Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 119 of 210
Found at i:35746313 original size:35 final size:36
Alignment explanation
Indices: 35746273--35746355 Score: 116
Period size: 35 Copynumber: 2.3 Consensus size: 36
35746263 CTTCTTGATA
* *
35746273 TTAATTGGAAGAAGTATTGATGTTCT-T-GTAGGATG
1 TTAATTGAAAGAAGTATTGATGTT-TGTGGCAGGATG
*
35746308 TTAATTGAAAGAAGTATTGGTGTTTGTGGCAGGATG
1 TTAATTGAAAGAAGTATTGATGTTTGTGGCAGGATG
35746344 TTAATTGAAAGA
1 TTAATTGAAAGA
35746356 GGACTGGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 1 0.02
35 23 0.53
36 19 0.44
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.37
Consensus pattern (36 bp):
TTAATTGAAAGAAGTATTGATGTTTGTGGCAGGATG
Found at i:35751451 original size:6 final size:6
Alignment explanation
Indices: 35751440--35751549 Score: 80
Period size: 6 Copynumber: 17.3 Consensus size: 6
35751430 AGATCAATTG
* * * *
35751440 AAAGAA AAAGAAAA AAATGAA AATGAGGA AAAG-A AAAGAA AAATAA CAAGAG
1 AAAGAA AAAG--AA AAA-GAA AA--AGAA AAAGAA AAAGAA AAAGAA AAAGAA
* *
35751492 AAAGATA AAAGAA AATGAGA AAAGAA AAAGAA AAA-AA GGAAGAA AAAGAA
1 AAAGA-A AAAGAA AAAGA-A AAAGAA AAAGAA AAAGAA -AAAGAA AAAGAA
35751542 AAAGAA AA
1 AAAGAA AA
35751550 TGAGAAAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
5 7 0.08
6 49 0.59
7 16 0.19
8 9 0.11
9 2 0.02
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:35751480 original size:19 final size:18
Alignment explanation
Indices: 35751449--35751543 Score: 55
Period size: 19 Copynumber: 4.8 Consensus size: 18
35751439 GAAAGAAAAA
* *
35751449 GAAAAAAATGAAAATGAG
1 GAAAAAAAAGAAAATAAG
35751467 GAAAAGAAAAGAAAAATAACAAG
1 GAAAA-AAAAG-AAAAT---AAG
*
35751490 AGAAAGATAAAAGAAAATGAG
1 -GAAA-A-AAAAGAAAATAAG
* *
35751511 AAAAGAAAAAGAAAAAAAG
1 GAAA-AAAAAGAAAATAAG
*
35751530 GAAGAAAAAGAAAA
1 GAAAAAAAAGAAAA
35751544 AGAAAATGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
18 15 0.25
19 17 0.28
20 10 0.16
21 2 0.03
23 2 0.03
24 9 0.15
25 6 0.10
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (18 bp):
GAAAAAAAAGAAAATAAG
Found at i:35751517 original size:24 final size:22
Alignment explanation
Indices: 35751442--35751561 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 22
35751432 ATCAATTGAA
35751442 AGAAAAAGAA-AAAAATGAAAATG
1 AGAAAAA-AAGAAAAA-GAAAATG
* *
35751465 AG--GAAAAG-AAAAGAAAAATA
1 AGAAAAAAAGAAAAAG-AAAATG
* *
35751485 ACAAGAGAAAGATAAAAGAAAATG
1 AGAA-AAAAAGA-AAAAGAAAATG
35751509 AGAAAAGAAA-AAGAAA-AAAA-G
1 AGAAAA-AAAGAA-AAAGAAAATG
35751530 -GAAGAAAAAGAAAAAGAAAATG
1 AGAA-AAAAAGAAAAAGAAAATG
35751552 AGAAAAAAAG
1 AGAAAAAAAG
35751562 TTTGATTGCA
Statistics
Matches: 75, Mismatches: 8, Indels: 29
0.67 0.07 0.26
Matches are distributed among these distances:
19 1 0.01
20 21 0.28
21 11 0.15
22 12 0.16
23 14 0.19
24 11 0.15
25 5 0.07
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (22 bp):
AGAAAAAAAGAAAAAGAAAATG
Found at i:35751518 original size:43 final size:43
Alignment explanation
Indices: 35751441--35751557 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 43
35751431 GATCAATTGA
35751441 AAGAAAAAGAAAAAAATGAAAATGAGGAAAAG-AAAAGAAAAATAA-C
1 AAGAAAAAG--AAAAA-GAAAATGA-GAAAAGAAAAAGAAAAA-AAGC
* *
35751487 AAGAGAAAGATAAAAGAAAATGAGAAAAGAAAAAGAAAAAAAGG
1 AAGAAAAAGA-AAAAGAAAATGAGAAAAGAAAAAGAAAAAAAGC
35751531 AAGAAAAAGAAAAAGAAAATGAGAAAA
1 AAGAAAAAGAAAAAGAAAATGAGAAAA
35751558 AAAGTTTGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
43 25 0.38
44 28 0.43
45 4 0.06
46 8 0.12
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (43 bp):
AAGAAAAAGAAAAAGAAAATGAGAAAAGAAAAAGAAAAAAAGC
Found at i:35759309 original size:24 final size:25
Alignment explanation
Indices: 35759263--35759354 Score: 64
Period size: 25 Copynumber: 3.8 Consensus size: 25
35759253 GTATGCTCAC
* * * *
35759263 ACGAGCTTTGAATCGGTATGCTCTT
1 ACGAGCTGTAAATCGGTAAGCTCCT
35759288 ACGAGCTGTAAAT-GGTAAGCTCCT
1 ACGAGCTGTAAATCGGTAAGCTCCT
* * * *
35759312 CCGAGCTG-AATAACAGTAAGCTCAT
1 ACGAGCTGTAA-ATCGGTAAGCTCCT
* *
35759337 GCAAGCTG-AAATCGGTAA
1 ACGAGCTGTAAATCGGTAA
35759355 CCCTAATGAC
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
23 2 0.04
24 23 0.43
25 28 0.53
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGTAAGCTCCT
Found at i:35760611 original size:11 final size:11
Alignment explanation
Indices: 35760595--35760619 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35760585 GGGTCCCTTT
35760595 ATATACAATAA
1 ATATACAATAA
35760606 ATATACAATAA
1 ATATACAATAA
35760617 ATA
1 ATA
35760620 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:35766359 original size:17 final size:16
Alignment explanation
Indices: 35766326--35766369 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
35766316 TAAGTCTATA
35766326 TTAATTATGTCTTAAT
1 TTAATTATGTCTTAAT
*
35766342 TTAATTAGTGTGTTAA-
1 TTAATTA-TGTCTTAAT
35766358 TTAA-TATGTCTT
1 TTAATTATGTCTT
35766370 GATGTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.20
15 2 0.08
16 11 0.44
17 7 0.28
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (16 bp):
TTAATTATGTCTTAAT
Found at i:35767643 original size:17 final size:16
Alignment explanation
Indices: 35767621--35767671 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
35767611 CAGCAAGCTG
35767621 TAATTGAAAAAAAAAT
1 TAATTGAAAAAAAAAT
35767637 ATAATTGAAGTAAAAAAAT
1 -TAATTGAA--AAAAAAAT
*
35767656 TGAATTTAAAAAAAAA
1 T-AATTGAAAAAAAAA
35767672 GGAGAAGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.50
18 1 0.03
19 14 0.47
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (16 bp):
TAATTGAAAAAAAAAT
Found at i:35769148 original size:90 final size:90
Alignment explanation
Indices: 35768995--35769165 Score: 324
Period size: 90 Copynumber: 1.9 Consensus size: 90
35768985 TAAGGGATGA
*
35768995 AGTTTTCGAGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAATCATAATTTTGCCAAAGTTT
1 AGTTTTCGAGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAATCATAATTTTGCCAAAGTTC
35769060 GAGTCAAGGACTGTTTGAATTTCTG
66 GAGTCAAGGACTGTTTGAATTTCTG
*
35769085 AGTTTTCGAGCAAAAGTGTAAATATGTAAAAGTTTAGGGGCAAAATCATAATTTTGCCAAAGTTC
1 AGTTTTCGAGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAATCATAATTTTGCCAAAGTTC
35769150 GAGTCAAGGACTGTTT
66 GAGTCAAGGACTGTTT
35769166 TGATGAATGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (90 bp):
AGTTTTCGAGCAAAAGTGTAAATATGCAAAAGTTTAGGGGCAAAATCATAATTTTGCCAAAGTTC
GAGTCAAGGACTGTTTGAATTTCTG
Found at i:35769615 original size:50 final size:50
Alignment explanation
Indices: 35769539--35769644 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
35769529 TATTGAGGTT
* * * * *
35769539 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCACATAAGACAATGTCGGGGACATGACATGGGCACTGAG
* *
35769589 ATGAGAGGTGCCC-CGTAAGACAATGTCGGGGACATGACATGGGCACTGAT
1 ATGAGAGGT-CCCACATAAGACAATGTCGGGGACATGACATGGGCACTGAG
35769639 ATGAGA
1 ATGAGA
35769645 ACTCTCATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 45 0.94
51 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACAATGTCGGGGACATGACATGGGCACTGAG
Found at i:35769957 original size:20 final size:20
Alignment explanation
Indices: 35769932--35769970 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35769922 TGAGTTATTT
35769932 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
35769952 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
35769971 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:35772700 original size:25 final size:24
Alignment explanation
Indices: 35772672--35772735 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 24
35772662 ATCCATGGAG
35772672 AAAATGAGAAAAAAAGAAGAAAATA
1 AAAATGAGAAAAAAAGAA-AAAATA
35772697 AAAATGA-AAAAGAAAGAAAAAATA
1 AAAATGAGAAAA-AAAGAAAAAATA
*
35772721 AAAATAGAGAGAAAA
1 AAAAT-GAGAAAAAA
35772736 TAAATCGAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 15 0.43
25 17 0.49
26 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.08
Consensus pattern (24 bp):
AAAATGAGAAAAAAAGAAAAAATA
Found at i:35772707 original size:24 final size:25
Alignment explanation
Indices: 35772672--35772730 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
35772662 ATCCATGGAG
35772672 AAAATGAGAAAA-AAAGAAGAAAATA
1 AAAATGAGAAAAGAAAGAA-AAAATA
35772697 AAAATGA-AAAAGAAAGAAAAAATA
1 AAAATGAGAAAAGAAAGAAAAAATA
35772721 AAAATAGAGA
