Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009238.1 Hibiscus syriacus cultivar Beakdansim tig00112864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1094141
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 5
Found at i:3474 original size:7 final size:7
Alignment explanation
Indices: 3458--3495 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
3448 GTCAAAGAAA
*
3458 GTCAATG
1 GTCAACG
3465 GTCAACG
1 GTCAACG
3472 GTCAACG
1 GTCAACG
3479 GTCAACG
1 GTCAACG
3486 GTCAACG
1 GTCAACG
3493 GTC
1 GTC
3496 GGGTCGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:3502 original size:5 final size:5
Alignment explanation
Indices: 3492--3576 Score: 89
Period size: 5 Copynumber: 15.8 Consensus size: 5
3482 AACGGTCAAC
* *
3492 GGTCG GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC
1 GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G
*
3541 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC
3577 ATACCGGTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 56 0.82
7 12 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:3522 original size:22 final size:22
Alignment explanation
Indices: 3497--3576 Score: 160
Period size: 22 Copynumber: 3.6 Consensus size: 22
3487 TCAACGGTCG
3497 GGTCGGGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCGGGTCAAC
3519 GGTCGGGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCGGGTCAAC
3541 GGTCGGGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCGGGTCAAC
3563 GGTCGGGTCGGGTC
1 GGTCGGGTCGGGTC
3577 ATACCGGTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCGGGTCAAC
Found at i:3572 original size:27 final size:27
Alignment explanation
Indices: 3485--3559 Score: 115
Period size: 22 Copynumber: 3.0 Consensus size: 27
3475 AACGGTCAAC
3485 GGTCAACGGTCGGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCGGGTCG
3512 GGTCAA----C-GGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCGGGTCG
3534 GGTCAACGGTCGGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTCGGGTC
3560 AACGGTCGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
22 21 0.49
23 1 0.02
26 1 0.02
27 20 0.47
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (27 bp):
GGTCAACGGTCGGGTCGGGTCGGGTCG
Found at i:3591 original size:9 final size:9
Alignment explanation
Indices: 3573--3671 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
3563 GGTCGGGTCG
*
3573 GGTCATACC
1 GGTCAAACC
3582 GGTCAAACC
1 GGTCAAACC
* *
3591 GATTCAGACC
1 G-GTCAAACC
3601 GGTCAAACC
1 GGTCAAACC
*
3610 GGTTCGAACC
1 GG-TCAAACC
*
3620 GGTTGAAACC
1 GG-TCAAACC
3630 GGTCAAACC
1 GGTCAAACC
3639 GGTCAGAACC
1 GGTCA-AACC
*
3649 GGTTGAAAACC
1 GG-T-CAAACC
*
3660 GGTTAAACC
1 GGTCAAACC
3669 GGT
1 GGT
3672 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 36 0.49
10 30 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:3630 original size:29 final size:31
Alignment explanation
Indices: 3598--3672 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
3588 ACCGATTCAG
3598 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
3627 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
3657 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
3673 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:3650 original size:19 final size:19
Alignment explanation
Indices: 3579--3671 Score: 75
Period size: 19 Copynumber: 4.8 Consensus size: 19
3569 GTCGGGTCAT
*
3579 ACCGGTCAAACCGATTCAG-
1 ACCGGTCAAACCG-GTCAGA
3598 ACCGGTCAAACCGGTTC-GA
1 ACCGGTCAAACCGG-TCAGA
*
