Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 125 of 230
Found at i:36364049 original size:15 final size:15
Alignment explanation
Indices: 36364031--36364072 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
36364021 AAAAAAAGTG
*
36364031 AAAAAAAAATCGAGC
1 AAAAAAAAATCGACC
36364046 AAAAAAAAAGGT-GACC
1 AAAAAAAAA--TCGACC
36364062 AAAAAAAAATC
1 AAAAAAAAATC
36364073 AAGTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.04
15 9 0.39
16 12 0.52
17 1 0.04
ACGTcount: A:0.69, C:0.12, G:0.12, T:0.07
Consensus pattern (15 bp):
AAAAAAAAATCGACC
Found at i:36365149 original size:17 final size:18
Alignment explanation
Indices: 36365117--36365150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36365107 AAAAGAGAGT
*
36365117 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
36365135 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
36365151 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:36366439 original size:20 final size:20
Alignment explanation
Indices: 36366416--36366469 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
36366406 AGTTTTTCCC
*
36366416 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
36366436 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
36366456 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
36366470 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:36366451 original size:30 final size:30
Alignment explanation
Indices: 36366416--36366489 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
36366406 AGTTTTTCCC
36366416 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
36366446 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
36366476 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
36366490 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:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:36366479 original size:20 final size:20
Alignment explanation
Indices: 36366416--36366480 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
36366406 AGTTTTTCCC
* * * *
36366416 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
36366436 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
36366455 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
36366476 AGCTC
1 AGCTC
36366481 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:36379449 original size:12 final size:12
Alignment explanation
Indices: 36379432--36379456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36379422 TTTCACTCTT
36379432 CTCTTTTTCAAA
1 CTCTTTTTCAAA
36379444 CTCTTTTTCAAA
1 CTCTTTTTCAAA
36379456 C
1 C
36379457 CCTCTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:36380484 original size:12 final size:12
Alignment explanation
Indices: 36380454--36380527 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 12
36380444 TTTTCTTTTC
36380454 TTTTTTTTGCTCAA
1 TTTTTTTT--TCAA
36380468 TTTTTTTTTTC-A
1 -TTTTTTTTTCAA
* *
36380480 CTTTTTTTTGAA
1 TTTTTTTTTCAA
36380492 TTTTTTTTTCAATCAA
1 -TTTTTTTT---TCAA
36380508 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
36380521 TTTTTTT
1 TTTTTTT
36380528 GATTTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
11 8 0.16
12 4 0.08
13 18 0.37
15 16 0.33
16 3 0.06
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:36380484 original size:13 final size:14
Alignment explanation
Indices: 36380424--36380489 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 14
36380414 TTTAACTTGA
36380424 TTTTTTTTGCTCACC
1 TTTTTTTTGCTCA-C
* **
36380439 TTTTTTTTTCTTTTC
1 TTTTTTTTGC-TCAC
*
36380454 TTTTTTTTGCTCAA
1 TTTTTTTTGCTCAC
*
36380468 TTTTTTTT-TTCAC
1 TTTTTTTTGCTCAC
36380481 TTTTTTTTG
1 TTTTTTTTG
36380490 AATTTTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
13 11 0.28
14 9 0.22
15 19 0.47
16 1 0.03
ACGTcount: A:0.06, C:0.15, G:0.05, T:0.74
Consensus pattern (14 bp):
TTTTTTTTGCTCAC
Found at i:36380488 original size:30 final size:30
Alignment explanation
Indices: 36380406--36380488 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
36380396 AAGACTTTTC
* *
36380406 ACTTTTTTTTTAACTTGATTTTTTTTGCTCA
1 ACTTTTTTTTTCACTT-TTTTTTTTTGCTCA
* *
36380437 CCTTTTTTTTTC-TTTTCTTTTTTTTGCTCA
1 ACTTTTTTTTTCACTTT-TTTTTTTTGCTCA
*
36380467 ATTTTTTTTTTCACTTTTTTTT
1 ACTTTTTTTTTCACTTTTTTTT
36380489 GAATTTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
30 30 0.70
31 13 0.30
ACGTcount: A:0.10, C:0.14, G:0.04, T:0.72
Consensus pattern (30 bp):
ACTTTTTTTTTCACTTTTTTTTTTTGCTCA
Found at i:36380497 original size:39 final size:37
Alignment explanation
Indices: 36380454--36380537 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
36380444 TTTTCTTTTC
* *
36380454 TTTTTTTTGC-TCAATTTTTTTTTTC-ACTTTTTTTTGAA
1 TTTTTTTTTCATCAA-TTTTTTTTTCGA-ATTTTTTTG-A
36380492 TTTTTTTTTCAATCAATTTTTTTTTCGAATTTTTTTGA
1 TTTTTTTTTC-ATCAATTTTTTTTTCGAATTTTTTTGA
36380530 TTTTTTTT
1 TTTTTTTT
36380538 GTTACTCCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 18 0.44
39 18 0.44
40 5 0.12
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (37 bp):
TTTTTTTTTCATCAATTTTTTTTTCGAATTTTTTTGA
Found at i:36381778 original size:12 final size:12
Alignment explanation
Indices: 36381761--36381796 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
36381751 AAAGGAGAAG
36381761 AAATTCAGAAAA
1 AAATTCAGAAAA
36381773 AAATTCA-AAAA
1 AAATTCAGAAAA
36381784 AAA-TC-GAAAA
1 AAATTCAGAAAA
36381794 AAA
1 AAA
36381797 AGGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.39
11 7 0.30
12 7 0.30
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (12 bp):
AAATTCAGAAAA
Found at i:36381784 original size:10 final size:11
Alignment explanation
Indices: 36381768--36381823 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
36381758 AAGAAATTCA
*
36381768 GAAAAAAATTC
1 GAAAAAAAATC
36381779 -AAAAAAAATC
1 GAAAAAAAATC
*
36381789 GAAAAAAAA-G
1 GAAAAAAAATC
36381799 GAAAAAAAAGT-
1 GAAAAAAAA-TC
36381810 GACAAAAAAATC
1 GA-AAAAAAATC
36381822 GA
1 GA
36381824 GTTAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 18 0.47
11 11 0.29
12 9 0.24
ACGTcount: A:0.71, C:0.07, G:0.12, T:0.09
Consensus pattern (11 bp):
GAAAAAAAATC
Found at i:36382687 original size:9 final size:10
Alignment explanation
Indices: 36382680--36382742 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
36382670 AAGAGAAAAC
36382680 AAAGAAAAGA
1 AAAGAAAAGA
36382690 AAAGAAAAAGAA
1 AAAG-AAAAG-A
36382702 AAAGCAAAAGA
1 AAAG-AAAAGA
*
36382713 AGA-AAAAGA
1 AAAGAAAAGA
36382722 AAATGAAATA-A
1 AAA-GAAA-AGA
36382733 AAAGAAAAGA
1 AAAGAAAAGA
36382743 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 15 0.34
12 11 0.25
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:36382690 original size:5 final size:5
Alignment explanation
Indices: 36382680--36382742 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
36382670 AAGAGAAAAC
*
36382680 AAAGA AAAGA AAAGAA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA
36382728 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
36382743 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 25 0.50
6 20 0.40
7 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:36382710 original size:12 final size:11
Alignment explanation
Indices: 36382680--36382740 Score: 58
Period size: 12 Copynumber: 5.7 Consensus size: 11
36382670 AAGAGAAAAC
36382680 AAAG-AAAAGA
1 AAAGAAAAAGA
36382690 AAAGAAAAAGAA
1 AAAGAAAAAG-A
*
36382702 AAAGCAAAAG-
1 AAAGAAAAAGA
36382712 -AAGAAAAAGA
1 AAAGAAAAAGA
*
36382722 AAATGAAATA-A
1 AAA-GAAAAAGA
36382733 AAAGAAAA
1 AAAGAAAA
36382741 GAGAGGCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 8 0.19
10 8 0.19
11 11 0.26
12 15 0.36
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:36382717 original size:15 final size:14
Alignment explanation
Indices: 36382689--36382742 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 14
36382679 CAAAGAAAAG
36382689 AAAAG-AAA-AAGA
1 AAAAGAAAAGAAGA
36382701 AAAAGCAAAAGAAGA
1 AAAAG-AAAAGAAGA
*
36382716 AAAAGAAAATGAAATA
1 AAAAGAAAA-G-AAGA
36382732 AAAAGAAAAGA
1 AAAAGAAAAGA
36382743 GAGGCAAGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 5 0.14
14 8 0.22
15 11 0.31
16 12 0.33
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAGAAGA
Found at i:36382740 original size:6 final size:6
Alignment explanation
Indices: 36382680--36382729 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
36382670 AAGAGAAAAC
*
36382680 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAAA AGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG--AA A-AAGAA AAAGAA AAAGAA
36382729 A
1 A
36382730 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:36382742 original size:21 final size:21
Alignment explanation
Indices: 36382680--36382740 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
36382670 AAGAGAAAAC
36382680 AAAGAAAAGAAAAGAAAAAGAA
1 AAAGAAAA-AAAAGAAAAAGAA
* *
36382702 AAAGCAAAAGAAGAAAAAGAA
1 AAAGAAAAAAAAGAAAAAGAA
*
36382723 AATGAAATAAAAAGAAAA
1 AAAGAAA-AAAAAGAAAA
36382741 GAGAGGCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAAAAGAA
Found at i:36382822 original size:11 final size:12
Alignment explanation
Indices: 36382790--36382820 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
36382780 TTAAGAGAAC
36382790 TTGAAAAAGCCT
1 TTGAAAAAGCCT
36382802 TTGAAAAAGCCT
1 TTGAAAAAGCCT
36382814 TTGAAAA
1 TTGAAAA