1 AAAAT-GAGA
35772731 GAAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 15 0.48
25 15 0.48
26 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAATGAGAAAAGAAAGAAAAAATA
Found at i:35772723 original size:17 final size:17
Alignment explanation
Indices: 35772696--35772739 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
35772686 AGAAGAAAAT
35772696 AAAAATGAAAAAGAAAGA
1 AAAAAT-AAAAAGAAAGA
* *
35772714 AAAAATAAAAATAGAGA
1 AAAAATAAAAAGAAAGA
*
35772731 GAAAATAAA
1 AAAAATAAA
35772740 TCGAGTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
AAAAATAAAAAGAAAGA
Found at i:35772733 original size:19 final size:18
Alignment explanation
Indices: 35772683--35772735 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
35772673 AAATGAGAAA
35772683 AAAAGAAGAAA-ATAAAAAT
1 AAAA-AAGAAAGA-AAAAAT
*
35772702 GAAAAAGAAAGAAAAAAT
1 AAAAAAGAAAGAAAAAAT
*
35772720 AAAAATAGAGAGAAAA
1 AAAAA-AGAAAGAAAA
35772736 TAAATCGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAAAGAAAGAAAAAAT
Found at i:35774115 original size:16 final size:17
Alignment explanation
Indices: 35774094--35774126 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35774084 TAAGTCTATA
35774094 TTAATTA-TGTCTTAAT
1 TTAATTAGTGTCTTAAT
*
35774110 TTAATTAGTGTGTTAAT
1 TTAATTAGTGTCTTAAT
35774127 CAATATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (17 bp):
TTAATTAGTGTCTTAAT
Found at i:35791967 original size:23 final size:23
Alignment explanation
Indices: 35791923--35791967 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35791913 TCCTTTGTAA
* *
35791923 TTTTAGTTTTTAGTTTTTCTTTC
1 TTTTAGTTTTTAGGTTTACTTTC
35791946 TTTTAGGTTTTT-GGTTTACTTT
1 TTTTA-GTTTTTAGGTTTACTTT
35791968 TAGTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.71
Consensus pattern (23 bp):
TTTTAGTTTTTAGGTTTACTTTC
Found at i:35796536 original size:23 final size:22
Alignment explanation
Indices: 35796493--35796550 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35796483 AAAGGGTATC
* *
35796493 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35796514 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
35796537 TACATATCATATCT
1 TACAAATCATATCT
35796551 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35796553 original size:19 final size:19
Alignment explanation
Indices: 35796506--35796603 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
35796496 AAATTAAATC
*
35796506 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
35796526 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
35796548 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
35796569 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
35796588 TCTAAGATTACATATC
1 TCTAAGATTACATATC
35796604 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:35796566 original size:21 final size:21
Alignment explanation
Indices: 35796540--35796602 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
35796530 CTAAGATTAC
35796540 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
35796561 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
35796580 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
35796601 AT
1 AT
35796603 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:35797368 original size:14 final size:14
Alignment explanation
Indices: 35797351--35797382 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35797341 TAATAAGAAT
*
35797351 GAAATTAAAGTAAA
1 GAAATTAAAGAAAA
35797365 GAAATTAAAGAAAA
1 GAAATTAAAGAAAA
35797379 GAAA
1 GAAA
35797383 GAGAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
GAAATTAAAGAAAA
Found at i:35806940 original size:24 final size:24
Alignment explanation
Indices: 35806861--35806940 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
35806851 TCTAAAATAA
*
35806861 AAACATATTTTCTTAATTACAAGC
1 AAACATACTTTCTTAATTACAAGC
* *
35806885 -AA-ATACATATTC-TAA-AATAA--
1 AAACATAC-T-TTCTTAATTACAAGC
*
35806905 AAACATATTTTCTTAATTACAAGC
1 AAACATACTTTCTTAATTACAAGC
35806929 AAACATACTTTC
1 AAACATACTTTC
35806941 AAGAGTTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
20 3 0.07
21 6 0.15
22 12 0.29
23 6 0.15
24 14 0.34
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (24 bp):
AAACATACTTTCTTAATTACAAGC
Found at i:35810439 original size:24 final size:24
Alignment explanation
Indices: 35810411--35810458 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
35810401 ATAAAGTGTA
35810411 AGTATCATAAGTTTGAGGAGTAAG
1 AGTATCATAAGTTTGAGGAGTAAG
35810435 AGTATCATAAGTTTGAGGAGTAAG
1 AGTATCATAAGTTTGAGGAGTAAG
35810459 TTGAAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (24 bp):
AGTATCATAAGTTTGAGGAGTAAG
Found at i:35811159 original size:13 final size:13
Alignment explanation
Indices: 35811141--35811170 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35811131 TTGCTGATAG
*
35811141 TTAAATTAGTTAA
1 TTAAATAAGTTAA
35811154 TTAAATAAGTTAA
1 TTAAATAAGTTAA
35811167 TTAA
1 TTAA
35811171 TTTGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAAATAAGTTAA
Found at i:35813992 original size:18 final size:18
Alignment explanation
Indices: 35813936--35813995 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
35813926 AGTGCGAGCG
35813936 AGAAAAAGAAATCGAAAGAAA
1 AGAAAAAGAAATC--AA-AAA
* * **
35813957 AGAATAAGAGATTGAAAA
1 AGAAAAAGAAATCAAAAA
35813975 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
35813993 AGA
1 AGA
35813996 GAGTGAGGTC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 20 0.65
19 1 0.03
21 10 0.32
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.08
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:35815913 original size:28 final size:28
Alignment explanation
Indices: 35815826--35815916 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
35815816 AGTAATAGTA
*
35815826 CAGTGTGAGCCTTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
* * *
35815854 CAATATGGG-CTATAGCCCAATATAGAAT
1 CAGTGTGGGCCT-TAGCCCAATACAGAAT
*
35815882 CAGTGTGGGCCTTAGCCCCATACAGTAA-
1 CAGTGTGGGCCTTAGCCCAATACAG-AAT
35815910 CAGTGTG
1 CAGTGTG
35815917 ACAATTGGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.04
28 46 0.88
29 4 0.08
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGAAT
Found at i:35819116 original size:23 final size:23
Alignment explanation
Indices: 35819084--35819195 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
35819074 CTTTTTGAAC
* *
35819084 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
35819107 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
35819130 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
35819153 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
35819176 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
35819196 CCCAAAACCG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:35819160 original size:46 final size:46
Alignment explanation
Indices: 35819084--35819195 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
35819074 CTTTTTGAAC
* *
35819084 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
35819130 CCTTACCAATTCGTACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
35819176 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
35819196 CCCAAAACCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:35823886 original size:19 final size:20
Alignment explanation
Indices: 35823864--35823908 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
35823854 TTTTTCATTC
*
35823864 TCTTTTTTTGAATTTTC-TT
1 TCTTTTTTTCAATTTTCTTT
*
35823883 TCTTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
35823903 TCTTTT
1 TCTTTT
35823909 GTATTTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:35823923 original size:36 final size:33
Alignment explanation
Indices: 35823852--35823924 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 33
35823842 TTTTCTCATT
**
35823852 TTTTTTTCATTCTCTTTTTTTGAATTTTCTTTC
1 TTTTTTTCATTCTCTTTTTTTGAATTTTCGCTC
* *
35823885 TTTTTTTCATTTTTCTTTTCTTTTGTATTTTCGCTC
1 TTTTTTTCA-TTCTC-TTT-TTTTGAATTTTCGCTC
35823921 TTTT
1 TTTT
35823925 CTTTTTCTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 9 0.27
34 4 0.12
35 3 0.09
36 17 0.52
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (33 bp):
TTTTTTTCATTCTCTTTTTTTGAATTTTCGCTC
Found at i:35825938 original size:14 final size:14
Alignment explanation
