Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 82 of 182
Found at i:25847520 original size:18 final size:19
Alignment explanation
Indices: 25847497--25847537 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25847487 GAGAGAAGAA
25847497 AAAAAGAAA-TCAAAAAAG
1 AAAAAGAAAGTCAAAAAAG
* *
25847515 AAAAAGAAAGTGAGAAAAG
1 AAAAAGAAAGTCAAAAAAG
25847534 AAAA
1 AAAA
25847538 TTGAAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (19 bp):
AAAAAGAAAGTCAAAAAAG
Found at i:25847551 original size:19 final size:18
Alignment explanation
Indices: 25847509--25847553 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25847499 AAAGAAATCA
25847509 AAAAAGAAAAAGAAAGTG
1 AAAAAGAAAAAGAAAGTG
* *
25847527 AGAAAAGAAAATTGAAATTG
1 A-AAAAGAAAA-AGAAAGTG
25847547 AAAAAGA
1 AAAAAGA
25847554 GTGCGAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAGTG
Found at i:25847582 original size:19 final size:18
Alignment explanation
Indices: 25847560--25847610 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
25847550 AAGAGTGCGA
25847560 GAGAAAGAAAAAAGAAATT
1 GAGAAAG-AAAAAGAAATT
* *
25847579 GAGAATGAAAAAGAAGTT
1 GAGAAAGAAAAAGAAATT
**
25847597 GAGATTGAAAAAGA
1 GAGAAAGAAAAAGA
25847611 GACTGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 23 0.79
19 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.25, T:0.14
Consensus pattern (18 bp):
GAGAAAGAAAAAGAAATT
Found at i:25847591 original size:18 final size:18
Alignment explanation
Indices: 25847568--25847610 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
25847558 GAGAGAAAGA
25847568 AAAAAGAAATTGAGAATG
1 AAAAAGAAATTGAGAATG
* *
25847586 AAAAAGAAGTTGAGATTG
1 AAAAAGAAATTGAGAATG
25847604 AAAAAGA
1 AAAAAGA
25847611 GACTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.16
Consensus pattern (18 bp):
AAAAAGAAATTGAGAATG
Found at i:25848155 original size:24 final size:24
Alignment explanation
Indices: 25848116--25848196 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
25848106 TAAACTAATA
* *
25848116 AGAGTTTGATTCAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
**
25848140 AGAGTTTAATTGAAACAAATAAGT
1 AGAGTTTAATTGAAACAAATAAAC
* * *
25848164 AGAGTTTAATCGAAATAATTAAAC
1 AGAGTTTAATTGAAACAAATAAAC
25848188 AGAGTTTAA
1 AGAGTTTAA
25848197 CTAAAAGATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.28
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:25857600 original size:24 final size:23
Alignment explanation
Indices: 25857551--25857600 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
25857541 AAAAGTAGGT
* *
25857551 TATATATTATTTTTCTAATATTA
1 TATATATGATTTTTCTAATATCA
25857574 TATATTATGATTTTTACTAAT-TCA
1 TATA-TATGATTTTT-CTAATATCA
25857598 TAT
1 TAT
25857601 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTCTAATATCA
Found at i:25862410 original size:16 final size:16
Alignment explanation
Indices: 25862389--25862419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25862379 GCATTCGATT
*
25862389 TTTTTTATATTTTATA
1 TTTTTTATAATTTATA
25862405 TTTTTTATAATTTAT
1 TTTTTTATAATTTAT
25862420 TTCAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATAATTTATA
Found at i:25864584 original size:18 final size:18
Alignment explanation
Indices: 25864553--25864596 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25864543 CCACAAAGGT
* * *
25864553 AAACAAAAATGTGCCATA
1 AAACAGAAACGTGCCACA
25864571 AAACAGAAACGTGCCACA
1 AAACAGAAACGTGCCACA
*
25864589 AGACAGAA
1 AAACAGAA
25864597 GAAAAGTGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.20, G:0.16, T:0.09
Consensus pattern (18 bp):
AAACAGAAACGTGCCACA
Found at i:25864608 original size:23 final size:23
Alignment explanation
Indices: 25864581--25864634 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
25864571 AAACAGAAAC
25864581 GTGCCACAAGACAGAAGAAAAGT
1 GTGCCACAAGACAGAAGAAAAGT
*
25864604 GTGCCACAAGACATAAGAAAAGT
1 GTGCCACAAGACAGAAGAAAAGT
25864627 GTGCCACA
1 GTGCCACA
25864635 TGGGTAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (23 bp):
GTGCCACAAGACAGAAGAAAAGT
Found at i:25864662 original size:13 final size:14
Alignment explanation
Indices: 25864642--25864675 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
25864632 ACATGGGTAG
25864642 ATAAAAACTAAAAA
1 ATAAAAACTAAAAA
25864656 A-AAAAACTAAAAA
1 ATAAAAACTAAAAA
25864669 ATAAAAA
1 ATAAAAA
25864676 AATAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
ATAAAAACTAAAAA
Found at i:25867010 original size:21 final size:21
Alignment explanation
Indices: 25866984--25867041 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
25866974 AGCCAATGTT
25866984 CTAAGAAGAATGGGAACTGCA
1 CTAAGAAGAATGGGAACTGCA
25867005 CTAAGAAGAATGGGAACTGCA
1 CTAAGAAGAATGGGAACTGCA
25867026 CTAAGAAGAATGGGAA
1 CTAAGAAGAATGGGAA
25867042 GCAGATAGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.45, C:0.12, G:0.29, T:0.14
Consensus pattern (21 bp):
CTAAGAAGAATGGGAACTGCA
Found at i:25875408 original size:32 final size:30
Alignment explanation
Indices: 25875336--25875408 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 30
25875326 AATTTTTTAA
*
25875336 ATTAAAAAATAAAAATAAAAATTATTAACCTT
1 ATTAAAAAATAAAAATAAAAATTAATAA-C-T
*
25875368 ATTTAAAAATAAAAATTATAAAATTAAATAA-T
1 ATTAAAAAATAAAAA-TA-AAAATT-AATAACT
25875400 ATTAAAAAA
1 ATTAAAAAA
25875409 GTATAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 23 0.66
33 2 0.06
34 6 0.17
35 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (30 bp):
ATTAAAAAATAAAAATAAAAATTAATAACT
Found at i:25875867 original size:18 final size:18
Alignment explanation
Indices: 25875818--25875885 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
25875808 ATTTCCCAAT
*
25875818 ATTTTTTTAATTTT-ATA
1 ATTTTTGTAATTTTAATA
* * *
25875835 ATCATTTCTATTTTTAATA
1 AT-TTTTGTAATTTTAATA
*
25875854 ATTTTTGTAATTTTAATT
1 ATTTTTGTAATTTTAATA
* *
25875872 TTTTTTGCAATTTT
1 ATTTTTGTAATTTT
25875886 TAAATATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.05
18 33 0.82
19 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTTGTAATTTTAATA
Found at i:25876441 original size:10 final size:10
Alignment explanation
Indices: 25876428--25876478 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
25876418 ATAATTTTTC
25876428 AAAATTATAA
1 AAAATTATAA
*
25876438 AAAATTGTAA
1 AAAATTATAA
25876448 AACAA-TATAA
1 AA-AATTATAA
* *
25876458 AAGATT-CAA
1 AAAATTATAA
25876467 AAAATTATAA
1 AAAATTATAA
25876477 AA
1 AA
25876479 TATATTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
9 8 0.25
10 22 0.69
11 2 0.06
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAATTATAA
Found at i:25877144 original size:90 final size:90
Alignment explanation
Indices: 25876999--25877257 Score: 321
Period size: 90 Copynumber: 2.9 Consensus size: 90
25876989 AACTTTTAAA
* * * * *
25876999 AAAAAAAAAGCAATTAAGGCCTTACTTTTTTTTACACTCACTTGGGTACTTAAACTTTCAAAATG
1 AAAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATG
25877064 CATCAAAAAGGCTCTT-AAACTTTTT
66 CATCAAAAAGGC-CTTCAAACTTTTT
* * *
25877089 -CAAAAAGAGCAATTAAGCCCCTGCTTTTATTTTGCATTCAATTGGGTACTTAAACTTTCAAAAT
1 AAAAAAAAAGCAATTAAGCCCCTGCTTTT-TTTTGCACTCAATTGGGTACTTAAACTTTCAAAAT
*
25877153 GCATCAAAAAGACCTTCAAACTTTTT
65 GCATCAAAAAGGCCTTCAAACTTTTT
* * * * *
25877179 AAAAAAAAAGCAATTAAGTCCAC-GATTTTTTTTGCACTCAATTGGATACTTGAACTGTC-AAAT
1 AAAAAAAAAGCAATTAAG-CCCCTGCTTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAAT
25877242 AG-ATCAAAAAGGCCTT
65 -GCATCAAAAAGGCCTT
25877258 TTAACCGTTA
Statistics
Matches: 146, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
89 43 0.29
90 80 0.55
91 20 0.14
92 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (90 bp):
AAAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATG
CATCAAAAAGGCCTTCAAACTTTTT
Found at i:25877406 original size:27 final size:26
Alignment explanation
Indices: 25877359--25877411 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25877349 GTGGCAAAAG
* *
25877359 AATTATAAAAAAATATTAAAAATATTA
1 AATTATAAAAAAATA-GAAAAAAATTA
25877386 AATT-TAATAAAAATAGAAAAAAATTA
1 AATTATAA-AAAAATAGAAAAAAATTA
25877412 TAAAATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
AATTATAAAAAAATAGAAAAAAATTA
Found at i:25882338 original size:30 final size:28
Alignment explanation
Indices: 25882297--25882364 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 28
25882287 TAAGAAATAT
25882297 AATTTATAATTTATAAT-AAATAAAATTTAA
1 AATTTA-AATTTA-AATGAAATAAAATTT-A
*
25882327 AAGTTTAAATTTAAATGAAATGAAATTTA
1 AA-TTTAAATTTAAATGAAATAAAATTTA
25882356 AATTTAAAT
1 AATTTAAAT
25882365 AGAAGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 7 0.20
29 6 0.17
30 18 0.51
31 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (28 bp):
AATTTAAATTTAAATGAAATAAAATTTA
Found at i:25882410 original size:50 final size:50
Alignment explanation
Indices: 25882355--25882543 Score: 214
Period size: 50 Copynumber: 3.8 Consensus size: 50
25882345 AATGAAATTT
*
25882355 AAATTTAAATAGAAGTTGAAATT-AAATGAAATGAAAATGAAATATAAA-AA
1 AAATTGAAATA-AAG-TGAAATTGAAATGAAATGAAAATGAAATATAAATAA
*
25882405 AAATTTG--AT--AGCGAAATTGAAATGAAATGAAAATGAAATATAAATAA
1 AAA-TTGAAATAAAGTGAAATTGAAATGAAATGAAAATGAAATATAAATAA
* * *
25882452 AAGTTGAAACTAAA-TGAAATTGAAATGAATTGAAAATAAAATATAAATAA
1 AAATTGAAA-TAAAGTGAAATTGAAATGAAATGAAAATGAAATATAAATAA
* *
25882502 AAGTTGAAA-ATAAGTGAAATTGAAATGAAATTAAAATGAAAT
1 AAATTGAAATA-AAGTGAAATTGAAATGAAATGAAAATGAAAT
25882544 TTAATGAAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
45 6 0.05
46 30 0.25
47 4 0.03
48 2 0.02
49 5 0.04
50 70 0.58
51 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.14, T:0.26
Consensus pattern (50 bp):
AAATTGAAATAAAGTGAAATTGAAATGAAATGAAAATGAAATATAAATAA
Found at i:25882441 original size:16 final size:16
Alignment explanation
Indices: 25882417--25882568 Score: 80
Period size: 16 Copynumber: 9.2 Consensus size: 16
25882407 ATTTGATAGC
*
25882417 GAAATTGAAATGAAAT
1 GAAAATGAAATGAAAT
*
25882433 GAAAATGAAATATAAAT
1 GAAAATGAAAT-GAAAT
25882450 -AAAAGTTGAAACT-AAAT
1 GAAAA--TGAAA-TGAAAT
* *
25882467 GAAATTGAAATGAATT
1 GAAAATGAAATGAAAT
* *
25882483 GAAAATAAAATATAAAT
1 GAAAATGAAAT-GAAAT
*
25882500 -AAAAGTTGAAAAT-AAGT
1 GAAAA--TG-AAATGAAAT
*
25882517 GAAATTGAAATGAAAT
1 GAAAATGAAATGAAAT
* **
25882533 TAAAATGAAATTTAAT
1 GAAAATGAAATGAAAT
*
25882549 GAAAAT-AATTGAAAAT
1 GAAAATGAAATG-AAAT
25882565 GAAA
1 GAAA
25882569 TTTGAAATTC
Statistics
Matches: 103, Mismatches: 20, Indels: 26
0.69 0.13 0.17
Matches are distributed among these distances:
15 8 0.08
16 64 0.62
17 14 0.14
18 12 0.12
19 5 0.05
ACGTcount: A:0.60, C:0.01, G:0.14, T:0.26
Consensus pattern (16 bp):
GAAAATGAAATGAAAT
Found at i:25882479 original size:11 final size:11
Alignment explanation
Indices: 25882342--25882544 Score: 57
Period size: 11 Copynumber: 18.1 Consensus size: 11
25882332 TAAATTTAAA
25882342 TGAAATGAAAT
1 TGAAATGAAAT
* *
25882353 TTAAATTTAAAT
1 TGAAA-TGAAAT
* *
25882365 AGAAGTTGAAAT
1 TGAA-ATGAAAT
25882377 T-AAATGAAA-
1 TGAAATGAAAT
25882386 TGAAAATGAAAT
1 TG-AAATGAAAT