36382821 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:36385035 original size:30 final size:30
Alignment explanation
Indices: 36385001--36385097 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
36384991 AGCTCACTCC
36385001 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
36385031 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
36385061 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
36385091 TAGCTCA
1 TAGCTCA
36385098 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:36386027 original size:22 final size:20
Alignment explanation
Indices: 36385995--36386043 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
36385985 GCCGAATTTA
36385995 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
36386018 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
36386038 TGAACA
1 TGAACA
36386044 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:36390438 original size:40 final size:40
Alignment explanation
Indices: 36390340--36390720 Score: 538
Period size: 40 Copynumber: 9.6 Consensus size: 40
36390330 TCCTCGTTCA
* * * * *
36390340 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
36390379 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
36390419 AATGCCTTCGGGACTTAACCCGGATTT-ACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
36390458 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
36390498 AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
36390537 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
36390577 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
36390617 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
36390657 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
36390697 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
36390721 CAGCATTCAA
Statistics
Matches: 316, Mismatches: 20, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
39 115 0.36
40 193 0.61
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:36390441 original size:79 final size:80
Alignment explanation
Indices: 36390340--36390720 Score: 538
Period size: 79 Copynumber: 4.8 Consensus size: 80
36390330 TCCTCGTTCA
* * * * * *
36390340 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
*
36390404 TTAACAACTCGCACG
66 TTAATAACTCGCACG
*
36390419 AATGCCTTCGGGACTTAACCCGGATTT-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
36390483 TTAATAACTCGCACG
66 TTAATAACTCGCACG
36390498 AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
36390562 TTAATAACTCGCACG
66 TTAATAACTCGCACG
36390577 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
* * *
36390642 TTAGTATCTCGCACA
66 TTAATAACTCGCACG
* * * * * * * *
36390657 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAATGCCTTCGGGACTTAACCCGG
36390720 A
64 A
36390721 CAGCATTCAA
Statistics
Matches: 277, Mismatches: 20, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
78 8 0.03
79 171 0.62
80 93 0.34
81 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
TTAATAACTCGCACG
Found at i:36398261 original size:40 final size:40
Alignment explanation
Indices: 36398206--36398458 Score: 375
Period size: 40 Copynumber: 6.3 Consensus size: 40
36398196 AGTTAAAGTT
36398206 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
1 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
36398246 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
1 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
36398286 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
1 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
36398326 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
1 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
* * * *
36398366 GACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-G
1 GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
* * * * * *
36398405 GATCTTAATCCGGATATATTCACTTAGCAC-AAAGCCTTCGG
1 GA-CTTAACCCGGATTTAATAAC-TCGCACGAATGCCTTCGG
*
36398446 GACTTAGCCCGGA
1 GACTTAACCCGGA
36398459 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 186 0.94
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
GACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
Found at i:36410006 original size:49 final size:47
Alignment explanation
Indices: 36409892--36410061 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
36409882 TATTTGAATA
36409892 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
36409941 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
36409988 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
36410035 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
36410062 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 99 0.89
49 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:36411534 original size:43 final size:43
Alignment explanation
Indices: 36411486--36411631 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
36411476 TTGGTTTTCA
36411486 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
36411529 GCACTAAGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
36411572 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
36411615 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
36411632 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:36411648 original size:29 final size:29
Alignment explanation
Indices: 36411613--36411686 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36411603 GTTGTGAGAT
* *
36411613 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36411642 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36411671 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36411687 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36412122 original size:40 final size:40
Alignment explanation
Indices: 36411999--36412274 Score: 254
Period size: 40 Copynumber: 6.9 Consensus size: 40
36411989 TCGAATGATG
** *
36411999 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
** ** * * *
36412039 TCCGAACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
36412079 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
36412119 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
36412159 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * ** * * * *
36412199 TCTGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
36412239 TCCGGGCTAGGTCCCGAAGAGCAGTCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
36412275 CGTGTATTCG
Statistics
Matches: 196, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 177 0.90
41 18 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:36412215 original size:120 final size:121
Alignment explanation
Indices: 36411999--36412275 Score: 292
Period size: 120 Copynumber: 2.3 Consensus size: 121
36411989 TCGAATGATG
**
36411999 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGAACTAAGATCCGAAGGCAT
* * ** *
36412062 TGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
65 TCGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
** ** *
36412119 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGAACTAAGATCCGAAG-GCAT
* * * * * * * * *
36412183 TCGTGCTAGTGA-TATATCTGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
65 TCGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
* * *
36412239 TCCGGGCTAGGTCCCGAAGAGCAGTCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
36412276 GTGTATTCGG
Statistics
Matches: 129, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
120 103 0.80
121 20 0.16
122 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGAACTAAGATCCGAAGGCATT
CGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
Found at i:36416660 original size:49 final size:47
Alignment explanation
Indices: 36416546--36416715 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
36416536 TATTTGAATA
36416546 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
36416595 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
36416642 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
36416689 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
36416716 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 99 0.89
49 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:36418208 original size:43 final size:42
Alignment explanation
Indices: 36418136--36418233 Score: 178
Period size: 43 Copynumber: 2.3 Consensus size: 42
36418126 TTGGTTTTCA
*
36418136 GCACTAAGTGTGCGGGCATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCAGGCATAAGTGTTCACGGTTGTGAGATTG
36418178 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCAGGC-ATAAGTGTTCACGGTTGTGAGATTG
36418221 GCACTAAGTGTGC
1 GCACTAAGTGTGC
36418234 GGGCTTGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 16 0.30
43 38 0.70
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (42 bp):
GCACTAAGTGTGCAGGCATAAGTGTTCACGGTTGTGAGATTG
Found at i:36418254 original size:29 final size:29
Alignment explanation
Indices: 36418219--36418292 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36418209 GTTGTGAGAT
* *
36418219 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36418248 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36418277 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36418293 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36418726 original size:40 final size:40
Alignment explanation
Indices: 36418603--36418876 Score: 254
