Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 83 of 356
Found at i:26139703 original size:30 final size:31
Alignment explanation
Indices: 26139669--26139727 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
26139659 TTTAATTTGA
* *
26139669 TCAATTTTAAT-CTTGTATTTTTTGAATTGG
1 TCAATTTTAATCCATGTACTTTTTGAATTGG
*
26139699 TCAATTTTAGTCCATGTACTTTTTGAATT
1 TCAATTTTAATCCATGTACTTTTTGAATT
26139728 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.54
Consensus pattern (31 bp):
TCAATTTTAATCCATGTACTTTTTGAATTGG
Found at i:26140329 original size:21 final size:22
Alignment explanation
Indices: 26140305--26140346 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
26140295 TTAATCATTA
26140305 TATAAAAAAATGATT-AAAAAC
1 TATAAAAAAATGATTCAAAAAC
* *
26140326 TATAATAAAATTATTCAAAAA
1 TATAAAAAAATGATTCAAAAA
26140347 TAATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
TATAAAAAAATGATTCAAAAAC
Found at i:26140345 original size:22 final size:20
Alignment explanation
Indices: 26140304--26140358 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
26140294 TTTAATCATT
*
26140304 ATATAAAAAAATGATTAAAA
1 ATATAATAAAATGATTAAAA
*
26140324 ACTATAATAAAATTATTCAAAA
1 A-TATAATAAAATGATT-AAAA
26140346 ATAATAATAAAAT
1 AT-ATAATAAAAT
26140359 AAAAGTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 14 0.47
22 15 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
ATATAATAAAATGATTAAAA
Found at i:26140872 original size:21 final size:23
Alignment explanation
Indices: 26140846--26140902 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
26140836 TTTTAAATAT
*
26140846 ATATTTTGAA-ATTACTTTTTTA
1 ATATTTTAAATATTACTTTTTTA
*
26140868 A-ATTTTAAATATTATTTTTTTA
1 ATATTTTAAATATTACTTTTTTA
26140890 ATA-TTTAAATATT
1 ATATTTTAAATATT
26140903 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.23
22 23 0.74
23 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTTAAATATTACTTTTTTA
Found at i:26140884 original size:33 final size:33
Alignment explanation
Indices: 26140802--26140885 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
26140792 TGAAATATAT
* *
26140802 ATTTAAAATATT-TTATTGACATATATTTTTTAA
1 ATTTTAAATATTATT-TTGAAATATATTTTTTAA
*
26140835 TTTTTAAATATATATTTTGAAAT-TACTTTTTTAA
1 ATTTTAAATAT-TATTTTGAAATATA-TTTTTTAA
26140869 ATTTTAAATATTATTTT
1 ATTTTAAATATTATTTT
26140886 TTTAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
33 17 0.39
34 25 0.57
35 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (33 bp):
ATTTTAAATATTATTTTGAAATATATTTTTTAA
Found at i:26141556 original size:31 final size:31
Alignment explanation
Indices: 26141512--26141570 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
26141502 CCGAATATTT
26141512 TTAAAAATAATTTAAA-ATATTATAAAACAAA
1 TTAAAAATAATTTAAACA-ATTATAAAACAAA
26141543 TTAAATAAT-ATTTAAACAATTATAAAAC
1 TTAAA-AATAATTTAAACAATTATAAAAC
26141571 TAATAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
TTAAAAATAATTTAAACAATTATAAAACAAA
Found at i:26141621 original size:22 final size:22
Alignment explanation
Indices: 26141594--26141648 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
26141584 AAAATTTTAA
26141594 AATATTT-AAATATTAAAAAAGT
1 AATATTTAAAAT-TTAAAAAAGT
26141616 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
26141638 AAT-TTCAAAAT
1 AATATTTAAAAT
26141649 ATATATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 7 0.23
22 20 0.65
23 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:26141739 original size:12 final size:12
Alignment explanation
Indices: 26141709--26141745 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
26141699 AAAATTTTTA
26141709 AAATTAAT-AAT
1 AAATTAATAAAT
26141720 -AA-TAATAAAT
1 AAATTAATAAAT
26141730 AAATTAATAAAT
1 AAATTAATAAAT
26141742 AAAT
1 AAAT
26141746 AAAGACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.17
10 5 0.22
11 2 0.09
12 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTAATAAAT
Found at i:26146659 original size:3 final size:3
Alignment explanation
Indices: 26146587--26146650 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
26146577 GTACTTTTGC
*
26146587 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
26146635 TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
26146651 GGTATTATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 52 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:26147101 original size:18 final size:18
Alignment explanation
Indices: 26147078--26147114 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
26147068 TATACACCTA
26147078 TATATATATACATATTTT
1 TATATATATACATATTTT
*
26147096 TATATATATGCATATTTT
1 TATATATATACATATTTT
26147114 T
1 T
26147115 CTTCTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:26166345 original size:14 final size:13
Alignment explanation
Indices: 26166321--26166354 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
26166311 CCCCCACCCC
26166321 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
*
26166334 AAGAAAAGAAAGAA
1 AA-AAAAAAAAGAA
26166348 AAAAAAA
1 AAAAAAA
26166355 CTAGCTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:26181538 original size:9 final size:9
Alignment explanation
Indices: 26181526--26181550 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26181516 TTAAAATTTT
26181526 AAAAATTCA
1 AAAAATTCA
26181535 AAAAATTCA
1 AAAAATTCA
26181544 AAAAATT
1 AAAAATT
26181551 ATTTTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTCA
Found at i:26181716 original size:18 final size:18
Alignment explanation
Indices: 26181695--26181729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26181685 ATACAAATTC
*
26181695 AAAAACTCAAATAAAAAG
1 AAAAAATCAAATAAAAAG
*
26181713 AAAAAATTAAATAAAAA
1 AAAAAATCAAATAAAAA
26181730 ATTAAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAATCAAATAAAAAG
Found at i:26185463 original size:13 final size:14
Alignment explanation
Indices: 26185414--26185462 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
26185404 TTTAAAAAGA
26185414 TAATTTATATTATAT
1 TAATTTATATT-TAT
*
26185429 TAATTTAATATTTAA
1 TAATTT-ATATTTAT
*
26185444 T-ATTTTTATTTAT
1 TAATTTATATTTAT
26185457 TAATTT
1 TAATTT
26185463 TTTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 9 0.31
16 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TAATTTATATTTAT
Found at i:26185473 original size:13 final size:13
Alignment explanation
Indices: 26185414--26185473 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
26185404 TTTAAAAAGA
26185414 TAATTTATATTATAT
1 TAATTT-TATT-TAT
*
26185429 TAATTTAATATTTAA
1 TAATTT--TATTTAT
*
26185444 TATTTTTATTTAT
1 TAATTTTATTTAT
26185457 TAATTTT-TTTAT
1 TAATTTTATTTAT
26185469 ATAAT
1 -TAAT
26185474 CATATAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.13
13 16 0.41
15 13 0.33
16 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATTTTATTTAT
Found at i:26188092 original size:21 final size:21
Alignment explanation
Indices: 26188035--26188092 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
26188025 AATTGTGAAT
26188035 ACCTATTAAAAT-A-TTTTTC
1 ACCTATTAAAATAATTTTTTC
* * *
26188054 ATCTATTAAATTATTTTTTTC
1 ACCTATTAAAATAATTTTTTC
*
26188075 ACCTATTAAAGTAATTTT
1 ACCTATTAAAATAATTTT
26188093 AACTTGATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 10 0.32
21 21 0.68
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (21 bp):
ACCTATTAAAATAATTTTTTC
Found at i:26191527 original size:18 final size:18
Alignment explanation
Indices: 26191504--26191544 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
26191494 TTCCATTAGG
*
26191504 TTAATTAAATTAGGTTAC
1 TTAATTAAATTAGGTTAA
* *
26191522 TTAATTTAATTAGTTTAA
1 TTAATTAAATTAGGTTAA
26191540 TTAAT
1 TTAAT
26191545 ATTCTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
TTAATTAAATTAGGTTAA
Found at i:26192393 original size:45 final size:45
Alignment explanation
Indices: 26192343--26192561 Score: 375
Period size: 45 Copynumber: 4.9 Consensus size: 45
26192333 AAGAGGTGGA
26192343 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