**
25882398 AT-AAAAAAAATT
1 -TGAAATGAAA-T
**
25882410 TGATAGCGAAAT
1 TGA-AATGAAAT
25882422 TGAAATGAAA-
1 TGAAATGAAAT
25882432 TGAAAATGAAAT
1 TG-AAATGAAAT
*
25882444 AT-AAATAAAAGT
1 -TGAAATGAAA-T
25882456 TGAAACT-AAA-
1 TGAAA-TGAAAT
25882466 TGAAATTGAAA-
1 TGAAA-TGAAAT
* *
25882477 TGAATTGAAAA
1 TGAAATGAAAT
* *
25882488 TAAAAT-ATAAA
1 TGAAATGA-AAT
* *
25882499 TAAAAGTTGAAAA
1 TGAAA--TGAAAT
*
25882512 T-AAGTGAAAT
1 TGAAATGAAAT
25882522 TGAAATGAAAT
1 TGAAATGAAAT
*
25882533 TAAAATGAAAT
1 TGAAATGAAAT
25882544 T
1 T
25882545 TAATGAAAAT
Statistics
Matches: 146, Mismatches: 24, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
9 1 0.01
10 25 0.17
11 80 0.55
12 27 0.18
13 12 0.08
14 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.14, T:0.27
Consensus pattern (11 bp):
TGAAATGAAAT
Found at i:25882564 original size:21 final size:21
Alignment explanation
Indices: 25882371--25882569 Score: 70
Period size: 22 Copynumber: 9.0 Consensus size: 21
25882361 AAATAGAAGT
*
25882371 TGAAATTAAATGAAA-TGAAAA
1 TGAAAATAAATGAAATTG-AAA
** *
25882392 TGAAATATAAAAAAAATTTGATAG
1 TGAAA-ATAAATGAAA-TTGA-AA
* *
25882416 CGAAATTGAAATGAAA-TGAAAA
1 TGAAAAT-AAATGAAATTG-AAA
*
25882438 TGAAATATAAATAAAAGTTGAAA
1 TGAAA-ATAAATGAAA-TTGAAA
*
25882461 CT--AAATGAAATTGAAA-TGAAT
1 -TGAAAAT-AAA-TGAAATTGAAA
* *
25882482 TGAAAATAAAAT-ATAAATAAAA
1 TGAAAAT-AAATGA-AATTGAAA
*
25882504 GTTGAAAATAAGTGAAATTGAAA
1 --TGAAAATAAATGAAATTGAAA
* *
25882527 TGAAATTAAAATGAAATT-TAA
1 TGAAAAT-AAATGAAATTGAAA
* *
25882548 TGAAAATAATTGAAAATGAAA
1 TGAAAATAAATGAAATTGAAA
25882569 T
1 T
25882570 TTGAAATTCA
Statistics
Matches: 130, Mismatches: 27, Indels: 42
0.65 0.14 0.21
Matches are distributed among these distances:
20 10 0.08
21 31 0.24
22 45 0.35
23 20 0.15
24 24 0.18
ACGTcount: A:0.59, C:0.01, G:0.14, T:0.26
Consensus pattern (21 bp):
TGAAAATAAATGAAATTGAAA
Found at i:25882818 original size:41 final size:40
Alignment explanation
Indices: 25882740--25882818 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
25882730 AGAAAAAATA
* * * *
25882740 AAAAAGAAATAAATTTTATATATAATTAATATATATTTTT
1 AAAAAGAAATAAAATTTACAAATAATTAATAAATATTTTT
25882780 AAAAAGAAATAAAATTTACAAATAAATT-ATAAAGTATTT
1 AAAAAGAAATAAAATTTACAAAT-AATTAATAAA-TATTT
25882819 AAGAAGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 24 0.73
41 9 0.27
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (40 bp):
AAAAAGAAATAAAATTTACAAATAATTAATAAATATTTTT
Found at i:25882987 original size:14 final size:14
Alignment explanation
Indices: 25882968--25882997 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25882958 TTATATATAT
*
25882968 ATATATTTAAATAA
1 ATATATTTAAAAAA
25882982 ATATATTTAAAAAA
1 ATATATTTAAAAAA
25882996 AT
1 AT
25882998 TAAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATTTAAAAAA
Found at i:25883265 original size:20 final size:21
Alignment explanation
Indices: 25883219--25883267 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
25883209 ACCGTCAACG
25883219 ATCGTCGATAACCACTACAAAA
1 ATCGTCGATAACCAC-ACAAAA
*
25883241 ATCGTCGATAACCAC-CAATA
1 ATCGTCGATAACCACACAAAA
25883261 ATCGTCG
1 ATCGTCG
25883268 TTCATCTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 11 0.42
22 15 0.58
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (21 bp):
ATCGTCGATAACCACACAAAA
Found at i:25889133 original size:87 final size:86
Alignment explanation
Indices: 25888993--25889151 Score: 216
Period size: 87 Copynumber: 1.8 Consensus size: 86
25888983 TACATGTATA
* * * *
25888993 AGGTTGAGTTCTCACTCTTAATGAGTTCATATCCCAAGATTTGGGTGAGCCTATTGAGA-GAGAC
1 AGGTTGAGTTATCACTCTTAATGAATACATATCCCAAGATTTGAGTGAGCCTATTGAGACG-GAC
25889057 TTGATGAATTCACCTACATGAG
65 TTGATGAATTCACCTACATGAG
*
25889079 AGGTTGAGTTTATTACTCTTAATGAATACATATCCC-AGAGTTTGAGTG-GTCCTATTGAGACGG
1 AGGTTGAG-TTATCACTCTTAATGAATACATATCCCAAGA-TTTGAGTGAG-CCTATTGAGACGG
25889142 ACTTGATGAA
63 ACTTGATGAA
25889152 CTGAACTTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
86 12 0.19
87 51 0.80
88 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATACATATCCCAAGATTTGAGTGAGCCTATTGAGACGGACT
TGATGAATTCACCTACATGAG
Found at i:25890571 original size:6 final size:6
Alignment explanation
Indices: 25890562--25890609 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
25890552 AAACTTTTCT
* * *
25890562 TTTAAG TTTAAA TTTAAA -TTAAG TTTAAA TTT-AA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
25890608 TT
1 TT
25890610 AAAAATCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:25890585 original size:17 final size:17
Alignment explanation
Indices: 25890563--25890609 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
25890553 AACTTTTCTT
25890563 TTAAGTTTAAATTTAAA
1 TTAAGTTTAAATTTAAA
*
25890580 TTAAGTTTAAATTTAAT
1 TTAAGTTTAAATTTAAA
25890597 TTGAA-TTTAAATT
1 TT-AAGTTTAAATT
25890610 AAAAATCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 26 0.93
18 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAAGTTTAAATTTAAA
Found at i:25891273 original size:19 final size:19
Alignment explanation
Indices: 25891249--25891289 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
25891239 AGGTCTTCTG
25891249 TATATTAAGTGTATAATAA
1 TATATTAAGTGTATAATAA
* * *
25891268 TATATTTATTGTATATTAA
1 TATATTAAGTGTATAATAA
25891287 TAT
1 TAT
25891290 TTCCCTCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
TATATTAAGTGTATAATAA
Found at i:25891446 original size:13 final size:12
Alignment explanation
Indices: 25891397--25891442 Score: 65
Period size: 13 Copynumber: 3.6 Consensus size: 12
25891387 AATAGATTAT
25891397 TTAATAAATAAATA
1 TTAAT-AAT-AATA
25891411 TTAATAATAATA
1 TTAATAATAATA
25891423 GTTAATAATAATA
1 -TTAATAATAATA
25891436 TTAATAA
1 TTAATAA
25891443 ATAAAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.35
13 15 0.48
14 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TTAATAATAATA
Found at i:25891670 original size:24 final size:24
Alignment explanation
Indices: 25891629--25891674 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25891619 CTAAAGTTTT
*
25891629 AAATAACAAGAAAAGTTTAAGAAA
1 AAATAACAACAAAAGTTTAAGAAA
**
25891653 AAATAACAACAAGGGTTTAAGA
1 AAATAACAACAAAAGTTTAAGA
25891675 GTTTTCAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.15, T:0.17
Consensus pattern (24 bp):
AAATAACAACAAAAGTTTAAGAAA
Found at i:25891706 original size:17 final size:18
Alignment explanation
Indices: 25891680--25891713 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25891670 TAAGAGTTTT
25891680 CAGATATAG-TTTGAAAC
1 CAGATATAGTTTTGAAAC
*
25891697 CAGATCTAGTTTTGAAA
1 CAGATATAGTTTTGAAA
25891714 TAAAAACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
CAGATATAGTTTTGAAAC
Found at i:25892695 original size:30 final size:28
Alignment explanation
Indices: 25892646--25892932 Score: 123
Period size: 29 Copynumber: 9.8 Consensus size: 28
25892636 GACCCTAAAC
* * *
25892646 TTACCAAAATTCCATTTTTGACCTCGATT
1 TTACAAAAATTACAATTTT-ACCTCGATT
* * *
25892675 TTACAAAAAATTACAATTTTGCCCCTGAACT
1 TTAC-AAAAATTACAATTTTACCTC-G-ATT
* * * *
25892706 TT-CAAAAATTTCATTTTTAACCGCAATT
1 TTACAAAAATTACAATTTT-ACCTCGATT
* ** *
25892734 TTACCAAAAATTACCATTTTATCCCTAAACT
1 TTA-CAAAAATTACAATTTTA--CCTCGATT
* * * * *
25892765 TT-CCAAAATTTCATTTTTGACCCCGATC
1 TTACAAAAATTACAATTTT-ACCTCGATT
* *
25892793 TTATCAAAAATTACCATTTTACGCTCGAACT
1 TTA-CAAAAATTACAATTTTAC-CTCG-ATT
* * *
25892824 TT-CCAAAATTCCATTTTTTACCTCGATT
1 TTACAAAAATTACA-ATTTTACCTCGATT
* *
25892852 TTACAAAAATTACCATTTTACCCTCGAACT
1 TTACAAAAATTACAATTTTA-CCTCG-ATT
* * *
25892882 TT-CAAAAATTTCATTTTTAACTCCGATT
1 TTACAAAAATTACAATTTTACCT-CGATT
*
25892910 TTACCAAAAATTACCATTTTACC
1 TTA-CAAAAATTACAATTTTACC
25892933 CCTAAACTTC
Statistics
Matches: 185, Mismatches: 53, Indels: 39
0.67 0.19 0.14
Matches are distributed among these distances:
28 24 0.13
29 76 0.41
30 71 0.38
31 14 0.08
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (28 bp):
TTACAAAAATTACAATTTTACCTCGATT
Found at i:25892721 original size:59 final size:59
Alignment explanation
Indices: 25892623--25893080 Score: 534
Period size: 59 Copynumber: 7.8 Consensus size: 59
25892613 AAACTTTTTG
* * * *
25892623 AAAATTA-CATTTTGA-CCCTAAACTTACCAAAATTCCATTTTTGACCTCGATTTTACAA
1 AAAATTACCATTTT-ACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
* * * * * * *
25892681 AAAATTACAATTTTGCCCCTGAACTTTCAAAAATTTCATTTTTAACCGCAATTTTACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
* * *
25892740 AAAATTACCATTTTATCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATCTTATCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
* * * * *
25892799 AAAATTACCATTTTA-CGCTCGAACTTTCCAAAATTCCATTTTTTACCTCGATTTTA-CA
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
* * * *
25892857 AAAATTACCATTTTA-CCCTCGAACTTTCAAAAATTTCATTTTTAACTCCGATTTTACCA
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
* *
25892916 AAAATTACCATTTTACCCCTAAACTTCCCAAAA-TTCTATTTTTGACCCCAATTTTACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTC-ATTTTTGACCCCGATTTTACCA
* * * *
25892975 AAAATTACCA-TATACCCCTAAACTTTCCAAAATCTCATTTTTAACCCCGATTCTACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
* ** *
25893033 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCC
25893081 AATTTCAACC
Statistics
Matches: 345, Mismatches: 47, Indels: 15
0.85 0.12 0.04
Matches are distributed among these distances:
58 114 0.33
59 227 0.66
60 4 0.01
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATTTTACCA
Found at i:25892902 original size:176 final size:173
Alignment explanation
Indices: 25892638--25893109 Score: 601
Period size: 176 Copynumber: 2.7 Consensus size: 173
25892628 TACATTTTGA
* * * *
25892638 CCCTAAACTTACCAAAATTCCATTTTTGACCTCGATTTTACAAAAAATTACAATTTTGCCCCTGA
1 CCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTAC-AAAAATTACCATTTTACCCC-GA
* *
25892703 ACTTTCAAAAATTTCATTTTTAACCGCAATTTTACCAAAAATTACCATTTTATCCCTAAACTTTC
64 ACTTTCAAAAATTTCATTTTTAACC-CAATTTTACCAAAAATTACCATTTTACCCCTAAACTTCC
* * *
25892768 CAAAATT-TCATTTTTGACCCCGATCTTATCAAAAATTACCATTTTA-
128 CAAAATTCT-ATTTTTGACCCCAATCTTACCAAAAATTACCA-TATAC
* * *
25892814 CGCTCGAACTTTCCAAAATTCCATTTTTTACCTCGATTTTACAAAAATTACCATTTTACCCTCGA
1 CCCT-AAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACAAAAATTACCATTTTACCC-CGA
*
25892879 ACTTTCAAAAATTTCATTTTTAACTCCGATTTTACCAAAAATTACCATTTTACCCCTAAACTTCC
64 ACTTTCAAAAATTTCATTTTTAAC-CCAATTTTACCAAAAATTACCATTTTACCCCTAAACTTCC
*
25892944 CAAAATTCTATTTTTGACCCCAATTTTACCAAAAATTACCATATAC
128 CAAAATTCTATTTTTGACCCCAATCTTACCAAAAATTACCATATAC
* * *
25892990 CCCTAAACTTTCCAAAA-TCTCATTTTTAACCCCGATTCTACCAAAAATTACCATTTTACCCCCA
1 CCCTAAACTTTCCAAAATTC-CATTTTTAACCTCGATTTTA-CAAAAATTACCATTTTA-CCCCG
* ** * * *
25893054 AACTTTCCAAAATCCCATTTTTAACCCAATTTCAACC-AAAATTTCCATTTTGCCCC
63 AACTTTCAAAAATTTCATTTTTAACCCAATTT-TACCAAAAATTACCATTTTACCCC
25893110 CAGATATCCA
Statistics
Matches: 261, Mismatches: 26, Indels: 19
0.85 0.08 0.06
Matches are distributed among these distances:
174 2 0.01
175 55 0.21
176 164 0.63
177 40 0.15