Period size: 40 Copynumber: 6.9 Consensus size: 40
36418593 TCGAATGATG
** *
36418603 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
36418643 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
36418683 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
36418723 TCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
36418762 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
36418802 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
36418842 TCCGGGCTAGGTCCCGAAG-GCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
36418877 CGTGTATTCG
Statistics
Matches: 198, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
39 52 0.26
40 128 0.65
41 18 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:36418781 original size:79 final size:80
Alignment explanation
Indices: 36418682--36418871 Score: 240
Period size: 79 Copynumber: 2.4 Consensus size: 80
36418672 GAGTTACTAA
* **
36418682 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCT-AAGTCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAACCCCGAAGAGCAT
*
36418746 TCATGCTAGTGATGT
66 TCATGCTAGTGATAT
* * * *
36418761 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAACCCCGAAGAGCAT
* * *
36418826 TCGTGCTGGTGTTAT
66 TCATGCTAGTGATAT
* * *
36418841 GTCCGGGCTAGGTCCCGAAG-GCAATCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
36418872 GGTGACGTGT
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 53 0.56
80 41 0.44
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAACCCCGAAGAGCAT
TCATGCTAGTGATAT
Found at i:36418818 original size:119 final size:119
Alignment explanation
Indices: 36418603--36418876 Score: 284
Period size: 119 Copynumber: 2.3 Consensus size: 119
36418593 TCGAATGATG
* ** **
36418603 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCAATCATGCT-AGTGA-TGTATCCGGACTAAGATCCGAAGGCATT
* * ** *
36418667 GGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
64 CGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
* * *
36418723 TCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCAATCATGCTAGTGATGTATCCGGACTAAGATCCGAAG-GCATT
* * * * * * * *
36418787 CGTGCTAGTGA-TATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
64 CGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
* *
36418842 TCCGGGCTAGGTCCCGAAGGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGGCAATCATGCTAGTGA
36418877 CGTGTATTCG
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
119 84 0.66
120 38 0.30
121 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCAATCATGCTAGTGATGTATCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
Found at i:36423268 original size:93 final size:94
Alignment explanation
Indices: 36423142--36423357 Score: 335
Period size: 93 Copynumber: 2.3 Consensus size: 94
36423132 TATTTGAATA
36423142 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
36423207 TAT-TGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGACAAGGCCGAATGGCCAACGTGATG
36423237 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
36423302 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGACAAGGCCGAATGGCCAACGTGATG
* *
36423331 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
36423358 TCCCGAAGGG
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
93 54 0.48
94 46 0.41
95 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:36423279 original size:47 final size:47
Alignment explanation
Indices: 36423142--36423357 Score: 335
Period size: 47 Copynumber: 4.6 Consensus size: 47
36423132 TATTTGAATA
36423142 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
36423191 AATGTGAAAGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
36423237 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
36423284 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
36423331 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
36423358 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 46 0.29
47 98 0.63
49 12 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:36424522 original size:25 final size:25
Alignment explanation
Indices: 36424494--36424562 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
36424484 AAAAATTTTC
36424494 AAATAAACAAAATAAAAAAAACTTA
1 AAATAAACAAAATAAAAAAAACTTA
* *
36424519 AAAT-AACTAACAAT-AAAATAATTTA
1 AAATAAAC-AA-AATAAAAAAAACTTA
* *
36424544 AAATAAATAATATAAAAAA
1 AAATAAACAAAATAAAAAA
36424563 TAACATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.14
25 25 0.71
26 5 0.14
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (25 bp):
AAATAAACAAAATAAAAAAAACTTA
Found at i:36424707 original size:26 final size:26
Alignment explanation
Indices: 36424610--36424709 Score: 105
Period size: 26 Copynumber: 3.8 Consensus size: 26
36424600 AATTTGAAAG
* * *
36424610 ATATATATAATAGTTTACAATAAATA
1 ATATATATAAAAATTTAAAATAAATA
* *
36424636 ATATATAAAAGAAATTT-AAATAAGTA
1 ATATATATAA-AAATTTAAAATAAATA
* *
36424662 ATATGTA-AAACAACTTAAAATAAATA
1 ATATATATAAA-AATTTAAAATAAATA
36424688 ATATATATAAAAATTTAAAATA
1 ATATATATAAAAATTTAAAATA
36424710 GAGGATGATA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.02
25 6 0.10
26 46 0.77
27 7 0.12
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATATATAAAAATTTAAAATAAATA
Found at i:36427718 original size:40 final size:40
Alignment explanation
Indices: 36427672--36427813 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
36427662 TGTTATACTC
* *
36427672 TCTGTCTAGTGTGTTCCGGTTGGATTAGCTCTTATAAGCT
1 TCTGTCTAGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
36427712 TCTGTCTAGCT-TGTTTCAGTTGGATTAGCTTTTATGAGCT
1 TCTGTCTAG-TGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* * *
36427752 TTTGTTTAGCGTGTTTCGGTTGGATTAGCTCTTATGAGCT
1 TCTGTCTAGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
* *
36427792 TCTATCTGGTGTG-TTCGGTTGG
1 TCTGTCTAGTGTGTTTCGGTTGG
36427814 TCTGACGATG
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 9 0.10
40 76 0.88
41 1 0.01
ACGTcount: A:0.13, C:0.15, G:0.27, T:0.46
Consensus pattern (40 bp):
TCTGTCTAGTGTGTTTCGGTTGGATTAGCTCTTATGAGCT
Found at i:36435666 original size:25 final size:26
Alignment explanation
Indices: 36435632--36435680 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
36435622 AGATAAGCAA
* *
36435632 ATTCAATTC-ATTCAACATTCATTCT
1 ATTCAATTCAATCCAAAATTCATTCT
36435657 ATTCAATTCAATCCAAAATTCATT
1 ATTCAATTCAATCCAAAATTCATT
36435681 TTTTGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTCAATTCAATCCAAAATTCATTCT
Found at i:36439103 original size:30 final size:29
Alignment explanation
Indices: 36439050--36439167 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
36439040 CAGTGCTAAA
*** * *
36439050 CGATGGTCGAAACCATTTGTTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATATT
*
36439080 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
36439109 TGATGATCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** *
36439138 CGATGGTTGTCACCATCCCTTTTCTTATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
36439167 C
1 C
36439168 AATGAGCGTC
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 51 0.72
30 20 0.28
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:36440038 original size:24 final size:24
Alignment explanation
Indices: 36439973--36440038 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
36439963 GTTATCTATG
*
36439973 ATGCCTTTGTGGTGTATCTGATAA
1 ATGCCTTTGTGGTGTATTTGATAA
** *
36439997 ATGCCTTTGTGGCATATTTGGTAA
1 ATGCCTTTGTGGTGTATTTGATAA
*
36440021 ATGTCTTTGTGGTGTATT
1 ATGCCTTTGTGGTGTATT
36440039 CTATGTTGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (24 bp):
ATGCCTTTGTGGTGTATTTGATAA
Found at i:36446298 original size:15 final size:15
Alignment explanation
Indices: 36446278--36446307 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36446268 ACATGCGAAA
36446278 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
36446293 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
36446308 TATTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATATAAAAAAT
Found at i:36446359 original size:27 final size:27
Alignment explanation
Indices: 36446290--36446435 Score: 90
Period size: 27 Copynumber: 5.3 Consensus size: 27
36446280 AAATATAAAA
36446290 AATAAAAATATAAAAAATTATTAAATTTC
1 AATAAAAATAT--AAAATTATTAAATTTC
*
36446319 AATAAAAATATAAAATTATTTAAATTTT
1 AATAAAAATATAAAATTA-TTAAATTTC
* * *
36446347 ATTAGAAAT-TAAAATATATATATAA-ATC
1 AATAAAAATATAAAAT-TAT-TA-AATTTC
*
36446375 -ATAAAAATATAAAAAATT-GTAAATTT-
1 AATAAAAATAT--AAAATTATTAAATTTC
* *
36446401 TATAAAAATAATAAAAATTA-TAAATTGC
1 AATAAAAAT-AT-AAAATTATTAAATTTC
36446429 -ATAAAAA
1 AATAAAAA
36446436 AGCTCTTTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
26 2 0.02
27 51 0.54
28 23 0.24
29 14 0.15
30 5 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAAAAATATAAAATTATTAAATTTC
Found at i:36446392 original size:36 final size:37
Alignment explanation
Indices: 36446352--36446424 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
36446342 ATTTTATTAG
* *
36446352 AAATT-AAAATATATATATAAATCATAAAAA-TATAAA
1 AAATTGAAAAT-TATATAAAAATAATAAAAATTATAAA
* *
36446388 AAATTGTAAATTTTATAAAAATAATAAAAATTATAAA
1 AAATTGAAAATTATATAAAAATAATAAAAATTATAAA
36446425 TTGCATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 21 0.68
37 10 0.32
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (37 bp):
