATTGTAAAAATTTA-GAAAAAAAAATCTTTCAACTATTTT
1 TTTTATTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTTTTT
15061363 CCCAAATTTT
Statistics
Matches: 141, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
59 29 0.21
60 33 0.23
61 42 0.30
62 30 0.21
63 7 0.05
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTATTGTAAAAATTTAGGAAAAATTGATCTTTCAACTTTTTTTAATTATTTAAAAATTC
Found at i:15061460 original size:18 final size:18
Alignment explanation
Indices: 15061437--15061508 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
15061427 AAATAAACCC
15061437 AAATAAAATAAAATTAAA
1 AAATAAAATAAAATTAAA
**
15061455 AAATAAAATAAAA--ACC
1 AAATAAAATAAAATTAAA
* * *
15061471 AACTACAACTGAAATTAAA
1 AAATA-AAATAAAATTAAA
*
15061490 AAATAAGATAAAATTAAA
1 AAATAAAATAAAATTAAA
15061508 A
1 A
15061509 CTATAAAGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
16 5 0.12
17 6 0.15
18 24 0.60
19 5 0.12
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATAAAATAAAATTAAA
Found at i:15067799 original size:17 final size:17
Alignment explanation
Indices: 15067769--15067807 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15067759 TTTTCCCTTA
15067769 ATTTTTTATGTTATTTT
1 ATTTTTTATGTTATTTT
15067786 ATTTATTTAT-TTATTTT
1 ATTT-TTTATGTTATTTT
15067803 -TTTTT
1 ATTTTT
15067808 ACTAATTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 3 0.14
17 11 0.52
18 5 0.24
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
ATTTTTTATGTTATTTT
Found at i:15067815 original size:22 final size:21
Alignment explanation
Indices: 15067767--15067815 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
15067757 TTTTTTCCCT
*
15067767 TAATTTTTTATGTTATTTTAT
1 TAATTTTTTATGTTATTTTAC
* * *
15067788 TTATTTATTTATTTTTTTTTAC
1 TAATTT-TTTATGTTATTTTAC
15067810 TAATTT
1 TAATTT
15067816 GCTTAGAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TAATTTTTTATGTTATTTTAC
Found at i:15070434 original size:17 final size:15
Alignment explanation
Indices: 15070403--15070438 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
15070393 CGATTGCAGG
15070403 TTTTCATTTTTTTTA
1 TTTTCATTTTTTTTA
15070418 TTTTCTATTTATTTTTA
1 TTTTC-ATTT-TTTTTA
15070435 TTTT
1 TTTT
15070439 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 4 0.21
17 10 0.53
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCATTTTTTTTA
Found at i:15070580 original size:18 final size:19
Alignment explanation
Indices: 15070559--15070624 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
15070549 TTATGATTTT
*
15070559 TTATTTATT-TTTGCATGA
1 TTATTTATTAATTGCATGA
*
15070577 TTATTAATTAATTGCATGA
1 TTATTTATTAATTGCATGA
* * *
15070596 TATTTTATATTGATTGCATAA
1 T-TATT-TATTAATTGCATGA
*
15070617 TAATTTAT
1 TTATTTAT
15070625 AGATTATATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
18 8 0.22
19 12 0.32
20 5 0.14
21 12 0.32
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (19 bp):
TTATTTATTAATTGCATGA
Found at i:15070613 original size:21 final size:21
Alignment explanation
Indices: 15070569--15070625 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
15070559 TTATTTATTT
*
15070569 TTGCATGAT-TATTA-ATTAA
1 TTGCATGATATTTTATATTAA
*
15070588 TTGCATGATATTTTATATTGA
1 TTGCATGATATTTTATATTAA
* *
15070609 TTGCATAATAATTTATA
1 TTGCATGATATTTTATA
15070626 GATTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.28
20 4 0.12
21 19 0.59
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (21 bp):
TTGCATGATATTTTATATTAA
Found at i:15070647 original size:16 final size:16
Alignment explanation
Indices: 15070626--15070671 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 16
15070616 ATAATTTATA