3617 ACCGGTTGAAACCGGTCA-A
1 ACCGG-TCAAACCGGTCAGA
* *
3636 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGG-TCAGA
*
3657 ACCGGTTAAACCGGT
1 ACCGGTCAAACCGGT
3672 TTCCAGCAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.26
21 8 0.13
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTCAGA
Found at i:6121 original size:2 final size:2
Alignment explanation
Indices: 6116--6145 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6106 ACACACACAC
6116 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6146 GGCCTTTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10316 original size:104 final size:104
Alignment explanation
Indices: 10136--10341 Score: 412
Period size: 104 Copynumber: 2.0 Consensus size: 104
10126 AAGGGTTCAA
10136 ACACCAACGACTACAACAAGATGATTGAACGTTCATTATCAAATGATTAATAATATTTCGAATGA
1 ACACCAACGACTACAACAAGATGATTGAACGTTCATTATCAAATGATTAATAATATTTCGAATGA
10201 ATACAATTTTATAATCATCTTAACTTGATATATATATGT
66 ATACAATTTTATAATCATCTTAACTTGATATATATATGT
10240 ACACCAACGACTACAACAAGATGATTGAACGTTCATTATCAAATGATTAATAATATTTCGAATGA
1 ACACCAACGACTACAACAAGATGATTGAACGTTCATTATCAAATGATTAATAATATTTCGAATGA
10305 ATACAATTTTATAATCATCTTAACTTGATATATATAT
66 ATACAATTTTATAATCATCTTAACTTGATATATATAT
10342 ATATATATAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (104 bp):
ACACCAACGACTACAACAAGATGATTGAACGTTCATTATCAAATGATTAATAATATTTCGAATGA
ATACAATTTTATAATCATCTTAACTTGATATATATATGT
Found at i:12458 original size:111 final size:112
Alignment explanation
Indices: 12329--12553 Score: 384
Period size: 111 Copynumber: 2.0 Consensus size: 112
12319 TTTAAGTATA
12329 GTTTTGAAAAATAAAAAAATTAAGTACTAAATC-GATCAAAATTAATAACTTAGGTACT-AATGC
1 GTTTTGAAAAATAAAAAAATTAAGTACTAAA-CGGATCAAAATTAATAACTTAGGTACTAAATGC
*
12392 ATAATTTATCC-TATATTCGTATTTCAAGTGCAACAGAACTGGTGGGTT
65 ATAATCTA-CCATATATTCGTATTTCAAGTGCAACAGAACTGGTGGGTT
* *
12440 GTTTTGAAAAATAAAAAAATTAGGTACTAAACGGATCAAAATTAATAGCTTAGGTACTAAATGCA
1 GTTTTGAAAAATAAAAAAATTAAGTACTAAACGGATCAAAATTAATAACTTAGGTACTAAATGCA
12505 TAATCTACCATATATTCGTATTTCAAGTGCAACAGAACTGGTGGGTT
66 TAATCTACCATATATTCGTATTTCAAGTGCAACAGAACTGGTGGGTT
12552 GT
1 GT
12554 GCCATTGGCA
Statistics
Matches: 108, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
110 1 0.01
111 56 0.52
112 51 0.47
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (112 bp):
GTTTTGAAAAATAAAAAAATTAAGTACTAAACGGATCAAAATTAATAACTTAGGTACTAAATGCA
TAATCTACCATATATTCGTATTTCAAGTGCAACAGAACTGGTGGGTT
Found at i:12597 original size:31 final size:31
Alignment explanation
Indices: 12562--12698 Score: 256
Period size: 31 Copynumber: 4.4 Consensus size: 31
12552 GTGCCATTGG
*
12562 CATTGCTATTGATAGAACTGGTGGGTTGTGG
1 CATTGCTATTGATAGAACTGGTGGGTTGTGC
12593 CATTGCTATTGATAGAACTGGTGGGTTGTGC
1 CATTGCTATTGATAGAACTGGTGGGTTGTGC
*
12624 CATTTCTATTGATAGAACTGGTGGGTTGTGC
1 CATTGCTATTGATAGAACTGGTGGGTTGTGC
12655 CATTGCTATTGATAGAACTGGTGGGTTGTGC
1 CATTGCTATTGATAGAACTGGTGGGTTGTGC
12686 CATTGCTATTGAT
1 CATTGCTATTGAT
12699 GCACAGCAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.20, C:0.12, G:0.31, T:0.37
Consensus pattern (31 bp):
CATTGCTATTGATAGAACTGGTGGGTTGTGC
Found at i:12664 original size:62 final size:62
Alignment explanation
Indices: 12538--12698 Score: 250
Period size: 62 Copynumber: 2.5 Consensus size: 62
12528 CAAGTGCAAC
*
12538 AGAACTGGTGGGTTGTGCCATTGGCATTGCTATTGATAGAACTGGTGGGTTGTGGCATTGCTATT
1 AGAACTGGTGGGTTGTGCCA-T----TT-CTATTGATAGAACTGGTGGGTTGTGCCATTGCTATT
12603 GAT
60 GAT
12606 AGAACTGGTGGGTTGTGCCATTTCTATTGATAGAACTGGTGGGTTGTGCCATTGCTATTGAT