AAATTGAAAATTATATAAAAATAATAAAAATTATAAA
Found at i:36446643 original size:19 final size:20
Alignment explanation
Indices: 36446598--36446650 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
36446588 TTAGTACGAT
36446598 AATTTTTATAATTCTTTTAC
1 AATTTTTATAATTCTTTTAC
* *
36446618 AAATTTTATATTTC-TTTAC
1 AATTTTTATAATTCTTTTAC
36446637 AATTTTTTATAATT
1 AA-TTTTTATAATT
36446651 TTCTTACGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTATAATTCTTTTAC
Found at i:36446683 original size:10 final size:10
Alignment explanation
Indices: 36446661--36446724 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
36446651 TTCTTACGAC
*
36446661 TTTATAAAGT
1 TTTATAAATT
36446671 TTTATAAATT
1 TTTATAAATT
* *
36446681 TTTTTATATT
1 TTTATAAATT
*
36446691 TTTATTAAAAT
1 TTTA-TAAATT
*
36446702 TTAAT-AATT
1 TTTATAAATT
*
36446711 TTTAT-TATT
1 TTTATAAATT
36446720 TTTAT
1 TTTAT
36446725 TTATTTGTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
9 15 0.35
10 21 0.49
11 7 0.16
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATAAATT
Found at i:36446725 original size:9 final size:9
Alignment explanation
Indices: 36446681--36446748 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 9
36446671 TTTATAAATT
36446681 TTTTTA-TA
1 TTTTTATTA
36446689 TTTTTATTAAA
1 TTTTTATT--A
* * *
36446700 ATTTAATAA
1 TTTTTATTA
36446709 TTTTTATTA
1 TTTTTATTA
36446718 TTTTTATTTA
1 TTTTTA-TTA
*
36446728 TTTGTATT-
1 TTTTTATTA
36446736 TTTTTA-TA
1 TTTTTATTA
36446744 TTTTT
1 TTTTT
36446749 TTCTGCATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
7 1 0.02
8 16 0.34
9 16 0.34
10 8 0.17
11 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTTTATTA
Found at i:36468989 original size:237 final size:227
Alignment explanation
Indices: 36468548--36469013 Score: 643
Period size: 228 Copynumber: 2.0 Consensus size: 227
36468538 TCTGGCAATG
36468548 TCTTACCAGAACTTCATTCATTTTGCTCCTTGAAACTAAACGACAAACCCTTTTGCTTCCTTCTC
1 TCTTACCAGAACTTCATTCATTTTGCTCCTTGAAACTAAACGACAAACCCTTTTGCTTCCTTCTC
* *
36468613 CTCTACAGGTAAATGGGTTCTGTGCTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAATTT
66 CTCCACAGGTAAATGGGTTCTGTGCTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAATTC
* *
36468678 ATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATATATGTTCTTAGCCTTTTCAGTTTGGA
131 ATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTTTTCAGTTTGGA
*
36468743 GG-GTTTTTTTGGGTTTAAATCTATGAGATTT
196 GGTGTTTTTTTGGGTTTAAATCCATGAGATTT
* * * * * *
36468774 TCTTACTAGAAGTTTATTCATTTTGCTCTTAATGAAACTAAATGACATACCCTTTTGCTTCCTTC
1 TCTTACCAGAACTTCATTCATTTTGCTCCT--TGAAACTAAACGACAAACCCTTTTGCTTCCTTC
* *
36468839 TCCTCCACAGGTAAATGGGTTTTGTGCTCTCTCTCTTTTTTCTTTTCTTTTTTTTTTTG-AACAT
64 TCCTCCACAGGTAAATGGGTTCTGTG----CT-T-TTTTTTC-TTTC----TTGTTTTGAAAC-T
36468903 TTTAATGAGAATTCATGGGTT-TTTTTT-GGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGC
117 TTTAATGAGAATTCATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGC
* *
36468966 CTTTTCAGTTTGGAGGTTTTTTTTTGGGTTTAAATCCATGGGATTT
182 CTTTTCAGTTTGGAGGTGTTTTTTTGGGTTTAAATCCATGAGATTT
36469012 TC
1 TC
36469014 AGGTTAGAGT
Statistics
Matches: 210, Mismatches: 15, Indels: 18
0.86 0.06 0.07
Matches are distributed among these distances:
226 26 0.12
228 55 0.26
232 2 0.01
233 1 0.00
234 7 0.03
235 4 0.02
237 50 0.24
238 37 0.18
239 28 0.13
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (227 bp):
TCTTACCAGAACTTCATTCATTTTGCTCCTTGAAACTAAACGACAAACCCTTTTGCTTCCTTCTC
CTCCACAGGTAAATGGGTTCTGTGCTTTTTTTTCTTTCTTGTTTTGAAACTTTTAATGAGAATTC
ATGGGTTATTTTTTGGGGTTTAGTGTTGTTTTTACTATACATGTTCTCAGCCTTTTCAGTTTGGA
GGTGTTTTTTTGGGTTTAAATCCATGAGATTT
Found at i:36470869 original size:28 final size:28
Alignment explanation
Indices: 36470837--36470920 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
36470827 ATTAATTTAT
36470837 ATATTATTTTATTAAATTGTATTTAATA
1 ATATTATTTTATTAAATTGTATTTAATA
*
36470865 ATATTATGTTA--AAATATG-A-TTAA-A
1 ATATTATTTTATTAAAT-TGTATTTAATA
* * * *
36470889 ATATTGTTTTTATTAAAATATTTTTAATA
1 ATATT-ATTTTATTAAATTGTATTTAATA
36470918 ATA
1 ATA
36470921 ATCTTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
24 6 0.14
25 8 0.19
26 6 0.14
27 5 0.12
28 14 0.33
29 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (28 bp):
ATATTATTTTATTAAATTGTATTTAATA
Found at i:36471127 original size:16 final size:16
Alignment explanation
Indices: 36471108--36471149 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
36471098 AATTACAACT
*
36471108 CTATTCTATTACAGTC
1 CTATTCCATTACAGTC
36471124 CTATTCCATTACAGTC
1 CTATTCCATTACAGTC
36471140 CTATTCCATT
1 CTATTCCATT
36471150 CACCCCAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (16 bp):
CTATTCCATTACAGTC
Found at i:36473753 original size:209 final size:209
Alignment explanation
Indices: 36473393--36473813 Score: 691
Period size: 209 Copynumber: 2.0 Consensus size: 209
36473383 TAATTATTTA
36473393 TTTAGATCAAGATAAATCTCAACCAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
1 TTTAGATCAAGATAAATCTCAACCAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
* * ** *
36473458 ATCGCATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTTCTATATGTAATTGAATTTCT
66 ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTCC
36473523 ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTACA
131 ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTACA
*
36473588 CATACGTGCCCCTG
196 CATACATGCCCCTG
* * * * *
36473602 TTTAGATCAAGATAAATCTCAATC-GAAATTAAATCGAGGAAAGGCGAAAATCATGGATTAGCTC
1 TTTAGATCAAGATAAATCTCAACCAG-AATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTC
*
36473666 GATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAGTTTC
65 GATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTC
* * *
36473731 CACTTGTTTTTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTGAATTGC
130 CACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTAC
36473796 ACATACATGCCCCTG
195 ACATACATGCCCCTG
36473811 TTT
1 TTT
36473814 GTACTTCGGT
Statistics
Matches: 196, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
208 1 0.01
209 195 0.99
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (209 bp):
TTTAGATCAAGATAAATCTCAACCAGAATTAAATCAAGGAAAGCCAAAAATCACGGATTAGCTCG
ATCACATTTCAATGCTCTAGTTGTCAATGTAAGTTCATAGTATTACTATACATAATTGAATTTCC
ACTTGTTTGTTTACAATATAATTATGTAATTAATTGCTTACACTTAATTATTTCCCTAAATTACA
CATACATGCCCCTG
Found at i:36482572 original size:33 final size:33
Alignment explanation
Indices: 36482530--36482739 Score: 136
Period size: 33 Copynumber: 5.7 Consensus size: 33
36482520 TCCCCCAAGG
36482530 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
36482563 GGTTGCTAAGTGCTGA-TCCCATCGTATCTTAAATGTGAAAG-
1 GGTTGCTAAGTGCTGATTCCC--CGAATC----AT-TG---GT
*
36482604 GGTTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GG-TTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
36482638 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A---AT-CAT-TG----GT
*
36482682 GGTTGTTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
36482715 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
36482740 TAACGGATAA
Statistics
Matches: 141, Mismatches: 11, Indels: 49
0.70 0.05 0.24
Matches are distributed among these distances:
32 4 0.03
33 54 0.38
34 14 0.10
35 1 0.01
36 2 0.01
37 4 0.03
38 6 0.04
39 5 0.04
40 2 0.01
41 6 0.04
42 16 0.11
43 7 0.05
44 20 0.14
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:36482614 original size:102 final size:96
Alignment explanation
Indices: 36482432--36482626 Score: 248
Period size: 102 Copynumber: 2.0 Consensus size: 96
36482422 GAATATAATG
* * *
36482432 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGTTGATTCCACTGTATTTTAAATGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATCCCACTGTATCTTAAATGT
*
36482497 GAAGGGGGTTACTAAGTGCTGATTCCCCCAA
66 GAAAGGGGTTACTAAGTGCTGATTCCCCCAA
* *
36482528 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCA-TCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GATTGCTAAGTGCTGATCCCACT-GTATCT
* *
36482592 TAAATGTGAAAGGGTTTGCTAAGTGCTGATTCCCC
59 TAAATGTGAAAGGGGTTACTAAGTGCTGATTCCCC
36482627 GATTCATTGG
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
96 24 0.29
100 2 0.02
101 3 0.04
102 55 0.65
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (96 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTGATCCCACTGTATCTTAAATGT
GAAAGGGGTTACTAAGTGCTGATTCCCCCAA
Found at i:36482615 original size:75 final size:77
Alignment explanation
Indices: 36482526--36482738 Score: 333
Period size: 75 Copynumber: 2.8 Consensus size: 77
36482516 TGATTCCCCC
*
36482526 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCATCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
36482590 CTTAAATGTG-A
66 CTTAAATGTGAA
* * *
36482601 AAGGGTTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
* *
36482666 TTTGAATGTGAA
66 CTTAAATGTGAA
*
36482678 AAGGGGTTGTTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTG-ATCCCACCG
36482739 ATAACGGATA
Statistics
Matches: 126, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
75 59 0.47
76 9 0.07
77 56 0.44
78 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
CTTAAATGTGAA
Found at i:36483341 original size:9 final size:9
Alignment explanation
Indices: 36483327--36483377 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