15070626 GATTATATTATTGCAT
1 GATTATATTATTGCAT
*
15070642 GATTATATTGTTTTTGCAT
1 GATTATA---TTATTGCAT
15070661 GATTATATTAT
1 GATTATATTAT
15070672 AATTGAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.40
19 15 0.60
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.54
Consensus pattern (16 bp):
GATTATATTATTGCAT
Found at i:15070726 original size:14 final size:15
Alignment explanation
Indices: 15070688--15070726 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
15070678 ATAATATATT
15070688 ATATTATTGCATGATA
1 ATATT-TTGCATGATA
*
15070704 TTATTTTGCATGATA
1 ATATTTTGCATGATA
15070719 AT-TTTTGC
1 ATATTTTGC
15070727 TTATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (15 bp):
ATATTTTGCATGATA
Found at i:15072525 original size:3 final size:3
Alignment explanation
Indices: 15072514--15072561 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
15072504 ATTTTTTTAT
* * *
15072514 TTA TCA TTA TTA GTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15072561 T
1 T
15072562 ATTTATGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:15073466 original size:38 final size:39
Alignment explanation
Indices: 15073398--15073473 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
15073388 TTTTTCATTT
15073398 TCATTTTATTTTTTGATTTGATTTTATTTTATTTTTAAC
1 TCATTTTATTTTTTGATTTGATTTTATTTTATTTTTAAC
*
15073437 TCATTTTATTTTTT-ATTT-TTTTTAGTTTTATTTTTAA
1 TCATTTTATTTTTTGATTTGATTTTA-TTTTATTTTTAA
15073474 GAAATTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
37 5 0.14
38 16 0.46
39 14 0.40
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (39 bp):
TCATTTTATTTTTTGATTTGATTTTATTTTATTTTTAAC
Found at i:15073481 original size:38 final size:39
Alignment explanation
Indices: 15073400--15073486 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 39
15073390 TTTCATTTTC
**
15073400 ATTTTATTTTTTGATTTGATTTTATTTTATTTTTAACTC
1 ATTTTATTTTTTGATTTGATTTTATTTTATTTTTAACAA
* *
15073439 ATTTTATTTTTT-ATTT-TTTTTAGTTTTATTTTTAAGAA
1 ATTTTATTTTTTGATTTGATTTTA-TTTTATTTTTAACAA
15073477 ATTTTATTTT
1 ATTTTATTTT
15073487 GCTATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 5 0.12
38 26 0.60
39 12 0.28
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (39 bp):
ATTTTATTTTTTGATTTGATTTTATTTTATTTTTAACAA
Found at i:15074515 original size:40 final size:40
Alignment explanation
Indices: 15074460--15074545 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
15074450 CATTGCTTAT
*
15074460 ATTTGCTTAATTATCTATTTATTGTATATACCTGTCATTC
1 ATTTGCTTAATTATCTATTTATTGTATATACCTATCATTC
15074500 ATTTGCTTAATTATCTATTTATTGTATATACCTATCATTC
1 ATTTGCTTAATTATCTATTTATTGTATATACCTATCATTC
15074540 ATTTGC
1 ATTTGC
15074546 ATATGCATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (40 bp):
ATTTGCTTAATTATCTATTTATTGTATATACCTATCATTC
Found at i:15074549 original size:21 final size:21
Alignment explanation
Indices: 15074485--15074549 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
15074475 TATTTATTGT
*
15074485 ATATACCTGTCATTCATTTGC
1 ATATACCTATCATTCATTTGC
** * *
15074506 -T-TAATTATCTATTTA-TTGT
1 ATATACCTATC-ATTCATTTGC
15074525 ATATACCTATCATTCATTTGC
1 ATATACCTATCATTCATTTGC
15074546 ATAT
1 ATAT
15074550 GCATAACATA
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
19 8 0.26
20 10 0.32
21 13 0.42
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (21 bp):
ATATACCTATCATTCATTTGC
Found at i:15084189 original size:11 final size:10
Alignment explanation
Indices: 15084158--15084196 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
15084148 TTCTTGAACC
15084158 AAAAAAAGAAT
1 AAAAAAA-AAT
*
15084169 ATAAAAAAAT
1 AAAAAAAAAT
15084179 AAAAAATAAAT