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (173 bp):
CCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACAAAAATTACCATTTTACCCCGAAC
TTTCAAAAATTTCATTTTTAACCCAATTTTACCAAAAATTACCATTTTACCCCTAAACTTCCCAA
AATTCTATTTTTGACCCCAATCTTACCAAAAATTACCATATAC
Found at i:25892908 original size:117 final size:117
Alignment explanation
Indices: 25892623--25893104 Score: 580
Period size: 117 Copynumber: 4.1 Consensus size: 117
25892613 AAACTTTTTG
* * * * *
25892623 AAAATTA-CATTTTGACCCTAAACTTACCAAAATTCCATTTTTGACCTCGATTTTACAAAAAATT
1 AAAATTACCATTTT-ACCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTTACCAAAAATT
* * * * * *
25892687 ACAATTTTGCCCCTGAACTTTCAAAAATTTCATTTTTAACCGCAATTTTACCA
65 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTTACCA
* * *
25892740 AAAATTACCATTTTATCCCTAAACTTTCCAAAATTTCATTTTTGACCCCGATCTTATCAAAAATT
1 AAAATTACCATTTTA-CCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTTACCAAAAATT
* * * * *
25892805 ACCATTTTA-CGCTCGAACTTTCCAAAATTCCATTTTTTACCTCGATTTTA-CA
65 ACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCAATTTTACCA
* * *
25892857 AAAATTACCATTTTACCCTCGAACTTTCAAAAATTTCATTTTTAACTCCGATTTTACCAAAAATT
1 AAAATTACCATTTTACCCT-AAACTTTCCAAAATTTCATTTTTAACCCCGATTTTACCAAAAATT
* * *
25892922 ACCATTTTACCCCTAAACTTCCCAAAATTCTATTTTTGACCCCAATTTTACCA
65 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTTACCA
* * *
25892975 AAAATTACCA-TATACCCCTAAACTTTCCAAAATCTCATTTTTAACCCCGATTCTACCAAAAATT
1 AAAATTACCATTTTA-CCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTTACCAAAAATT
* * *
25893039 ACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAA-CCCAATTTCAACC-
65 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTT-TACCA
*
25893091 AAAATTTCCATTTT
1 AAAATTACCATTTT
25893105 GCCCCCAGAT
Statistics
Matches: 315, Mismatches: 41, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
116 21 0.07
117 188 0.60
118 106 0.34
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (117 bp):
AAAATTACCATTTTACCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTTACCAAAAATTA
CCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTTACCA
Found at i:25893004 original size:29 final size:30
Alignment explanation
Indices: 25892489--25893065 Score: 180
Period size: 30 Copynumber: 19.6 Consensus size: 30
25892479 CCCTGAAAGT
* ** *
25892489 CCCTAAACTATCCAAAAA-TAGTATTTTAA
1 CCCTAAACTTTCCAAAAATTACCATTTTAC
* *
25892518 CCCTAAAACTTTCTAAAAATTA-TATTTTGAC
1 CCCT-AAACTTTCCAAAAATTACCATTTT-AC
*
25892549 CCCTAAAC-TTCTCAAAAATTA-TATTTTAAC
1 CCCTAAACTTTC-CAAAAATTACCATTTT-AC
* * * *
25892579 CTCAAAAC-TTCTCAAAAATTA-TATTTTAA
1 CCCTAAACTTTC-CAAAAATTACCATTTTAC
* ***
25892608 CCTTAAAACTTTTTGAAAATTA-CATTTTGA-
1 CCCT-AAACTTTCCAAAAATTACCATTTT-AC
* **
25892638 CCCTAAACTTACC-AAAATT-CCATTTTTG
1 CCCTAAACTTTCCAAAAATTACCATTTTAC
* ** * * * *
25892666 ACCTCGATTTTACAAAAAATTACAATTTTGC
1 CCCTAAACTTT-CCAAAAATTACCATTTTAC
* *
25892697 CCCTGAACTTT-CAAAAATT-TCATTTTTAAC
1 CCCTAAACTTTCCAAAAATTACCA-TTTT-AC
* * *
25892727 CGC--AATTTTACCAAAAATTACCATTTTAT
1 CCCTAAACTTT-CCAAAAATTACCATTTTAC
*
25892756 CCCTAAACTTTCC-AAAATT-TCATTTTTGAC
1 CCCTAAACTTTCCAAAAATTACCA-TTTT-AC
* *
25892786 CCC-GATCTTAT-CAAAAATTACCATTTTA-
1 CCCTAAACTT-TCCAAAAATTACCATTTTAC
* * **
25892814 CGCTCGAACTTTCC-AAAATT-CCATTTTTT
1 CCCT-AAACTTTCCAAAAATTACCATTTTAC
* ** * *
25892843 ACCTCGATTTTACAAAAATTACCATTTTA-
1 CCCTAAACTTTCCAAAAATTACCATTTTAC
* *
25892872 CCCTCGAACTTT-CAAAAATT-TCATTTTTAAC
1 CCCT-AAACTTTCCAAAAATTACCA-TTTT-AC
* * *
25892903 TCC--GATTTTACCAAAAATTACCATTTTAC
1 CCCTAAACTTT-CCAAAAATTACCATTTTAC
* *
25892932 CCCTAAAC-TTCCCAAAATT-CTATTTTTGAC
1 CCCTAAACTTTCCAAAAATTACCA-TTTT-AC
* *
25892962 CCC--AATTTTACCAAAAATTACCA-TATAC
1 CCCTAAACTTT-CCAAAAATTACCATTTTAC
25892990 CCCTAAACTTTCC-AAAA-T-CTCATTTTTAAC
1 CCCTAAACTTTCCAAAAATTAC-CA-TTTT-AC
* ** *
25893020 CCCGATTC-TACCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAAATTACCATTTTAC
*
25893049 CCCCAAACTTTCCAAAA
1 CCCTAAACTTTCCAAAA
25893066 TCCCATTTTT
Statistics
Matches: 408, Mismatches: 86, Indels: 107
0.68 0.14 0.18
Matches are distributed among these distances:
26 1 0.00
27 3 0.01
28 59 0.14
29 110 0.27
30 192 0.47
31 42 0.10
32 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACCATTTTAC
Found at i:25894207 original size:113 final size:114
Alignment explanation
Indices: 25894069--25894300 Score: 457
Period size: 113 Copynumber: 2.0 Consensus size: 114
25894059 GGCATCCTTT
25894069 GTGCAACATTATATTTGTGTGATATTGCTAGTGTAAATTTGCATACATTTGCATGTGATATTACC
1 GTGCAACATTATATTTGTGTGATATTGCTAGTGTAAATTTGCATACATTTGCATGTGATATTACC
25894134 CTTTTTAAGTGGAAGCGGGAAACTACTTCTTCATGAGGTCTTCACCTCC
66 CTTTTTAAGTGGAAGCGGGAAACTACTTCTTCATGAGGTCTTCACCTCC
25894183 GTGCAACATTATA-TTGTGTGATATTGCTAGTGTAAATTTGCATACATTTGCATGTGATATTACC
1 GTGCAACATTATATTTGTGTGATATTGCTAGTGTAAATTTGCATACATTTGCATGTGATATTACC
25894247 CTTTTTAAGTGGAAGCGGGAAACTACTTCTTCATGAGGTCTTCACCTCC
66 CTTTTTAAGTGGAAGCGGGAAACTACTTCTTCATGAGGTCTTCACCTCC
25894296 GTGCA
1 GTGCA
25894301 GGATAGTGAA
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 105 0.89
114 13 0.11
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (114 bp):
GTGCAACATTATATTTGTGTGATATTGCTAGTGTAAATTTGCATACATTTGCATGTGATATTACC
CTTTTTAAGTGGAAGCGGGAAACTACTTCTTCATGAGGTCTTCACCTCC
Found at i:25897890 original size:10 final size:10
Alignment explanation
Indices: 25897875--25897903 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
25897865 TTTAAAATAA
25897875 AAAGAAAAAG
1 AAAGAAAAAG
25897885 AAAG-AAAAG
1 AAAGAAAAAG
25897894 AAAGAAAAAG
1 AAAGAAAAAG
25897904 TCAAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:25898710 original size:7 final size:7
Alignment explanation
Indices: 25898698--25898774 Score: 72
Period size: 7 Copynumber: 11.1 Consensus size: 7
25898688 TGAATAAAAG
25898698 AAAAGAA
1 AAAAGAA
25898705 AAAAG-A
1 AAAAGAA
*
25898711 AGAAGAGA
1 AAAAGA-A
25898719 AAAAGAA
1 AAAAGAA
*
25898726 AAAATAA
1 AAAAGAA
25898733 AAATA-AA
1 AAA-AGAA
25898740 AAAA-AA
1 AAAAGAA
25898746 AAAA-AA
1 AAAAGAA
*
25898752 AACAAAAA
1 AA-AAGAA
25898760 AAAAGAA
1 AAAAGAA
25898767 AAAAGAA
1 AAAAGAA
25898774 A
1 A
25898775 TGGAGAGGTC
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
6 16 0.26
7 34 0.56
8 11 0.18
ACGTcount: A:0.86, C:0.01, G:0.10, T:0.03
Consensus pattern (7 bp):
AAAAGAA
Found at i:25898722 original size:1 final size:1
Alignment explanation
Indices: 25898718--25898770 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
25898708 AGAAGAAGAG
* * * * *
25898718 AAAAAGAAAAAATAAAAATAAAAAAAAAAAAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25898771 GAAATGGAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.91, C:0.02, G:0.04, T:0.04
Consensus pattern (1 bp):
A
Found at i:25898769 original size:6 final size:6
Alignment explanation
Indices: 25898693--25898774 Score: 55
Period size: 6 Copynumber: 13.3 Consensus size: 6
25898683 TTCAATGAAT
* *
25898693 AAAAG- AAAAGAA AAAAGA AGAAGAGA AAAAGAA AAAATA AAAATA AAAA-A
1 AAAAGA AAAAG-A AAAAGA A-AA-AGA AAAAG-A AAAAGA AAAAGA AAAAGA
*
25898743 AAAA-A AAAA-A ACAAAAA AAAAGAA AAAAGA AA
1 AAAAGA AAAAGA A-AAAGA AAAAG-A AAAAGA AA
25898775 TGGAGAGGTC
Statistics
Matches: 67, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
5 17 0.25
6 24 0.36
7 22 0.33
8 4 0.06
ACGTcount: A:0.85, C:0.01, G:0.11, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:25900218 original size:100 final size:99
Alignment explanation
Indices: 25900039--25900511 Score: 574
Period size: 100 Copynumber: 4.7 Consensus size: 99
25900029 AGGTTTGACG
* * * * *
25900039 GGAAAGATCTAAGATCGCAATGGTGGATCCAATACCGCAAAGATACTAAAGGGGAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAGT
* * * * *
25900104 CGCAATGGCAGACCGTGTACCTCAAAAACACGAC
66 CGCAACGGCGGACCGTGTACCTCAGAAACAGGAA
* *
25900138 GAGAAAGATCAAAGACCGCAATGGCGGATCTAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAG
1 G-GAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAG
* *
25900203 TCACAACGGCGGACCGTGTACCTCAGAAATAGGAA
65 TCGCAACGGCGGACCGTGTACCTCAGAAACAGGAA
* * *
25900238 GGAAAGGATCTAAGACCACAATGGCGGATCCAGTACCACAAAGATGCTAAAAGGGAAAGGTCTAA
1 GGAAA-GATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATAC-AAAAGGGAAAGGTCTAA
*
25900303 GTCGCAACGGCGGACCGTGTACCTCAGAAGCATGGAA
64 GTCGCAACGGCGGACCGTGTACCTCAGAAACA-GGAA
* * * *
25900340 GGGAAAGATCTAAGACCGTAATGGCAGAT-CAGTATCGCAAAAACATA-AAAAGGGAAAGGTCTA
1 -GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGC--AAAGATACAAAAGGGAAAGGTCTA
* * *
25900403 A-TCGCAATGGCGGACCGTGTACCTCAGAAGCATGAA
63 AGTCGCAACGGCGGACCGTGTACCTCAGAAACAGGAA
* * * ** *
25900439 GGAAAAGTTCTAAGACCGTAATGGCAGATCCAGTACCATAAAGATACAAAAGGGAAAGGTTTAAG
1 GG-AAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAG
25900504 TCGCAACG
65 TCGCAACG
25900512 ATGAACCCGA
Statistics
Matches: 325, Mismatches: 38, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
98 8 0.02
99 49 0.15
100 164 0.50
101 70 0.22
102 24 0.07
103 10 0.03
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (99 bp):
GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAGT
CGCAACGGCGGACCGTGTACCTCAGAAACAGGAA
Found at i:25900352 original size:50 final size:50
Alignment explanation
Indices: 25900087--25900452 Score: 200
Period size: 50 Copynumber: 7.3 Consensus size: 50
25900077 AAAGATACTA
* * * * *
25900087 AAGGGGAAGGTCTAAGTCGCAATGGCAGACCGTGTACCTCAAAAACA-CG
1 AAGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCATGG
* * * * * * * **
25900136 ACGAGAAAGATCAAAGACCGCAATGGCGGATC-TAGTACCGCA-AAG-ATACAA
1 AAGGGAAAGGTCTAAG-TCGCAATGGCGGACCGT-GTACCTCAGAAGCAT--GG
* *
25900187 AAGGGAAAGGTCTAAGTCACAACGGCGGACCGTGTACCTCAGAA--ATAGG
1 AAGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCAT-GG
* * * * *
25900236 AA-GGAAAGGATCTAAGACCACAATGGCGGATCC-AGTACCACA-AAG-ATGCTAA
1 AAGGGAAAGG-TCTAAG-TCGCAATGGCGGA-CCGTGTACCTCAGAAGCATG---G
*
25900288 AAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATGG
1 AAGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCATGG
* * * * * * * * * * **
25900338 AAGGGAAAGATCTAAGACCGTAATGGCAGATC-AGTATCGCAAAAACATAAA
1 AAGGGAAAGGTCTAAG-TCGCAATGGCGGACCGTGTACCTCAGAAGCAT-GG
25900389 AAGGGAAAGGTCTAA-TCGCAATGGCGGACCGTGTACCTCAGAAGCAT-G
1 AAGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCATGG
* *
25900437 AAGGAAAAGTTCTAAG
1 AAGGGAAAGGTCTAAG
25900453 ACCGTAATGG
Statistics
Matches: 234, Mismatches: 61, Indels: 44
0.69 0.18 0.13
Matches are distributed among these distances:
48 21 0.09
49 36 0.15
50 98 0.42
51 58 0.25
52 11 0.05
53 10 0.04
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.14
Consensus pattern (50 bp):
AAGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGAAGCATGG
Found at i:25900417 original size:201 final size:200
Alignment explanation
Indices: 25900039--25900511 Score: 605
Period size: 201 Copynumber: 2.4 Consensus size: 200
25900029 AGGTTTGACG
* * * * *
25900039 GGAAAGATCTAAGATCGCAATGGTGGATCCAATACCGCAAAGATACT-AAAGGGGAAGGTCTAAG