36483317 GGCTAAGCAA
36483327 AAAATTCTG
1 AAAATTCTG
36483336 AAAATTCTG
1 AAAATTCTG
*
36483345 AAAATTTTG
1 AAAATTCTG
36483354 AAAATTCTG
1 AAAATTCTG
36483363 AAAATTCTG
1 AAAATTCTG
36483372 AAAATT
1 AAAATT
36483378 TTACGGAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (9 bp):
AAAATTCTG
Found at i:36483357 original size:27 final size:27
Alignment explanation
Indices: 36483327--36483379 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
36483317 GGCTAAGCAA
36483327 AAAATTCTGAAAATTCTGAAAATTTTG
1 AAAATTCTGAAAATTCTGAAAATTTTG
36483354 AAAATTCTGAAAATTCTGAAAATTTT
1 AAAATTCTGAAAATTCTGAAAATTTT
36483380 ACGGAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAATTCTGAAAATTCTGAAAATTTTG
Found at i:36494002 original size:15 final size:14
Alignment explanation
Indices: 36493982--36494026 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
36493972 CATTTTCATC
36493982 TTTTCTTTTATTTCT
1 TTTTCTTTT-TTTCT
*
36493997 TTTTCTTTTTCTCT
1 TTTTCTTTTTTTCT
*
36494011 CATTTCTTTTTTTCT
1 -TTTTCTTTTTTTCT
36494026 T
1 T
36494027 CTCTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTTTTCT
Found at i:36494028 original size:20 final size:22
Alignment explanation
Indices: 36493991--36494037 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
36493981 CTTTTCTTTT
*
36493991 ATTTCTTTTTCTTTTTCTCTC-
1 ATTTCTTTTTCTTCTTCTCTCA
36494012 ATTTCTTTTT-TTCTTCTCTCA
1 ATTTCTTTTTCTTCTTCTCTCA
36494033 ATTTC
1 ATTTC
36494038 ATTCAAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTCTTTTTCTTCTTCTCTCA
Found at i:36494031 original size:22 final size:21
Alignment explanation
Indices: 36493982--36494037 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
36493972 CATTTTCATC
* *
36493982 TTTTCTTTTATTTCTTTTTCT
1 TTTTCTCTCATTTCTTTTTCT
36494003 TTTTCTCTCATTTCTTTTT-T
1 TTTTCTCTCATTTCTTTTTCT
*
36494023 TCTTCTCTCAATTTC
1 TTTTCTCTC-ATTTC
36494038 ATTCAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTCTCTCATTTCTTTTTCT
Found at i:36494970 original size:33 final size:32
Alignment explanation
Indices: 36494927--36495005 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
36494917 AATCACTCTT
* *
36494927 TTTTTTTTTTTCAATTTTG-ATTTTTTTTTTC
1 TTTTTTTTTTTCAATTCTGAAATTTTTTTTTC
36494958 TTCCTTTTTTTTT-AATTCTGAAATTTTTTTTTC
1 TT--TTTTTTTTTCAATTCTGAAATTTTTTTTTC
*
36494991 TTTTTTTTCTTCAAT
1 TTTTTTTTTTTCAAT
36495006 ACTAAATACA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 10 0.24
32 9 0.22
33 22 0.54
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.75
Consensus pattern (32 bp):
TTTTTTTTTTTCAATTCTGAAATTTTTTTTTC
Found at i:36495059 original size:11 final size:11
Alignment explanation
Indices: 36495043--36495084 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
36495033 GAATACAAAC
36495043 TTTTTTTTTAA
1 TTTTTTTTTAA
36495054 TTTTTTTTTCAA
1 TTTTTTTTT-AA
*
36495066 ATTTTTTTTATA
1 TTTTTTTTTA-A
36495078 TTTTTTT
1 TTTTTTT
36495085 ACAATACCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:36495061 original size:13 final size:13
Alignment explanation
Indices: 36495038--36495074 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
36495028 AAATTGAATA
36495038 CAAACTTTTTTTTT
1 CAAA-TTTTTTTTT
36495052 --AATTTTTTTTT
1 CAAATTTTTTTTT
36495063 CAAATTTTTTTT
1 CAAATTTTTTTT
36495075 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
CAAATTTTTTTTT
Found at i:36497044 original size:25 final size:25
Alignment explanation
Indices: 36497010--36497063 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
36497000 AATAAATCAG
*
36497010 CATGCATGCTTCCTTGAATGTTGTT
1 CATGCATGCTTCCTTGAATGCTGTT
** *
36497035 CATGCATGCTTTTTTTAATGCTGTT
1 CATGCATGCTTCCTTGAATGCTGTT
36497060 CATG
1 CATG
36497064 TACCTGCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.46
Consensus pattern (25 bp):
CATGCATGCTTCCTTGAATGCTGTT
Found at i:36497281 original size:76 final size:76
Alignment explanation
Indices: 36497148--36497289 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
36497138 TTCGGCAGCA
* * * * *
36497148 ACAATTAACTTCAGCTGGACACCATTTAAGACATCATTAAATTCGATAGTAGTAAGACAAATTAA
1 ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
36497213 ATTATGTAATG
66 ATTATGTAATG
*
36497224 ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAGCCA-CAAGACACATTA
1 ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAG-CAGCAAGACAAATTA
36497288 AA
65 AA
36497290 GTGGCTCTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (76 bp):
ACAATTAAATTCAGCTAGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
ATTATGTAATG
Found at i:36499000 original size:12 final size:12
Alignment explanation
Indices: 36498983--36499008 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36498973 AAAACACCAT
36498983 GGAAGCATGCTA
1 GGAAGCATGCTA
36498995 GGAAGCATGCTA
1 GGAAGCATGCTA
36499007 GG
1 GG
36499009 TTCGACCATG
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:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (12 bp):
GGAAGCATGCTA
Found at i:36499713 original size:29 final size:29
Alignment explanation
Indices: 36499654--36499719 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
36499644 GTACAATATT
*
36499654 AAAGGGATAAATTCAGCTATCGAATGCGA
1 AAAGGGATAAATTCAGCTATCGAATACGA
** * * *
36499683 AAAGGGATAGCTTCGGCTATCGATTATGA
1 AAAGGGATAAATTCAGCTATCGAATACGA
*
36499712 AAAAGGAT
1 AAAGGGAT
36499720 GGTGACGACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (29 bp):
AAAGGGATAAATTCAGCTATCGAATACGA
Found at i:36499740 original size:29 final size:30
Alignment explanation
Indices: 36499708--36499779 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
36499698 GCTATCGATT
* *
36499708 ATGAAAAAGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTAACGACCATCGAACA
*
36499737 ATGAAAAGGGATGGTAACGACCATCGAACT
1 ATGAAAAGGGATGGTAACGACCATCGAACA
36499767 ATGAAAAGGGATG
1 ATGAAAAGGGATG
36499780 ACTTCGGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.43, C:0.14, G:0.28, T:0.15
Consensus pattern (30 bp):
ATGAAAAGGGATGGTAACGACCATCGAACA
Found at i:36499799 original size:30 final size:32
Alignment explanation
Indices: 36499765--36499839 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 32
36499755 GACCATCGAA
* *
36499765 CTATGAAAAGGGATGA-CTTCGGTTAT-CAAT
1 CTATGAAAAGGGATGAGCTTCGGCTATGAAAT
* *
36499795 CTATGAAATGAGAT-AGCTTCGGCTATGAAAT
1 CTATGAAAAGGGATGAGCTTCGGCTATGAAAT
36499826 C-ATGAAAAGGGATG
1 CTATGAAAAGGGATG
36499840 GTGACGACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
29 1 0.03
30 31 0.86
31 4 0.11
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (32 bp):
CTATGAAAAGGGATGAGCTTCGGCTATGAAAT
Found at i:36499861 original size:30 final size:30
Alignment explanation
Indices: 36499827--36499898 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
36499817 CTATGAAATC
* *
36499827 ATGAAAAGGGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATGGCGACGACCATCAAACA
* * **
36499857 ATGAAAATGGATGGCGACGACCATTAAATT
1 ATGAAAAGGGATGGCGACGACCATCAAACA
36499887 ATGAAAAGGGAT
1 ATGAAAAGGGAT
36499899 AGCTTCGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGCGACGACCATCAAACA
Found at i:36499891 original size:60 final size:59
Alignment explanation
Indices: 36499705--36499898 Score: 158
Period size: 60 Copynumber: 3.3 Consensus size: 59
36499695 TCGGCTATCG
* * * *
36499705 ATTATGAAAAAGGATGGTGACGACCATCAACAATGAAAAGGGATGGTAACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAATGGATGGCAACGACCATCAA
* * * *** * * ** * * *
36499764 ACTATGAAAAGGGATGACT-TCGGTTATCAATCTATG-AAATGAGATAGCTTCGGCTATGAA
1 ATTATGAAAAGGGATG-GTGACGACCATCAA-CAATGAAAATG-GATGGCAACGACCATCAA
* * *
36499824 ATCATGAAAAGGGATGGTGACGACCATCGAACAATGAAAATGGATGGCGACGACCATTAA
1 ATTATGAAAAGGGATGGTGACGACCATC-AACAATGAAAATGGATGGCAACGACCATCAA
36499884 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
36499899 AGCTTCGGCT
Statistics
Matches: 97, Mismatches: 32, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
59 26 0.27
60 64 0.66
61 7 0.07
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (59 bp):
ATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAATGGATGGCAACGACCATCAA
Found at i:36499927 original size:90 final size:90
Alignment explanation
Indices: 36499737--36499908 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 90
36499727 ACCATCAACA
* ** *** *
36499737 ATGAAAAGGGATGGTAACGACCATCGAACTATGAAAAGGGATGACTTCGGTTATCAATCTATGAA
1 ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACGACGACCATAAATCTATGAA
*
36499802 ATGAGATAGCTTCGGCTATGAAATC
66 AAGAGATAGCTTCGGCTATGAAATC
* * *
36499827 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAATGGATGGCGACGACCATTAAAT-TATGA
1 ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACGACGACCA-TAAATCTATGA
*
36499891 AAAGGGATAGCTTCGGCT
65 AAAGAGATAGCTTCGGCT
36499909 GTCGAACTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
90 65 0.94
91 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGTAACGACCATCGAACAATGAAAAGGGATGACGACGACCATAAATCTATGAA
AAGAGATAGCTTCGGCTATGAAATC
Found at i:36501051 original size:42 final size:41
Alignment explanation
Indices: 36501004--36501111 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 41
36500994 ACAGCCTAGC
* * *
36501004 ACACGGTCTGACACACGGGCGTGTAAGGTTATTTTGAAGGGT
1 ACACGG-CTGGCACATGGGCGTGTAAGGTTATTTCGAAGGGT
**
36501046 ACACGGCCTGGCACATGGGCGTGTGGGGTTATTTCGAAGGGT