Indices: 35825919--35825949 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35825909 AGTGTGGCTT
35825919 AGAAGATGAAGAGA
1 AGAAGATGAAGAGA
*
35825933 AGAAGATGAATAGA
1 AGAAGATGAAGAGA
35825947 AGA
1 AGA
35825950 GAATGGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.10
Consensus pattern (14 bp):
AGAAGATGAAGAGA
Found at i:35826186 original size:17 final size:16
Alignment explanation
Indices: 35826151--35826189 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
35826141 CCATATGCAA
*
35826151 TTTTTTTCTTTCAATT
1 TTTTTTTCTTTCAAAT
*
35826167 TTTTTTTCTTTTGAAAT
1 TTTTTTTC-TTTCAAAT
35826184 TTTTTT
1 TTTTTT
35826190 GAACTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTCTTTCAAAT
Found at i:35826535 original size:22 final size:21
Alignment explanation
Indices: 35826503--35826544 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
35826493 TTGGTATTTA
35826503 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
35826524 GGAATTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
35826545 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:35828564 original size:22 final size:23
Alignment explanation
Indices: 35828518--35828570 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
35828508 CCTTTTTGAA
*
35828518 CCATTTCCATTTTCGTACCAAAT
1 CCATTACCATTTTCGTACCAAAT
**
35828541 CCATTACCATTTT-GTTTCAAAT
1 CCATTACCATTTTCGTACCAAAT
*
35828563 CCCTTACC
1 CCATTACC
35828571 GTTTCATACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (23 bp):
CCATTACCATTTTCGTACCAAAT
Found at i:35834490 original size:14 final size:14
Alignment explanation
Indices: 35834470--35834522 Score: 83
Period size: 12 Copynumber: 3.9 Consensus size: 14
35834460 ACTAGCTCTC
35834470 TTTTTTTTTTCACAA
1 TTTTTTTTTTCA-AA
35834485 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
35834499 --TTTTTTTTCAAA
1 TTTTTTTTTTCAAA
35834511 TTTTTTTTTTCA
1 TTTTTTTTTTCA
35834523 CAACTTGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.33
14 12 0.33
15 12 0.33
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTTTTTCAAA
Found at i:35834603 original size:11 final size:11
Alignment explanation
Indices: 35834561--35834603 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
35834551 AAAGGAAACT
35834561 AGTTTTTTTTCG
1 AGTTTTTTTT-G
*
35834573 AATTTTTTTTG
1 AGTTTTTTTTG
*
35834584 A-ATTTTTTTG
1 AGTTTTTTTTG
35834594 AGTTTTTTTT
1 AGTTTTTTTT
35834604 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 9 0.33
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (11 bp):
AGTTTTTTTTG
Found at i:35838995 original size:15 final size:15
Alignment explanation
Indices: 35838970--35839016 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
35838960 AGAAAAGAAC
35838970 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
35838986 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
35839001 AAA-AAGATGAAAATG
1 AAAGAA-ATGAAAATG
35839016 A
1 A
35839017 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:35839063 original size:12 final size:12
Alignment explanation
Indices: 35839046--35839108 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
35839036 AGTGAAAAGC
*
35839046 AAAAAGAGATTG
1 AAAAAGAAATTG
35839058 AAAAAGAAATTG
1 AAAAAGAAATTG
35839070 AAAAAG-AA--G
1 AAAAAGAAATTG
*
35839079 AAAAAGAAAGAGTGG
1 AAAAAG-AA-A-TTG
35839094 AAAAAGAAATTG
1 AAAAAGAAATTG
35839106 AAA
1 AAA
35839109 GAGAGCCTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 7 0.16
11 3 0.07
12 23 0.53
13 1 0.02
14 2 0.05
15 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (12 bp):
AAAAAGAAATTG
Found at i:35845429 original size:29 final size:29
Alignment explanation
Indices: 35845395--35845467 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
35845385 ATATATTAGT
* *
35845395 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
*
35845424 TTAGGACATATTTAAAGCACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
35845453 TTAGGACATATTTAA
1 TTAGGACATATTTAA
35845468 TAATATCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:35863030 original size:9 final size:9
Alignment explanation
Indices: 35863016--35863051 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
35863006 ATTTATTAAC
35863016 AAACACATT
1 AAACACATT
35863025 AAACACATT
1 AAACACATT
35863034 AAACACATT
1 AAACACATT
35863043 AAACACATT
1 AAACACATT
35863052 TAAGCACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:35863190 original size:19 final size:19
Alignment explanation
Indices: 35863163--35863201 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35863153 TTATTCCAGC
35863163 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
35863182 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
35863201 A
1 A
35863202 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:35863237 original size:53 final size:53
Alignment explanation
Indices: 35863153--35863278 Score: 216
Period size: 53 Copynumber: 2.4 Consensus size: 53
35863143 CAACAATAAA
* *
35863153 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAA-TAACTAAGATGAACTCAATTAACAAAGATGAGTAAT
*
35863207 TTATTCCAGCAACTTAATAACTAAGATGAACTCAATTAACAAAGATGAGTAAT
1 TTATTCCAGCAACTAAATAACTAAGATGAACTCAATTAACAAAGATGAGTAAT
35863260 TTATTCCAGCAACTAAATA
1 TTATTCCAGCAACTAAATA
35863279 CTTATTCCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
53 52 0.76
54 16 0.24
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.30
Consensus pattern (53 bp):
TTATTCCAGCAACTAAATAACTAAGATGAACTCAATTAACAAAGATGAGTAAT
Found at i:35864388 original size:41 final size:41
Alignment explanation
Indices: 35864325--35864450 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
35864315 ACCGGCATCA
* *
35864325 AGCCTAATATAAATCACCGACACAAAGCCTGCTAGGCACAG
1 AGCCTGATATAAATCACCGACACGAAGCCTGCTAGGCACAG
*
35864366 AGCTTGATATAAATCACCGACACGAAGCCTGCTAGGCACTA-
1 AGCCTGATATAAATCACCGACACGAAGCCTGCTAGGCAC-AG
* * * * * *
35864407 AACCTGATATAAATTACTGGCACGAATCCTGCTAGGCACCG
1 AGCCTGATATAAATCACCGACACGAAGCCTGCTAGGCACAG
35864448 AGC
1 AGC
35864451 GGAGCCTGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 71 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (41 bp):
AGCCTGATATAAATCACCGACACGAAGCCTGCTAGGCACAG
Found at i:35864496 original size:25 final size:25
Alignment explanation
Indices: 35864462--35864524 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
35864452 GAGCCTGCTA
*
35864462 GGCATAGAGCCTGATATAAATCACC
1 GGCACAGAGCCTGATATAAATCACC
*
35864487 GGCACAGAGCCTGATATAAATCATC
1 GGCACAGAGCCTGATATAAATCACC
*
35864512 GGCACAAAGCCTG
1 GGCACAGAGCCTG
35864525 CTAGACTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.17
Consensus pattern (25 bp):
GGCACAGAGCCTGATATAAATCACC
Found at i:35866787 original size:12 final size:12
Alignment explanation
Indices: 35866766--35866878 Score: 59
Period size: 12 Copynumber: 8.9 Consensus size: 12
35866756 AAAAACTTAA
*
35866766 TGATTAAAAACT
1 TGATGAAAAACT
*
35866778 TGATGGAAAACT
1 TGATGAAAAACT
35866790 TGATGAAAAACT
1 TGATGAAAAACT
*
35866802 T-A-AAAAGAACT
1 TGATGAAA-AACT
* *
35866813 TAATGCAAAACT
1 TGATGAAAAACT
* *
35866825 TAATAAAAAAAAACT
1 TGAT---GAAAAACT
*
35866840 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
35866855 TGATAAAAGAACT
1 TGATGAAA-AACT
35866868 TGATGAAAAAC
1 TGATGAAAAAC
35866879 ACTTGAAGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.04
11 6 0.08
12 39 0.49
13 13 0.16
14 1 0.01
15 15 0.19
18 2 0.03
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:35866882 original size:14 final size:13
Alignment explanation
Indices: 35866756--35866889 Score: 57
Period size: 12 Copynumber: 10.2 Consensus size: 13
35866746 AGCTTAATTG
*
35866756 AAAAACTTAATGA
1 AAAAACTTGATGA
35866769 TTAAAAACTTGATG-
1 --AAAAACTTGATGA
*
35866783 GAAAACTTGATG-
1 AAAAACTTGATGA
35866795 AAAAACTT-A--A
1 AAAAACTTGATGA
*
35866805 AAAGAACTTAATG-
1 AAA-AACTTGATGA
* * *
35866818 CAAAACTTAATAAAA
1 AAAAACTTGAT--GA
* *
35866833 AAAAACTTGGTAA
1 AAAAACTTGATGA
35866846 TTAAAAACTTGAT-A
1 --AAAAACTTGATGA
35866860 AAAGAACTTGATGA
1 AAA-AACTTGATGA
*
35866874 AAAACACTTGAAGA
1 AAAA-ACTTGATGA
35866888 AA
1 AA
35866890 GAAAACACTT
Statistics
Matches: 96, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
10 3 0.03
11 6 0.06
12 30 0.31
13 13 0.14
14 15 0.16
15 29 0.30
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (13 bp):