26192388 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
26192433 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
26192478 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
26192523 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
26192562 CCATGGCCGA
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 165 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:26198744 original size:45 final size:45
Alignment explanation
Indices: 26198622--26198881 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
26198612 AAGAGGTGGA
*
26198622 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA-TT-GA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
26198665 CAACATCATGCATAA-TCAT-GAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
26198708 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
26198753 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
26198798 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
* * * *
26198843 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
26198882 CCATGGCCGA
Statistics
Matches: 204, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
41 18 0.09
42 6 0.03
43 31 0.15
44 4 0.02
45 145 0.71
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
Found at i:26201432 original size:50 final size:50
Alignment explanation
Indices: 26201352--26201450 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
26201342 TACGAGTTAT
* ** * *
26201352 GAATCGGTATGCTCTCACGAGCTGTGAATCGGTAAGCTCATATGAGCTGA
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTGA
*
26201402 GAATCGTTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTG
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTG
26201451 TGGTATGTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTGA
Found at i:26201450 original size:25 final size:24
Alignment explanation
Indices: 26201353--26201450 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 24
26201343 ACGAGTTATG
* * *
26201353 AATCGGTATGCTCTCACGAGCTGTG
1 AATCGGTAAGCTCACACGAGCTG-A
* *
26201378 AATCGGTAAGCTCATATGAGCTGA
1 AATCGGTAAGCTCACACGAGCTGA
* *
26201402 GAATCGTTAAGCTCTCACGAGCTGCA
1 -AATCGGTAAGCTCACACGAGCTG-A
*
26201428 AATCGGTAAGCTCAAACGAGCTG
1 AATCGGTAAGCTCACACGAGCTG
26201451 TGGTATGTCC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
25 58 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (24 bp):
AATCGGTAAGCTCACACGAGCTGA
Found at i:26206322 original size:46 final size:47
Alignment explanation
Indices: 26206259--26206533 Score: 344
Period size: 46 Copynumber: 6.0 Consensus size: 47
26206249 TTCGACATGA
* * * * * *
26206259 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* * ** * ** *
26206305 TGCCATGGTATCATTCAACCAAGGTCTTATTCATTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
26206352 TGCCATGGTATCTTTTAACCATGGTCTTAAACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
26206398 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
26206444 TGCTATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
26206490 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
26206534 AGAGCACACT
Statistics
Matches: 202, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
46 165 0.82
47 37 0.18
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:26208691 original size:11 final size:11
Alignment explanation
Indices: 26208675--26208726 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
26208665 TATACTAAAT
26208675 AAATAATAATA
1 AAATAATAATA
*
26208686 AAATAAT-ATT
1 AAATAATAATA
* *
26208696 AAATATCTCATA
1 AAATA-ATAATA
*
26208708 AAATATTAATA
1 AAATAATAATA
26208719 AAATAATA
1 AAATAATA
26208727 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:26211957 original size:12 final size:12
Alignment explanation
Indices: 26211936--26211979 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
26211926 TGTCATTAAC
26211936 ATATAAAACCAA
1 ATATAAAACCAA
*
26211948 ATATAGAACCTTAA
1 ATATAAAACC--AA
26211962 CATATAAAACCAA
1 -ATATAAAACCAA
26211975 ATATA
1 ATATA
26211980 GAACTTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 14 0.52
13 2 0.07
14 2 0.07
15 9 0.33
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:26211962 original size:27 final size:27
Alignment explanation
Indices: 26211931--26211983 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
26211921 CAATATGTCA
26211931 TTAACATATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
26211958 TTAACATATAAAACCAAATATAGAAC
1 TTAACATATAAAACCAAATATAGAAC
26211984 TTACTCCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.23
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAGAACC
Found at i:26211972 original size:15 final size:15
Alignment explanation
Indices: 26211931--26211972 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 15
26211921 CAATATGTCA
26211931 TTAACATATAAAACC
1 TTAACATATAAAACC
*
26211946 --AA-ATATAGAACC
1 TTAACATATAAAACC
26211958 TTAACATATAAAACC
1 TTAACATATAAAACC
26211973 AAATATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 2 0.09
15 9 0.41
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (15 bp):
TTAACATATAAAACC
Found at i:26212001 original size:15 final size:15
Alignment explanation
Indices: 26211981--26212016 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
26211971 CCAAATATAG
26211981 AACTTACTCCCACTA
1 AACTTACTCCCACTA
26211996 AACTTACTCCCACTA
1 AACTTACTCCCACTA
26212011 AACTTA
1 AACTTA
26212017 TGGTATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (15 bp):
AACTTACTCCCACTA
Found at i:26213782 original size:23 final size:23
Alignment explanation
Indices: 26213740--26213783 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
26213730 GTAAAATCGA
*
26213740 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
26213763 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
26213784 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:26216958 original size:40 final size:40
Alignment explanation
Indices: 26216914--26217047 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
26216904 AAAACACACC
* *
26216914 AATTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAGT
1 AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
* * * *
26216954 AATTTGACACCCAGTGTCTCATCGGCTAAACCGAAGTA--
1 AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
* *
26216992 AA-TTGGCACCCAGTGCCTCATCGAATTAATCCAAAGTAGT
1 AATTTGACACCCAGTGCCTCATCGGA-TAATCCAAAGTAGT
*
26217032 AAATTGACACCCAGTG
1 AATTTGACACCCAGTG
26217048 TCTTATTGAC
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
37 19 0.25
38 12 0.16
40 34 0.44
41 12 0.16
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
Found at i:26219682 original size:31 final size:31
Alignment explanation
Indices: 26219617--26219675 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
26219607 GTCATTAAAT
* *
26219617 TATTCAAAATTTTTTATTTATGTTACTGAAC
1 TATTCAAAAGTTTTTATTTAAGTTACTGAAC
*
26219648 TATTTAAAAGTTTTTATTTAAGTTACTG
1 TATTCAAAAGTTTTTATTTAAGTTACTG
26219676 GGCTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (31 bp):
TATTCAAAAGTTTTTATTTAAGTTACTGAAC
Found at i:26230132 original size:15 final size:16
Alignment explanation
Indices: 26230105--26230134 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26230095 ATTTTATTTT
26230105 AATAATGAATTTTAAC
1 AATAATGAATTTTAAC
26230121 AATAAT-AATTTTAA
1 AATAATGAATTTTAA
26230135 AATTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATGAATTTTAAC
Found at i:26236537 original size:19 final size:20
Alignment explanation
Indices: 26236513--26236550 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26236503 TAATTAAATT
26236513 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
26236532 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
26236551 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:26236755 original size:17 final size:17
Alignment explanation
Indices: 26236713--26236755 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
26236703 ATGTATTTAC
*
26236713 TTATATAAT-AAGTAAA