1 AGAACTGGTGGGTTGTGCCATTTCTATTGATAGAACTGGTGGGTTGTGCCATTGCTATTGAT
*
12668 AGAACTGGTGGGTTGTGCCATTGCTATTGAT
1 AGAACTGGTGGGTTGTGCCATTTCTATTGAT
12699 GCACAGCAAG
Statistics
Matches: 91, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
62 68 0.75
63 2 0.02
67 1 0.01
68 20 0.22
ACGTcount: A:0.19, C:0.12, G:0.32, T:0.36
Consensus pattern (62 bp):
AGAACTGGTGGGTTGTGCCATTTCTATTGATAGAACTGGTGGGTTGTGCCATTGCTATTGAT
Found at i:12850 original size:2 final size:2
Alignment explanation
Indices: 12843--12878 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12833 TCTATCTATC
12843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12879 AAAGAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18998 original size:20 final size:20
Alignment explanation
Indices: 18973--19022 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
18963 GCAGGTAGAG
18973 TATCGATACTATAGGGATAA
1 TATCGATACTATAGGGATAA
*
18993 TATCGATACTATAGGGATAG
1 TATCGATACTATAGGGATAA
19013 TATCGATACT
1 TATCGATACT
19023 TGTTCTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
TATCGATACTATAGGGATAA
Found at i:25245 original size:22 final size:21
Alignment explanation
Indices: 25220--25267 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
25210 TATCTTGTAA
**
25220 ATTTAATATTATTTTATTTTTT
1 ATTTAAT-TTATCCTATTTTTT
*
25242 ATTTTCATTTATCCTATTTTTT
1 A-TTTAATTTATCCTATTTTTT
25264 ATTT
1 ATTT
25268 TATACATCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTAATTTATCCTATTTTTT
Found at i:25377 original size:31 final size:31
Alignment explanation
Indices: 25339--25408 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
25329 GATTTGACTC
*
25339 GAAAACTCTAGCATATAGCTTTACTCAACTT
1 GAAAACTCTAGAATATAGCTTTACTCAACTT
*
25370 GAAAACTCTAGAATATAGCTTTACTCGACTT
1 GAAAACTCTAGAATATAGCTTTACTCAACTT
25401 GAAAACTC
1 GAAAACTC
25409 ATGAGCCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (31 bp):
GAAAACTCTAGAATATAGCTTTACTCAACTT
Found at i:26844 original size:58 final size:58
Alignment explanation
Indices: 26764--26878 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 58
26754 AATCATAATA
**
26764 TTTTTAAATTTTATCCTCAAACTTTTATCTATT-TCAATTTCATC-CCTAAATTATGATTT
1 TTTTTAAA-TTTATCCTCAAACTTTTAAATATTCT-AATTTCATCACC-AAATTATGATTT
*
26823 TTTTTAAA-TTAGTCCTCAAACTTTTAAATATTCTAATTTCATCACCGAATTATGAT
1 TTTTTAAATTTA-TCCTCAAACTTTTAAATATTCTAATTTCATCACCAAATTATGAT
26879 CATTGTTCTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
57 3 0.06
58 36 0.72
59 11 0.22
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (58 bp):
TTTTTAAATTTATCCTCAAACTTTTAAATATTCTAATTTCATCACCAAATTATGATTT
Found at i:26923 original size:60 final size:58
Alignment explanation
Indices: 26777--26930 Score: 150
Period size: 58 Copynumber: 2.6 Consensus size: 58
26767 TTAAATTTTA
* ** * * *
26777 TCCTCAAACTTTTATCTATTTCAATTTCATCCCTAAATTATGATTTTTTTTAAATTAG
1 TCCTCAAAATTTTAAATATTCCAATTTCATCCCTAAATTATGATTTGTTCTAAATTAG
* * *
26835 TCCTCAAACTTTTAAATATTCTAATTTCATCACC-GAATTATGATCATTGTTCTAAATTAG
1 TCCTCAAAATTTTAAATATTCCAATTTCATC-CCTAAATTATGAT--TTGTTCTAAATTAG
* * *
26895 TTCC-CAAAATTTTGAATTTTCCAATTTCATGCCTAA
1 -TCCTCAAAATTTTAAATATTCCAATTTCATCCCTAA
26931 TACCATATGA
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
58 36 0.46
59 4 0.05
60 35 0.45
61 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (58 bp):
TCCTCAAAATTTTAAATATTCCAATTTCATCCCTAAATTATGATTTGTTCTAAATTAG
Found at i:35416 original size:42 final size:42
Alignment explanation