1 AAAAAA-AAAT
15084190 AAAAAAA
1 AAAAAAA
15084197 GTTTTAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:15084191 original size:19 final size:20
Alignment explanation
Indices: 15084159--15084196 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15084149 TCTTGAACCA
15084159 AAAAAAGAATATAAAAAAAT
1 AAAAAAGAATATAAAAAAAT
*
15084179 AAAAAATAA-ATAAAAAAA
1 AAAAAAGAATATAAAAAAA
15084197 GTTTTAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAAAGAATATAAAAAAAT
Found at i:15084254 original size:47 final size:45
Alignment explanation
Indices: 15084190--15084423 Score: 190
Period size: 47 Copynumber: 5.1 Consensus size: 45
15084180 AAAAATAAAT
**
15084190 AAAAAAAGTTTTAGTTGAAAACTCGACAGGGCGGCTTGAACCTAAA
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACC-AAA
* * * * *
15084236 AAAAAAAGGTTTAAGTTGAAAAC-CTAAAAGGGCAGCTT-AGACCCAA
1 AAAAAAA-GTTCAAGTTGAAAACTC-GACAGGGCGGCTTGA-ACCAAA
* *
15084282 AAAAAAAGTTCAAGTTGAAAACTTGACAGGGCAGCTTGAACCTAAAA
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACC--AAA
* * * * * *
15084329 AAAAAAAGCGCTCAAGTTGAAAACCCAACAGGGTGGCTTGGACC-CA
1 AAAAAAA--GTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACCAAA
* * * *
15084375 AAGAAAAGTTCAAGTTGAAAA-TCGAAATGGTGGCTTGAA-CAAA
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACCAAA
15084418 AAAAAA
1 AAAAAA
15084424 GTTTAAAAAG
Statistics
Matches: 151, Mismatches: 27, Indels: 23
0.75 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 19 0.13
44 13 0.09
45 28 0.19
46 26 0.17
47 36 0.24
49 28 0.19
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (45 bp):
AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACCAAA
Found at i:15084284 original size:45 final size:44
Alignment explanation
Indices: 15084235--15084395 Score: 153
Period size: 45 Copynumber: 3.5 Consensus size: 44
15084225 TTGAACCTAA
* *
15084235 AAAAAAAAGGTTTAAGTTGAAAACCTAAAAGGGCAGCTTAGACCC
1 AAAAAAAAGGTTCAAGTTGAAAACCTAACAGGGCAGCTT-GACCC
* * * *
15084280 AAAAAAAAAGTTCAAGTTGAAAACTTGACAGGGCAGCTTGAACCTAAA
1 AAAAAAAAGGTTCAAGTTGAAAACCTAACAGGGCAGCTTG-ACC---C
* * **
15084328 AAAAAAAAGCGCTCAAGTTGAAAACCCAACAGGGTGGCTTGGACCC
1 AAAAAAAAG-GTTCAAGTTGAAAACCTAACAGGGCAGCTT-GACCC
*
15084374 AAAGAAAA-GTTCAAGTTGAAAA
1 AAAAAAAAGGTTCAAGTTGAAAA
15084396 TCGAAATGGT
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
44 14 0.15
45 37 0.39
46 7 0.07
48 8 0.09
49 27 0.29
50 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (44 bp):
AAAAAAAAGGTTCAAGTTGAAAACCTAACAGGGCAGCTTGACCC
Found at i:15084325 original size:92 final size:93
Alignment explanation
Indices: 15084190--15084399 Score: 282
Period size: 92 Copynumber: 2.3 Consensus size: 93
15084180 AAAAATAAAT
** * * *
15084190 AAAAAAAGTTTTAGTTGAAAACTCGACAGGGCGGCTTGAACCT-AAAAAAAAAAG-GTTTAAGTT
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCAGCTTGAACCTAAAAAAAAAAAGCGCTCAAGTT
*
15084253 GAAAACCTAAAAGGGCAGCTTAGACCCAA
66 GAAAACCCAAAAGGGCAGCTTAGACCC-A
*
15084282 AAAAAAAGTTCAAGTTGAAAACTTGACAGGGCAGCTTGAACCTAAAAAAAAAAAGCGCTCAAGTT
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCAGCTTGAACCTAAAAAAAAAAAGCGCTCAAGTT
* ** *
15084347 GAAAACCCAACAGGGTGGCTTGGACCCA
66 GAAAACCCAAAAGGGCAGCTTAGACCCA
*
15084375 AAGAAAAGTTCAAGTTGAAAA-TCGA
1 AAAAAAAGTTCAAGTTGAAAACTCGA
15084400 AATGGTGGCT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
92 42 0.41
93 32 0.31
94 29 0.28
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (93 bp):
AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCAGCTTGAACCTAAAAAAAAAAAGCGCTCAAGTT
GAAAACCCAAAAGGGCAGCTTAGACCCA
Found at i:15084421 original size:92 final size:92
Alignment explanation