1 TTATATTATAAAGTAAA
* *
26236729 TAATAATATAAAGTAAA
1 TTATATTATAAAGTAAA
26236746 TTATATTATA
1 TTATATTATA
26236756 TTATATTATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TTATATTATAAAGTAAA
Found at i:26236831 original size:31 final size:32
Alignment explanation
Indices: 26236794--26236858 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
26236784 TAAATAAAGA
*
26236794 AGGAATAAAG-AAAATAAAAGAAATAAAACAT
1 AGGAATAAAGAAAAAAAAAAGAAATAAAACAT
26236825 AGGAATAAAGATAAAAAAAAAGAAATAAAACAT
1 AGGAATAAAGA-AAAAAAAAAGAAATAAAACAT
26236858 A
1 A
26236859 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 10 0.32
33 21 0.68
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (32 bp):
AGGAATAAAGAAAAAAAAAAGAAATAAAACAT
Found at i:26236868 original size:33 final size:33
Alignment explanation
Indices: 26236796--26236868 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
26236786 AATAAAGAAG
* *
26236796 GAATAAAG--AAAATAAAAGAAATAAAACATAG
1 GAATAAAGATAAAAAAAAAGAAATAAAACATAA
26236827 GAATAAAGATAAAAAAAAAGAAATAAAACATAAA
1 GAATAAAGATAAAAAAAAAGAAATAAAACAT-AA
26236861 GAA-AAAGA
1 GAATAAAGA
26236869 GAAAGAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 8 0.22
33 25 0.68
34 4 0.11
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.11
Consensus pattern (33 bp):
GAATAAAGATAAAAAAAAAGAAATAAAACATAA
Found at i:26238821 original size:22 final size:22
Alignment explanation
Indices: 26238766--26238821 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
26238756 CGGGTTAATG
* *
26238766 ACACGAGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACACCAGCC
*
26238788 ATACGGGCGTGTCACACCAGCC
1 ACACGGGCGTGTCACACCAGCC
* *
26238810 ACATGGGTGTGT
1 ACACGGGCGTGT
26238822 GGTACTATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACACCAGCC
Found at i:26244212 original size:17 final size:18
Alignment explanation
Indices: 26244171--26244213 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
26244161 TGTATTTACT
*
26244171 TATTATATAAGTACATAA
1 TATTATATAAGTAAATAA
* *
26244189 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
26244206 TATTATAT
1 TATTATAT
26244214 TGTATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:26247398 original size:24 final size:24
Alignment explanation
Indices: 26247370--26247421 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
26247360 TTAGTAAGTC
* *
26247370 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
26247394 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
26247418 AAAT
1 AAAT
26247422 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:26259244 original size:20 final size:20
Alignment explanation
Indices: 26259221--26259260 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26259211 CATGCCATAG
26259221 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
26259241 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
26259261 CGAACTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTGAAATTTGTCTCACCAT
Found at i:26261750 original size:15 final size:16
Alignment explanation
Indices: 26261730--26261760 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
26261720 AATATTATGA
26261730 TTTAAAATTT-TTATT
1 TTTAAAATTTATTATT
26261745 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
26261761 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:26261989 original size:16 final size:16
Alignment explanation
Indices: 26261968--26262037 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
26261958 TTTGGTTCGC
*
26261968 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
26261984 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
26262000 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
26262016 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
26262032 TGTAAT
1 TGTAAT
26262038 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:26262072 original size:45 final size:41
Alignment explanation
Indices: 26262016--26262125 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
26262006 GGATTAGAGG
*
26262016 TGTAATAGAATAGAGGTGTAATAGCAAATCAAATGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGG-T
* * ***
26262058 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
26262101 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
26262126 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
Found at i:26262292 original size:18 final size:17
Alignment explanation
Indices: 26262271--26262305 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26262261 TTATTATTAA
*
26262271 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26262289 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26262306 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26262371 original size:157 final size:157
Alignment explanation
Indices: 26262158--26262474 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
26262148 TAGAATACCC
*
26262158 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
26262223 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
26262288 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
26262315 TTAGCAGAAATTTGTTTTGGTAAATTATTGTTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
26262380 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
26262445 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
26262472 TTA
1 TTA
26262475 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:26262449 original size:18 final size:17
Alignment explanation
Indices: 26262428--26262462 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26262418 TTATTATTAA
*
26262428 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26262446 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26262463 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26267825 original size:21 final size:21
Alignment explanation
Indices: 26267799--26267841 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26267789 TTGGGTGGAA
26267799 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
26267820 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
26267841 T
1 T
26267842 GGCATATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:26268095 original size:21 final size:21
Alignment explanation
Indices: 26268070--26268114 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
26268060 ATTTATATAG
*
26268070 TTAGTTCGGTAAGATTTTTGT
1 TTAGTTCAGTAAGATTTTTGT
*
26268091 TTAGTTTAGTAAGATTTTTGT
1 TTAGTTCAGTAAGATTTTTGT
26268112 TTA
1 TTA
26268115 TCTTGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.56
Consensus pattern (21 bp):
TTAGTTCAGTAAGATTTTTGT
Found at i:26279031 original size:16 final size:16
Alignment explanation
Indices: 26279010--26279041 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26279000 AATGTGTAAG
26279010 CTATGTATGTGATATA
1 CTATGTATGTGATATA
26279026 CTATGTATGTGATATA
1 CTATGTATGTGATATA
26279042 TTGTAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
CTATGTATGTGATATA
Found at i:26282881 original size:13 final size:13
Alignment explanation
Indices: 26282863--26282887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26282853 TGGATCCATA
26282863 CCAAAACAATCAG
1 CCAAAACAATCAG
26282876 CCAAAACAATCA
1 CCAAAACAATCA
26282888 TGAAGCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.32, G:0.04, T:0.08
Consensus pattern (13 bp):
CCAAAACAATCAG
Found at i:26283911 original size:43 final size:43
Alignment explanation
Indices: 26283845--26283974 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
26283835 AGCTCGTACA
* *** *
26283845 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCACATATCG
*
26283888 ATGCC-ACTGTCCCAGACAAGGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGT-AATCACATATCG
** * *
26283932 ATGCCAACGTCCCAGACGTGATCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCACATATCG
26283975 GAACCCTATG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 34 0.47
44 35 0.48
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCACATATCG
Found at i:26283936 original size:44 final size:44
Alignment explanation