1 GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAAGGGAAAGGTCTAAG
* * *
25900103 TCGCAATGGCAGACCGTGTACCTCAAAAACACGACGAGAAAGATCAAAGACCGCAATGGCGGATC
66 TCGCAACGGCAGACCGTGTACCTCAAAAACACGAAGAGAAAGATCAAAGACCGCAATGGCAGATC
* *
25900168 TAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAGTCACAACGGCGGACCGTGTACCTCAGAAAT
131 TAGTACCGCAAACATACAAAAGGGAAAGGTCTAAGTCACAACGGCGGACCGTGTACCTCAGAAAC
25900233 AGGAA
196 AGGAA
* *
25900238 GGAAAGGATCTAAGACCACAATGGCGGATCCAGTACCACAAAGATGCTAAAAGGGAAAGGTCTAA
1 GGAAA-GATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAAGGGAAAGGTCTAA
* * * * * * *
25900303 GTCGCAACGGCGGACCGTGTACCTCAGAAGCATGGAAGGGAAAGATCTAAGACCGTAATGGCAGA
65 GTCGCAACGGCAGACCGTGTACCTCAAAAACA-CGAAGAGAAAGATCAAAGACCGCAATGGCAGA
* * *
25900368 TC-AGTATCGCAAAAACATA-AAAAGGGAAAGGTCTAA-TCGCAATGGCGGACCGTGTACCTCAG
129 TCTAGTACCGC--AAACATACAAAAGGGAAAGGTCTAAGTCACAACGGCGGACCGTGTACCTCAG
* *
25900430 AAGCATGAA
192 AAACAGGAA
* * * * *
25900439 GGAAAAGTTCTAAGACCGTAATGGCAGATCCAGTACCATAAAGATAC-AAAAGGGAAAGGTTTAA
1 GG-AAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAAGGGAAAGGTCTAA
25900503 GTCGCAACG
65 GTCGCAACG
25900512 ATGAACCCGA
Statistics
Matches: 237, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
199 5 0.02
200 61 0.26
201 117 0.49
202 48 0.20
203 6 0.03
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (200 bp):
GGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACTAAAAGGGAAAGGTCTAAG
TCGCAACGGCAGACCGTGTACCTCAAAAACACGAAGAGAAAGATCAAAGACCGCAATGGCAGATC
TAGTACCGCAAACATACAAAAGGGAAAGGTCTAAGTCACAACGGCGGACCGTGTACCTCAGAAAC
AGGAA
Found at i:25902579 original size:92 final size:92
Alignment explanation
Indices: 25900598--25902571 Score: 3381
Period size: 92 Copynumber: 21.5 Consensus size: 92
25900588 AGATCAAAAT
* *
25900598 TAATGAACCTTTATCTCTCTGAAGTTATAGTAGGAGCAAGATTAAGTTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25900663 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * * *
25900690 TAATGAACCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGAAGAAGTTTCCAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25900755 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
*
25900782 TAATGAACCTTTATCTCTCTGAAGTTATAGTAGGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25900847 TCCTCTTGAAGTTATAGTAAATTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* *
25900874 TAATGAACATTTATCTCTCTGAAGTTATAGTAAGAGCAAGTTGAAGTTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25900939 TCCTCTTGAAGTTATAGTAAAGTTAGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * * * *
25900966 TAATGAACCTTTATCTCTCTAAAGTTGTAGTAGGAGCAAGATGAAGTTTTAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901031 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* *
25901058 TAATGAACCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATGAAGTTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25901123 TCCTCTTGAAGTTATAGTAAATTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
25901150 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901215 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25901242 TAATGAACCTTTATCTCTTTGAAGCTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901307 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25901334 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAACAAGATGATGTTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901399 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
*
25901426 TAATGAACCTTTATCTCTCTGAAGTTATAGAAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25901491 TCCTCTTGAAGTTCTAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * * *
25901518 TAATGAACCTTTATCTCTTTGAAGTTATAGTAGGAGCAAGATGAAATTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901583 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
*
25901610 TAATGAACCTTAATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901675 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25901702 TAATGGACCTTTATCTCTTTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAAAGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901767 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25901794 TAATAAACCTTTATCTCTTTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25901859 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
*
25901886 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25901951 TCCTCTTGAAGTTATAGTAAAATTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25901978 TAACGAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25902043 TCCTCTTGAAGTTATAGTAAAGTTGAA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25902070 GAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25902135 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* *
25902162 TAATGAACCTTTATCTCTTTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAATGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25902227 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25902254 TAACGAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25902319 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* *
25902346 TAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
25902411 TCCTCTTGAAGTTATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
* * *
25902438 GAACGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTA
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
*
25902503 TCCTCTTGAAGATATAGTAAAGTTGGA
66 TCCTCTTGAAGTTATAGTAAAGTTGGA
** ** *
25902530 TAACAAACCTTTATCTCTCTGAAGTTGCAGTAAGACCAAGAT
1 TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGAT
25902572 AAGGCTTCGA
Statistics
Matches: 1788, Mismatches: 94, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 1788 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (92 bp):
TAATGAACCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGTTTCAAACGTCAATTCTTA
TCCTCTTGAAGTTATAGTAAAGTTGGA
Found at i:25904063 original size:13 final size:12
Alignment explanation
Indices: 25904033--25904078 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
25904023 AATAGATTAT
25904033 TTAATAAATAAATA
1 TTAAT-AAT-AATA
25904047 TTAATAATAATA
1 TTAATAATAATA
*
25904059 GTTAATAATGATA
1 -TTAATAATAATA
25904072 TTAATAA
1 TTAATAA
25904079 ATAAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.37
13 14 0.47
14 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (12 bp):
TTAATAATAATA
Found at i:25905176 original size:30 final size:29
Alignment explanation
Indices: 25905142--25905301 Score: 169
Period size: 30 Copynumber: 5.3 Consensus size: 29
25905132 CAAAAATAGT
25905142 ATTTTAACCCCAAAACTTTCTAAAACTTAC
1 ATTTTAACCCCAAAACTTTCTAAAA-TTAC
* *
25905172 ATTTTAACCCCTAAACTTATCTAAAATTAT
1 ATTTTAACCCCAAAACTT-TCTAAAATTAC
* * *
25905202 ATTTTGACCCCAAAACTTCTCAAAAATTAT
1 ATTTTAACCCCAAAACTT-TCTAAAATTAC
*
25905232 ATTTTAACCCTAAAACTTTCTGAAAATTAC
1 ATTTTAACCCCAAAACTTTCT-AAAATTAC
* * * *
25905262 ATTTTGACCCTC-GAACTTTCCAAAATTTC
1 ATTTTAACCC-CAAAACTTTCTAAAATTAC
25905291 ATTTTTAACCC
1 A-TTTTAACCC
25905302 TAATTTTACC
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.09
30 93 0.85
31 7 0.06
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTTTAACCCCAAAACTTTCTAAAATTAC
Found at i:25905213 original size:60 final size:60
Alignment explanation
Indices: 25905120--25905532 Score: 267
Period size: 59 Copynumber: 7.0 Consensus size: 60
25905110 CCCTGAAAGT
* * ** * *
25905120 CCCTAAAC-TATCCAAAAATAGTATTTTAACCCCAAAACTTTCTAAAACTTACA-TTTTAA
1 CCCTAAACTTATCTAAAATTACCATTTTGACCCCAAAACTTTCCAAAA-TTACATTTTTAA
* * *
25905179 CCCCTAAACTTATCTAAAATTA-TATTTTGACCCCAAAACTTCTCAAAAATTATA-TTTTAA
1 -CCCTAAACTTATCTAAAATTACCATTTTGACCCCAAAACTT-TCCAAAATTACATTTTTAA
* *
25905239 CCCTAAAACTT-TCTGAAAATTA-CATTTTGACCCTC-GAACTTTCCAAAATTTCATTTTTAA
1 CCCT-AAACTTATCT-AAAATTACCATTTTGACCC-CAAAACTTTCCAAAATTACATTTTTAA
** * * ** *
25905299 CCCTAATTTTACCAAAAATTACCATTTTG-CCCCCGAACTTTCCAAAATTTCATTTTTAA
1 CCCTAAACTTATCTAAAATTACCATTTTGACCCCAAAACTTTCCAAAATTACATTTTTAA
** ** * * ** *
25905358 CCCCGATTTTACCAAAAATTACCATTTTG-CCCCCGAACTTTCCAAAATTCCATTTTTAA
1 CCCTAAACTTATCTAAAATTACCATTTTGACCCCAAAACTTTCCAAAATTACATTTTTAA
** ** * * ** * *
25905417 CCCCGATTTTACCAAAAATTACCATTTT-ACCCCCGAACTTTCCAAAATTCCATTTTTGA
1 CCCTAAACTTATCTAAAATTACCATTTTGACCCCAAAACTTTCCAAAATTACATTTTTAA
* ** * * * *
25905476 -CCTCGATTTTACCAAAAATTACTATTTT-ACCCCCAAACTTTCCAAAATCT-CATTTTT
1 CCCT-AAACTTATCTAAAATTACCATTTTGACCCCAAAACTTTCCAAAAT-TACATTTTT
25905533 GACCTCGATT
Statistics
Matches: 320, Mismatches: 21, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
58 3 0.01
59 217 0.68
60 83 0.26
61 17 0.05
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (60 bp):
CCCTAAACTTATCTAAAATTACCATTTTGACCCCAAAACTTTCCAAAATTACATTTTTAA
Found at i:25905279 original size:90 final size:89
Alignment explanation
Indices: 25905124--25905288 Score: 221
Period size: 90 Copynumber: 1.8 Consensus size: 89
25905114 GAAAGTCCCT
25905124 AAACTATCCAAAAATAGTATTTTAACCCCAAAACTTTCTAAAACTTACATTTTAACCCCTAAACT
1 AAACTATCCAAAAATAGTATTTTAACCCCAAAACTTTCTAAAACTTACATTTTAACCCCTAAACT
*
25905189 TATCTAAAATTATATTTTGACCCCA
66 T-TCCAAAATTATATTTTGACCCCA
* * *
25905214 AAACT-TCTCAAAAATTA-TATTTTAACCCTAAAACTTTCTGAAAA-TTACATTTTGA-CCCTCG
1 AAACTATC-CAAAAA-TAGTATTTTAACCCCAAAACTTTCT-AAAACTTACATTTTAACCCCT-A
25905275 AACTTTCCAAAATT
62 AACTTTCCAAAATT
25905289 TCATTTTTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
89 14 0.21
90 47 0.70
91 6 0.09
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (89 bp):
AAACTATCCAAAAATAGTATTTTAACCCCAAAACTTTCTAAAACTTACATTTTAACCCCTAAACT
TTCCAAAATTATATTTTGACCCCA
Found at i:25905302 original size:30 final size:29
Alignment explanation
Indices: 25905245--25905540 Score: 170
Period size: 29 Copynumber: 10.0 Consensus size: 29
25905235 TTAACCCTAA
* * *
25905245 AACTTTCTGAAAATTACATTTTGACCCTCG
1 AACTTTC-CAAAATTCCATTTTTACCCTCG
*
25905275 AACTTTCCAAAATTTCATTTTTAACCCT--
1 AACTTTCCAAAATTCCATTTTT-ACCCTCG
* * *
25905303 AATTTTACCAAAAATTACCA-TTTTGCCCCCG
1 AACTTT-CC-AAAATT-CCATTTTTACCCTCG
*
25905334 AACTTTCCAAAATTTCATTTTTAACCC-CG
1 AACTTTCCAAAATTCCATTTTT-ACCCTCG
* * *
25905363 -ATTTTACCAAAAATTACCA-TTTTGCCCCCG
1 AACTTT-CC-AAAATT-CCATTTTTACCCTCG
25905393 AACTTTCCAAAATTCCATTTTTAACCC-CG
1 AACTTTCCAAAATTCCATTTTT-ACCCTCG
* *
25905422 -ATTTTACCAAAAATTACCA-TTTTACCCCCG
1 AACTTT-CC-AAAATT-CCATTTTTACCCTCG
25905452 AACTTTCCAAAATTCCATTTTTGA-CCTCG
1 AACTTTCCAAAATTCCATTTTT-ACCCTCG
* * * *
25905481 -ATTTTACCAAAAATTAC-TATTTTACCCCCA
1 AACTTT-CC-AAAATTCCAT-TTTTACCCTCG
25905511 AACTTTCCAAAA-TCTCATTTTTGA-CCTCG
1 AACTTTCCAAAATTC-CATTTTT-ACCCTCG
25905540 A
1 A
25905541 TTTTACTAAA
Statistics
Matches: 210, Mismatches: 26, Indels: 61
0.71 0.09 0.21
Matches are distributed among these distances:
28 26 0.12
29 83 0.40
30 77 0.37
31 24 0.11
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (29 bp):
AACTTTCCAAAATTCCATTTTTACCCTCG
Found at i:25905313 original size:29 final size:29
Alignment explanation
Indices: 25905281--25905562 Score: 159
Period size: 30 Copynumber: 9.5 Consensus size: 29