Indices: 15084190--15084423 Score: 274
Period size: 92 Copynumber: 2.5 Consensus size: 92
15084180 AAAAATAAAT
** ** * *
15084190 AAAAAAAGTTTTAGTTGAAAACTCGACAGGGCGGCTTGAACCTAAAAAAAAAAGGTTTAAGTTGA
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACAAAAAAAAAAAAGGCTCAAGTTGA
*
15084255 AAACCTAAAAGGGCAGCTTAGACCCAA
66 AAACCCAAAAGGGCAGCTTAGACCCAA
* * *
15084282 AAAAAAAGTTCAAGTTGAAAACTTGACAGGGCAGCTTGAACCTAAAAAAAAAAAGCGCTCAAGTT
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAA-CAAAAAAAAAAAAG-GCTCAAGTT
* ** *
15084347 GAAAACCCAACAGGGTGGCTTGGACCC-A
64 GAAAACCCAAAAGGGCAGCTTAGACCCAA
* * * *
15084375 AAGAAAAGTTCAAGTTGAAAA-TCGAAATGGTGGCTTGAACAAAAAAAAA
1 AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACAAAAAAAAA
15084424 GTTTAAAAAG
Statistics
Matches: 120, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
91 9 0.08
92 49 0.41
93 33 0.28
94 29 0.24
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (92 bp):
AAAAAAAGTTCAAGTTGAAAACTCGACAGGGCGGCTTGAACAAAAAAAAAAAAGGCTCAAGTTGA
AAACCCAAAAGGGCAGCTTAGACCCAA
Found at i:15085548 original size:114 final size:113
Alignment explanation
Indices: 15085118--15085553 Score: 408
Period size: 114 Copynumber: 3.8 Consensus size: 113
15085108 ATTGTCCCAA
* * * * *
15085118 TCATTCATTTATGACCTTGACTCAATCTTGATCACTTTCAGACTCGCGGTATCATCCTAGTCATT
1 TCATTCATTTATGACCTTGACTCAAT-TTGGTCACTTTCAGACTCGCAGCATCGTCCTAATCATT
* * * * * *
15085183 CAATCTCAACTCAAGTCAGATTATTTTCAAGCTCGTGGCATCGTTCTAG
65 CAATCTCAGCTCAAGTCAGATCATTCTCAGGCTCGTGACATCGTCCTAG
* * * * * *
15085232 TCATTCATATATGACCTTGACTCGATTTTGGTCACTTTCAAACTCACAGCATTGT-CTCAATTAT
1 TCATTCATTTATGACCTTGACTC-AATTTGGTCACTTTCAGACTCGCAGCATCGTCCT-AATCAT
* * * * * *
15085296 TTAATCT-TGACTCAAGTTAGATCATTCTTAGGCTTGTGACATCATCCTAG
64 TCAATCTCAG-CTCAAGTCAGATCATTCTCAGGCTCGTGACATCGTCCTAG
* * * * * *
15085346 TTATTCATTTATGACCTTAACTCAATTTGGTCATTTTTCAGACTCGTAGCATTGTCCAAATCATT
1 TCATTCATTTATGACCTTGACTCAATTTGGTCA-CTTTCAGACTCGCAGCATCGTCCTAATCATT
** * * * **
15085411 CAATCTTGGCTTAGGTCAGATCATTCTCAGGCCCACGACATCGTCCTAG
65 CAATCTCAGCTCAAGTCAGATCATTCTCAGGCTCGTGACATCGTCCTAG
* * * *
15085460 TCATTCATTTATGACCTTGACTCGATGTTGGTCACTTTCAGACTTGCAACATCGTCCTAGTCATT
1 TCATTCATTTATGACCTTGACTCAAT-TTGGTCACTTTCAGACTCGCAGCATCGTCCTAATCATT
** * *
15085525 TGATCTCAGCTCATGTCAAATCATTCTCA
65 CAATCTCAGCTCAAGTCAGATCATTCTCA
15085554 AACTTACGTC
Statistics
Matches: 254, Mismatches: 61, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
113 11 0.04
114 232 0.91
115 11 0.04
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (113 bp):
TCATTCATTTATGACCTTGACTCAATTTGGTCACTTTCAGACTCGCAGCATCGTCCTAATCATTC
AATCTCAGCTCAAGTCAGATCATTCTCAGGCTCGTGACATCGTCCTAG
Found at i:15085899 original size:3 final size:3
Alignment explanation
Indices: 15085893--15085918 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15085883 CAGATTATTA
15085893 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
15085919 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:15085925 original size:3 final size:3
Alignment explanation
Indices: 15085919--15085944 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15085909 TGTTGTTGTT
15085919 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
15085945 TACATTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15086780 original size:18 final size:19
Alignment explanation
Indices: 15086744--15086784 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15086734 AGGTTTTCTT
*
15086744 TTTTTTCATTTTATTTTTA
1 TTTTTTCATTTTATGTTTA
*
15086763 TTTTTTGATTTTA-GTTTA
1 TTTTTTCATTTTATGTTTA
15086781 TTTT
1 TTTT
15086785 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTTCATTTTATGTTTA
Found at i:15086828 original size:5 final size:5
Alignment explanation
Indices: 15086737--15086794 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
15086727 CAATCGTAGG
* * *
15086737 TTTTC TTTT- TTTTCA TTTTA TTTT- TATTT- TTTGA TTTTA GTTTA TTTTA
1 TTTTA TTTTA TTTT-A TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
15086786 TTTTA TTTT
1 TTTTA TTTT
15086795 TAACTCATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 7 0.16
5 34 0.76
6 4 0.09
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:15086894 original size:21 final size:21
Alignment explanation
Indices: 15086848--15086916 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 21
15086838 TATTTCTGCT
*
15086848 ATTTTATTTTT-GAAAATAAATGA
1 ATTTT-TTTTTAGAAAA-AAA-AA
15086871 ATTTTTTTTTAGAAAAAAAAA
1 ATTTTTTTTTAGAAAAAAAAA
** * *
15086892 A-TTGATTCTATAAAAAAAAA
1 ATTTTTTTTTAGAAAAAAAAA
15086912 ATTTT
1 ATTTT
15086917 CAAATAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.42
21 4 0.11
22 8 0.21
23 10 0.26
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTTTTTTTTAGAAAAAAAAA
Found at i:15086923 original size:19 final size:19
Alignment explanation
Indices: 15086883--15086926 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15086873 TTTTTTTTAG
*
15086883 AAAAAAAAAATTGATTCTAT
1 AAAAAAAAAATT-ATTCAAT
15086903 AAAAAAAAAATT-TTCAAAT
1 AAAAAAAAAATTATTC-AAT
15086922 AAAAA
1 AAAAA
15086927 TCCTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 7 0.32
20 12 0.55
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAAAAAATTATTCAAT
Found at i:15090302 original size:18 final size:18
Alignment explanation
Indices: 15090269--15090303 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15090259 ATTCGATAAA
**
15090269 AAAATTATATTGACAAAG
1 AAAATTATATCAACAAAG
15090287 AAAATTATATCAACAAA
1 AAAATTATATCAACAAA
15090304 TCCTTCTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAATTATATCAACAAAG
Found at i:15097177 original size:14 final size:14
Alignment explanation
Indices: 15097158--15097185 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15097148 CATTTTATAT
15097158 CTTGAAACCCTAAA
1 CTTGAAACCCTAAA
15097172 CTTGAAACCCTAAA
1 CTTGAAACCCTAAA
15097186 TCTCTCATCA
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:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
CTTGAAACCCTAAA
Found at i:15097230 original size:13 final size:13
Alignment explanation
Indices: 15097208--15097263 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
15097198 CCCCAAATCC
15097208 AAACCATAAACCCT
1 AAACC-TAAACCCT
*
15097222 AATCCTAAA-CCT
1 AAACCTAAACCCT
15097234 AAACCTAAAACCCT
1 AAACCT-AAACCCT
*
15097248 AACCCTAAACCCT
1 AAACCTAAACCCT
15097261 AAA
1 AAA
15097264 ATGTTAAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.22
13 16 0.44
14 12 0.33
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:15097248 original size:20 final size:21
Alignment explanation
Indices: 15097208--15097264 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
15097198 CCCCAAATCC
*
15097208 AAACCATAAACCCT--AATCCT
1 AAACC-TAAACCCTAAAACCCT
15097228 AAACCTAAA-CCTAAAACCCT
1 AAACCTAAACCCTAAAACCCT
*
15097248 AACCCTAAACCCTAAAA
1 AAACCTAAACCCTAAAA
15097265 TGTTAAAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 18 0.56
21 7 0.22
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (21 bp):
AAACCTAAACCCTAAAACCCT
Found at i:15101636 original size:19 final size:21
Alignment explanation
Indices: 15101600--15101655 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
15101590 ATCAAAATTA
15101600 ATAAAATATTAAAATTTT-AAT