Indices: 26283845--26283974 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 44
26283835 AGCTCGTACA
* *** *
26283845 ATGCCAACATCCCAGATGTGGTCTTACATGT-AATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAAATCACATATCG
*
26283888 ATGCC-ACTGTCCCAGACAAGGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGTAAATCACATATCG
** *
26283932 ATGCCAACGTCCCAGACGTGATCTTACACG-AAATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAAATCACATATCG
26283975 GAACCCTATG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.03
43 35 0.47
44 35 0.47
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGTAAATCACATATCG
Found at i:26286514 original size:13 final size:14
Alignment explanation
Indices: 26286472--26286516 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
26286462 TAATAATGAT
26286472 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
26286487 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
26286500 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
26286513 TAAA
1 TAAA
26286517 AAAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:26286556 original size:13 final size:13
Alignment explanation
Indices: 26286510--26286550 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
26286500 TAAAGTAATT
*
26286510 AAATAAAA-AAATA
1 AAATAAAAGAAA-G
26286523 AAATAAAAGAAAG
1 AAATAAAAGAAAG
26286536 AAATAAAAGAAAG
1 AAATAAAAGAAAG
26286549 AA
1 AA
26286551 TGAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:26290790 original size:19 final size:19
Alignment explanation
Indices: 26290766--26290803 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26290756 TCTTTGTTTT
26290766 GCAGTAGTAATTTTTTAAC
1 GCAGTAGTAATTTTTTAAC
*
26290785 GCAGTAGTCATTTTTTAAC
1 GCAGTAGTAATTTTTTAAC
26290804 ATGTTACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (19 bp):
GCAGTAGTAATTTTTTAAC
Found at i:26290895 original size:27 final size:27
Alignment explanation
Indices: 26290863--26290918 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
26290853 AAGGCATACA
26290863 TGTTACTTTCTAACATGTTAAATACCT
1 TGTTACTTTCTAACATGTTAAATACCT
26290890 TGTTACTTTCTAACATGTTAAATACCT
1 TGTTACTTTCTAACATGTTAAATACCT
26290917 TG
1 TG
26290919 GAAATCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.45
Consensus pattern (27 bp):
TGTTACTTTCTAACATGTTAAATACCT
Found at i:26293933 original size:22 final size:22
Alignment explanation
Indices: 26293899--26293959 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
26293889 ACAATATCTA
*
26293899 AACAGTAAAAATAAAATAATAGC
1 AACA-TAATAATAAAATAATAGC
* *
26293922 AACATAATAATAAAATTATAGT
1 AACATAATAATAAAATAATAGC
*
26293944 AAAATAATAAATAAAA
1 AACATAAT-AATAAAA
26293960 AAACAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (22 bp):
AACATAATAATAAAATAATAGC
Found at i:26293998 original size:18 final size:19
Alignment explanation
Indices: 26293906--26294000 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
26293896 CTAAACAGTA
*
26293906 AAAATAA-AATAATAGCAAC
1 AAAATAATAA-AATAACAAC
* * * **
26293925 ATAATAATAAAATTATAGT
1 AAAATAATAAAATAACAAC
*
26293944 AAAATAAT-AAATAA-AAA
1 AAAATAATAAAATAACAAC
26293961 AACAATAATAAAATAACAAC
1 AA-AATAATAAAATAACAAC
*
26293981 AAAATAGTAAAA-AACAAC
1 AAAATAATAAAATAACAAC
26293999 AA
1 AA
26294001 TAAAAACAGT
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.05
18 19 0.32
19 32 0.53
20 6 0.10
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAATAATAAAATAACAAC
Found at i:26294011 original size:22 final size:21
Alignment explanation
Indices: 26293956--26294016 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
26293946 AATAATAAAT
* *
26293956 AAAAAAACAATAATAAAATAAC
1 AAAAAAACAGTAA-AAAACAAC
* *
26293978 AACAAAATAGTAAAAAACAAC
1 AAAAAAACAGTAAAAAACAAC
26293999 AATAAAAACAGTAAAAAA
1 AA-AAAAACAGTAAAAAA
26294017 AGTCTTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.75, C:0.10, G:0.03, T:0.11
Consensus pattern (21 bp):
AAAAAAACAGTAAAAAACAAC
Found at i:26295254 original size:51 final size:51
Alignment explanation
Indices: 26295186--26295289 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
26295176 TCTATAATAA
26295186 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
1 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
26295237 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
1 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
26295288 CA
1 CA
26295290 ACCTCTGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.15
Consensus pattern (51 bp):
CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
Found at i:26300550 original size:50 final size:51
Alignment explanation
Indices: 26300483--26300619 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 51
26300473 TGTATAAATG
* * *
26300483 TTGATAGAAAGTATAAATATTGAAGGCTAAATTTATTAAATCAATATC-AA
1 TTGATAGAATGTGTAAATATTGAAGGCTAAATTTATTAAATCAAAATCAAA
* * *
26300533 TTGATAGGATGTGTAAATATTGCAA-GCTAAATTTATTAATTGAAAATCAAA
1 TTGATAGAATGTGTAAATATTG-AAGGCTAAATTTATTAAATCAAAATCAAA
* *
26300584 TTGATAGAATGTGTAAATTTTAAAGGCTAAATTTAT
1 TTGATAGAATGTGTAAATATTGAAGGCTAAATTTAT
26300620 CATTATATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 41 0.55
51 34 0.45
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (51 bp):
TTGATAGAATGTGTAAATATTGAAGGCTAAATTTATTAAATCAAAATCAAA
Found at i:26306832 original size:18 final size:18
Alignment explanation
Indices: 26306809--26306901 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
26306799 CCCAACTACT
* *
26306809 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
* *
26306827 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
26306845 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
26306863 ATATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
26306881 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
26306899 GTA
1 GTA
26306902 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:26315252 original size:38 final size:38
Alignment explanation
Indices: 26315197--26315281 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
26315187 AGTACATAGT
* *
26315197 CAACAGAAGCTCATAAGAGCTGGTCCTCCCGAAT-ACGC
1 CAACAGAAGCTCATAAGAGCTGATCCACCC-AATCACGC
* *
26315235 CAACAGAAGCTCGTAAGAGTTGATCCACCCAATCACGC
1 CAACAGAAGCTCATAAGAGCTGATCCACCCAATCACGC
26315273 CAAACAGAA
1 C-AACAGAA
26315282 AGTAAAACAC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 3 0.07
38 31 0.76
39 7 0.17
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (38 bp):
CAACAGAAGCTCATAAGAGCTGATCCACCCAATCACGC
Found at i:26316926 original size:12 final size:14
Alignment explanation
Indices: 26316897--26316932 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
26316887 CTCAAATTGT
26316897 AATTTATCATATTC
1 AATTTATCATATTC
26316911 AATTTATCA-A-TC
1 AATTTATCATATTC
26316923 AATTTATCAT
1 AATTTATCAT
26316933 TTCTTTACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATCATATTC
Found at i:26329137 original size:27 final size:25
Alignment explanation
Indices: 26329083--26329137 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
26329073 AGATGGGCCC
* **
26329083 AAAGTAAAAAAATCTAAATATTTTT
1 AAAGTAAAAAAATCTAAATAATCCT
26329108 AAAGTAAAAAAATCTAGATATAATCCT
1 AAAGTAAAAAAATCTA-A-ATAATCCT
26329135 AAA
1 AAA
26329138 AAAAGGCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 1 0.04
27 8 0.32
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.29
Consensus pattern (25 bp):
AAAGTAAAAAAATCTAAATAATCCT
Found at i:26334450 original size:14 final size:15
Alignment explanation
Indices: 26334425--26334462 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
26334415 TAAGGTATAA
26334425 TATATTAT-TTTATT
1 TATATTATATTTATT
26334439 TATA-TATATTTATT
1 TATATTATATTTATT
26334453 TATATTATAT
1 TATATTATAT
26334463 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.64
15 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTATATTTATT
Found at i:26334451 original size:19 final size:18
Alignment explanation
Indices: 26334424--26334463 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