AAAAACTTGATGA
Found at i:35882372 original size:50 final size:50
Alignment explanation
Indices: 35882296--35882485 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 50
35882286 CTTGTACTAT
* **
35882296 CAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGC
* * * ** *
35882346 CCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGC
* *
35882396 CAATGCCATGTCCCCGATATGGTCTTACATGGGACCTCTCATAATCTCAATGATGC
1 CAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGC
* * *
35882452 CAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 CAATGCCATGTCCCAGATATGGTCTTACATGGGA
35882486 TCTCATCACC
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 77 0.68
53 2 0.02
56 34 0.30
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
CAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGC
Found at i:35889416 original size:82 final size:81
Alignment explanation
Indices: 35889278--35889499 Score: 277
Period size: 82 Copynumber: 2.7 Consensus size: 81
35889268 ACAGAGCCTG
* * * *
35889278 ATATAAATCACTGCTACTAAGCCTGGTAGGTATAGAGCCTGGTATAAATCACCGGCACCAAGCCT
1 ATATAAATCACTGC-ACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGGCACCAAGCCT
35889343 GCTAGGCACT-GAACCTA
65 GCTAGGCA-TAGAACCTA
* *
35889360 ATATAAATCACTGACACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGGCACGAAGCTT
1 ATATAAATCACTG-CACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGGCACCAAGCCT
*
35889425 GCTAGGCATAGAGCCTA
65 GCTAGGCATAGAACCTA
* * * * *
35889442 ATATAAATCACTGGCACGAAGGCTACTAGGCACTA-AGCCAGATATAAATCATTGGCAC
1 ATATAAATCACT-GCACTAAGCCTGCTAGGCA-TAGAGCCTGATATAAATCATCGGCAC
35889500 GAAACCTAGT
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
81 1 0.01
82 119 0.96
83 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (81 bp):
ATATAAATCACTGCACTAAGCCTGCTAGGCATAGAGCCTGATATAAATCATCGGCACCAAGCCTG
CTAGGCATAGAACCTA
Found at i:35889498 original size:41 final size:41
Alignment explanation
Indices: 35889270--35889591 Score: 246
Period size: 41 Copynumber: 7.9 Consensus size: 41
35889260 ACACCGACAC
* * * *
35889270 AGAGCCTGATATAAATCACT-GCTACTAAGCCTGGTAGGTAT
1 AGAGCCTAATATAAATCACTGGC-ACGAAGCCTGCTAGGCAT
** * *
35889311 AGAGCCTGGTATAAATCACCGGCACCAAGCCTGCTAGGCACT
1 AGAGCCTAATATAAATCACTGGCACGAAGCCTGCTAGGCA-T
* * *
35889353 -GAACCTAATATAAATCACTGACACTAAGCCTGCTAGGCAT
1 AGAGCCTAATATAAATCACTGGCACGAAGCCTGCTAGGCAT
* *
35889393 AGAGCCTGATATAAATCA-TCGGCACGAAGCTTGCTAGGCAT
1 AGAGCCTAATATAAATCACT-GGCACGAAGCCTGCTAGGCAT
* *
35889434 AGAGCCTAATATAAATCACTGGCACGAAGGCTACTAGGCACT
1 AGAGCCTAATATAAATCACTGGCACGAAGCCTGCTAGGCA-T
* * * *
35889476 A-AGCC-AGATATAAATCATTGGCACGAAACCTAG-TATGCAC
1 AGAGCCTA-ATATAAATCACTGGCACGAAGCCT-GCTAGGCAT
* * * * * * * *
35889516 AGAGCCTGATAGAACATGC-C-GACACGGAGTCTACTAGACAC
1 AGAGCCTAATATAA-AT-CACTGGCACGAAGCCTGCTAGGCAT
* * *
35889557 AAAGCCTGATATAAATCACTGGCATGAAGCCTGCT
1 AGAGCCTAATATAAATCACTGGCACGAAGCCTGCT
35889592 GGACTCAAAG
Statistics
Matches: 223, Mismatches: 43, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
39 1 0.00
40 7 0.03
41 206 0.92
42 8 0.04
43 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (41 bp):
AGAGCCTAATATAAATCACTGGCACGAAGCCTGCTAGGCAT
Found at i:35889520 original size:123 final size:123
Alignment explanation
Indices: 35889267--35889526 Score: 303
Period size: 123 Copynumber: 2.1 Consensus size: 123
35889257 ATTACACCGA
* * * * **
35889267 CACAGAGCCTGATATAAATCACTGCTACTAAGCCTGGTAGGTATAGAGCCTGGTATAAATCACCG
1 CACAGAGCCTGATATAAATCACGGCTACGAAGCCTGCTAGGCATAGAGCCTAATATAAATCACCG
* * *
35889332 GCACCAAGCCTGCTAGGCACTGAACCTAATATAAATCACTGACACTAAGCCTGCTAGG
66 GCACCAAGCCTACTAGGCACTGAACCTAATATAAATCACTGACACGAAACCTGCTAGG
* * *
35889390 CATAGAGCCTGATATAAATCATCGGC-ACGAAGCTTGCTAGGCATAGAGCCTAATATAAATCACT
1 CACAGAGCCTGATATAAATCA-CGGCTACGAAGCCTGCTAGGCATAGAGCCTAATATAAATCACC
* * * * *
35889454 GGCACGAAGGCTACTAGGCACT-AAGCC-AGATATAAATCATTGGCACGAAACCTAG-TATG
65 GGCACCAAGCCTACTAGGCACTGAA-CCTA-ATATAAATCACTGACACGAAACCT-GCTAGG
35889513 CACAGAGCCTGATA
1 CACAGAGCCTGATA
35889527 GAACATGCCG
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
122 3 0.03
123 108 0.94
124 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (123 bp):
CACAGAGCCTGATATAAATCACGGCTACGAAGCCTGCTAGGCATAGAGCCTAATATAAATCACCG
GCACCAAGCCTACTAGGCACTGAACCTAATATAAATCACTGACACGAAACCTGCTAGG
Found at i:35890426 original size:20 final size:20
Alignment explanation
Indices: 35890403--35890441 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35890393 AGATGATGCT
*
35890403 ATTTTGCCTTATTAAATTAA
1 ATTTTGACTTATTAAATTAA
* *
35890423 ATTTTTACTTATTTAATTA
1 ATTTTGACTTATTAAATTA
35890442 CTTATTTAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTGACTTATTAAATTAA
Found at i:35892717 original size:12 final size:11
Alignment explanation
Indices: 35892693--35892732 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
35892683 ACGAGATTGT
35892693 AAAAAAAA-T-
1 AAAAAAAATTC
35892702 AAAAAAAATTC
1 AAAAAAAATTC
35892713 GAAAAAAAATTC
1 -AAAAAAAATTC
35892725 AAAAAAAA
1 AAAAAAAA
35892733 AGTTTGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.29
10 1 0.04
11 8 0.29
12 11 0.39
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:35893917 original size:23 final size:23
Alignment explanation
Indices: 35893882--35893993 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
35893872 CGGTTTTGGG
* *
35893882 TTTGTTACGAAATGGTAATGTGA
1 TTTGGTACGAAATGGTAATGCGA
* * *
35893905 TTTGGTTCAAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGCGA
* * *
35893928 TTTGGTACGAATTGGTAAGGTGA
1 TTTGGTACGAAATGGTAATGCGA
* *
35893951 TTTGGTTCGAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGCGA
*
35893974 TTTGGTACGAAATGTTAATG
1 TTTGGTACGAAATGGTAATG
35893994 GTTCAAAAAG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (23 bp):
TTTGGTACGAAATGGTAATGCGA
Found at i:35893944 original size:46 final size:46
Alignment explanation
Indices: 35893882--35893993 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
35893872 CGGTTTTGGG
*
35893882 TTTGTTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
* * *
35893928 TTTGGTACGAATTGGTAAGGTGATTTGGTTCGAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
*
35893974 TTTGGTACGAAATGTTAATG
1 TTTGGTACGAAATGGTAATG
35893994 GTTCAAAAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (46 bp):
TTTGGTACGAAATGGTAATGTGATTTGGTTCAAAATGGTAATACGA
Found at i:35905264 original size:16 final size:17
Alignment explanation
Indices: 35905235--35905267 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35905225 TTAACTGTCA
35905235 AATTAAATTAAATTAAT
1 AATTAAATTAAATTAAT
*
35905252 AATT-AATTTAATTAAT
1 AATTAAATTAAATTAAT
35905268 CTTACGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAATTAAATTAAT
Found at i:35913552 original size:41 final size:41
Alignment explanation
Indices: 35913506--35913608 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 41
35913496 GCTTTTAGCT
* * * * * *
35913506 TGCTAGACTTATAGTCCGAATTGTTTCACCGGCATTAAGCC
1 TGCTAGACATAAAGTCCGAAATATTTCACCGGCATCAAACC
* *
35913547 TGCTAGACATAAAGTCTGAAATATTTCACCGGCGTCAAACC
1 TGCTAGACATAAAGTCCGAAATATTTCACCGGCATCAAACC
** *
35913588 TGCTAGATGTAAAGTCTGAAA
1 TGCTAGACATAAAGTCCGAAA
35913609 CATTCGATCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
TGCTAGACATAAAGTCCGAAATATTTCACCGGCATCAAACC
Found at i:35914430 original size:10 final size:10
Alignment explanation
Indices: 35914415--35914478 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
35914405 CATGCGGTTC
35914415 AGCTCATTCG
1 AGCTCATTCG
35914425 AGCTCAATTC-
1 AGCTC-ATTCG
* *
35914435 AGCTTATTCA
1 AGCTCATTCG
35914445 AGCTCATTCG
1 AGCTCATTCG
35914455 AGCTCAATTC-
1 AGCTC-ATTCG
35914465 AGCTCATT-G
1 AGCTCATTCG
35914474 AGCTC
1 AGCTC
35914479 GTTATTAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
9 12 0.26
10 27 0.57
11 8 0.17
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (10 bp):
AGCTCATTCG
Found at i:35926542 original size:35 final size:35
Alignment explanation
Indices: 35926496--35926621 Score: 191
Period size: 35 Copynumber: 3.6 Consensus size: 35
35926486 TAACACAATG
*
35926496 GCATGTTTAACATGC-AAGTCATAATCAAAATAATA
1 GCATGCTTAACATGCGAA-TCATAATCAAAATAATA
35926531 GCATGCTTAACATGCGAATCATAATCAAAATAATA
1 GCATGCTTAACATGCGAATCATAATCAAAATAATA
* * *