1 ACACGG-CTGGCACATGGGCGTGTAAGGTTATTTCGAAGGGT
*
36501088 GCACGGCATGGCACATGGGCGTGT
1 ACACGGC-TGGCACATGGGCGTGT
36501112 GGCTTAGCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.23
Consensus pattern (41 bp):
ACACGGCTGGCACATGGGCGTGTAAGGTTATTTCGAAGGGT
Found at i:36501112 original size:42 final size:42
Alignment explanation
Indices: 36501015--36501113 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
36501005 CACGGTCTGA
* ** * *
36501015 CACACGGGCGTGTAAGGTTATTTTGAAGGGTACACGGCCTGG
1 CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
*
36501057 CACATGGGCGTGTGGGGTTATTTCGAAGGGTGCACGGCATGG
1 CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
36501099 CACATGGGCGTGTGG
1 CACATGGGCGTGTGG
36501114 CTTAGCCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.18, C:0.18, G:0.40, T:0.23
Consensus pattern (42 bp):
CACATGGGCGTGTGGGGTTATTTCGAAGGGTACACGGCATGG
Found at i:36505013 original size:6 final size:6
Alignment explanation
Indices: 36505002--36505085 Score: 53
Period size: 6 Copynumber: 13.0 Consensus size: 6
36504992 TGATCAATTG
* * * *
36505002 AAAGAA AAAGAAAA AAATGAA AATGAGGA AAAG-A AAAGAA AAATAA TAAGAG
1 AAAGAA AAAG--AA AAA-GAA AA--AGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
36505054 AAAGAGA AAAGAA AATGAGA AAAGAA AAAGAA
1 AAAGA-A AAAGAA AAAGA-A AAAGAA AAAGAA
36505086 GAAAAATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 31 0.51
7 14 0.23
8 9 0.15
9 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:36505073 original size:13 final size:13
Alignment explanation
Indices: 36505057--36505110 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
36505047 ATAAGAGAAA
36505057 GAGAAAAGAAAAT
1 GAGAAAAGAAAAT
36505070 GAGAAAAGAAAA-
1 GAGAAAAGAAAAT
*
36505082 -AGAAGA-AAAAT
1 GAGAAAAGAAAAT
*
36505093 -A-AAAAGAATAT
1 GAGAAAAGAAAAT
36505104 GAGAAAA
1 GAGAAAA
36505111 AAATTCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
11 10 0.29
12 1 0.03
13 16 0.47
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
GAGAAAAGAAAAT
Found at i:36505082 original size:19 final size:18
Alignment explanation
Indices: 36505033--36505110 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
36505023 AATGAGGAAA
*
36505033 AGAAAAGAAAAATAATAAG
1 AGAAAAGAAAAAGAA-AAG
36505052 AG-AAAGAGAAAAGAAAATG
1 AGAAAAGA-AAAAGAAAA-G
36505071 AGAAAAGAAAAAG--AAG
1 AGAAAAGAAAAAGAAAAG
* *
36505087 A-AAAATAAAAAGAATATG
1 AGAAAAGAAAAAGAA-AAG
36505105 AGAAAA
1 AGAAAA
36505111 AAATTCTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
15 10 0.20
16 2 0.04
17 2 0.04
18 10 0.20
19 20 0.41
20 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AGAAAAGAAAAAGAAAAG
Found at i:36508088 original size:50 final size:50
Alignment explanation
Indices: 36508015--36508212 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
36508005 TTTCTTGTGC
* **
36508015 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
36508065 TGCCCATGCCATGTCCCAAATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * *
36508115 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * * *
36508171 TTCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCT
36508213 TTACCTAAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 81 0.66
53 2 0.02
56 39 0.32
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
Found at i:36510884 original size:10 final size:10
Alignment explanation
Indices: 36510871--36510909 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
36510861 AGCTCAAATC
*
36510871 AGCTCGTTTG
1 AGCTCATTTG
*
36510881 AGCTCATTTT
1 AGCTCATTTG
*
36510891 AGCTCATTCG
1 AGCTCATTTG
36510901 AGCTCATTT
1 AGCTCATTT
36510910 CAATTTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:36525081 original size:15 final size:16
Alignment explanation
Indices: 36525052--36525081 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36525042 CAAACATGCT
36525052 TTAACACATTATCAAA
1 TTAACACATTATCAAA
36525068 TTAACACA-TATCAA
1 TTAACACATTATCAA
36525082 TAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:36551250 original size:40 final size:40
Alignment explanation
Indices: 36551191--36551301 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
36551181 GTTTGGATAA
* *
36551191 AAAATGCCGCTAAAAATCGAGCATTAGCGGCGCTTTACA-T
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTA-AGG
* * **
36551231 AAAACGCCACTAAAGATCGAGCATTAGCGGTACTTTAAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAAGG
*
36551271 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCG
36551302 TTTTTAATGT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 13 0.22
40 46 0.78
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAAGG
Found at i:36551389 original size:41 final size:41
Alignment explanation
Indices: 36551342--36551618 Score: 288
Period size: 41 Copynumber: 6.8 Consensus size: 41
36551332 TAATCTTTCG
* *
36551342 GGGCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCG
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* * * * *
36551383 GGGCTTTAGTGGCGTTTTTGAAAAAGTGCCACTAACGCTCT
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* * * *
36551424 GGCCTTTAGCGGCGTTTTTGAAAAAGTGCCG-TAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* *
36551464 GGACTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
* * * ** *
36551505 GGTCTTTAGCGGC-GTTTTCAGAAAATTGTCGCTAATGCTCT
1 GGGCTTTAGCGGCATTTTTGA-AAAAGCGCCGCTAATGCTCT
* * * *
36551546 GGCCTTTAGTGGCATTTTCGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
** * *
36551587 ATGCTTTAGTGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
36551619 AACAATATTT
Statistics
Matches: 196, Mismatches: 37, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
40 39 0.20
41 153 0.78
42 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:36551498 original size:122 final size:123
Alignment explanation
Indices: 36551343--36551618 Score: 360
Period size: 122 Copynumber: 2.3 Consensus size: 123
36551333 AATCTTTCGG
* * *
36551343 GGCTTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGGGGCTTTAGTGGCGTTTT-TGAAAA
1 GGCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCAG-AAA
* * *
36551407 AGTGCCACTAACGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGTGCCG-TAATGCTC-A
65 AGTGCCACTAACGCTCTGGCCTTTAGCGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
* *
36551464 GGACTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCAGAAA
1 GG-CTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCAGAAA
* * * * *
36551529 ATTGTCGCTAATGCTCTGGCCTTTAGTGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
65 AGTGCCACTAACGCTCTGGCCTTTAGCGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
* * * *
36551588 TGCTTTAGTGGCGTTTTTGAAAAAGCGCCGC
1 GGCTTTAGCGGCATTTTTAAAAAAGCGCCGC
36551619 AACAATATTT
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
121 2 0.01
122 95 0.71
123 35 0.26
124 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (123 bp):
GGCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTCAGAAAA
GTGCCACTAACGCTCTGGCCTTTAGCGGCATTTTCGAAAAAGCGCCGCTAATGCTCAA
Found at i:36552265 original size:26 final size:28
Alignment explanation
Indices: 36552233--36552295 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
36552223 TTATTTAATT
*
36552233 GGTTTAGGGATTTGGGTTAAAGTTT-AG
1 GGTTTAGGGATTCGGGTTAAAGTTTAAG
**
36552260 GG-TTAGGGATTCGGGTTAGGGTTTAAG
1 GGTTTAGGGATTCGGGTTAAAGTTTAAG
36552287 GGTTTAGGG
1 GGTTTAGGG
36552296 GTTTAGAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.61
27 6 0.19
28 6 0.19
ACGTcount: A:0.19, C:0.02, G:0.43, T:0.37
Consensus pattern (28 bp):
GGTTTAGGGATTCGGGTTAAAGTTTAAG
Found at i:36552290 original size:8 final size:8
Alignment explanation
Indices: 36552277--36552314 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
36552267 GATTCGGGTT
36552277 AGGGTTTA
1 AGGGTTTA
36552285 AGGGTTTA
1 AGGGTTTA
*
36552293 GGGGTTT-
1 AGGGTTTA
36552300 AGAGGTTTA
1 AG-GGTTTA
36552309 AGGGTT
1 AGGGTT
36552315 GGGATTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 23 0.88
9 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (8 bp):
AGGGTTTA
Found at i:36552345 original size:8 final size:7
Alignment explanation
Indices: 36552233--36552390 Score: 78
Period size: 7 Copynumber: 22.3 Consensus size: 7
36552223 TTATTTAATT
36552233 GGTTTAG
1 GGTTTAG
36552240 GGATTT-G
1 GG-TTTAG
*
36552247 GG-TTAA
1 GGTTTAG
*
36552253 AGTTTAG
1 GGTTTAG
36552260 GG-TTAG
1 GGTTTAG
* *
36552266 GGATTCG
1 GGTTTAG
36552273 GG-TTAG
1 GGTTTAG
36552279 GGTTTAAG
1 GGTTT-AG
36552287 GGTTTAGG
1 GGTTTA-G
36552295 GGTTTAG
1 GGTTTAG
36552302 AGGTTTAAG
1 -GGTTT-AG
36552311 GG-TT-G
1 GGTTTAG
*
36552316 GGATTTAA
1 GG-TTTAG
36552324 GGTTTAG
1 GGTTTAG
*
36552331 GGGTTAG
1 GGTTTAG
36552338 TGGTTTAG
1 -GGTTTAG
*
36552346 GGGTTAG
1 GGTTTAG
**
36552353 ACTTTATG
1 GGTTTA-G
*
36552361 GGTTAAG
1 GGTTTAG
*
36552368 AG-TTAG
1 GGTTTAG
*
36552374 GGATTTGG
1 GG-TTTAG
36552382 GGTTTAG
1 GGTTTAG
36552389 GG
1 GG
36552391 ATTCAGGGGT
Statistics
Matches: 113, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
5 5 0.04
6 16 0.14
7 49 0.43
8 41 0.36
9 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.42, T:0.37
Consensus pattern (7 bp):
GGTTTAG
Found at i:36552348 original size:15 final size:15
Alignment explanation
Indices: 36552324--36552352 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36552314 TGGGATTTAA