25905271 CTCGAACTTT
* *
25905281 CCAAAATTTCATTTTTAACCCTAATTTTA
1 CCAAAATTCCATTTTTAACCCCAATTTTA
** *
25905310 CCAAAAATTACCA-TTTTGCCCCCGAACTTT-
1 CC-AAAATT-CCATTTTTAACCCC-AATTTTA
* *
25905340 CCAAAATTTCATTTTTAACCCCGATTTTA
1 CCAAAATTCCATTTTTAACCCCAATTTTA
** *
25905369 CCAAAAATTACCA-TTTTGCCCCCGAACTTT-
1 CC-AAAATT-CCATTTTTAACCCC-AATTTTA
*
25905399 CCAAAATTCCATTTTTAACCCCGATTTTA
1 CCAAAATTCCATTTTTAACCCCAATTTTA
* *
25905428 CCAAAAATTACCA-TTTTACCCCCGAACTTT-
1 CC-AAAATT-CCATTTTTAACCCC-AATTTTA
* * *
25905458 CCAAAATTCCATTTTTGACCTCGATTTTA
1 CCAAAATTCCATTTTTAACCCCAATTTTA
* * *
25905487 CCAAAAATTAC-TATTTTACCCCCAAACTTT-
1 CC-AAAATTCCAT-TTTTAACCCC-AATTTTA
* * *
25905517 CCAAAA-TCTCATTTTTGACCTCGATTTTA
1 CCAAAATTC-CATTTTTAACCCCAATTTTA
*
25905546 CTAAAAATTACCATTTT
1 C-CAAAATT-CCATTTT
25905563 ACCCCCGAGT
Statistics
Matches: 189, Mismatches: 40, Indels: 46
0.69 0.15 0.17
Matches are distributed among these distances:
28 25 0.13
29 63 0.33
30 69 0.37
31 31 0.16
32 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (29 bp):
CCAAAATTCCATTTTTAACCCCAATTTTA
Found at i:25905320 original size:59 final size:59
Alignment explanation
Indices: 25905254--25905570 Score: 460
Period size: 59 Copynumber: 5.4 Consensus size: 59
25905244 AAACTTTCTG
* *
25905254 AAAATTA-CATTTTGACCCTCGAACTTTCCAAAATTTCATTTTTAACCCTAATTTTACCA
1 AAAATTACCATTTT-ACCCCCGAACTTTCCAAAATTTCATTTTTAACCCTGATTTTACCA
* *
25905313 AAAATTACCATTTTGCCCCCGAACTTTCCAAAATTTCATTTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTAACCCTGATTTTACCA
* * *
25905372 AAAATTACCATTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTAACCCTGATTTTACCA
* *
25905431 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGA-CCTCGATTTTACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTAACCCT-GATTTTACCA
* * * * *
25905490 AAAATTACTATTTTACCCCCAAACTTTCCAAAATCTCATTTTTGA-CCTCGATTTTACTA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTAACCCT-GATTTTACCA
25905549 AAAATTACCATTTTACCCCCGA
1 AAAATTACCATTTTACCCCCGA
25905571 GTATACAAAA
Statistics
Matches: 241, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
58 2 0.01
59 233 0.97
60 6 0.02
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTTCATTTTTAACCCTGATTTTACCA
Found at i:25905326 original size:90 final size:90
Alignment explanation
Indices: 25905142--25905361 Score: 202
Period size: 89 Copynumber: 2.5 Consensus size: 90
25905132 CAAAAATAGT
*
25905142 ATTTTAACCCCAAAACTTTCTAAAACTTACATTTTAACCCCTAAACTTATCTAAAATTATATTTT
1 ATTTTAACCCCAAAACTTTCTAAAACTTACATTTTAACCCCTAAACTTATCCAAAATTATATTTT
* *
25905207 GACCCCAAAACTTCTCAAAAATTAT
66 GAACCCAAAACTTCTCAAAAATTAC
* * *
25905232 ATTTTAACCCTAAAACTTTCTGAAAA-TTACATTTTGA-CCCTCGAACTT-TCCAAAATT-TCAT
1 ATTTTAACCCCAAAACTTTCT-AAAACTTACATTTTAACCCCT-AAACTTATCCAAAATTAT-AT
* * **
25905293 TTTTAACCCTAATTTTAC-CAAAAATTACC
63 TTTGAACCCAAAACTT-CTCAAAAATTA-C
* ** * *
25905322 ATTTT-GCCCCCGAACTTTCCAAAA-TTTCATTTTTAACCCC
1 ATTTTAACCCCAAAACTTTCTAAAACTTACA-TTTTAACCCC
25905362 GATTTTACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
88 9 0.08
89 49 0.46
90 44 0.42
91 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (90 bp):
ATTTTAACCCCAAAACTTTCTAAAACTTACATTTTAACCCCTAAACTTATCCAAAATTATATTTT
GAACCCAAAACTTCTCAAAAATTAC
Found at i:25918864 original size:14 final size:15
Alignment explanation
Indices: 25918845--25918873 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25918835 GTGGCACTCT
25918845 TTCATTG-GATTATA
1 TTCATTGTGATTATA
25918859 TTCATTGTGATTATA
1 TTCATTGTGATTATA
25918874 ACAGTGCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (15 bp):
TTCATTGTGATTATA
Found at i:25921917 original size:21 final size:21
Alignment explanation
Indices: 25921891--25921967 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
25921881 AATAGTGCAG
*
25921891 ACTTCTACCGATAGAAGTGAT
1 ACTTCTACCGATACAAGTGAT
*
25921912 AGTTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGTGA-T
* * *
25921934 -CTTCTACCGAAATAAGTCAT
1 ACTTCTACCGATACAAGTGAT
*
25921954 ACTTTTACCGATAC
1 ACTTCTACCGATAC
25921968 TAAAAACTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAT
Found at i:25930946 original size:55 final size:55
Alignment explanation
Indices: 25930862--25930966 Score: 192
Period size: 55 Copynumber: 1.9 Consensus size: 55
25930852 TCAGTGTGAG
*
25930862 TATAACAATATAATCGTACAAACATTCATACAAGAAACAATCATTAATCCGAGTC
1 TATAACAATATAATCATACAAACATTCATACAAGAAACAATCATTAATCCGAGTC
*
25930917 TATAATAATATAATCATACAAACATTCATACAAGAAACAATCATTAATCC
1 TATAACAATATAATCATACAAACATTCATACAAGAAACAATCATTAATCC
25930967 AATACCATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.27
Consensus pattern (55 bp):
TATAACAATATAATCATACAAACATTCATACAAGAAACAATCATTAATCCGAGTC
Found at i:25932504 original size:28 final size:29
Alignment explanation
Indices: 25932463--25932518 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
25932453 CCACCACCAA
25932463 TGGTGGCAAATCGGGGCTGATTTAAAAGT
1 TGGTGGCAAATCGGGGCTGATTTAAAAGT
25932492 TGGT-GCAAATCGGGGCTGATTTAAAAG
1 TGGTGGCAAATCGGGGCTGATTTAAAAG
25932519 CCAATTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.27
Consensus pattern (29 bp):
TGGTGGCAAATCGGGGCTGATTTAAAAGT
Found at i:25935419 original size:19 final size:19
Alignment explanation
Indices: 25935394--25935446 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
25935384 GGCCTAACAG
*
25935394 AGAAAAAGAAAAAACGA-A
1 AGAAAAAGAAAAAAAGAGA
25935412 AGGAAAAAGGAAAAAAAGAGA
1 A-GAAAAA-GAAAAAAAGAGA
25935433 A-AAAAAGAAAAAAA
1 AGAAAAAGAAAAAAA
25935447 CACAATAGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 9 0.29
19 11 0.35
20 9 0.29
21 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAAAAAGAGA
Found at i:25935434 original size:10 final size:10
Alignment explanation
Indices: 25935415--25935446 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
25935405 AAACGAAAGG
25935415 AAAAAG-GAA
1 AAAAAGAGAA
25935424 AAAAAGAGAA
1 AAAAAGAGAA
25935434 AAAAAGA-AA
1 AAAAAGAGAA
25935443 AAAA
1 AAAA
25935447 CACAATAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 12 0.55
10 10 0.45
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:25936988 original size:40 final size:41
Alignment explanation
Indices: 25936944--25937022 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
25936934 TCTGAATAAA
25936944 CAAAAAGGATAATAAAAGAAAAGGTCGAAAAGG-AAATTAT
1 CAAAAAGGATAATAAAAGAAAAGGTCGAAAAGGTAAATTAT
*
25936984 CAAAAAGGATAATAAATGAAAAGGTCGAAAAGGTAAATT
1 CAAAAAGGATAATAAAAGAAAAGGTCGAAAAGGTAAATT
25937023 TATTGAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.86
41 5 0.14
ACGTcount: A:0.58, C:0.05, G:0.20, T:0.16
Consensus pattern (41 bp):
CAAAAAGGATAATAAAAGAAAAGGTCGAAAAGGTAAATTAT
Found at i:25937517 original size:15 final size:15
Alignment explanation
Indices: 25937474--25937511 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
25937464 GGTGAATGAT
*
25937474 ATTAATCTAAAGT--
1 ATTAATCTAAACTAA
25937487 ATTAATCTAAACTAA
1 ATTAATCTAAACTAA
25937502 ATTAATCTAA
1 ATTAATCTAA
25937512 GTTAAAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (15 bp):
ATTAATCTAAACTAA
Found at i:25942693 original size:13 final size:13
Alignment explanation
Indices: 25942675--25942705 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25942665 ATATGCTCTT
25942675 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
25942688 TTTTTTCTTTTTG
1 TTTTTTCTTTTTC
25942701 TTTTT
1 TTTTT
25942706 CTGAGCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:25943012 original size:17 final size:17
Alignment explanation
Indices: 25942970--25943012 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
25942960 TGTTTAGTAA
* *
25942970 TGCTTTTATCTCAAAAG
1 TGCTTTTGTCCCAAAAG
25942987 TGCTTTTTGTCCCAAAAG
1 TGC-TTTTGTCCCAAAAG
25943005 TGCTTTTG
1 TGCTTTTG
25943013 AAAAGCAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (17 bp):
TGCTTTTGTCCCAAAAG
Found at i:25945428 original size:20 final size:20
Alignment explanation
Indices: 25945403--25945445 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25945393 CAAGGCGTGG
*
25945403 GGCTTGGGATGACAGTAGCA
1 GGCTTGGGATGAAAGTAGCA
*
25945423 GGCTTGGGATGAAAGTAGTA
1 GGCTTGGGATGAAAGTAGCA
25945443 GGC
1 GGC
25945446 ATGTGTATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.42, T:0.21
Consensus pattern (20 bp):
GGCTTGGGATGAAAGTAGCA
Found at i:25951913 original size:13 final size:13
Alignment explanation
Indices: 25951895--25951921 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25951885 TCAATTTTGG
25951895 ATTAACCTGACCC
1 ATTAACCTGACCC
25951908 ATTAACCTGACCC
1 ATTAACCTGACCC
25951921 A
1 A
25951922 ACCCGTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.22
Consensus pattern (13 bp):
ATTAACCTGACCC
Found at i:25953109 original size:34 final size:37
Alignment explanation
Indices: 25953023--25953117 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 37
25953013 ATTTTCGGAA
* *
25953023 TGCACCTAAAATTGTCGCTGCATAAATATTCTTCAAAT
1 TGCACCCAAAAATGTCGCTGCATAAATATTCTT-AAAT
* *
25953061 TGCATCCAAAAATGTCGCTGCATAAGTA-T-TT-AAT
1 TGCACCCAAAAATGTCGCTGCATAAATATTCTTAAAT
** *
25953095 TGCACCCAGGAATGTCACTGCAT
1 TGCACCCAAAAATGTCGCTGCAT
25953118 GAACATGTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 22 0.45
36 2 0.04
37 1 0.02
38 24 0.49
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (37 bp):
TGCACCCAAAAATGTCGCTGCATAAATATTCTTAAAT
Found at i:25969304 original size:23 final size:24
Alignment explanation
Indices: 25969269--25969321 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
25969259 TGTCATTGTA
* *
25969269 ATTTTTCTATTAATTTGTTTTTTT
1 ATTTTACTATTAATTTGTTTCTTT
25969293 ATTTTACT-TTAATTTGTTTCTTT
1 ATTTTACTATTAATTTGTTTCTTT
25969316 AGTTTT
1 A-TTTT
25969322 TGTAGAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (24 bp):
ATTTTACTATTAATTTGTTTCTTT
Found at i:25971094 original size:3 final size:3
Alignment explanation
Indices: 25971086--25971143 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
25971076 ATTGAAGCAA
*
25971086 AAG AAG AAG -AG AA- AAG AA- AAG AAG AAG AAA AAG AAG -AG AAGG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G
25971128 AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG A
25971144 TATTACCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 8 0.17
3 37 0.77
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25971118 original size:30 final size:30
Alignment explanation
Indices: 25971079--25971143 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
25971069 TAAGGGTATT
*
25971079 GAAGCAAAAGAAGA-AGAGAAAAGAA-AAGAA
1 GAAGAAAAAGAAGAGA-AG-AAAGAAGAAGAA
*
25971109 GAAGAAAAAGAAGAGAAGGAAGAAGAAGAA
1 GAAGAAAAAGAAGAGAAGAAAGAAGAAGAA
25971139 GAAGA
1 GAAGA
25971144 TATTACCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 5 0.16
30 25 0.81
31 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.31, T:0.00
Consensus pattern (30 bp):
GAAGAAAAAGAAGAGAAGAAAGAAGAAGAA
Found at i:25971119 original size:27 final size:29
Alignment explanation