35926566 GAATGCTTAACATGCGAATCATAACCAGAATAATA
1 GCATGCTTAACATGCGAATCATAATCAAAATAATA
*
35926601 GCATGCTTAACATACGAATCA
1 GCATGCTTAACATGCGAATCA
35926622 AAATATCAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 82 0.98
36 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATCATAATCAAAATAATA
Found at i:35928223 original size:235 final size:234
Alignment explanation
Indices: 35927932--35928413 Score: 704
Period size: 235 Copynumber: 2.1 Consensus size: 234
35927922 GCAAAATGTA
* *
35927932 GAAA-AAT-GGGTGGTGGTAGGAGGAGGATAAAAGAGAAAAAAGATGAGATAAGGAGAATAAAAA
1 GAAACAATGGGGTGGTGGTAGGAGGAAGAGAAAAGAGAAAAAAGATGAGATAAGGAGAATAAAAA
35927995 TAAAAATGAAGATTT-AGGGGTATCTAGGTGCATGGTCGGCCAAGGTACGATAAG-GGGAGAGAA
66 TAAAAATGAAGATTTGA-GGGTATCTAGGTGCATGGTCGGCCAAGGTACGATAAGTGGG-GAGAA
* *
35928058 TTTGGCAATAGGGGGAACATAGGCACCGAAAGTGGATCATGGAGTGAAAAGGGGAGGTATTGGGG
129 TTTGGCAATAGGGGGAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGAG-GGTATTGGGG
** * *
35928123 GAAAATTGACTC-CTCAATAGAGGAAATAATCTTCCCCACAAG
193 GAAAATCAACTCAC-CAAAAGAGGAAAGAATCTTCCCCACAAG
* * *
35928165 GAAACAATGGGGTGGTGGTAGGAGGAAGAGAAAAGATAAAAAATATGAGATGAGGAGAATAAAAA
1 GAAACAATGGGGTGGTGGTAGGAGGAAGAGAAAAGAGAAAAAAGATGAGATAAGGAGAATAAAAA
* * * *
35928230 TAAAAATGAAGATTTGAGGGTATGTAGGTGCATGGTTGGCCAAGGTATGGTAAGTGGGGAGAATT
66 TAAAAATGAAGATTTGAGGGTATCTAGGTGCATGGTCGGCCAAGGTACGATAAGTGGGGAGAATT
* * **
35928295 TGGCAATAGGGGGAACATAGGCACCAAAAGTGGATCATTGAGTGGAACTGAGGGTATTGGGGGAA
131 TGGCAATAGGGGGAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGAGGGTATTGGGGGAA
*
35928360 AATCAACTCACCAAAAGAGGAAAGGATCTTCCCCACAAG
196 AATCAACTCACCAAAAGAGGAAAGAATCTTCCCCACAAG
*
35928399 GCAACAATGGGGTGG
1 GAAACAATGGGGTGG
35928414 ACGGCAAGGG
Statistics
Matches: 223, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
233 4 0.02
234 62 0.28
235 153 0.69
236 4 0.02
ACGTcount: A:0.39, C:0.10, G:0.33, T:0.18
Consensus pattern (234 bp):
GAAACAATGGGGTGGTGGTAGGAGGAAGAGAAAAGAGAAAAAAGATGAGATAAGGAGAATAAAAA
TAAAAATGAAGATTTGAGGGTATCTAGGTGCATGGTCGGCCAAGGTACGATAAGTGGGGAGAATT
TGGCAATAGGGGGAACATAGGCACCAAAAGTGGATCATGGAGTGAAAAGGAGGGTATTGGGGGAA
AATCAACTCACCAAAAGAGGAAAGAATCTTCCCCACAAG
Found at i:35930182 original size:23 final size:23
Alignment explanation
Indices: 35930156--35930221 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
35930146 CTAGATCTCA
*
35930156 CCACAAAGGCTTCACAGAATATG
1 CCACAAAGGCTTCACAAAATATG
* *
35930179 CCACAATGACTTCACAAAATATG
1 CCACAAAGGCTTCACAAAATATG
* *
35930202 CTACAAAGGCTTTACAAAAT
1 CCACAAAGGCTTCACAAAAT
35930222 TTTGTGTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.21
Consensus pattern (23 bp):
CCACAAAGGCTTCACAAAATATG
Found at i:35937241 original size:37 final size:37
Alignment explanation
Indices: 35937187--35937257 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
35937177 AACGAAAGAA
35937187 AGATTCCACACAGTATCGTAGTGTCACCCCGCTTATT
1 AGATTCCACACAGTATCGTAGTGTCACCCCGCTTATT
*
35937224 AGATTCTACACTA-TATCGTAGTGTCACCCCGCTT
1 AGATTCCACAC-AGTATCGTAGTGTCACCCCGCTT
35937258 CTTATGTCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (37 bp):
AGATTCCACACAGTATCGTAGTGTCACCCCGCTTATT
Found at i:35938198 original size:19 final size:20
Alignment explanation
Indices: 35938161--35938198 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
35938151 GTGTTACTTA
**
35938161 ATGCATGACTTAATTTAATG
1 ATGCATGACTTAAACTAATG
35938181 ATGCA-GACTTAAACTAAT
1 ATGCATGACTTAAACTAAT
35938199 ATGGGAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGCATGACTTAAACTAATG
Found at i:35940809 original size:11 final size:11
Alignment explanation
Indices: 35940792--35940836 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
35940782 GTAGTTCTTC
35940792 AAAAAAAATTT
1 AAAAAAAATTT
*
35940803 GAAAAAAAAATTC
1 --AAAAAAAATTT
35940816 AAAAAAAATTT
1 AAAAAAAATTT
35940827 CAAAAAAAAT
1 -AAAAAAAAT
35940837 GGTTTCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.34
12 9 0.31
13 10 0.34
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAAAAAATTT
Found at i:35940842 original size:15 final size:12
Alignment explanation
Indices: 35940789--35940836 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
35940779 ATAGTAGTTC
35940789 TTCAAAAAAAAT
1 TTCAAAAAAAAT
* *
35940801 TTGAAAAAAAAA
1 TTCAAAAAAAAT
35940813 TTCAAAAAAAAT
1 TTCAAAAAAAAT
35940825 TTCAAAAAAAAT
1 TTCAAAAAAAAT
35940837 GGTTTCCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (12 bp):
TTCAAAAAAAAT
Found at i:35940896 original size:15 final size:16
Alignment explanation
Indices: 35940873--35940915 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
35940863 GATATCAAGT
*
35940873 TGAAAAAAAAAATTCG
1 TGAAAAAAAAATTTCG
35940889 TGAAAAAAAAATTTCG
1 TGAAAAAAAAATTTCG
35940905 TGAAAAAAAAA
1 TGAAAAAAAAA
35940916 GAAGAAGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (16 bp):
TGAAAAAAAAATTTCG
Found at i:35948110 original size:30 final size:27
Alignment explanation
Indices: 35948074--35948130 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
35948064 TTTTTTTTAC
*
35948074 TCGATTTCTCTACTTTCTTCAATTTCTTTT
1 TCGATTT-TCT-CTTT-TTCAATTCCTTTT
*
35948104 TCGATTTTCTCTTTTTCACTTCCTTTT
1 TCGATTTTCTCTTTTTCAATTCCTTTT
35948131 ACAATCTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 4 0.16
29 3 0.12
30 7 0.28
ACGTcount: A:0.11, C:0.25, G:0.04, T:0.61
Consensus pattern (27 bp):
TCGATTTTCTCTTTTTCAATTCCTTTT
Found at i:35948226 original size:33 final size:33
Alignment explanation
Indices: 35948188--35948261 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
35948178 CTCTCACTTC
*
35948188 TCTTTTTCTTTTCTCA-TTTCCATTCTCTTTTT-T
1 TCTTTTTCTTTT-TCACTTGCC-TTCTCTTTTTCT
*
35948221 TCTTTTTCTTTTTCACTTGCCTTTTCTTTTTCT
1 TCTTTTTCTTTTTCACTTGCCTTCTCTTTTTCT
35948254 TCTTTTTC
1 TCTTTTTC
35948262 GATTTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 12 0.32
33 25 0.68
ACGTcount: A:0.04, C:0.24, G:0.01, T:0.70
Consensus pattern (33 bp):
TCTTTTTCTTTTTCACTTGCCTTCTCTTTTTCT
Found at i:35950247 original size:10 final size:10
Alignment explanation
Indices: 35950234--35950271 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
35950224 ACCTCACGCG
*
35950234 AGCTCAAGTC
1 AGCTCAATTC
35950244 AGCTC-ATTC
1 AGCTCAATTC
35950253 AAGCTCAATTC
1 -AGCTCAATTC
35950264 AGCTCAAT
1 AGCTCAAT
35950272 CTTAACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.72
11 4 0.16
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:35950989 original size:22 final size:21
Alignment explanation
Indices: 35950960--35951007 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
35950950 AAGCATGAAC
*
35950960 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAATT-GTG
* *
35950981 TGAACATTTTTATTAATTGTG
1 TGAACATTTTAATGAATTGTG
35951002 TGAACA
1 TGAACA
35951008 CATAGATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAATTGTG
Found at i:35952843 original size:14 final size:15
Alignment explanation
Indices: 35952824--35952875 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 15
35952814 AATGAAATCG
35952824 AGAAATGAAA-AAAA
1 AGAAATGAAAGAAAA
35952838 AGAAATGAAAGAAAA
1 AGAAATGAAAGAAAA
*
35952853 AGAACAAGAAATCGAAAA
1 AGAA-ATGAAA--GAAAA
35952871 AGAAA
1 AGAAA
35952876 ATGAGAGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 10 0.30
15 8 0.24
16 5 0.15
17 1 0.03
18 9 0.27
ACGTcount: A:0.73, C:0.04, G:0.17, T:0.06
Consensus pattern (15 bp):
AGAAATGAAAGAAAA
Found at i:35956141 original size:20 final size:20
Alignment explanation
Indices: 35956095--35956143 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
35956085 TTTAACTTAG
* *
35956095 TTCAGCCCACTCGAGCTCAA
1 TTCAGCTCACTCGAGCACAA
* * *
35956115 GTAAGCTCATTCGAGCACAA
1 TTCAGCTCACTCGAGCACAA
35956135 TTCAGCTCA
1 TTCAGCTCA
35956144 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (20 bp):
TTCAGCTCACTCGAGCACAA
Found at i:35957934 original size:6 final size:6
Alignment explanation
Indices: 35957925--35958047 Score: 77
Period size: 6 Copynumber: 20.0 Consensus size: 6
35957915 AATGAAAAAG
* ** * *
35957925 AAGAAA AAGAAA AGGAAA GTGAAA AAGAAA TAGAAA ACGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
** * * ** *
35957973 AAGAAA TTGTAA AAGAAAA AAGAAA TA-AAA AAGTGA GAGAAA AAGAAA
1 AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* *
35958021 ACGAAGA ATAGAAA ATTGAAA AAGAAA