1 ATAAAATATT-AAATTTTAAAT
*
15101621 ATAAAATATT-ATTTTTGAAAT
1 ATAAAATATTAAATTTT-AAAT
*
15101642 AT-AAATATAAAATT
1 ATAAAATATTAAATT
15101656 AAATAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 18 0.62
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAAAATATTAAATTTTAAAT
Found at i:15115830 original size:293 final size:293
Alignment explanation
Indices: 15115297--15115884 Score: 1140
Period size: 293 Copynumber: 2.0 Consensus size: 293
15115287 CAGTGGAATG
*
15115297 CTCTCCCCTACAAAAATCATAGCTAGAAAAGGGACTAATTAAATGGATTAGGTTGGGTTTTAGGC
1 CTCTCCCCTACAAAAATCATAGCTAGAAAAGGGACTAATAAAATGGATTAGGTTGGGTTTTAGGC
15115362 TAAATCCTATGGCTTCTACATTCTTGGTTAAATTTTCAATTTGAGTAGTCAAGGTTGTGATGGCA
66 TAAATCCTATGGCTTCTACATTCTTGGTTAAATTTTCAATTTGAGTAGTCAAGGTTGTGATGGCA
15115427 TCAAGCTCATATATGCCTATAGCTTTTTTAGGATTTTGCTTTTCATTAGCCTACAAGTAATGGTT
131 TCAAGCTCATATATGCCTATAGCTTTTTTAGGATTTTGCTTTTCATTAGCCTACAAGTAATGGTT
*
15115492 GGAAGGCATATCTTTGATGAGGTTGTAGGTTTCATCCATAGATTTGCTCATAAGTGCACCTTCAG
196 GGAAGCCATATCTTTGATGAGGTTGTAGGTTTCATCCATAGATTTGCTCATAAGTGCACCTTCAG
15115557 CAATAGTGTCAATGATAGATAGAGTGTTTTCCA
261 CAATAGTGTCAATGATAGATAGAGTGTTTTCCA
*
15115590 CTCTCTCCTACAAAAATCATAGCTAGAAAAGGGACTAATAAAATGGATTAGGTTGGGTTTTAGGC
1 CTCTCCCCTACAAAAATCATAGCTAGAAAAGGGACTAATAAAATGGATTAGGTTGGGTTTTAGGC
15115655 TAAATCCTATGGCTTCTACATTCTTGGTTAAATTTTCAATTTGAGTAGTCAAGGTTGTGATGGCA
66 TAAATCCTATGGCTTCTACATTCTTGGTTAAATTTTCAATTTGAGTAGTCAAGGTTGTGATGGCA
*
15115720 TCAAGCTCATATATGCCTATAGCTTTTTTAGGATTTTGCTTTTCATTAGCCTACAAGTAGTGGTT
131 TCAAGCTCATATATGCCTATAGCTTTTTTAGGATTTTGCTTTTCATTAGCCTACAAGTAATGGTT
15115785 GGAAGCCATATCTTTGATGAGGTTGTAGGTTTCATCCATAGATTTGCTCATAAGTGCACCTTCAG
196 GGAAGCCATATCTTTGATGAGGTTGTAGGTTTCATCCATAGATTTGCTCATAAGTGCACCTTCAG
15115850 CAATAGTGTCAATGATAGATAGAGTGTTTTCCA
261 CAATAGTGTCAATGATAGATAGAGTGTTTTCCA
15115883 CT
1 CT
15115885 AGTCCATTAT
Statistics
Matches: 291, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
293 291 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (293 bp):
CTCTCCCCTACAAAAATCATAGCTAGAAAAGGGACTAATAAAATGGATTAGGTTGGGTTTTAGGC
TAAATCCTATGGCTTCTACATTCTTGGTTAAATTTTCAATTTGAGTAGTCAAGGTTGTGATGGCA
TCAAGCTCATATATGCCTATAGCTTTTTTAGGATTTTGCTTTTCATTAGCCTACAAGTAATGGTT
GGAAGCCATATCTTTGATGAGGTTGTAGGTTTCATCCATAGATTTGCTCATAAGTGCACCTTCAG
CAATAGTGTCAATGATAGATAGAGTGTTTTCCA
Found at i:15116505 original size:18 final size:17
Alignment explanation
Indices: 15116477--15116521 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
15116467 AAGCCAAAAT
*
15116477 ATTTTAATTTGATTTTA
1 ATTTGAATTTGATTTTA
*
15116494 ACTTTGAATTTGGTTTTA
1 A-TTTGAATTTGATTTTA
*
15116512 ATTTTAATTT
1 ATTTGAATTT
15116522 TAATTCCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (17 bp):
ATTTGAATTTGATTTTA
Found at i:15116685 original size:18 final size:18
Alignment explanation
Indices: 15116639--15116752 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
15116629 TTTTAATTTG
* * *
15116639 ATTTTAACTTTGAATTTG
1 ATTTTAATTTTGATTTTA
* *
15116657 GTTTTAATTTTAATTTTA
1 ATTTTAATTTTGATTTTA
15116675 ATTTTAATTTTTGATTTTTA
1 ATTTTAA-TTTTGA-TTTTA
* * *
15116695 ATTTTGATTTTGATTATG
1 ATTTTAATTTTGATTTTA
* *
15116713 ATTTTAATTTTGGTCTT-
1 ATTTTAATTTTGATTTTA
*
15116730 ATTTTAATTTTG-GTTTA
1 ATTTTAATTTTGATTTTA
15116747 ATTTTA
1 ATTTTA
15116753 TTGGTCAAAG
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
16 2 0.03
17 18 0.23
18 35 0.45
19 11 0.14
20 11 0.14
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTGATTTTA
Found at i:15116735 original size:17 final size:17
Alignment explanation
Indices: 15116671--15116752 Score: 76
Period size: 17 Copynumber: 4.6 Consensus size: 17