Indices: 25971089--25971143 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 29
25971079 GAAGCAAAAG
25971089 AAGAAGAGAA-AAGAA-AAGAAGAAGAAA
1 AAGAAGAGAAGAAGAAGAAGAAGAAGAAA
25971116 AAGAAGAGAAGGAAGAAGAAGAAGAAGA
1 AAGAAGAGAA-GAAGAAGAAGAAGAAGA
25971144 TATTACCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.40
29 5 0.20
30 10 0.40
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AAGAAGAGAAGAAGAAGAAGAAGAAGAAA
Found at i:25971558 original size:17 final size:17
Alignment explanation
Indices: 25971534--25971584 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
25971524 GCATTTCATC
25971534 TAATTGTCAT-TACATTT
1 TAATTGTC-TCTACATTT
*
25971551 TTATTGTCTCTACATTT
1 TAATTGTCTCTACATTT
25971568 TAATTGT-TCTCACATTT
1 TAATTGTCTCT-ACATTT
25971585 GCATTGTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.55
Consensus pattern (17 bp):
TAATTGTCTCTACATTT
Found at i:25974082 original size:23 final size:22
Alignment explanation
Indices: 25974046--25974089 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
25974036 CAAACAAAAT
*
25974046 TTTGTTTTTATTTTATTTTATA
1 TTTGTTTTTATTTTATATTATA
*
25974068 TTTGTTCTTTCTTTTATATTAT
1 TTTGTT-TTTATTTTATATTAT
25974090 TATCTTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTGTTTTTATTTTATATTATA
Found at i:25993718 original size:18 final size:17
Alignment explanation
Indices: 25993653--25993721 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
25993643 ATTTGCATCA
* *
25993653 CATTCCCATTGTCATTA
1 CATTTCCATTGTCATTG
** * *
25993670 CATTTTAATTGTTACTG
1 CATTTCCATTGTCATTG
*
25993687 CATTTGCATTGTCATTG
1 CATTTCCATTGTCATTG
25993704 CATTTCCATTTGTCATTG
1 CATTTCCA-TTGTCATTG
25993722 TAATTTAATG
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
17 31 0.77
18 9 0.22
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (17 bp):
CATTTCCATTGTCATTG
Found at i:26000783 original size:18 final size:19
Alignment explanation
Indices: 26000762--26000799 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26000752 GAAACAAGAT
26000762 AAAAAAAGAAA-GGAAATA
1 AAAAAAAGAAATGGAAATA
**
26000780 AAAAATTGAAATGGAAATA
1 AAAAAAAGAAATGGAAATA
26000799 A
1 A
26000800 TTTCCAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (19 bp):
AAAAAAAGAAATGGAAATA
Found at i:26000795 original size:19 final size:17
Alignment explanation
Indices: 26000760--26000799 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
26000750 GTGAAACAAG
26000760 ATAAAAAAAGAAAGGAA
1 ATAAAAAAAGAAAGGAA
*
26000777 ATAAAAAATTGAAATGGAA
1 ATAAAAAA-AGAAA-GGAA
26000796 ATAA
1 ATAA
26000800 TTTCCAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
ATAAAAAAAGAAAGGAA
Found at i:26000967 original size:53 final size:51
Alignment explanation
Indices: 26000901--26001003 Score: 152
Period size: 53 Copynumber: 2.0 Consensus size: 51
26000891 TATTTTTAAT
* * *
26000901 ATTGGAAAAAATTTATTTCTAATATTTTTATTTTTTCTTTCAATATTGTTCCC
1 ATTGGAAAAAATTTATGTCAAATATTTTTA-ATTTT-TTTCAATATTGTTCCC
*
26000954 ATTGGAAACAATTTATGTCAAATATTTTTAATTTTTTTCAATATTGTTCC
1 ATTGGAAAAAATTTATGTCAAATATTTTTAATTTTTTTCAATATTGTTCC
26001004 AACTTATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 15 0.33
52 4 0.09
53 27 0.59
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (51 bp):
ATTGGAAAAAATTTATGTCAAATATTTTTAATTTTTTTCAATATTGTTCCC
Found at i:26001092 original size:10 final size:9
Alignment explanation
Indices: 26001045--26001097 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
26001035 TTTACATTAA
26001045 TTATAATTT
1 TTATAATTT
26001054 TTAT-ATTT
1 TTATAATTT
* **
26001062 TTCTAAAGT
1 TTATAATTT
26001071 TTATAATTT
1 TTATAATTT
26001080 TTATAACTTT
1 TTATAA-TTT
26001090 TTA-AATTT
1 TTATAATTT
26001098 CTTAGATGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
8 10 0.28
9 20 0.56
10 6 0.17
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATAATTT
Found at i:26001094 original size:26 final size:26
Alignment explanation
Indices: 26001045--26001094 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
26001035 TTTACATTAA
*
26001045 TTATAATTTTTATATTTTTCTAAAGT
1 TTATAATTTTTATACTTTTCTAAAGT
26001071 TTATAATTTTTATAACTTTT-TAAA
1 TTATAATTTTTAT-ACTTTTCTAAA
26001095 TTTCTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TTATAATTTTTATACTTTTCTAAAGT
Found at i:26007678 original size:12 final size:12
Alignment explanation
Indices: 26007657--26007734 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
26007647 ATAACATCCA
*
26007657 AACAATAAAAAT
1 AACAACAAAAAT
26007669 AACAACAAAAAT
1 AACAACAAAAAT
* *
26007681 AATAGCAAAAAT
1 AACAACAAAAAT
26007693 AACAAC---AA-
1 AACAACAAAAAT
26007701 AACAACAAAAAT
1 AACAACAAAAAT
26007713 AA-AAGCAAAAAT
1 AACAA-CAAAAAT
*
26007725 AACACCAAAA
1 AACAACAAAA
26007735 CAGTAGAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
8 6 0.11
9 2 0.04
11 4 0.07
12 41 0.76
13 1 0.02
ACGTcount: A:0.73, C:0.15, G:0.03, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:26007682 original size:32 final size:32
Alignment explanation
Indices: 26007643--26007756 Score: 106
Period size: 32 Copynumber: 3.5 Consensus size: 32
26007633 AACGCGCATA
*
26007643 AAAAATAACATCCAAACAATAA-AA-ATAACAAC
1 AAAAATAACA-CCAAA-AATAACAACAAAACAAC
* *
26007675 AAAAATAATAGCAAAAATAACAACAAAACAAC
1 AAAAATAACACCAAAAATAACAACAAAACAAC
* * * *
26007707 AAAAATAAAAGCAAAAATAACACCAAAACAGTAG
1 AAAAATAACACCAAAAATAACAACAAAACA--AC
*
26007741 AAAAATAGCACCAAAA
1 AAAAATAACACCAAAA
26007757 CAGCAACCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
30 5 0.07
31 6 0.09
32 44 0.64
34 14 0.20
ACGTcount: A:0.69, C:0.17, G:0.04, T:0.10
Consensus pattern (32 bp):
AAAAATAACACCAAAAATAACAACAAAACAAC
Found at i:26007696 original size:44 final size:44
Alignment explanation
Indices: 26007643--26007726 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
26007633 AACGCGCATA
* * *
26007643 AAAAATAACATCCAAACAATAAAAATAACAA-CAAAAATAATAGC
1 AAAAATAACAACAAAACAACAAAAATAA-AAGCAAAAATAATAGC
26007687 AAAAATAACAACAAAACAACAAAAATAAAAGCAAAAATAA
1 AAAAATAACAACAAAACAACAAAAATAAAAGCAAAAATAA
26007727 CACCAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.73, C:0.14, G:0.02, T:0.11
Consensus pattern (44 bp):
AAAAATAACAACAAAACAACAAAAATAAAAGCAAAAATAATAGC
Found at i:26007766 original size:34 final size:34
Alignment explanation
Indices: 26007728--26007792 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
26007718 CAAAAATAAC
* *
26007728 ACCAAAACAGTAGAAAA-ATAGCACCAAAACAGCA
1 ACCAAAACAGTA-AAAAGACAACACCAAAACAGCA
*
26007762 ACCAAAATAGTAAAAAGACAACACCAAAACA
1 ACCAAAACAGTAAAAAGACAACACCAAAACA
26007793 TAAAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.62, C:0.23, G:0.09, T:0.06
Consensus pattern (34 bp):
ACCAAAACAGTAAAAAGACAACACCAAAACAGCA
Found at i:26007805 original size:23 final size:22
Alignment explanation
Indices: 26007753--26007821 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
26007743 AAATAGCACC
* *
26007753 AAAACAGCAACCAAAATAGTAA
1 AAAACAACAACCAAAACAGTAA
26007775 AAAGACAAC-ACCAAAACA-TAA
1 AAA-ACAACAACCAAAACAGTAA
26007796 AAAACAACAACCAAAACAGTAA
1 AAAACAACAACCAAAACAGTAA
26007818 AAAA
1 AAAA
26007822 AAATATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 15 0.36
22 18 0.43
23 4 0.10
ACGTcount: A:0.68, C:0.20, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAACAACAACCAAAACAGTAA
Found at i:26013762 original size:21 final size:22
Alignment explanation
Indices: 26013728--26013772 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
26013718 GAGAGGGAGT
26013728 AAAAGTCATGGGGGAAAATAAA
1 AAAAGTCATGGGGGAAAATAAA
*
26013750 AAAAGTTAT-GGGGAAAATAAA
1 AAAAGTCATGGGGGAAAATAAA
26013771 AA
1 AA
26013773 GTTTTGAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (22 bp):
AAAAGTCATGGGGGAAAATAAA
Found at i:26029817 original size:6 final size:6
Alignment explanation
Indices: 26029806--26029831 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26029796 TAGTGATTAA
26029806 AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AA
26029832 GGGTTAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:26030427 original size:21 final size:21
Alignment explanation
Indices: 26030380--26030419 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26030370 TAGTGCAGAC
*
26030380 TTCTACCGATACAAGTGACAG
1 TTCTACCGATACAAGAGACAG
*
26030401 TTCTACCGATATAAGAGAC
1 TTCTACCGATACAAGAGAC
26030420 TTTTCTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (21 bp):
TTCTACCGATACAAGAGACAG
Found at i:26030747 original size:33 final size:34
Alignment explanation
Indices: 26030705--26030798 Score: 172
Period size: 33 Copynumber: 2.8 Consensus size: 34
26030695 TCTCATGTAG
26030705 TATATATATATATCACATTTAACTAATGTAG-TA
1 TATATATATATATCACATTTAACTAATGTAGATA
26030738 TATATATATATATCACATTTAACTAATGTAGTATA
1 TATATATATATATCACATTTAACTAATGTAG-ATA
26030773 TATATATATATATCACATTTAACTAA
1 TATATATATATATCACATTTAACTAA
26030799 CATACCAGCT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 31 0.53
35 28 0.47
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.43
Consensus pattern (34 bp):
TATATATATATATCACATTTAACTAATGTAGATA
Found at i:26034863 original size:41 final size:41
Alignment explanation
Indices: 26034794--26034971 Score: 230
Period size: 41 Copynumber: 4.3 Consensus size: 41
26034784 ACTTGATGTA
* * *
26034794 TAAATGGAAGACTCATGTCTTGAGATGAGTATGAGATTATAT
1 TAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
* * * *** *
26034836 TAAAGGAAGACTCGTGACCCAAAATGAGCATAAGATTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
*
26034877 TAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
*
26034918 TGAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATATT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATA-T
26034960 TAAAGGAAGACT
1 TAAAGGAAGACT
26034972 TATGAGTCGG
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 100 0.86
42 16 0.14
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (41 bp):
TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
Found at i:26034988 original size:41 final size:40
Alignment explanation
Indices: 26034794--26035008 Score: 175
Period size: 41 Copynumber: 5.2 Consensus size: 40
26034784 ACTTGATGTA
* * *
26034794 TAAATGGAAGACTCATGTCTTGAG-ATGAGTATGAGATTATAT
1 TAAA-GGAAGACTCATGTCTCG-GTA-GAGCATAAGATTATAT
* * * ***
26034836 TAAAGGAAGACTCGTGACCCAAAATGAGCATAAGATTATAT
1 TAAAGGAAGACTCATGTCTCGGTA-GAGCATAAGATTATAT
*
26034877 TAAAGGAAGACTCATGTCTCGGGGT-GAGCATGAGATTATAT
1 TAAAGGAAGACTCATGTCTC--GGTAGAGCATAAGATTATAT
* * *
26034918 TGAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATATT
1 TAAAGGAAGACTCATGTCTCGGTA-GAGCATAAGATTATA-T
* ** *
26034960 TAAAGGAAGACTTATGAGTCGGTAGAGCATAAGATT-TTT
1 TAAAGGAAGACTCATGTCTCGGTAGAGCATAAGATTATAT
26034999 TAAAAGGAAG
1 T-AAAGGAAG
26035009 GTCTACGACT
Statistics
Matches: 142, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
39 4 0.03
40 9 0.06
41 105 0.74
42 24 0.17
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (40 bp):
TAAAGGAAGACTCATGTCTCGGTAGAGCATAAGATTATAT
Found at i:26034988 original size:82 final size:81