1 AAGAA-A A-AGAAA A-AGAAA AAGAAA
35958048 TTGAGAATGA
Statistics
Matches: 86, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
5 4 0.05
6 64 0.74
7 15 0.17
8 3 0.03
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.08
Consensus pattern (6 bp):
AAGAAA
Found at i:35958046 original size:27 final size:28
Alignment explanation
Indices: 35958011--35958078 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 28
35958001 AAAAGTGAGA
35958011 GAAAAAGAAAACGAAGAAT-AG-AAAATT
1 GAAAAAGAAAACG-AGAATGAGAAAAATT
**
35958038 GAAAAAGAAATTGAGAATGAGAAAAAAATT
1 GAAAAAGAAAACGAGAATGAG--AAAAATT
35958068 GAAAAAGAAAA
1 GAAAAAGAAAA
35958079 AAATGTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.15
27 13 0.38
30 16 0.47
ACGTcount: A:0.68, C:0.01, G:0.19, T:0.12
Consensus pattern (28 bp):
GAAAAAGAAAACGAGAATGAGAAAAATT
Found at i:35958078 original size:16 final size:17
Alignment explanation
Indices: 35958057--35958095 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
35958047 ATTGAGAATG
35958057 AGAAAAAAA-TTGAAAA
1 AGAAAAAAAGTTGAAAA
35958073 AGAAAAAAATGTTGAAAA
1 AGAAAAAAA-GTTGAAAA
35958091 AGAAA
1 AGAAA
35958096 CGAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AGAAAAAAAGTTGAAAA
Found at i:35959740 original size:20 final size:20
Alignment explanation
Indices: 35959717--35959766 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35959707 GCAAGCTGAC
*
35959717 TTAGCTCAAATTTAGCTCG-T
1 TTAGCTCAAA-TAAGCTCGAT
*
35959737 TTAGCTTAAATAAGCTCGAT
1 TTAGCTCAAATAAGCTCGAT
35959757 TCTAGCTCAA
1 T-TAGCTCAA
35959767 TGAACTCGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (20 bp):
TTAGCTCAAATAAGCTCGAT
Found at i:35960160 original size:27 final size:27
Alignment explanation
Indices: 35960120--35960171 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
35960110 TGTTTGTAGG
*
35960120 TACATGCATAGACAGCATTGAAGATAA
1 TACATGCATAGACAGCAATGAAGATAA
*
35960147 TACATGCATGGACAGCAATGAAGAT
1 TACATGCATAGACAGCAATGAAGAT
35960172 GCTTCAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (27 bp):
TACATGCATAGACAGCAATGAAGATAA
Found at i:35965186 original size:17 final size:17
Alignment explanation
Indices: 35965166--35965198 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35965156 CGTCAAGCGG
35965166 TACTATTTGCCAGGTGA
1 TACTATTTGCCAGGTGA
35965183 TACTATTTGCCAGGTG
1 TACTATTTGCCAGGTG
35965199 CTACAGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (17 bp):
TACTATTTGCCAGGTGA
Found at i:35967093 original size:20 final size:20
Alignment explanation
Indices: 35967070--35967116 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35967060 GGGTTAAAAT
*
35967070 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
35967090 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
35967110 TGAGCTG
1 TGAGCTG
35967117 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:35986198 original size:90 final size:86
Alignment explanation
Indices: 35986033--35986213 Score: 229
Period size: 90 Copynumber: 2.1 Consensus size: 86
35986023 AACAACTATG
* *
35986033 GAATTAAACAACCACTACGGAATTTCTATTTCGATATGGGTAACATTAAGCTATACAGCAAGCAT
1 GAATTAAACAACCACTACGGAATTTCTATTTCGATACGGGTAACATTAAGCTATAAAGCAAGCAT
** *
35986098 AAGATTATTTCTATTTGGCCA
66 AAGACCATTTCTATTTGCCCA
* * *
35986119 GAATTAAACAACCACTACGGAATCACTT-TCAGTTTCGATACGTGTAATATTAAGTTATAAAGCA
1 GAATTAAACAACCACTACGGAAT---TTCT-A-TTTCGATACGGGTAACATTAAGCTATAAAGCA
35986183 AGCATAAGACCATTTCTATTTGCCCA
61 AGCATAAGACCATTTCTATTTGCCCA
*
35986209 TAATT
1 GAATT
35986214 CCGTTTCAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
86 23 0.28
88 1 0.01
89 3 0.04
90 54 0.67
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (86 bp):
GAATTAAACAACCACTACGGAATTTCTATTTCGATACGGGTAACATTAAGCTATAAAGCAAGCAT
AAGACCATTTCTATTTGCCCA
Found at i:35987138 original size:24 final size:24
Alignment explanation
Indices: 35987111--35987187 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
35987101 AGTGCAAGCC
35987111 ATATTCCATCATTATTTGCAGCTA
1 ATATTCCATCATTATTTGCAGCTA
* * *
35987135 ATA-TGCAT-ATATACTAGTGCAAGC-C
1 ATATTCCATCAT-TA-T-TTGC-AGCTA
35987160 ATATTCCATCATTATTTGCAGCTA
1 ATATTCCATCATTATTTGCAGCTA
35987184 ATAT
1 ATAT
35987188 GCATTCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 2 0.05
23 9 0.22
24 11 0.28
25 7 0.17
26 9 0.22
27 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (24 bp):
ATATTCCATCATTATTTGCAGCTA
Found at i:35987148 original size:49 final size:49
Alignment explanation
Indices: 35987092--35987191 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
35987082 AAAAAGAAAG
35987092 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
1 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
35987141 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
1 ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
35987190 AT
1 AT
35987192 TCATTTGAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (49 bp):
ATATATACTAGTGCAAGCCATATTCCATCATTATTTGCAGCTAATATGC
Found at i:36006363 original size:21 final size:21
Alignment explanation
Indices: 36006321--36006363 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
36006311 ATATGCACTT
*
36006321 AAGGCAATTATAATTCAAAAC
1 AAGGCAATTACAATTCAAAAC
*
36006342 AAGGGAATTACAA-TCAACAAC
1 AAGGCAATTACAATTCAA-AAC
36006363 A
1 A
36006364 GCAAAACTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (21 bp):
AAGGCAATTACAATTCAAAAC
Found at i:36008410 original size:28 final size:29
Alignment explanation
Indices: 36008374--36008433 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
36008364 CTTTGGTACT
*
36008374 TTTTC-TTTTCGCTGTATACCTTTCGATC
1 TTTTCTTTTTCACTGTATACCTTTCGATC
*
36008402 TTTTGTTTTTCACTGTATACCTTTCGATC
1 TTTTCTTTTTCACTGTATACCTTTCGATC
36008431 TTT
1 TTT
36008434 GTAATGCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.12, C:0.22, G:0.10, T:0.57
Consensus pattern (29 bp):
TTTTCTTTTTCACTGTATACCTTTCGATC
Found at i:36012944 original size:18 final size:18
Alignment explanation
Indices: 36012921--36012955 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36012911 ATTAAAAAAC
36012921 ATCAGA-TCACAAAGAATA
1 ATCAGATTCA-AAAGAATA
36012939 ATCAGATTCAAAAGAAT
1 ATCAGATTCAAAAGAAT
36012956 TCTAGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.20
Consensus pattern (18 bp):
ATCAGATTCAAAAGAATA
Found at i:36019112 original size:18 final size:18
Alignment explanation
Indices: 36019089--36019124 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
36019079 AGATTAAAAA
36019089 AATCAGA-TCACAAAGAAT
1 AATCAGATTCA-AAAGAAT
36019107 AATCAGATTCAAAAGAAT
1 AATCAGATTCAAAAGAAT
36019125 TCTAGGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (18 bp):
AATCAGATTCAAAAGAAT
Found at i:36045685 original size:104 final size:103
Alignment explanation
Indices: 36045392--36045762 Score: 609
Period size: 105 Copynumber: 3.6 Consensus size: 103
36045382 TAGCCGTTAT
** *
36045392 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
36045457 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
36045495 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
36045560 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
36045599 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
36045664 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
36045704 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
36045763 TTTATATACA
Statistics
Matches: 254, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
103 78 0.31
104 86 0.34
105 89 0.35
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:36046124 original size:29 final size:29
Alignment explanation
Indices: 36046091--36046154 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
36046081 TAATCCACCA
36046091 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
36046120 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
36046150 CCCAA
1 CCCAA
36046155 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:36046128 original size:30 final size:30
Alignment explanation
Indices: 36046098--36046154 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36046088 CCACCCAACT
36046098 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
36046127 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
36046155 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:36056965 original size:18 final size:19