Indices: 35364--35448 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
35354 TTAACATTAA
* * *
35364 CATTGACTCTATAATCTCCAAGGTTACCATTCTATTTCGATC
1 CATTGACTCTATAATCTACAAGGTTACCATTCGATCTCGATC
* *
35406 CATTGGCTCTATAATCTACATGGTTACCATTCGATCTCGATC
1 CATTGACTCTATAATCTACAAGGTTACCATTCGATCTCGATC
35448 C
1 C
35449 GTAACAACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (42 bp):
CATTGACTCTATAATCTACAAGGTTACCATTCGATCTCGATC
Found at i:35880 original size:58 final size:58
Alignment explanation
Indices: 35798--35915 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 58
35788 TACTTACAAT
35798 ACATACACTACACTAAACTCTAAGGCATAGTATTAAATTACGACCGTAATACAATATA
1 ACATACACTACACTAAACTCTAAGGCATAGTATTAAATTACGACCGTAATACAATATA
* * * * * *
35856 ACATACATTACACTATACTTTAAGGTATAGTATTAAATTACGACCGTAATATAATGTA
1 ACATACACTACACTAAACTCTAAGGCATAGTATTAAATTACGACCGTAATACAATATA
35914 AC
1 AC
35916 GACACATCGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (58 bp):
ACATACACTACACTAAACTCTAAGGCATAGTATTAAATTACGACCGTAATACAATATA
Found at i:37969 original size:33 final size:32
Alignment explanation
Indices: 37907--37975 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
37897 TGCTGATTTT
* *
37907 ATATTTATTTTTATAATTTATATTGAAAAATA
1 ATATTTATTTTTATAATATAAATTGAAAAATA
*
37939 ATATTTATTTTT-TAATAATAAAGTTTAAAAATA
1 ATATTTATTTTTATAAT-ATAAA-TTGAAAAATA
37972 ATAT
1 ATAT
37976 AGAATGGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.12
32 15 0.47
33 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
ATATTTATTTTTATAATATAAATTGAAAAATA
Found at i:38816 original size:7 final size:7
Alignment explanation
Indices: 38801--38836 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
38791 TAATCGAATA
*
38801 AATAAAT
1 AATATAT
38808 AATATAT
1 AATATAT
*
38815 AATATTT
1 AATATAT
38822 AATATAT
1 AATATAT
38829 AATATAT
1 AATATAT
38836 A
1 A
38837 TTATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:38825 original size:21 final size:21
Alignment explanation
Indices: 38801--38848 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
38791 TAATCGAATA
38801 AATAAATAATATATAATATTT
1 AATAAATAATATATAATATTT
* *
38822 AATATATAATATATATTATTT
1 AATAAATAATATATAATATTT
38843 -ATAAAT
1 AATAAAT
38849 TCCGATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAATAATATATAATATTT
Found at i:45446 original size:30 final size:30
Alignment explanation
Indices: 45410--45470 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
45400 AATTTGATTA
*
45410 TTTAGTTAACTCGAATAGTTTAAATTATTT
1 TTTAGTTAACTCGAATAGTTTAAATCATTT
45440 TTTAGTTAACTCGAATAGTTTAAATCATTT
1 TTTAGTTAACTCGAATAGTTTAAATCATTT
45470 T
1 T
45471 CTTTCAGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTAGTTAACTCGAATAGTTTAAATCATTT
Found at i:52717 original size:18 final size:18
Alignment explanation
Indices: 52682--52729 Score: 73
Period size: 17 Copynumber: 2.7 Consensus size: 18
52672 TTATTAAAAG
52682 TTATAAAATATT-TTTTA
1 TTATAAAATATTATTTTA
52699 TTATAAAATATTATTTTA
1 TTATAAAATATTATTTTA
52717 TTATTAAAA-ATTA
1 TTA-TAAAATATTA
52730 CAAAATAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.41
18 12 0.41
19 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATAAAATATTATTTTA
Found at i:54041 original size:14 final size:14
Alignment explanation
Indices: 54019--54050 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
54009 TTGCAGTAAG
*
54019 GCGCGTCCCTTACA
1 GCGCATCCCTTACA
54033 GCGCATCCCTTACA
1 GCGCATCCCTTACA
54047 GCGC
1 GCGC