26334414 ATAAGGTATA
26334424 ATATATTATTT-TATTTAT
1 ATATATTATTTATA-TTAT
26334442 ATATATTTATTTATATTAT
1 ATATA-TTATTTATATTAT
26334461 ATA
1 ATA
26334464 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 13 0.65
20 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATATTATTTATATTAT
Found at i:26335082 original size:23 final size:23
Alignment explanation
Indices: 26335044--26335092 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
26335034 TAATTTATGA
* *
26335044 AATTATATTTATAA-TTATTATAT
1 AATTATATTAAAAATTTATTA-AT
26335067 AATTATATTAAAAATTTATTAAT
1 AATTATATTAAAAATTTATTAAT
26335090 AAT
1 AAT
26335093 AATAAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTATATTAAAAATTTATTAAT
Found at i:26335098 original size:20 final size:21
Alignment explanation
Indices: 26335061--26335099 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
26335051 TTTATAATTA
* *
26335061 TTATATAATTATATTAAAAAT
1 TTATATAATAATAATAAAAAT
26335082 TTAT-TAATAATAATAAAA
1 TTATATAATAATAATAAAA
26335100 GTAATTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATATAATAATAATAAAAAT
Found at i:26336796 original size:3 final size:3
Alignment explanation
Indices: 26336788--26336840 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
26336778 TAACTAACAT
26336788 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26336836 ATA AT
1 ATA AT
26336841 TAAATCTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26336960 original size:21 final size:21
Alignment explanation
Indices: 26336936--26336998 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
26336926 CACTAAAAGG
26336936 AAGATACTAATAAATATAAAT
1 AAGATACTAATAAATATAAAT
*
26336957 AAGATA--AAGAAATAAATAAAT
1 AAGATACTAATAAAT--ATAAAT
26336978 AAG-TACGTAAATAAATATAAA
1 AAGATAC-T-AATAAATATAAA
26336999 GAAAATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 15 0.44
22 5 0.15
24 6 0.18
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (21 bp):
AAGATACTAATAAATATAAAT
Found at i:26342198 original size:39 final size:40
Alignment explanation
Indices: 26342097--26342320 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
26342087 TTGAATGATG
* *
26342097 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26342136 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26342177 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26342216 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
26342255 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26342294 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26342321 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 75 0.46
40 76 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26342343 original size:79 final size:78
Alignment explanation
Indices: 26342150--26342320 Score: 238
Period size: 78 Copynumber: 2.2 Consensus size: 78
26342140 GGACTAAGAT
* *
26342150 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAA-TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
26342214 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
* *
26342228 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACT-AATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
26342292 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
26342308 CCGAAGGCATTTG
1 CCGAAGGCATTTG
26342321 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
78 35 0.42
79 34 0.41
80 14 0.17
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:26342351 original size:79 final size:79
Alignment explanation
Indices: 26342150--26342353 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
26342140 GGACTAAGAT
** * * * * *
26342150 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
26342214 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
26342228 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
26342292 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
26342308 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
26342354 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 34 0.31
79 49 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:26352721 original size:21 final size:21
Alignment explanation
Indices: 26352695--26352735 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
26352685 CCCCTGCCTA
26352695 TGGTCAAAATTGGGGGTCTCC
1 TGGTCAAAATTGGGGGTCTCC
*
26352716 TGGTCAAAATTGGTGGTCTC
1 TGGTCAAAATTGGGGGTCTC
26352736 ACGATCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (21 bp):
TGGTCAAAATTGGGGGTCTCC
Found at i:26363646 original size:10 final size:10
Alignment explanation
Indices: 26363625--26363686 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
26363615 AATTAAATTC
26363625 TAAAAGATAAA
1 TAAAA-ATAAA
26363636 TAAAAATAAA
1 TAAAAATAAA
* *
26363646 TAAAGATAAT
1 TAAAAATAAA
* *
26363656 TAAAGATAGA
1 TAAAAATAAA
*
26363666 TAAAGATAAA
1 TAAAAATAAA
*
26363676 TGAAAATAAA
1 TAAAAATAAA
26363686 T
1 T
26363687 CCTAAATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
10 39 0.89
11 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:26363650 original size:20 final size:20
Alignment explanation
Indices: 26363627--26363686 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
26363617 TTAAATTCTA
26363627 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
* * *
26363647 AAAGATAATTAAAGATAGAT
1 AAAGATAAATAAAAATAAAT
*
26363667 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
26363687 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:26363661 original size:30 final size:30
Alignment explanation
Indices: 26363627--26363684 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
26363617 TTAAATTCTA
26363627 AAAGATAAATAAAAATAAAT-AAAGATAATT
1 AAAGATAAATAAAAATAAATGAAA-ATAATT
* *
26363657 AAAGATAGATAAAGATAAATGAAAATAA
1 AAAGATAAATAAAAATAAATGAAAATAA
26363685 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAAAATAAATGAAAATAATT
Found at i:26368036 original size:34 final size:34
Alignment explanation
Indices: 26367993--26368078 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
26367983 CGCATTCCTA
* *
26367993 AAAAATAAAAATAGAATTAAGATTTTCGATCTGG
1 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
26368027 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
1 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
26368061 AAAAATAAAAACAGAATT
1 AAAAATAAAAACAGAATT
26368079 TTAAGTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (34 bp):
AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
Found at i:26368876 original size:10 final size:10
Alignment explanation
Indices: 26368849--26368896 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
26368839 TTAAATTCTA
*
26368849 AAAGATAAAT
1 AAAGATAATT
26368859 ACAA-ATAATT
1 A-AAGATAATT
26368869 AAAGATAATT
1 AAAGATAATT
26368879 AAAGATAGA-T
1 AAAGATA-ATT
26368889 AAAGATAA
1 AAAGATAA
26368897 ATGAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (10 bp):
AAAGATAATT
Found at i:26372255 original size:18 final size:18
Alignment explanation
Indices: 26372232--26372269 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
26372222 TCTTAGGATA
26372232 AATATAATTAAATTACCT
1 AATATAATTAAATTACCT
*
26372250 AATATATTTAAATTACCT
1 AATATAATTAAATTACCT
26372268 AA
1 AA
26372270 CCTTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAATTAAATTACCT
Found at i:26374805 original size:59 final size:59
Alignment explanation
Indices: 26374740--26374859 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
26374730 TCTTATTGAT
* *
26374740 TTCATGCCCTTGCCATCCAGCCCAAATAGACCTTGGGTTTATTTGCCTTTTAAACCATC
1 TTCATGCCCTTGCCATCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCATC
* *
26374799 TTCATGCCCTTGCCGTCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCCTC
1 TTCATGCCCTTGCCATCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCATC
26374858 TT
1 TT
26374860 TCTTTTATCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCATGCCCTTGCCATCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCATC
Found at i:26378110 original size:12 final size:12