15116661 TAATTTTAAT
*
15116671 TTTAATTTTAATTTTTGATT
1 TTTAATTTTAA-TTTTG--G
* *
15116691 TTTAATTTTGATTTTGA
1 TTTAATTTTAATTTTGG
*
15116708 TTATGATTTTAATTTTGG
1 TT-TAATTTTAATTTTGG
15116726 TCTT-ATTTTAATTTTGG
1 T-TTAATTTTAATTTTGG
15116743 TTTAATTTTA
1 TTTAATTTTA
15116753 TTGGTCAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
16 2 0.04
17 22 0.41
18 14 0.26
19 6 0.11
20 10 0.19
ACGTcount: A:0.23, C:0.01, G:0.10, T:0.66
Consensus pattern (17 bp):
TTTAATTTTAATTTTGG
Found at i:15116740 original size:6 final size:6
Alignment explanation
Indices: 15116627--15116723 Score: 72
Period size: 6 Copynumber: 16.0 Consensus size: 6
15116617 AAAGCCCAAA
* * **
15116627 AATTTT AA-TTT GATTTT AACTTTG AA-TTT GGTTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AA-TTTT AATTTT AATTTT AATTTT AATTTT
* * * * *
15116674 AATTTT AATTTTT GATTTTT AATTTT GATTTT GATTAT GATTTT AATTTT
1 AATTTT AA-TTTT -AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
15116724 GGTCTTATTT
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
5 6 0.08
6 52 0.72
7 13 0.18
8 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.08, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:15116788 original size:13 final size:13
Alignment explanation
Indices: 15116772--15116796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15116762 GTAAAATAAA
15116772 AAATAAAAAAACC
1 AAATAAAAAAACC
15116785 AAATAAAAAAAC
1 AAATAAAAAAAC
15116797 ATGAGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
AAATAAAAAAACC
Found at i:15118105 original size:4 final size:4
Alignment explanation
Indices: 15118096--15118126 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
15118086 TTTGCTTGAT
*
15118096 TTTA TTTA TTTA CTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
15118127 TTGCAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:15118216 original size:18 final size:18
Alignment explanation
Indices: 15118195--15118259 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
15118185 ATGATAATTT
15118195 ATATTAATAGCATTATTA
1 ATATTAATAGCATTATTA
* *
15118213 ATATTATATTTGCATTATGATTT
1 ATATTA-A-TAGCA-T-T-ATTA
*
15118236 ATATTAATAGCATGATTA
1 ATATTAATAGCATTATTA
15118254 ATATTA
1 ATATTA
15118260 TATTTGCATG
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 15 0.41
19 1 0.03
20 5 0.14
21 5 0.14
22 2 0.05
23 9 0.24
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (18 bp):
ATATTAATAGCATTATTA
Found at i:15118369 original size:120 final size:119
Alignment explanation
Indices: 15118217--15118507 Score: 308
Period size: 120 Copynumber: 2.4 Consensus size: 119
15118207 TTATTAATAT
* * * * * *
15118217 TATATTTGCATTATGATTTATATTAATAGCATGATTAATATTATATTTGCATGATAATTTATA-T
1 TATAATTGCATGATTATTAATATTAATTGCATGATTAATATTATATTTGCATGATAATTAATATT
** * *
15118281 GCTTGCATGATAATTTATATACTTACATGATTATTTACATACTT-CTTGATTATTTA
66 AATTGCATGAT-ATTTAT-TACTTACATGATTATTTA-ATAATTACATGATTATTTA
* *
15118337 TATACTTGCATGATTATTAATATTAATTGCATGATTGTTAATATTA-A-TTGCATGATTATTAAT
1 TATAATTGCATGATTATTAATATTAATTGCATGA---TTAATATTATATTTGCATGATAATTAAT
* * *
15118400 ATTAATTGCATGATATTTATTACTTGCATGATTATTTATTAATTACATGATTGTTTA
63 ATTAATTGCATGATATTTATTACTTACATGATTATTTAATAATTACATGATTATTTA
* * *
15118457 T-TAATTGCATGATTATTGATA-TATTTGCATGATTATTAATT-TATTTGCATG
1 TATAATTGCATGATTATTAATATTAATTGCATGATTAAT-ATTATATTTGCATG
15118508 TTATTTGCAT
Statistics
Matches: 145, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
115 4 0.03
116 4 0.03
117 7 0.05
118 10 0.07
119 22 0.15
120 57 0.39
121 21 0.14
122 11 0.08
123 9 0.06
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (119 bp):