36552324 GGTTTAGGGGTTAGT
1 GGTTTAGGGGTTAGT
36552339 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
36552353 ACTTTATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (15 bp):
GGTTTAGGGGTTAGT
Found at i:36552736 original size:50 final size:50
Alignment explanation
Indices: 36552675--36552939 Score: 503
Period size: 50 Copynumber: 5.3 Consensus size: 50
36552665 AAACCATTTG
*
36552675 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
36552725 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
36552775 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
36552825 ATATATTTAAATATTATTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
36552875 ATATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
36552925 ATATATTTAAATATT
1 ATATATTTAAATATT
36552940 TAAATATTAG
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 211 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:36552755 original size:15 final size:14
Alignment explanation
Indices: 36552705--36552905 Score: 60
Period size: 15 Copynumber: 15.6 Consensus size: 14
36552695 AAATAGAATT
*
36552705 AATAAATAAGTTTA
1 AATAAATTAGTTTA
36552719 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
36552734 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
36552746 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
36552755 AATAAATAAGTTTA
1 AATAAATTAGTTTA
36552769 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
36552784 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
36552796 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
36552805 AATAAATAAGTTTA
1 AATAAATTAGTTTA
36552819 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
*
36552834 AAT--ATTATTTTA
1 AATAAATTAGTTTA
*
36552846 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
36552855 AATAAATAAGTTTA
1 AATAAATTAGTTTA
36552869 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
36552884 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
36552896 AATAGAATTA
1 AATA-AATTA
36552906 ATAATTAAGT
Statistics
Matches: 144, Mismatches: 7, Indels: 71
0.65 0.03 0.32
Matches are distributed among these distances:
9 15 0.10
10 6 0.04
11 11 0.08
12 39 0.27
13 6 0.04
14 15 0.10
15 48 0.33
16 4 0.03
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (14 bp):
AATAAATTAGTTTA
Found at i:36557219 original size:41 final size:42
Alignment explanation
Indices: 36557152--36557263 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 42
36557142 TAATTTTTTT
36557152 TAAAAGTCATGTTTTTAGCGGCGTTTGTGAA-A-AAGTGCCGC
1 TAAAAGTCATGTTTTTAGCGGCGTTTGT-AATAGAAGTGCCGC
* * *
36557193 TAAAAGTTAT-TTTTATTGCGGGGTTTGTAATAGAAGTGCCGC
1 TAAAAGTCATGTTTT-TAGCGGCGTTTGTAATAGAAGTGCCGC
* *
36557235 TAAAGGTCATGATTTTTAGCGACGTTTGT
1 TAAAAGTCATG-TTTTTAGCGGCGTTTGT
36557264 GTGAAAAGCG
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 6 0.10
41 21 0.36
42 17 0.29
43 10 0.17
44 4 0.07
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (42 bp):
TAAAAGTCATGTTTTTAGCGGCGTTTGTAATAGAAGTGCCGC
Found at i:36559392 original size:32 final size:31
Alignment explanation
Indices: 36559327--36559417 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 31
36559317 ATAAAGATAG
* *
36559327 TAATTTTTATTTAAATATATATAATTTTACA
1 TAATTTTTAATTAAATATATATAAATTTACA
*
36559358 TAATTTTTAATTATAAT-TCATTTAAATTTACA
1 TAATTTTTAATTA-AATAT-ATATAAATTTACA
* *
36559390 TAAATATTTAA-T-AATATAAATAAATTTA
1 T-AATTTTTAATTAAATATATATAAATTTA
36559418 ATTCAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
30 12 0.24
31 14 0.28
32 16 0.32
33 8 0.16
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
TAATTTTTAATTAAATATATATAAATTTACA
Found at i:36560446 original size:24 final size:25
Alignment explanation
Indices: 36560419--36560468 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
36560409 TAATTTTTAG
36560419 TTATTTTTAAAT-TAAATATTA-TAA
1 TTATTTTTAAATGTAAAT-TTAGTAA
*
36560443 TTATTTTTACATGTAAATTTAGTAA
1 TTATTTTTAAATGTAAATTTAGTAA
36560468 T
1 T
36560469 ATTATGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (25 bp):
TTATTTTTAAATGTAAATTTAGTAA
Found at i:36560846 original size:67 final size:67
Alignment explanation
Indices: 36560766--36560909 Score: 252
Period size: 67 Copynumber: 2.1 Consensus size: 67
36560756 ATGGTAGTTA
* * *
36560766 AAAAATTAGCATAATAACAAATTAACCCTAAATTTTTACATATTATATCAATTTAGTCATCATTT
1 AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
36560831 TT
66 TT
*
36560833 AAAAATTAACATAATAACATATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
1 AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
36560898 TT
66 TT
36560900 AAAAATTAAC
1 AAAAATTAAC
36560910 CCTCAAAATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (67 bp):
AAAAATTAACATAATAACAAATTAACCCTAAATTTTTACATAATATATCAATTTAGTCATAATTT
TT
Found at i:36561056 original size:19 final size:18
Alignment explanation
Indices: 36561032--36561069 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
36561022 ATTAATATTA
36561032 ATATTAATTAAATATAAAT
1 ATATTAATTAAATA-AAAT
36561051 ATATTAATTAAATAAAAT
1 ATATTAATTAAATAAAAT
36561069 A
1 A
36561070 AAAATTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATTAATTAAATAAAAT
Found at i:36561216 original size:30 final size:27
Alignment explanation
Indices: 36561160--36561217 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 27
36561150 GGGGAGGAAG
*
36561160 ATTTTTATTTTTATTTAATATTAATAT
1 ATTTTTATTTTTATTTAATATAAATAT
36561187 ATTTTTATTTTTATTTATAAATATAAATAT
1 ATTTTTATTTTTA-TT-T-AATATAAATAT
36561217 A
1 A
36561218 AAATTTAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 1 0.04
30 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTATTTTTATTTAATATAAATAT
Found at i:36563906 original size:5 final size:5
Alignment explanation
Indices: 36563898--36563923 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36563888 GAGATGGAAT
36563898 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
36563924 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:36563923 original size:26 final size:26
Alignment explanation
Indices: 36563872--36563923 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
36563862 TGAAATTTTC
* * *
36563872 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
36563898 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
36563924 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:36564378 original size:17 final size:17
Alignment explanation
Indices: 36564340--36564388 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
36564330 GGGTGAGAAG
36564340 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
36564358 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
36564375 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
36564389 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:36573878 original size:20 final size:19
Alignment explanation
Indices: 36573855--36573900 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
36573845 AGCTCAACTC
* *
36573855 TAGCTCAATGAGCTCGTTCT
1 TAGCTCAATAAACTCGTT-T
*
36573875 TAGCTCACTAAACTCGTTT
1 TAGCTCAATAAACTCGTTT
36573894 TAGCTCA
1 TAGCTCA
36573901 CTTTAGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (19 bp):
TAGCTCAATAAACTCGTTT
Found at i:36575327 original size:11 final size:12
Alignment explanation
Indices: 36575289--36575325 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
36575279 CCCGGGTTAG
36575289 ATTTGTAAAAAAA
1 ATTTG-AAAAAAA
36575302 ATTTGAAAAAAA
1 ATTTGAAAAAAA
36575314 ATTTGAAAAAAA
1 ATTTGAAAAAAA
36575326 TTCATGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
ATTTGAAAAAAA
Found at i:36580064 original size:23 final size:22
Alignment explanation
Indices: 36580012--36580064 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
36580002 TCCACATCTT
*
36580012 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
36580034 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
36580057 TTTCTTTT
1 TTTCTTTT
36580065 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36591595 original size:23 final size:22
Alignment explanation
Indices: 36591562--36591668 Score: 67
Period size: 24 Copynumber: 4.6 Consensus size: 22
36591552 AACAAATTCT
36591562 TTTTTCATTTTCATCACTCGTTTC
1 TTTTTC-TTTTCATCACTC-TTTC
* *
36591586 TTTTTCTTTTGAATCACTCTCTC
1 TTTTTCTTTT-CATCACTCTTTC
* *
36591609 -TTTT-TTATCACTCA-TCTTTT
1 TTTTTCTTTTCA-TCACTCTTTC
*
36591629 TGTTTTCTTCTTTCTTCACTCTTTTC
1 T-TTTTC-T-TTTCATCACTC-TTTC
36591655 TTTATTCTTTTCAT
1 TTT-TTCTTTTCAT
36591669 TTTTTGCTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
20 5 0.08
21 6 0.10
22 8 0.13
23 7 0.11
24 22 0.35
25 8 0.13
26 7 0.11
ACGTcount: A:0.11, C:0.23, G:0.03, T:0.63
Consensus pattern (22 bp):
TTTTTCTTTTCATCACTCTTTC
Found at i:36591612 original size:17 final size:18
Alignment explanation
Indices: 36591590--36591630 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
36591580 CGTTTCTTTT
36591590 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
36591607 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
36591625 T-TTTTG
1 TCTTTTG
36591631 TTTTCTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:36595519 original size:19 final size:20
Alignment explanation
Indices: 36595476--36595523 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