Alignment explanation
Indices: 26378077--26378111 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
26378067 ATATTTTCAG
26378077 AAAATATTAATAA
1 AAAATA-TAATAA
*
26378090 AAAATATAATAT
1 AAAATATAATAA
26378102 AAAATATAAT
1 AAAATATAAT
26378112 TTGGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATATAATAA
Found at i:26378562 original size:18 final size:19
Alignment explanation
Indices: 26378521--26378573 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
26378511 AACTAATTCA
*
26378521 AAAAATATTATTTAAAAAT
1 AAAAATATTATATAAAAAT
* *
26378540 TAAAATA-TATATATAAAT
1 AAAAATATTATATAAAAAT
*
26378558 AAAAA-ATTATAGAAAA
1 AAAAATATTATATAAAA
26378574 TATATAGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.04
18 20 0.74
19 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATATTATATAAAAAT
Found at i:26379634 original size:30 final size:28
Alignment explanation
Indices: 26379599--26379687 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 28
26379589 TATTGAGCTT
26379599 TTATAT-TATTAAATTACATTATTACCC
1 TTATATATATTAAATTACATTATTACCC
26379626 TTA-ATATA-T--ATT--ATTA--ACCC
1 TTATATATATTAAATTACATTATTACCC
*
26379646 TTTTATATTATTAAATTACATTATTACCC
1 TTATATA-TATTAAATTACATTATTACCC
26379675 TTAATATATATTA
1 TT-ATATATATTA
26379688 TTAACCTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
20 6 0.12
21 3 0.06
22 6 0.12
23 1 0.02
24 3 0.06
25 3 0.06
26 3 0.06
27 9 0.18
29 11 0.22
30 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (28 bp):
TTATATATATTAAATTACATTATTACCC
Found at i:26379638 original size:19 final size:18
Alignment explanation
Indices: 26379610--26379697 Score: 73
Period size: 19 Copynumber: 5.1 Consensus size: 18
26379600 TATATTATTA
*
26379610 AATTACATTATTACCCTT
1 AATTATATTATTACCCTT
26379628 AATATATATTATTAACCCTT
1 AAT-TATATTATT-ACCCTT
26379648 --TTATATTATTA-----
1 AATTATATTATTACCCTT
*
26379659 AATTACATTATTACCCTT
1 AATTATATTATTACCCTT
*
26379677 AATATATATTATTAACCTT
1 AAT-TATATTATTACCCTT
26379696 AA
1 AA
26379698 ATTTAATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
13 10 0.18
16 1 0.02
17 9 0.16
18 7 0.12
19 23 0.41
20 6 0.11
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTATATTATTACCCTT
Found at i:26379659 original size:49 final size:49
Alignment explanation
Indices: 26379596--26379693 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
26379586 CCTTATTGAG
26379596 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
1 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
26379645 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
1 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
26379694 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (49 bp):
CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
Found at i:26379706 original size:19 final size:20
Alignment explanation
Indices: 26379656--26379708 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
26379646 TTTTATATTA
*
26379656 TTAAA-TTACATTATTACCC
1 TTAAATTTACATTATTAACC
* *
26379675 TT-AATATATATTATTAACC
1 TTAAATTTACATTATTAACC
26379694 TTAAATTTA-ATTATT
1 TTAAATTTACATTATT
26379709 GAGCCAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 21 0.75
20 5 0.18
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATTTACATTATTAACC
Found at i:26387651 original size:14 final size:15
Alignment explanation
Indices: 26387632--26387663 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26387622 GTGGTTATAG
26387632 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
26387646 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
26387661 TTA
1 TTA
26387664 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:26388981 original size:17 final size:17
Alignment explanation
Indices: 26388959--26388991 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26388949 ACTCGAAAAA
*
26388959 ATTATTATTTTATCGAG
1 ATTATTAGTTTATCGAG
26388976 ATTATTAGTTTATCGA
1 ATTATTAGTTTATCGA
26388992 TAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
ATTATTAGTTTATCGAG
Found at i:26392342 original size:21 final size:21
Alignment explanation
Indices: 26392316--26392396 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
26392306 ATCAGTATAC
*
26392316 GACACATAAAGTGCCTAAAAT
1 GACACACAAAGTGCCTAAAAT
* * * * *
26392337 GACACACGAGGTGCCTGATAC
1 GACACACAAAGTGCCTAAAAT
* *
26392358 GACACACGAGGTGCCTAAAAT
1 GACACACAAAGTGCCTAAAAT
*
26392379 ACGACACATAAAGTGCCT
1 --GACACACAAAGTGCCT
26392397 GATCGATAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
21 33 0.72
23 13 0.28
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (21 bp):
GACACACAAAGTGCCTAAAAT
Found at i:26392380 original size:23 final size:23
Alignment explanation
Indices: 26392312--26392386 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
26392302 CCTGATCAGT
** *
26392312 ATACGACACATAAAGTGCCTAAA
1 ATACGACACACGAGGTGCCTAAA
*
26392335 AT--GACACACGAGGTGCCT--G
1 ATACGACACACGAGGTGCCTAAA
26392354 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCTAAA
26392377 ATACGACACA
1 ATACGACACA
26392387 TAAAGTGCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.05
21 29 0.67
23 12 0.28
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTAAA
Found at i:26392795 original size:15 final size:15
Alignment explanation
Indices: 26392770--26392827 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
26392760 TCATATATAT
26392770 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
26392786 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
26392801 AATAATTTCAATCAA
1 TATAAATTCAATCAA
26392816 TATAAATTCAAT
1 TATAAATTCAAT
26392828 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:26394116 original size:5 final size:5
Alignment explanation
Indices: 26394106--26394137 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
26394096 TTACTTATTT
26394106 ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
26394138 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:26394172 original size:8 final size:8
Alignment explanation
Indices: 26394159--26394187 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26394149 TATCTTTATT
26394159 ATATAATA
1 ATATAATA
26394167 ATATAATA
1 ATATAATA
26394175 ATATAATA
1 ATATAATA
26394183 ATATA
1 ATATA
26394188 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:26398773 original size:23 final size:22
Alignment explanation
Indices: 26398746--26398795 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
26398736 TGCCTAAAAT
26398746 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
26398767 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG-AATAC
26398790 GACACA
1 GACACA
26398796 TAAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:26398803 original size:23 final size:23
Alignment explanation
Indices: 26398721--26398807 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
26398711 CCTGATCAGT
*
26398721 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
26398743 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
26398763 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
26398786 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
26398808 TCGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 1 0.02
23 19 0.36
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:26399202 original size:15 final size:15
Alignment explanation
Indices: 26399177--26399234 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
26399167 TCATATATAT
26399177 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
26399193 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
26399208 AATAATTTCAATCAA
1 TATAAATTCAATCAA
26399223 TATAAATTCAAT
1 TATAAATTCAAT
26399235 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:26400519 original size:5 final size:5
Alignment explanation
Indices: 26400509--26400542 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
26400499 TTACTTATTT
26400509 ATATA ATATAA TATATA ATATA ATATA ATATA AT
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA AT