Alignment explanation
Indices: 26034794--26035008 Score: 209
Period size: 82 Copynumber: 2.6 Consensus size: 81
26034784 ACTTGATGTA
* * * * *
26034794 TAAATGGAAGACTCATGTCTTGAGATGAGTATGAGATTATATTAAAGGAAGACTCGTGACCCAAA
1 TAAA-GGAAGACTCATGACTCG-GGTGAGCATGAGATTATATTAAAGGAAGACTCATGACCCAAA
26034859 ATGAGCATAAGATTATAT
64 ATGAGCATAAGATTATAT
* * * * ***
26034877 TAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATATTGAAGGAAGACTCATGTCTCGGGA
1 TAAAGGAAGACTCATGACTC-GGGTGAGCATGAGATTATATTAAAGGAAGACTCATGACCCAAAA
*
26034942 TGAGCATGAGATTATATT
65 TGAGCATAAGATTATA-T
* * * *
26034960 TAAAGGAAGACTTATGAGTC-GGTAGAGCATAAGATT-TTTTAAAAGGAAG
1 TAAAGGAAGACTCATGACTCGGGT-GAGCATGAGATTATATT-AAAGGAAG
26035009 GTCTACGACT
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
81 6 0.05
82 82 0.74
83 23 0.21
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (81 bp):
TAAAGGAAGACTCATGACTCGGGTGAGCATGAGATTATATTAAAGGAAGACTCATGACCCAAAAT
GAGCATAAGATTATAT
Found at i:26046747 original size:6 final size:6
Alignment explanation
Indices: 26046736--26046778 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
26046726 ATTGTAAATG
26046736 AGAAAA AG-AAA AGAAAAA GAGAAAA AGAGAAA AGAAAA AGAAA
1 AGAAAA AGAAAA AG-AAAA -AGAAAA AGA-AAA AGAAAA AGAAA
26046779 TATTGCTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.15
6 13 0.39
7 13 0.39
8 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:26046760 original size:13 final size:13
Alignment explanation
Indices: 26046738--26046778 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
26046728 TGTAAATGAG
26046738 AAAAAG-AAAAGA
1 AAAAAGAAAAAGA
26046750 AAAAGAGAAAAAGA
1 AAAA-AGAAAAAGA
*
26046764 GAAAAGAAAAAGA
1 AAAAAGAAAAAGA
26046777 AA
1 AA
26046779 TATTGCTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.16
13 12 0.48
14 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:26046766 original size:21 final size:20
Alignment explanation
Indices: 26046738--26046776 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
26046728 TGTAAATGAG
26046738 AAAAAGAAAAGAAAAAGAGA
1 AAAAAGAAAAGAAAAAGAGA
26046758 AAAAGAGAAAAGAAAAAGA
1 AAAA-AGAAAAGAAAAAGA
26046777 AATATTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAAGAGA
Found at i:26048326 original size:18 final size:18
Alignment explanation
Indices: 26048299--26048352 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
26048289 TTACTTTCTG
*
26048299 TTGCACTGACAATTTAAC
1 TTGCATTGACAATTTAAC
*
26048317 TTGCATTGACAACTT-A-
1 TTGCATTGACAATTTAAC
26048333 TTGCATTGACAATTTTAAC
1 TTGCATTGACAA-TTTAAC
26048352 T
1 T
26048353 ATTTTGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 12 0.40
17 3 0.10
18 14 0.47
19 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (18 bp):
TTGCATTGACAATTTAAC
Found at i:26051845 original size:26 final size:26
Alignment explanation
Indices: 26051797--26051857 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
26051787 ATTCTAGGCG
*
26051797 CAATTTTGGACATCCCCATGCAGCGA
1 CAATTTTGGACATCCCCAGGCAGCGA
* ***
26051823 TAATTTTGGACATGTTCAGGCAGCGA
1 CAATTTTGGACATCCCCAGGCAGCGA
26051849 CAATTTTGG
1 CAATTTTGG
26051858 GCGCAATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
CAATTTTGGACATCCCCAGGCAGCGA
Found at i:26061514 original size:27 final size:27
Alignment explanation
Indices: 26061458--26061516 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
26061448 TAGCTCATTT
* * *
26061458 GAGCCTAGAATAGAGTTTAGCTCTTAC
1 GAGCCCAGAAAAGAGTTTAGCTCCTAC
*
26061485 GAGCCCAGAAAAGAGTATTA-CTCCTCC
1 GAGCCCAGAAAAGAGT-TTAGCTCCTAC
26061512 GAGCC
1 GAGCC
26061517 AGAGTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (27 bp):
GAGCCCAGAAAAGAGTTTAGCTCCTAC
Found at i:26061582 original size:27 final size:27
Alignment explanation
Indices: 26061532--26061601 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
26061522 CAAAATAACA
* *
26061532 CTCTTTTGAGCCAAAAACAAAGTATCG
1 CTCTTTCGAGCCAGAAACAAAGTATCG
* *
26061559 CTCTTTCGAGCCAGAAATAGAGTATCG
1 CTCTTTCGAGCCAGAAACAAAGTATCG
*
26061586 CTCTTTCAAGCCAGAA
1 CTCTTTCGAGCCAGAA
26061602 TCAGAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (27 bp):
CTCTTTCGAGCCAGAAACAAAGTATCG
Found at i:26061616 original size:27 final size:27
Alignment explanation
Indices: 26061559--26061623 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
26061549 CAAAGTATCG
* * **
26061559 CTCTTTCGAGCCAGAAATAGAGTATCG
1 CTCTTTCAAGCCAGAAATAGAATATAA
26061586 CTCTTTCAAGCCAG-AATCAGAATATAA
1 CTCTTTCAAGCCAGAAAT-AGAATATAA
26061613 CTCTTTCAAGC
1 CTCTTTCAAGC
26061624 TAGAGTCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 30 0.91
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (27 bp):
CTCTTTCAAGCCAGAAATAGAATATAA
Found at i:26061653 original size:28 final size:28
Alignment explanation
Indices: 26061612--26061687 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
26061602 TCAGAATATA
* * *
26061612 ACTCTTTCAAGCTAGAGT-CCAACGTAAT
1 ACTCTTACGAGCTAGAATACCAA-GTAAT
* *
26061640 GCTCTTACGAGCTAGAATACCAAGTAGT
1 ACTCTTACGAGCTAGAATACCAAGTAAT
*
26061668 ACTCTTACGAGCTAGTATAC
1 ACTCTTACGAGCTAGAATAC
26061688 AGAATGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 36 0.90
29 4 0.10
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (28 bp):
ACTCTTACGAGCTAGAATACCAAGTAAT
Found at i:26062961 original size:15 final size:16
Alignment explanation
Indices: 26062929--26062961 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26062919 CAATTGGTCC
*
26062929 TTCAATTATACTAAAT
1 TTCAATTAAACTAAAT
26062945 TTCAATTAAAC-AAAT
1 TTCAATTAAACTAAAT
26062960 TT
1 TT
26062962 GTTTTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCAATTAAACTAAAT
Found at i:26067379 original size:52 final size:52
Alignment explanation
Indices: 26067296--26067482 Score: 259
Period size: 52 Copynumber: 3.6 Consensus size: 52
26067286 ATTTCAATTA
** * * * *
26067296 ATACTCATGATGACACATAGTCATCGAACCTCTTAATTCGTAGAGGAA-TCAT
1 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTA-AAGAATTCAT
* *
26067348 ATACTCACAATGACACATAGTCATCAGACCTCATAATCCATAAAGAATTCAT
1 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
* *
26067400 AAACTCACAATGACACATAGTCATTGGACCTCATAATCCGTAAAGAATTCAT
1 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
*
26067452 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACAATGACACATAGTCATCGGACCT
26067483 TTTTCATTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
51 4 0.03
52 115 0.97
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (52 bp):
ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
Found at i:26072314 original size:17 final size:17
Alignment explanation
Indices: 26072292--26072354 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
26072282 TTAAAACTTT
26072292 AATTTATTTTACGTTTA
1 AATTTATTTTACGTTTA
**
26072309 AATTTATTTTAAATTTA
1 AATTTATTTTACGTTTA
* *
26072326 AACTTACTTTACAGTTTA
1 AATTTATTTTAC-GTTTA
26072344 AATTTATTTTA
1 AATTTATTTTA
26072355 AATTAAATAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 24 0.65
18 13 0.35
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTATTTTACGTTTA
Found at i:26072319 original size:35 final size:36
Alignment explanation
Indices: 26072280--26072356 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 36
26072270 TTTTGGATTG
* *
26072280 TTTTAAAACTTT-AATTTATTTTAC-GTTTAAATTTA
1 TTTTAAAA-TTTAAACTTACTTTACAGTTTAAATTTA
26072315 TTTT-AAATTTAAACTTACTTTACAGTTTAAATTTA
1 TTTTAAAATTTAAACTTACTTTACAGTTTAAATTTA
26072350 TTTTAAA
1 TTTTAAA
26072357 TTAAATAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
33 3 0.08
34 13 0.35
35 19 0.51
36 2 0.05
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (36 bp):
TTTTAAAATTTAAACTTACTTTACAGTTTAAATTTA
Found at i:26072655 original size:28 final size:25
Alignment explanation
Indices: 26072596--26072655 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
26072586 GCACCAGCAG
*
26072596 TGCCACCACCAGATTCAACTTGCTC
1 TGCCACCACCAGATTCAACATGCTC
*
26072621 TGCCACCACCAGCTTCAACATGCTC
1 TGCCACCACCAGATTCAACATGCTC
*
26072646 TGCCATCACC
1 TGCCACCACC
26072656 GTCACTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.43, G:0.12, T:0.22
Consensus pattern (25 bp):
TGCCACCACCAGATTCAACATGCTC
Found at i:26073163 original size:13 final size:13
Alignment explanation
Indices: 26073104--26073168 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
26073094 TAAAAACAAC
26073104 ATTAATAATATAA-
1 ATTAATAATA-AAT
*
26073117 ATTAGTAATAAAT
1 ATTAATAATAAAT
** * *
26073130 AGCATTAATAAAA
1 ATTAATAATAAAT
26073143 ACTTAATAATAAAT
1 A-TTAATAATAAAT
26073157 ATTAATAATAAA
1 ATTAATAATAAA
26073169 ATAAAAAATC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
12 2 0.05
13 30 0.73
14 9 0.22
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
ATTAATAATAAAT
Found at i:26073165 original size:27 final size:26
Alignment explanation
Indices: 26073104--26073169 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
26073094 TAAAAACAAC
* *
26073104 ATTAATAATATAAATTAGTAATAAAT
1 ATTAATAATAAAAATTAATAATAAAT
** *
26073130 AGCATTAATAAAAACTTAATAATAAAT
1 ATTAATAATAAAAA-TTAATAATAAAT
26073157 ATTAATAATAAAA
1 ATTAATAATAAAA
26073170 TAAAAAATCT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
ATTAATAATAAAAATTAATAATAAAT
Found at i:26074179 original size:29 final size:28
Alignment explanation
Indices: 26074145--26074297 Score: 116
Period size: 29 Copynumber: 5.2 Consensus size: 28
26074135 CCAAAAACTA
26074145 CATTTTTGACCTCAAACTTTTCAAAATTC
1 CATTTTTGACC-CAAACTTTTCAAAATTC
* *
26074174 CATTTTTGACCCCAAACTTTCTAAAAATTA
1 CATTTTTGA-CCCAAACTTT-TCAAAATTC
*
26074204 CATTTTTGACCCTAAA-TTTTCCAAAATAC
1 CATTTTTGACCC-AAACTTTT-CAAAATTC
* * *
26074233 CATTTTT-ACCCCAGA-TGTCCAAAAATTC
1 CATTTTTGA-CCCAAACTTTTC-AAAATTC
*
26074261 CATTTTTTGACCCGAAAC-TTCCAAAATTTAC
1 CA-TTTTTGACCC-AAACTTTTCAAAA-TT-C
26074292 CATTTT
1 CATTTT
26074298 ACCCTCGAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.01
28 14 0.14
29 50 0.50
30 33 0.33
31 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (28 bp):
CATTTTTGACCCAAACTTTTCAAAATTC
Found at i:26074270 original size:58 final size:57
Alignment explanation
Indices: 26074145--26074473 Score: 332
Period size: 59 Copynumber: 5.6 Consensus size: 57
26074135 CCAAAAACTA
* * * * *
26074145 CATTTTTGA-CCTCAAACTTTTCAAAATT-CCATTTTTGACCCCAAACTTTCTAAAAATTA
1 CATTTTTGACCCT-AAACCTTCCAAAATTACCA-TTTT-ACCCCAGA-TGTCTAAAAATTC
** *
26074204 CATTTTTGACCCTAAATTTTCCAAAA-TACCATTTTTACCCCAGATGTCCAAAAATTC
1 CATTTTTGACCCTAAACCTTCCAAAATTACCA-TTTTACCCCAGATGTCTAAAAATTC
*
26074261 CATTTTTTGACCCGAAA-CTTCCAAAATTTACCATTTTACCCTC-GAATGTCTAAAAATTC
1 CA-TTTTTGACCCTAAACCTTCCAAAA-TTACCATTTTACCC-CAG-ATGTCTAAAAATTC
* * *
26074320 CATTTTTGACCC-GAACCTTCCAAAAATTACCATTTTACTCTC-GAATGTCTAAAAACTC
1 CATTTTTGACCCTAAACCTTCC-AAAATTACCATTTTAC-CCCAG-ATGTCTAAAAATTC
* *
26074378 CATTTTTGATCCC-GAACCTTCTAAAAATTACCATTTTACCCCCAGATGTCTAAAAATTC
1 CATTTTTGA-CCCTAAACCTTC-CAAAATTACCATTTTA-CCCCAGATGTCTAAAAATTC
26074437 CATTTTTGACCCTAAACCTTCCAAAAATTACCATTTT