Alignment explanation
Indices: 36056930--36056968 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
36056920 TTTGTCTTGG
36056930 TTTTCTTGTAATGCAACCT
1 TTTTCTTGTAATGCAACCT
36056949 TTTTCTT-TAAGTG-AACCT
1 TTTTCTTGTAA-TGCAACCT
36056967 TT
1 TT
36056969 GGAACACCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (19 bp):
TTTTCTTGTAATGCAACCT
Found at i:36066379 original size:44 final size:45
Alignment explanation
Indices: 36066319--36066461 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
36066309 GGAGCAGGTT
*
36066319 GAAGATAGCAGATCTTGCCTTCCTCTATCGACAGTGAAGCAGATC
1 GAAGATACCAGATCTTGCCTTCCTCTATCGACAGTGAAGCAGATC
* ** * * * *
36066364 GAAGATACCAG-TCTTGCCTCCCTCGGT-GGCAGTGGAGCAGGTT
1 GAAGATACCAGATCTTGCCTTCCTCTATCGACAGTGAAGCAGATC
* * * * *
36066407 GAAGATAGCAGATCTTGCCTTCTTGTA-CTGACGGCGAAGCAGATC
1 GAAGATACCAGATCTTGCCTTCCTCTATC-GACAGTGAAGCAGATC
*
36066452 AAAGATACCA
1 GAAGATACCA
36066462 TCCCTATCTC
Statistics
Matches: 73, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
43 22 0.30
44 23 0.32
45 28 0.38
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (45 bp):
GAAGATACCAGATCTTGCCTTCCTCTATCGACAGTGAAGCAGATC
Found at i:36066411 original size:43 final size:44
Alignment explanation
Indices: 36066288--36066426 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 44
36066278 ATCACAAATC
* * *
36066288 CTTGCCTCCATCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGAT
* ** * * * * *
36066332 CTTGCCTTCCTCTATCGACAGTGAAGCAGATCGAAGATACCAG-T
1 CTTGCCTCCCTCGGT-GGCAGTGGAGCAGGTTGAAGATAGCAGAT
36066376 CTTGCCTCCCTCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGAT
36066420 CTTGCCT
1 CTTGCCT
36066427 TCTTGTACTG
Statistics
Matches: 74, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
43 22 0.30
44 32 0.43
45 20 0.27
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:36066446 original size:88 final size:88
Alignment explanation
Indices: 36066288--36066461 Score: 260
Period size: 88 Copynumber: 2.0 Consensus size: 88
36066278 ATCACAAATC
* *
36066288 CTTGCCTCCATCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATCGACAG
1 CTTGCCTCCATCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATCGACAG
* *
36066353 TGAAGCAGATCGAAGATACCAGT
66 CGAAGCAGATCAAAGATACCAGT
* * * *
36066376 CTTGCCTCCCTCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGTA-CTGACG
1 CTTGCCTCCATCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATC-GACA
36066440 GCGAAGCAGATCAAAGATACCA
65 GCGAAGCAGATCAAAGATACCA
36066462 TCCCTATCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 76 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (88 bp):
CTTGCCTCCATCGGTGGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATCGACAG
CGAAGCAGATCAAAGATACCAGT
Found at i:36066484 original size:88 final size:88
Alignment explanation
Indices: 36066306--36066487 Score: 208
Period size: 88 Copynumber: 2.1 Consensus size: 88
36066296 CATCGGTTGT
* *
36066306 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATCGACAGTGAAGCAGATCGAAGATA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATCGACAGCGAAGCAGATCAAAGATA
* * ***
36066371 CCAGTCTTGCCTCCCTCGGTGGC
66 CCAGTCCTACCTCCCTCGCCAGC
* * *
36066394 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGTA-CTGACGGCGAAGCAGATCAAAGAT
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATC-GACAGCGAAGCAGATCAAAGAT
* *
36066458 ACCA-TCCCTATCTCTCT-GACCAGC
65 ACCAGT-CCTACCTCCCTCG-CCAGC
36066482 AGTGGA
1 AGTGGA
36066488 ATAGGTGGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
87 3 0.04
88 76 0.96
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTCTATCGACAGCGAAGCAGATCAAAGATA
CCAGTCCTACCTCCCTCGCCAGC
Found at i:36066569 original size:88 final size:88
Alignment explanation
Indices: 36066464--36066649 Score: 318
Period size: 88 Copynumber: 2.1 Consensus size: 88
36066454 AGATACCATC
* *
36066464 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCATATCTCCCTGACCAGCAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCATATCTCCCTGACCAACAGT
36066529 GGAATAGGTCGAAGATTACAAGT
66 GGAATAGGTCGAAGATTACAAGT
* *
36066552 CCTACCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCTTATCTCCCTGACCAACAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCATATCTCCCTGACCAACAGT
* *
36066617 GGAATAGGTTGAAGATTACGAGT
66 GGAATAGGTCGAAGATTACAAGT
36066640 CCTATCTCCC
1 CCTATCTCCC
36066650 CGACGTTGCA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (88 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCATATCTCCCTGACCAACAGT
GGAATAGGTCGAAGATTACAAGT
Found at i:36066646 original size:44 final size:44
Alignment explanation
Indices: 36066464--36066649 Score: 264
Period size: 44 Copynumber: 4.2 Consensus size: 44
36066454 AGATACCATC
* **
36066464 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
* *
36066508 CATATCTCCCTGACCAGCAGTGGAATAGGTCGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
* **
36066552 CCTACCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
* * * *
36066596 CTTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTACGAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
36066640 CCTATCTCCC
1 CCTATCTCCC
36066650 CGACGTTGCA
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 124 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
Found at i:36075322 original size:23 final size:23
Alignment explanation
Indices: 36075290--36075401 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
36075280 CTTTTTGAAC
* *
36075290 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
36075313 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
36075336 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* * *
36075359 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
36075382 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
36075402 CCCAAAACTG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:36075366 original size:46 final size:46
Alignment explanation
Indices: 36075290--36075401 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
36075280 CTTTTTGAAC
* *
36075290 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
36075336 CCTTACCAATTCGTACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
36075382 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
36075402 CCCAAAACTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:36082088 original size:10 final size:11
Alignment explanation
Indices: 36082073--36082101 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
36082063 ACGAGATTGT
36082073 AAAAAAAATC-
1 AAAAAAAATCG
36082083 AAAAAAAATCG
1 AAAAAAAATCG
36082094 AAAAAAAA
1 AAAAAAAA
36082102 ATCTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:36082815 original size:15 final size:16
Alignment explanation
Indices: 36082789--36082818 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36082779 CCTCAACGGT
36082789 TCCAACGAAATCGAGC
1 TCCAACGAAATCGAGC
36082805 TCCAA-GAAATCGAG
1 TCCAACGAAATCGAG
36082819 ATCATCCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (16 bp):
TCCAACGAAATCGAGC
Found at i:36084191 original size:14 final size:14
Alignment explanation
Indices: 36084172--36084226 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
36084162 TCTATTGAGC
36084172 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
36084186 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
* *
36084200 GAGTGAAATGAAAAA
1 GAG-AAAAAGAAAAA
*
36084215 GAAAGAAAAGAA
1 GAGA-AAAAGAA
36084227 TGATGAGAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 16 0.50
15 16 0.50
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.04
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:36087704 original size:20 final size:19
Alignment explanation
Indices: 36087679--36087716 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
36087669 CATTTTTTTG
36087679 ATTCAGCTCATTCGAGCTCA
1 ATTCAGCTCATT-GAGCTCA
36087699 ATTCAGCTCATTGAGCTC
1 ATTCAGCTCATTGAGCTC
36087717 GTTATTAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (19 bp):
ATTCAGCTCATTGAGCTCA
Found at i:36089314 original size:21 final size:21
Alignment explanation
Indices: 36089288--36089336 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
36089278 ACGGTATTGT
*
36089288 AAAAAAAAT-AAAAGAAATTC
1 AAAAAAAATCAAAAAAAATTC