26400543 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:26400578 original size:8 final size:8
Alignment explanation
Indices: 26400565--26400593 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26400555 TATCTTTATT
26400565 ATATAATA
1 ATATAATA
26400573 ATATAATA
1 ATATAATA
26400581 ATATAATA
1 ATATAATA
26400589 ATATA
1 ATATA
26400594 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:26400612 original size:52 final size:56
Alignment explanation
Indices: 26400507--26400612 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 56
26400497 CTTTACTTAT
*
26400507 TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAATATCTTTA
1 TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAAAATCTTTA
26400563 TTATAT-A-ATAATATAATAATAT-A-ATAATAT-ATT-AAACATAAAAAAATCTT
1 TTATATAATATAATAT-ATAATATAATATAATATAATTAAAACAT-AAAAAATCTT
26400613 AAATTTTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
51 6 0.13
52 12 0.26
53 7 0.15
54 8 0.17
55 8 0.17
56 6 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (56 bp):
TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAAAATCTTTA
Found at i:26405930 original size:22 final size:23
Alignment explanation
Indices: 26405882--26405930 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
26405872 TTTTTAAAAT
**
26405882 TTTAAAAATTTTAAAAATATATT
1 TTTAAAAATTTTAAAAATATAAA
26405905 TTTAAAAA-TTT-AAAATATTAAA
1 TTTAAAAATTTTAAAAATA-TAAA
26405927 TTTA
1 TTTA
26405931 TTGTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 9 0.39
23 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAAAATTTTAAAAATATAAA
Found at i:26410038 original size:134 final size:133
Alignment explanation
Indices: 26409795--26410154 Score: 352
Period size: 134 Copynumber: 2.7 Consensus size: 133
26409785 TTATTCATTC
* * * *
26409795 AAAAATTCTTCAAAATG-AAGACGAGATTCGATGTTTGACAATTCGCGGAATCGTGCCCTAACGT
1 AAAAATTCTTTAAAACGAAAG-CGAAATTCGATGTTTGACAATTCGCGGAATAGTGCCCTAACGT
* * * * * *
26409859 GTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATGTCCCTTCAAGATTTCCCTCATGCCT
65 GTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAAATTCACTCATACAT
26409924 TTTA
130 TTTA
* *
26409928 AAAGAATTCTTTAAAACGAAAGCGAAATTCGATATTTTG-CAATTCGCGGAATAGTGCCTTAACG
1 AAA-AATTCTTTAAAACGAAAGCGAAATTCGAT-GTTTGACAATTCGCGGAATAGTGCCCTAACG
* * * * * * * * *
26409992 TGTTGGGTTGTAATTTCGTGTTTGCTTAAAATGATCGAGTATCCCTTCAAAAATTCATTCATATA
64 TGTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAAATTCACTCATACA
26410057 TTTTA
129 TTTTA
* ** * *
26410062 AAAAATTATTTAAAACGAAAGC-AATATTCGGCGTTTGACAATTCG-AGAATCA-TGCCCTATCG
1 AAAAATTCTTTAAAACGAAAGCGAA-ATTCGATGTTTGACAATTCGCGGAAT-AGTGCCCTAACG
* * ** * *
26410124 TGCTGGGTTGTGATTTCACGTTTGTTCAAAA
64 TGTTGGGTGGCAATTTCGCGTTTGCTCAAAA
26410155 CGATCGAATA
Statistics
Matches: 187, Mismatches: 34, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
132 43 0.23
133 34 0.18
134 103 0.55
135 7 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (133 bp):
AAAAATTCTTTAAAACGAAAGCGAAATTCGATGTTTGACAATTCGCGGAATAGTGCCCTAACGTG
TTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAAATTCACTCATACATT
TTA
Found at i:26421699 original size:44 final size:44
Alignment explanation
Indices: 26421649--26422346 Score: 966
Period size: 44 Copynumber: 15.9 Consensus size: 44
26421639 GGCAAAGCCT
* *
26421649 GCAGATTTGGCATCTCTGTATTGGCGGAGAGTAAATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
26421693 GCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAATATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
26421737 GCAGATTTGGCATCTCTATATTGGCGGAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
26421781 GCAGATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
26421825 ACAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
** * * *
26421869 GCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
26421913 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
26421957 GCAGATTTGGCACCTCTATATTGGCGGAGAGCAGATC-AAGGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAA-GATA
* ** * *
26422001 GCAGATTTAGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
26422045 GCAGATTTGGCGTTTCTGTATTAGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
26422089 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
** * *
26422133 GCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * **
26422177 GCAGATTTGGCGTCTCTGTATTGGCAGAAAGCAGATTAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
26422221 GCAGATTTGGCATCTCTGTATTGGCGAAGAGTAGATTGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* ** * ** *
26422265 GCAGATTTGGCGTCTCTGTATTATCAGAGAGTGGATCGAACATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
26422309 GTAGATTTGGCATCTCTGTGTTGGCAGAGAGCAGATCG
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCG
26422347 GAAATAACAG
Statistics
Matches: 578, Mismatches: 74, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
43 2 0.00
44 574 0.99
45 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:26423953 original size:14 final size:14
Alignment explanation
Indices: 26423936--26423965 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
26423926 ATCCCCTTTT
26423936 CTATTCTTAATAAA
1 CTATTCTTAATAAA
26423950 CTATTCTTAATAAA
1 CTATTCTTAATAAA
26423964 CT
1 CT
26423966 CTCAACGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (14 bp):
CTATTCTTAATAAA
Found at i:26429430 original size:12 final size:12
Alignment explanation
Indices: 26429413--26429449 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
26429403 CAACCCAATC
26429413 TTTCTTTTTATT
1 TTTCTTTTTATT
26429425 TTTCTTTTTATT
1 TTTCTTTTTATT
*
26429437 TTTATTATTTATT
1 TTTCTT-TTTATT
26429450 ATTTATTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTTTTATT
Found at i:26429432 original size:6 final size:6
Alignment explanation
Indices: 26429417--26429482 Score: 64
Period size: 6 Copynumber: 10.7 Consensus size: 6
26429407 CCAATCTTTC
* *
26429417 TTTTTA TTTTTC TTTTTA TTTTTA TTATTTA TTATTTA TTATCTT- CTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TT-TTTA TT-T-TTA TTTTTA
26429468 TTTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTT
26429483 AGTTAAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
5 7 0.13
6 27 0.52
7 16 0.31
8 2 0.04
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:26429680 original size:43 final size:41
Alignment explanation
Indices: 26429589--26429680 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
26429579 TATCCATGCT
* * *
26429589 GCCAAACAGTTCTATTCCAGCCCAGAATGCCATACTCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAACTCTGCA
* *
26429630 GCTAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCA
1 GCCAAACAGTCCTATTCCAGCC-CAGAAT-CCC-AAACTCTGCA
26429673 GCCAAACA
1 GCCAAACA
26429681 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 20 0.48
42 5 0.12
43 14 0.33
44 3 0.07
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.20
Consensus pattern (41 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAACTCTGCA
Found at i:26431277 original size:18 final size:18
Alignment explanation
Indices: 26431242--26431275 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26431232 TTTTAGGGAC
*
26431242 TAAATTGAAGGTGAAAAG
1 TAAATTCAAGGTGAAAAG
26431260 TAAATTCAAGG-GAAAA
1 TAAATTCAAGGTGAAAA
26431276 AGCGTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.21
Consensus pattern (18 bp):
TAAATTCAAGGTGAAAAG
Found at i:26432536 original size:13 final size:13
Alignment explanation
Indices: 26432497--26432536 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
26432487 TCAAACTATA
26432497 TTATATTATTATT
1 TTATATTATTATT
*
26432510 TTAGATT-TTAATT
1 TTATATTATT-ATT
26432523 TTATATTATTATT
1 TTATATTATTATT
26432536 T
1 T
26432537 ACTCTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:26440626 original size:19 final size:19
Alignment explanation
Indices: 26440602--26440639 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
26440592 TGTGATGTTA
* *
26440602 TTAAAATGAGAAATATTTT
1 TTAAAATAAAAAATATTTT
26440621 TTAAAATAAAAAATATTTT