1 CATTTTTGACCCTAAACCTTCC-AAAATTACCATTTT
26074474 GCCCTCGAGT
Statistics
Matches: 237, Mismatches: 17, Indels: 32
0.83 0.06 0.11
Matches are distributed among these distances:
57 22 0.09
58 85 0.36
59 125 0.53
60 5 0.02
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (57 bp):
CATTTTTGACCCTAAACCTTCCAAAATTACCATTTTACCCCAGATGTCTAAAAATTC
Found at i:26074280 original size:117 final size:117
Alignment explanation
Indices: 26074134--26074473 Score: 392
Period size: 117 Copynumber: 2.9 Consensus size: 117
26074124 GGAGGAACTA
* *
26074134 TCCAAAAACTACATTTTTGACCTC-AAACTTTTCAAAATT-CCATTTTTGACCCCAAACTTTCTA
1 TCCAAAAACTCCATTTTTGACC-CGAAACTTTTCAAAATTACCA-TTTT-ACCCCAAA-TGTCTA
* **
26074197 AAAATTACATTTTTGACCCTAAATTTTCC-AAAA-TACCATTTTTAC-CCC-AGATG
62 AAAATTCCATTTTTGACCCTAAACCTTCCAAAAATTACCATTTTTACTCCCGA-ATG
* * *
26074250 TCCAAAAATTCCATTTTTTGACCCGAAAC-TTCCAAAATTTACCATTTTACCCTCGAATGTCTAA
1 TCCAAAAACTCCA-TTTTTGACCCGAAACTTTTCAAAA-TTACCATTTTACCC-CAAATGTCTAA
* *
26074314 AAATTCCATTTTTGACCC-GAACCTTCCAAAAATTACCA-TTTTACTCTCGAATG
63 AAATTCCATTTTTGACCCTAAACCTTCCAAAAATTACCATTTTTACTCCCGAATG
* * * * *
26074367 TCTAAAAACTCCATTTTTGATCCCGAACCTTCTAAAAATTACCATTTTACCCCCAGATGTCTAAA
1 TCCAAAAACTCCATTTTTGA-CCCGAAACTTTTCAAAATTACCATTTTA-CCCCAAATGTCTAAA
26074432 AATTCCATTTTTGACCCTAAACCTTCCAAAAATTACCATTTT
64 AATTCCATTTTTGACCCTAAACCTTCCAAAAATTACCATTTT
26074474 GCCCTCGAGT
Statistics
Matches: 191, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
115 6 0.03
116 63 0.33
117 88 0.46
118 31 0.16
119 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (117 bp):
TCCAAAAACTCCATTTTTGACCCGAAACTTTTCAAAATTACCATTTTACCCCAAATGTCTAAAAA
TTCCATTTTTGACCCTAAACCTTCCAAAAATTACCATTTTTACTCCCGAATG
Found at i:26074315 original size:29 final size:27
Alignment explanation
Indices: 26074226--26074442 Score: 122
Period size: 29 Copynumber: 7.5 Consensus size: 27
26074216 TAAATTTTCC
* *
26074226 AAAATACCATTTTTACCCC-AGATGTCCA
1 AAAATTCCA-TTTTACCCCGA-ATGTCTA
*
26074254 AAAATTCCATTTTTTGA-CCCGAAACT-TCCA
1 AAAATTCCA--TTTT-ACCCCG-AA-TGTCTA
*
26074284 AAATTTACCATTTTACCCTCGAATGTCTA
1 AAAATT-CCATTTTACCC-CGAATGTCTA
*
26074313 AAAATTCCATTTTTGA-CCCGAACCT-TCCA
1 AAAATTCCA-TTTT-ACCCCGAA--TGTCTA
*
26074342 AAAATTACCATTTTACTCTCGAATGTCTA
1 AAAATT-CCATTTTAC-CCCGAATGTCTA
* *
26074371 AAAACTCCATTTTTGATCCCGAACCT-TCTA
1 AAAATTCCA-TTTT-ACCCCGAA--TGTCTA
*
26074401 AAAATTACCATTTTACCCCCAGATGTCTA
1 AAAATT-CCATTTTACCCCGA-ATGTCTA
26074430 AAAATTCCATTTT
1 AAAATTCCATTTT
26074443 TGACCCTAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 48
0.71 0.06 0.23
Matches are distributed among these distances:
28 30 0.20
29 75 0.49
30 38 0.25
31 9 0.06
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.34
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCGAATGTCTA
Found at i:26074488 original size:29 final size:29
Alignment explanation
Indices: 26074280--26074505 Score: 112
Period size: 29 Copynumber: 7.8 Consensus size: 29
26074270 ACCCGAAACT
* * *
26074280 TCCAAAATTTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTGCCCTCGACTG
* *
26074309 TCTAAAAATT-CCATTTTTGACC-CGAACCT-
1 TCCAAAAATTACCA-TTTTGCCCTCG-A-CTG
* * *
26074338 TCCAAAAATTACCATTTTACTCTCGAATG
1 TCCAAAAATTACCATTTTGCCCTCGACTG
* * *
26074367 TCTAAAAACT-CCATTTTTGATCC-CGAACCT-
1 TCCAAAAATTACCA-TTTTG-CCCTCG-A-CTG
* * *
26074397 TCTAAAAATTACCATTTTACCCCCAGA-TG
1 TCCAAAAATTACCATTTTGCCCTC-GACTG
* **
26074426 TCTAAAAATT-CCATTTTTGACCCTAAACCT-
1 TCCAAAAATTACCA-TTTTG-CCCTCGA-CTG
*
26074456 TCCAAAAATTACCATTTTGCCCTCGAGTG
1 TCCAAAAATTACCATTTTGCCCTCGACTG
*
26074485 TCC-AAAATTACCGTTTTGCCC
1 TCCAAAAATTACCATTTTGCCC
26074506 CTCGGGTATC
Statistics
Matches: 149, Mismatches: 28, Indels: 41
0.68 0.13 0.19
Matches are distributed among these distances:
28 31 0.21
29 69 0.46
30 40 0.27
31 9 0.06
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.34
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTGCCCTCGACTG
Found at i:26074501 original size:28 final size:29
Alignment explanation
Indices: 26074460--26074520 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
26074450 AAACCTTCCA
*
26074460 AAAATTACCATTTTG-CCCTCGAGTGTCC
1 AAAATTACCATTTTGCCCCTCGAGTATCC
* *
26074488 AAAATTACCGTTTTGCCCCTCGGGTATCC
1 AAAATTACCATTTTGCCCCTCGAGTATCC
26074517 AAAA
1 AAAA
26074521 CTCATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCCTCGAGTATCC
Found at i:26080123 original size:6 final size:6
Alignment explanation
Indices: 26080112--26080195 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
26080102 TTCAATGAAT
* * * *
26080112 AAAAGA AAAAGA AAAA-A GAAAGA AAAACA AAAACA AAAAAA GAAAAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAAGA
* *
26080159 AAAAGA AAAA-A GAGAA-A AAAAGA AAAAGA AAAGGA AA
1 AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AA
26080196 GGTCGAGGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 13 0.20
6 48 0.74
7 4 0.06
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:26080135 original size:17 final size:16
Alignment explanation
Indices: 26080112--26080190 Score: 90
Period size: 17 Copynumber: 4.9 Consensus size: 16
26080102 TTCAATGAAT
26080112 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
*
26080128 AGAAAGAAAAA-CAAAA
1 A-AAAGAAAAAGAAAAA
* *
26080144 ACAA-AAAAAGAAAAG
1 AAAAGAAAAAGAAAAA
*
26080159 AAAAGAAAAAAGAGAAA
1 AAAAG-AAAAAGAAAAA
26080176 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
26080191 GGAAAGGTCG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.10
15 8 0.16
16 15 0.29
17 23 0.45
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAA
Found at i:26080157 original size:14 final size:14
Alignment explanation
Indices: 26080112--26080190 Score: 74
Period size: 14 Copynumber: 5.6 Consensus size: 14
26080102 TTCAATGAAT
*
26080112 AAAAGAAAAAGA-A
1 AAAAGAAAAAAAGA
*
26080125 AAAAGAAAGAAAAACA
1 AAAAG-AA-AAAAAGA
*
26080141 AAAACAAAAAAAG-
1 AAAAGAAAAAAAGA
26080154 AAAAGAAAAGAAA-A
1 AAAAGAAAA-AAAGA
*
26080168 AAGAGAAAAAAAGA
1 AAAAGAAAAAAAGA
26080182 AAAAGAAAA
1 AAAAGAAAA
26080191 GGAAAGGTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
13 16 0.30
14 27 0.50
15 6 0.11
16 5 0.09
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:26080167 original size:41 final size:42
Alignment explanation
Indices: 26080112--26080190 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
26080102 TTCAATGAAT
26080112 AAAAGAAAAAGAAAAAAGA-AAGAAAAACAAAAACAAAAAAAG
1 AAAAGAAAAAGAAAAAAGAGAA-AAAAACAAAAACAAAAAAAG
* *
26080154 AAAAG-AAAAGAAAAAAGAGAAAAAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAAAAGAGAAAAAAACAAAAACAAAA
26080191 GGAAAGGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (42 bp):
AAAAGAAAAAGAAAAAAGAGAAAAAAACAAAAACAAAAAAAG
Found at i:26081497 original size:48 final size:48
Alignment explanation
Indices: 26081420--26081703 Score: 374
Period size: 48 Copynumber: 5.9 Consensus size: 48
26081410 AACACGACAA
*
26081420 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGG
1 GAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* *
26081469 GAAAGATCTAAGCCGCATCGGTGGATCCAGTACCACGAAGACACAAGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* * * * *
26081517 GAAAGATCTAAGTCGCGACGACGGATCCAGTACCACAAAAACACGACA-G
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-A-AGG
* * * *
26081566 GAAAGATCTAAGGCAGCAACGGCGGATCCAGTA-CAGTGAAAACACATGG
1 GAAAGATCTAA-GCCGCAACGGCGGATCCAGTACCA-CGAAGACACAAGG
* *
26081615 GAAAGATCTAAGTCGCGACGGCGGATCCAGTACCACGAAGACACAAGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
*
26081663 GAAAGATCTAAGCTGCAACGGCGGATCCAGTACCACGAAGA
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGA
26081704 TTTGAAGGGA
Statistics
Matches: 203, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
48 136 0.67
49 42 0.21
50 25 0.12
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.11
Consensus pattern (48 bp):
GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
Found at i:26081621 original size:98 final size:95
Alignment explanation
Indices: 26081420--26081701 Score: 377
Period size: 98 Copynumber: 2.9 Consensus size: 95
26081410 AACACGACAA
* * * *
26081420 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGC
1 GAAAGATCTAAG-TCGCGACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCAGC
* * *
26081485 ATCGGTGGATCCAGTACCACGAAGACACAAGG
65 AACGGCGGATCCAGTA-CACGAAAACACAAGG
* * *
26081517 GAAAGATCTAAGTCGCGACGACGGATCCAGTACCACAAAAACACGACA-GGAAAGATCTAAGGCA
1 GAAAGATCTAAGTCGCGACGGCGGATCCAGTACCACGAAGACAC-A-AGGGAAAGATCTAA-GCA
* *
26081581 GCAACGGCGGATCCAGTACAGTGAAAACACATGG
63 GCAACGGCGGATCCAGTACA-CGAAAACACAAGG
*
26081615 GAAAGATCTAAGTCGCGACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCTGCA
1 GAAAGATCTAAGTCGCGACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCAGCA
26081680 ACGGCGGATCCAGTACCACGAA
66 ACGGCGGATCCAGTA-CACGAA
26081702 GATTTGAAGG
Statistics
Matches: 162, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
96 50 0.31
97 42 0.26
98 70 0.43
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.11
Consensus pattern (95 bp):
GAAAGATCTAAGTCGCGACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCAGCA
ACGGCGGATCCAGTACACGAAAACACAAGG
Found at i:26081716 original size:146 final size:146
Alignment explanation
Indices: 26081409--26081698 Score: 449
Period size: 146 Copynumber: 2.0 Consensus size: 146
26081399 CAGCACCATG
* * * *
26081409 AAACACGACAAGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
1 AAACACGACAGGAAAGATCTAAGACAGCAACGGCGGATCCAGTACAGCGAAAACACAAGGGAAAG
* *
26081474 ATCTAAGCCGCATCGGTGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGTCGCGACGAC
66 ATCTAAGCCGCATCGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGTCGCAACGAC
26081539 GGATCCAGTACCACAA
131 GGATCCAGTACCACAA
* * *
26081555 AAACACGACAGGAAAGATCTAAGGCAGCAACGGCGGATCCAGTACAGTGAAAACACATGGGAAAG
1 AAACACGACAGGAAAGATCTAAGACAGCAACGGCGGATCCAGTACAGCGAAAACACAAGGGAAAG
*
26081620 ATCTAAGTCGCGA-CGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAG-CTGCAACG
66 ATCTAAGCCGC-ATCGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGTC-GCAACG
*
26081683 GCGGATCCAGTACCAC
129 ACGGATCCAGTACCAC
26081699 GAAGATTTGA
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
145 1 0.01
146 129 0.98
147 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (146 bp):
AAACACGACAGGAAAGATCTAAGACAGCAACGGCGGATCCAGTACAGCGAAAACACAAGGGAAAG
ATCTAAGCCGCATCGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGTCGCAACGAC
GGATCCAGTACCACAA
Found at i:26082276 original size:18 final size:17
Alignment explanation
Indices: 26082265--26082318 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 17
26082255 TTAAAACTTT
26082265 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
26082282 AACTTACTTTAAAGTTTA
1 AATTTATTTTAAA-TTTA
26082300 AATTTATTTTAAA-TTA
1 AATTTATTTTAAATTTA
26082316 AAT
1 AAT
26082319 AGAATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 6 0.19
17 11 0.34
18 15 0.47
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Done.