*
36089308 AAAAAAATTCAAAAAAAATTC
1 AAAAAAAATCAAAAAAAATTC
36089329 AAAAAAAA
1 AAAAAAAA
36089337 AGTTTGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAAAATCAAAAAAAATTC
Found at i:36089317 original size:10 final size:10
Alignment explanation
Indices: 36089288--36089335 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
36089278 ACGGTATTGT
*
36089288 AAAAAAAAT-
1 AAAAAAATTC
36089297 AAAAGAAATTC
1 AAAA-AAATTC
36089308 AAAAAAATTC
1 AAAAAAATTC
36089318 AAAAAAAATTC
1 -AAAAAAATTC
36089329 AAAAAAA
1 AAAAAAA
36089336 AAGTTTGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
9 4 0.11
10 17 0.49
11 14 0.40
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:36089337 original size:12 final size:11
Alignment explanation
Indices: 36089288--36089336 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
36089278 ACGGTATTGT
36089288 AAAAAAAA-T-
1 AAAAAAAATTC
*
36089297 AAAAGAAATTC
1 AAAAAAAATTC
36089308 -AAAAAAATTC
1 AAAAAAAATTC
36089318 AAAAAAAATTC
1 AAAAAAAATTC
36089329 AAAAAAAA
1 AAAAAAAA
36089337 AGTTTGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 7 0.20
10 10 0.29
11 18 0.51
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:36089427 original size:29 final size:30
Alignment explanation
Indices: 36089382--36089453 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
36089372 AGTATTGAAG
**
36089382 AAAAAAAAGAAGAAAAAAAATTCGTAATT-A
1 AAAAAAAAGAAGAAAAAAAA-TCAAAATTGA
36089412 AAAAAAAAGAAGAAAAAAAATCAAAATTGA
1 AAAAAAAAGAAGAAAAAAAATCAAAATTGA
36089442 AAAAAAAA-AAGA
1 AAAAAAAAGAAGA
36089454 GTGATTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 10 0.26
30 29 0.74
ACGTcount: A:0.76, C:0.03, G:0.10, T:0.11
Consensus pattern (30 bp):
AAAAAAAAGAAGAAAAAAAATCAAAATTGA
Found at i:36090287 original size:21 final size:20
Alignment explanation
Indices: 36090258--36090303 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36090248 AATCTTGAAT
*
36090258 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
36090279 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
36090299 GAAAA
1 GAAAA
36090304 AAGAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:36091792 original size:20 final size:19
Alignment explanation
Indices: 36091767--36091804 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
36091757 CATTTTTTTG
36091767 ATTCAGCTCATTCGAGCTCA
1 ATTCAGCTCATT-GAGCTCA
36091787 ATTCAGCTCATTGAGCTC
1 ATTCAGCTCATTGAGCTC
36091805 GTTATTAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (19 bp):
ATTCAGCTCATTGAGCTCA
Found at i:36099128 original size:14 final size:14
Alignment explanation
Indices: 36099109--36099137 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36099099 TTATGTTTTA
36099109 ATTCTACAACATGC
1 ATTCTACAACATGC
36099123 ATTCTACAACATGC
1 ATTCTACAACATGC
36099137 A
1 A
36099138 AATGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (14 bp):
ATTCTACAACATGC
Found at i:36100538 original size:49 final size:50
Alignment explanation
Indices: 36100382--36100570 Score: 173
Period size: 49 Copynumber: 3.7 Consensus size: 50
36100372 ATTTGGGTAA
* * * * *
36100382 AGAGATCCCATGTAAGACCATGTCTCGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCA-C--CGA---TATG
* * * *
36100438 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
* *
36100488 AGAGGTCCCCCGTAAGGCCATGT-TGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
** * * *
36100537 AGAACTCCCATGTAAGACCATATCTGGGATATGG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGG
36100571 TATTGGCAGT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 40 0.35
50 32 0.28
53 2 0.02
55 1 0.01
56 39 0.34
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
Found at i:36103608 original size:20 final size:20
Alignment explanation
Indices: 36103552--36103608 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
36103542 AAGAAGTAAA
* *
36103552 ACAC-ATTAATTAACATTTAG
1 ACACAATTAATTAA-GTTAAG
* *
36103572 ACACATTTATTTAAGTTAAG
1 ACACAATTAATTAAGTTAAG
*
36103592 ACACAATTAATTCAGTT
1 ACACAATTAATTAAGTT
36103609 GGACAAATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (20 bp):
ACACAATTAATTAAGTTAAG
Found at i:36103752 original size:13 final size:13
Alignment explanation
Indices: 36103734--36103759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36103724 CTATGTATGA
36103734 ACTAAGACACATT
1 ACTAAGACACATT
36103747 ACTAAGACACATT
1 ACTAAGACACATT
36103760 TAAACTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
ACTAAGACACATT
Found at i:36107932 original size:39 final size:39
Alignment explanation
Indices: 36107883--36107973 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
36107873 TTTGGTTTGA
* *
36107883 GTCTATAATTATGTCTTAGTTTGAAAATCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAAAATCATTAACATGT
*
36107922 GTCTTTAATTATGTCTTAGTTTGAACATCATTAACATGT
1 GTCTTTAATTATGTCTTAGTTTGAAAATCATTAACATGT
36107961 GT-TTTAATTATGT
1 GTCTTTAATTATGT
36107974 GTCTTAATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 11 0.22
39 38 0.78
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (39 bp):
GTCTTTAATTATGTCTTAGTTTGAAAATCATTAACATGT
Found at i:36107995 original size:40 final size:39
Alignment explanation
Indices: 36107883--36107995 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
36107873 TTTGGTTTGA
* * * *
36107883 GTCTATAATTATGTCTTAGTTTGAAAATCATTAATATGT
1 GTCTTTAATTATGTCTTAATTTGAACATCATTAACATGT
*
36107922 GTCTTTAATTATGTCTTAGTTTGAACATCATTAACATGT
1 GTCTTTAATTATGTCTTAATTTGAACATCATTAACATGT
*
36107961 GT-TTTAATTATGTGTCTTAATTCTG-ACATTATTAA
1 GTCTTTAATTA--TGTCTTAATT-TGAACATCATTAA
36107996 TGTTTGTCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
38 8 0.12
39 38 0.58
40 18 0.27
41 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (39 bp):
GTCTTTAATTATGTCTTAATTTGAACATCATTAACATGT
Found at i:36110767 original size:18 final size:17
Alignment explanation
Indices: 36110732--36110771 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
36110722 AGAGAGCTTG
36110732 AAAGAAAAGAAAAAGAA
1 AAAGAAAAGAAAAAGAA
**
36110749 AAAGAAAATGAAATTGAA
1 AAAGAAAA-GAAAAAGAA
36110767 AAAGA
1 AAAGA
36110772 GAAAAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAGAAAAAGAA
Found at i:36110957 original size:12 final size:12
Alignment explanation
Indices: 36110932--36110975 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
36110922 TGTGGAAAAA
*
36110932 GAAAAAGAGTTT
1 GAAAAAGAGATT
*
36110944 GAAAATGAGATT
1 GAAAAAGAGATT
* *
36110956 GAAAAAGAAAGT
1 GAAAAAGAGATT
36110968 GAAAAAGA
1 GAAAAAGA
36110976 AGAAAGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (12 bp):
GAAAAAGAGATT
Found at i:36112100 original size:11 final size:11
Alignment explanation
Indices: 36112065--36112103 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
36112055 AGCTCGATCC
*
36112065 AGCTCAA-TCG
1 AGCTCAATTCT
36112075 AGCTCAATT-T
1 AGCTCAATTCT
36112085 AGCTCAATTCT
1 AGCTCAATTCT
36112096 AGCTCAAT
1 AGCTCAAT
36112104 GAGCTCGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (11 bp):
AGCTCAATTCT
Found at i:36112101 original size:21 final size:20
Alignment explanation
Indices: 36112065--36112103 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36112055 AGCTCGATCC
36112065 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
*
36112085 AGCTCAATTCTAGCTCAAT
1 AGCTCAA-TCGAGCTCAAT
36112104 GAGCTCGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:36112108 original size:20 final size:20
Alignment explanation
Indices: 36112065--36112109 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36112055 AGCTCGATCC
*
36112065 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTG
*
36112085 AGCTCAATTCTAGCTCAA-TG
1 AGCTCAA-TCGAGCTCAATTG
36112105 AGCTC
1 AGCTC
36112110 GTTCCTAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTG
Found at i:36117887 original size:23 final size:23
Alignment explanation
Indices: 36117855--36117924 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
36117845 GGCGGGTCGT
* *
36117855 ATCACCTTACCAATTCGTACCAA
1 ATCACATTACCATTTCGTACCAA
** * *
36117878 ATCGTATTACCATTTTGAACCAA
1 ATCACATTACCATTTCGTACCAA
*
36117901 ATCACATTACCATTTCGTAACAA
1 ATCACATTACCATTTCGTACCAA
36117924 A
1 A
36117925 CCCAAAACCG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (23 bp):
ATCACATTACCATTTCGTACCAA
Done.