1 TTAAAATAAAAAATATTTT
26440640 CTCAACCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAAATAAAAAATATTTT
Found at i:26441247 original size:21 final size:22
Alignment explanation
Indices: 26441183--26441247 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 22
26441173 TAAATTAAAT
* *
26441183 TTTATATTAA-ATTTTTTATCA
1 TTTAAATTAATATTTTTTATAA
*
26441204 -TAAAATTAAT-TTTTTTA-AGA
1 TTTAAATTAATATTTTTTATA-A
26441224 TTTAAA-TAATATTTTTTATAA
1 TTTAAATTAATATTTTTTATAA
26441245 TTT
1 TTT
26441248 TATAAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
20 19 0.54
21 15 0.43
22 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTAAATTAATATTTTTTATAA
Found at i:26445615 original size:17 final size:17
Alignment explanation
Indices: 26445573--26445683 Score: 72
Period size: 17 Copynumber: 6.5 Consensus size: 17
26445563 TCAAAAATAA
*
26445573 TAATATTTTAA-TAAATT
1 TAATA-TTTAATTTAATT
26445590 TAATATTTAATTTAATT
1 TAATATTTAATTTAATT
*
26445607 TAATATTT-ATCCTAA--
1 TAATATTTAAT-TTAATT
*
26445622 TAATATTTTA-TTAATT
1 TAATATTTAATTTAATT
*
26445638 TAATATTAAAGTGATT-ATCT
1 TAATATTTAA-T--TTAAT-T
* *
26445658 TAATATTAAATTTAATC
1 TAATATTTAATTTAATT
26445675 TAATATTTA
1 TAATATTTA
26445684 TCTTGATAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
14 3 0.04
15 8 0.11
16 16 0.21
17 31 0.41
18 2 0.03
19 3 0.04
20 13 0.17
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATATTTAATTTAATT
Found at i:26445661 original size:68 final size:69
Alignment explanation
Indices: 26445589--26445723 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
26445579 TTTAATAAAT
* * **
26445589 TTAATATTTAATTTAATTTAATATTTATCCTAATAA-TATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
26445653 TATC
66 TATC
* * * *
26445657 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTACATTAATTTAATTTTAAAGTTAT
1 TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
26445722 TA
66 TA
26445724 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 32 0.55
69 26 0.45
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
TATC
Found at i:26446558 original size:31 final size:31
Alignment explanation
Indices: 26446520--26446583 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
26446510 TTTTTAAAAG
26446520 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
1 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
26446551 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
1 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
26446582 CA
1 CA
26446584 CTTTCAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (31 bp):
CAGGCAAGCTTACTTTTCCTAAGCACACCCA
Found at i:26474014 original size:47 final size:45
Alignment explanation
Indices: 26473942--26474254 Score: 215
Period size: 47 Copynumber: 6.6 Consensus size: 45
26473932 GTGTAATGCT
* *
26473942 GATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT-CATCAAGCC
* * * *
26473989 AATGCCATGTCCCAGACATGATCTTACACTGACT-ATCAAAATCGAGGCT
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCTCATC---ATC-AAGCC
* * **
26474038 GACGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCACATCTCCGTACC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT--CATC-AAG--CC
* * * *
26474088 CATGGCATGTCCCAGACATGGTCTTACACTGACACATC-TCATAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCA-AGCC
* * *
26474134 GATG-CATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-T-CATCATCAAGCC
* * * *
26474180 TATG-CATGTCCCAGACGTGTCTTACATTAGCTC-TCATCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCATCA--TCAA-GCC
26474226 GATGCCATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
26474255 AGCGCACAAA
Statistics
Matches: 209, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 18 0.09
46 48 0.23
47 53 0.25
48 10 0.05
49 32 0.15
50 31 0.15
51 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCAAGCC
Found at i:26474120 original size:99 final size:96
Alignment explanation
Indices: 26473939--26474120 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
26473929 AAGGTGTAAT
*
26473939 GCTGATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCCAG
1 GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCCAG
26474004 ACATGATCTTACACTGACTATCAAAATCGAG
66 ACATGATCTTACACTGACTATCAAAATCGAG
* * ** * *
26474035 GCTGACGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCACATCTCCGTACCCATGGCATGTC
1 GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGT--CAATGCCATGTC
*
26474099 CCAGACATGGTCTTACACTGAC
62 CCAGACATGATCTTACACTGAC
26474121 ACATCTCATA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 39 0.53
97 2 0.03
99 31 0.42
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (96 bp):
GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCCAG
ACATGATCTTACACTGACTATCAAAATCGAG
Found at i:26474171 original size:46 final size:48
Alignment explanation
Indices: 26473950--26474254 Score: 203
Period size: 46 Copynumber: 6.4 Consensus size: 48
26473940 CTGATGCCAC
* * *
26473950 GTCCCAGACATGGTCTTACACTGG--CT-CATC-CATCAAGTCAATGCCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCTACATCTCAT-AGGCCGATG-CAT
* * ** * * *
26473997 GTCCCAGACATGATCTTACACTGACTAT-CAAAATC-GAGGCTGACGCCAT
1 GTCCCAGACATG-TCTTACACTGGCTCTAC-ATCTCATAGGCCGATG-CAT
* * *
26474046 GTCCTAGACATGGTCTTACACTGGCTCTCACATCTCCGTA--CCCATGGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCT-ACATCT-CATAGGCCGAT-GCAT
*
26474096 GTCCCAGACATGGTCTTACACT-G-AC-ACATCTCATA-GCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCTACATCTCATAGGCCGATGCAT
*
26474141 GTCCCAGACATGTCTTACACTGGCT-TACATCT--TGAGGCCTATGCAT
1 GTCCCAGACATGTCTTACACTGGCTCTACATCTCAT-AGGCCGATGCAT
* * * *
26474187 GTCCCAGACGTGTCTTACATTAGCTCT-CATCTCA-ATGCCGATGCCAT
1 GTCCCAGACATGTCTTACACTGGCTCTACATCTCATAGGCCGATG-CAT
26474234 GTCCCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
26474255 AGCGCACAAA
Statistics
Matches: 205, Mismatches: 32, Indels: 42
0.73 0.11 0.15
Matches are distributed among these distances:
44 11 0.05
45 20 0.10
46 60 0.29
47 44 0.21
48 1 0.00
49 34 0.17
50 30 0.15
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GTCCCAGACATGTCTTACACTGGCTCTACATCTCATAGGCCGATGCAT
Found at i:26477481 original size:27 final size:27
Alignment explanation
Indices: 26477443--26477621 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
26477433 TAAATTGTAC
26477443 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
26477470 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** * *
26477496 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGGTTTGACTATGT
*
26477524 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
26477552 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
26477579 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
26477606 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
26477622 GCTCAATATA
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.82
28 22 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:26477504 original size:54 final size:55
Alignment explanation
Indices: 26477443--26477620 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
26477433 TAAATTGTAC
* * *
26477443 AGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* * ** * *
26477498 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
26477552 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
26477606 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26477621 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
54 60 0.58
55 43 0.42
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:26477557 original size:82 final size:81
Alignment explanation
Indices: 26477444--26477599 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26477434 AAATTGTACA
* *
26477444 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
26477508 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
26477525 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
26477590 TGCGAGTTGA
65 TGCGAATTGA
26477600 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Done.