36595466 AGCTCAACTC
* *
36595476 TAGCTCAATGAGCTCGTTCT
1 TAGCTCACTAAGCTCGTTCT
36595496 TAGCTCACTAAGCTCGTT-T
1 TAGCTCACTAAGCTCGTTCT
36595515 TAGCTCACT
1 TAGCTCACT
36595524 TTAGTTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (20 bp):
TAGCTCACTAAGCTCGTTCT
Found at i:36614000 original size:24 final size:25
Alignment explanation
Indices: 36613947--36614000 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
36613937 AACAAATTCT
* *
36613947 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
36613972 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
36613995 TTTTTT
1 TTTTTT
36614001 TATCACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:36616264 original size:14 final size:14
Alignment explanation
Indices: 36616245--36616272 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36616235 CTAGACCGTA
36616245 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
36616259 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
36616273 CGAAGCTACG
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:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (14 bp):
TGCAATTTTTTTTT
Found at i:36617914 original size:19 final size:20
Alignment explanation
Indices: 36617871--36617918 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
36617861 AGCTCAACTC
* *
36617871 TAGCTCAATGAGCTCGTTCT
1 TAGCTCACTAAGCTCGTTCT
36617891 TAGCTCACTAAGCTCGTT-T
1 TAGCTCACTAAGCTCGTTCT
36617910 TAGCTCACT
1 TAGCTCACT
36617919 TTAGTTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (20 bp):
TAGCTCACTAAGCTCGTTCT
Found at i:36622266 original size:40 final size:40
Alignment explanation
Indices: 36622222--36622393 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
36622212 GGACTAAGAT
*
36622222 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
36622262 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
36622302 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
36622342 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
36622381 CCGAAGGCATTTG
1 CCGAAGGCATTTG
36622394 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:36622307 original size:80 final size:79
Alignment explanation
Indices: 36622222--36622393 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
36622212 GGACTAAGAT
*
36622222 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
36622286 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
36622302 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
36622367 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
36622381 CCGAAGGCATTTG
1 CCGAAGGCATTTG
36622394 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:36622411 original size:79 final size:80
Alignment explanation
Indices: 36622249--36622426 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
36622239 AGATACAAAT
* * * *
36622249 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
36622314 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
36622329 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
36622393 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
36622408 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36622427 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:36633329 original size:28 final size:28
Alignment explanation
Indices: 36633293--36633412 Score: 161
Period size: 28 Copynumber: 4.3 Consensus size: 28
36633283 CAGTAATAGT
** *
36633293 ACAGTGTGGGCCTTAGCCTGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGAA
* *
36633321 ACAATGTGGGCTTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTTAGCCCAATACAGAA
* *
36633349 ACCGTGTGGGCCTTAGCCCATTACA-ATA
1 ACAGTGTGGGCCTTAGCCCAATACAGA-A
36633377 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTTAGCCCAATACAGAA
36633405 ACAGTGTG
1 ACAGTGTG
36633413 ATAATGCAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.01
28 77 0.97
29 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGAA
Found at i:36633364 original size:56 final size:56
Alignment explanation
Indices: 36633293--36633412 Score: 179
Period size: 56 Copynumber: 2.1 Consensus size: 56
36633283 CAGTAATAGT
* * *
36633293 ACAGTGTGGGCCTTAGCCTGA-TACAGTAACAATGTGGGCTTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTTAGCC-CATTACAATAACAATGTGGGCCTTAGCCCAATACAGAA
* *
36633349 ACCGTGTGGGCCTTAGCCCATTACAATAACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTTAGCCCATTACAATAACAATGTGGGCCTTAGCCCAATACAGAA
36633405 ACAGTGTG
1 ACAGTGTG
36633413 ATAATGCAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (56 bp):
ACAGTGTGGGCCTTAGCCCATTACAATAACAATGTGGGCCTTAGCCCAATACAGAA
Found at i:36633537 original size:26 final size:26
Alignment explanation
Indices: 36633508--36633561 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
36633498 ACACACCAAC
*
36633508 ATCGCAGC-AGAGCTGCGAGTAATAGT
1 ATCGCAGCGA-AGCTGCCAGTAATAGT
*
36633534 ATCGTAGCGAAGCTGCCAGTAATAGT
1 ATCGCAGCGAAGCTGCCAGTAATAGT
36633560 AT
1 AT
36633562 ATGTGGCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (26 bp):
ATCGCAGCGAAGCTGCCAGTAATAGT
Found at i:36633754 original size:27 final size:26
Alignment explanation
Indices: 36633701--36633779 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
36633691 ACATAAGGCC
*
36633701 ATAATGGTCATTTAATCTCCTA-GGGGT
1 ATAATGGTCATTTTA-C-CCTATGGGGT
36633728 ATAATGGTCATTTTACCCTATGAGGGT
1 ATAATGGTCATTTTACCCTATG-GGGT
***
36633755 ATTGCGGTCATTTTACCCTATGGGG
1 ATAATGGTCATTTTACCCTATGGGG
36633780 GTATTTCAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.09
26 5 0.11
27 37 0.80
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (26 bp):
ATAATGGTCATTTTACCCTATGGGGT
Found at i:36633781 original size:27 final size:27
Alignment explanation
Indices: 36633733--36633784 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36633723 GGGGTATAAT
36633733 GGTCATTTTACCCTATGAGGGTATTGC
1 GGTCATTTTACCCTATGAGGGTATTGC
*
36633760 GGTCATTTTACCCTATGGGGGTATT
1 GGTCATTTTACCCTATGAGGGTATT
36633785 TCAATCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.38
Consensus pattern (27 bp):
GGTCATTTTACCCTATGAGGGTATTGC
Found at i:36633792 original size:27 final size:27
Alignment explanation
Indices: 36633735--36633796 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
36633725 GGTATAATGG
**
36633735 TCATTTTACCCTATGAGGGTATTGCGG
1 TCATTTTACCCTATGAGGGTATTGCAA
* *
36633762 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGAGGGTATTGCAA
36633789 TCATTTTA
1 TCATTTTA
36633797 TTTGGTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTGCAA
Found at i:36633836 original size:27 final size:27
Alignment explanation
Indices: 36633805--36634023 Score: 196
Period size: 27 Copynumber: 8.1 Consensus size: 27
36633795 TATTTGGTCT
*
36633805 TTTTACCCTTCAAGGGTATTTCGATCA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* *
36633832 TTTTACCTTTCGAGGGTATTTCAATCA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* * *
36633859 TTTTACCTTTTGGGGGTATTTCTG-TCA
1 TTTTACCCTTCGAGGGTATTTC-GATCA
* ** *
36633886 TTTTACCTTTTAAGGGTATTTCGGTCA
1 TTTTACCCTTCGAGGGTATTTCGATCA
* *
36633913 TTTTACCCTTCGGGGGTATTTC-AGTTA
1 TTTTACCCTTCGAGGGTATTTCGA-TCA
36633940 TTTTACCCTAT-GAGGGTATTTC-AGTCA
1 TTTTACCCT-TCGAGGGTATTTCGA-TCA
** **
36633967 TTTTACTGTTC-AGGGGTATTTCGGCCA
1 TTTTACCCTTCGA-GGGTATTTCGATCA
* *
36633994 TTTTACCCTTCGGGGGTATTTCGATTA
1 TTTTACCCTTCGAGGGTATTTCGATCA
36634021 TTT
1 TTT
36634024 GCCCACAAAT
Statistics
Matches: 158, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.02
27 154 0.97
28 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTTACCCTTCGAGGGTATTTCGATCA
Found at i:36633849 original size:67 final size:67
Alignment explanation
Indices: 36633732--36633863 Score: 178
Period size: 67 Copynumber: 2.0 Consensus size: 67
36633722 AGGGGTATAA
* * *
36633732 TGGTCATTTTACCCTATGAGGGTATTGCGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTA
1 TGGTCATTTTACCCTATAAGGGTATTGCGATCATTTTACCCTATGAGGGTATTTCAATCATTTTA
36633797 TT
66 TT
* * *
36633799 TGGTCTTTTTACCCT-TCAAGGGTATTTCGATCATTTTA-CCTTTCGAGGGTATTTCAATCATTT
1 TGGTCATTTTACCCTAT-AAGGGTATTGCGATCATTTTACCCTAT-GAGGGTATTTCAATCATTT
36633862 TA
64 TA
36633864 CCTTTTGGGG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
66 5 0.09
67 52 0.91
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (67 bp):
TGGTCATTTTACCCTATAAGGGTATTGCGATCATTTTACCCTATGAGGGTATTTCAATCATTTTA
TT
Found at i:36633943 original size:81 final size:81
Alignment explanation
Indices: 36633805--36634023 Score: 289
Period size: 81 Copynumber: 2.7 Consensus size: 81
36633795 TATTTGGTCT
* * * * * * * *
36633805 TTTTACCCTTCAAGGGTATTTCGATCATTTTACCTTTCGAGGGTATTTCAATCATTTTACCTTTT
1 TTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTAT
* *
36633870 GGGGGTATTTCTGTCA
66 GAGGGTATTTCAGTCA
*
36633886 TTTTACCTTTTAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTAT
1 TTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTAT
36633951 GAGGGTATTTCAGTCA
66 GAGGGTATTTCAGTCA
* *
36633967 TTTTA-CTGTTCAGGGGTATTTCGGCCATTTTACCCTTCGGGGGTATTTC-GATTATTT
1 TTTTACCT-TTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAG-TTATTT
36634024 GCCCACAAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.02
81 119 0.98
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (81 bp):
TTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTAT
GAGGGTATTTCAGTCA
Done.