TATAATTGCATGATTATTAATATTAATTGCATGATTAATATTATATTTGCATGATAATTAATATT
AATTGCATGATATTTATTACTTACATGATTATTTAATAATTACATGATTATTTA
Found at i:15118432 original size:39 final size:40
Alignment explanation
Indices: 15118172--15118513 Score: 290
Period size: 41 Copynumber: 8.6 Consensus size: 40
15118162 TATTGGTGTA
* * *
15118172 ATTTATTATTTGCATGATAATTTATATTAATAGCATTATT
1 ATTTATTATTTGCATGATTATTTATATTAATTGCATGATT
* * *
15118212 AATATTA-TATTTGCATTATGATTTATATTAATAGCATGATT
1 -AT-TTATTATTTGCATGATTATTTATATTAATTGCATGATT
* ** *
15118253 AATATTA-TATTTGCATGATAATTTATA-TGCTTGCATGATA
1 -AT-TTATTATTTGCATGATTATTTATATTAATTGCATGATT
* * * * *
15118293 ATTTATATACTTACATGATTATTTACA-TACTT-CTTGATT
1 ATTTAT-TATTTGCATGATTATTTATATTAATTGCATGATT
* *
15118332 ATTTATATACTTGCATGATTATTAATATTAATTGCATGATT
1 ATTTAT-TATTTGCATGATTATTTATATTAATTGCATGATT
* * *
15118373 GTTAATATTAATTGCATGATTATTAATATTAATTGCATGA-T
1 ATT--TATTATTTGCATGATTATTTATATTAATTGCATGATT
* *
15118414 ATTTATTACTTGCATGATTA-TT-TATTAATTACATGATT
1 ATTTATTATTTGCATGATTATTTATATTAATTGCATGATT
* * * *
15118452 GTTTATTAATTGCATGATTATTGATA-TATTTGCATGATT
1 ATTTATTATTTGCATGATTATTTATATTAATTGCATGATT
*
15118491 ATTAATTTATTTGCATG-TTATTT
1 ATTTA-TTATTTGCATGATTATTT
15118514 GCATGATTTT
Statistics
Matches: 254, Mismatches: 36, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
37 13 0.05
38 23 0.09
39 67 0.26
40 45 0.18
41 69 0.27
42 34 0.13
43 3 0.01
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (40 bp):
ATTTATTATTTGCATGATTATTTATATTAATTGCATGATT
Found at i:15118474 original size:11 final size:12
Alignment explanation
Indices: 15118456--15118521 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 12
15118446 ATGATTGTTT
*
15118456 ATTAATTGCATG
1 ATTATTTGCATG
15118468 ATTA-TTG-AT-
1 ATTATTTGCATG
15118477 A-TATTTGCATG
1 ATTATTTGCATG
*
15118488 ATTA-TT-AAT-
1 ATTATTTGCATG
15118497 -TTATTTGCATG
1 ATTATTTGCATG
15118508 -TTATTTGCATG
1 ATTATTTGCATG
15118519 ATT
1 ATT
15118522 TTTATTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
8 5 0.11
9 6 0.14
10 8 0.18
11 17 0.39
12 8 0.18
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (12 bp):
ATTATTTGCATG
Found at i:15118490 original size:20 final size:20
Alignment explanation
Indices: 15118172--15118513 Score: 265
Period size: 20 Copynumber: 17.2 Consensus size: 20
15118162 TATTGGTGTA
* *
15118172 ATTTAT-TATTTGCATGATA
1 ATTTATATAATTGCATGATT
* *
15118191 ATTTATATTAATAGCATTATT
1 ATTTATA-TAATTGCATGATT
* *
15118212 AATATTATAT--TTGCATTATG
1 -AT-TTATATAATTGCATGATT
*
15118232 ATTTATATTAATAGCATGATT
1 ATTTATA-TAATTGCATGATT
*
15118253 AATATTATAT--TTGCATGATA
1 -AT-TTATATAATTGCATGATT
** *
15118273 ATTTATATGCTTGCATGATA
1 ATTTATATAATTGCATGATT
* *
15118293 ATTTATATACTTACATGATT
1 ATTTATATAATTGCATGATT
* * *
15118313 ATTTACATACTT-CTTGATT
1 ATTTATATAATTGCATGATT
*
15118332 ATTTATATACTTGCATGATT
1 ATTTATATAATTGCATGATT
*
15118352 ATTAATATTAATTGCATGATT
1 ATTTATA-TAATTGCATGATT
* *
15118373 GTTAATATTAATTGCATGATT
1 ATTTATA-TAATTGCATGATT
*
15118394 ATTAATATTAATTGCATGA-T
1 ATTTATA-TAATTGCATGATT
*
15118414 ATTTAT-TACTTGCATGATT
1 ATTTATATAATTGCATGATT
*
15118433 ATTTAT-TAATTACATGATT
1 ATTTATATAATTGCATGATT
*
15118452 GTTTAT-TAATTGCATGATT
1 ATTTATATAATTGCATGATT
* *
15118471 ATTGATATATTTGCATGATT
1 ATTTATATAATTGCATGATT
* * *
15118491 ATTAATTTATTTGCATG-TT
1 ATTTATATAATTGCATGATT
15118510 ATTT
1 ATTT
15118514 GCATGATTTT
Statistics
Matches: 274, Mismatches: 34, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
18 21 0.08
19 72 0.26
20 99 0.36
21 66 0.24
22 6 0.02
23 10 0.04
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
ATTTATATAATTGCATGATT
Done.