54051 GCTTTACGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.19
Consensus pattern (14 bp):
GCGCATCCCTTACA
Found at i:54336 original size:14 final size:15
Alignment explanation
Indices: 54314--54360 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
54304 TATAAGGTAA
*
54314 TTTTGTTATAATT-T
1 TTTTATTATAATTAT
*
54328 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
54343 TATTTATTATGATTAT
1 T-TTTATTATAATTAT
54359 TT
1 TT
54361 GAAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:57950 original size:17 final size:16
Alignment explanation
Indices: 57911--57967 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
57901 TATATAAAAA
*
57911 ATTAATTAAA-TACAAT
1 ATTAAATAAATTA-AAT
* *
57927 ATTAAATCATTTAAAT
1 ATTAAATAAATTAAAT
57943 ACTTAAATAAATTAAAT
1 A-TTAAATAAATTAAAT
*
57960 ATAAAATA
1 ATTAAATA
57968 TAAAATATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 17 0.52
17 16 0.48
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:58025 original size:20 final size:20
Alignment explanation
Indices: 58002--58047 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
57992 ATAAAAGTAT
* *
58002 TTGAGAGAGGTTTAGAGAAG
1 TTGAGAGAAGTTGAGAGAAG
* *
58022 TTGAGGGAAGTTGAGGGAAG
1 TTGAGAGAAGTTGAGAGAAG
58042 TTGAGA
1 TTGAGA
58048 AGATTTGATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (20 bp):
TTGAGAGAAGTTGAGAGAAG
Found at i:58031 original size:10 final size:10
Alignment explanation
Indices: 58018--58046 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
58008 GAGGTTTAGA
58018 GAAGTTGAGG
1 GAAGTTGAGG
58028 GAAGTTGAGG
1 GAAGTTGAGG
58038 GAAGTTGAG
1 GAAGTTGAG
58047 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (10 bp):
GAAGTTGAGG
Found at i:63618 original size:19 final size:20
Alignment explanation
Indices: 63594--63636 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
63584 AAATTCTTTA
63594 AAAAATATTGAA-TATTTTT
1 AAAAATATTGAAGTATTTTT
*
63613 AAAAATTTTGAATGTATTTTT
1 AAAAATATTGAA-GTATTTTT
63634 AAA
1 AAA
63637 TTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
21 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AAAAATATTGAAGTATTTTT
Found at i:64649 original size:20 final size:19
Alignment explanation
Indices: 64616--64654 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
64606 TTATTTATTA
* *
64616 TTATGAAATTAAATTAAAT
1 TTATGAAATCAAATCAAAT
64635 TTATGAAAATCAAATCAAAT
1 TTATG-AAATCAAATCAAAT
64655 CAAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
TTATGAAATCAAATCAAAT
Found at i:66297 original size:16 final size:16
Alignment explanation
Indices: 66272--66315 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
66262 AACATGAAAG
66272 AATA-TATTTTAAATA
1 AATATTATTTTAAATA
*
66287 AATATTATTTT-ACTA
1 AATATTATTTTAAATA
66302 AATATATATTTTAA
1 AATAT-TATTTTAA
66316 TCCTTAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 12 0.48
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTATTTTAAATA
Found at i:66303 original size:15 final size:15
Alignment explanation
Indices: 66272--66316 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
66262 AACATGAAAG
66272 AATA-TATTTTAAATA
1 AATATTATTTT-AATA
*
66287 AATATTATTTTACTA
1 AATATTATTTTAATA
66302 AATATATATTTTAAT
1 AATAT-TATTTTAAT
66317 CCTTAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTATTTTAATA
Found at i:66342 original size:12 final size:12
Alignment explanation
Indices: 66325--66349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66315 ATCCTTAAAC
66325 TATGATTTTTAT
1 TATGATTTTTAT
66337 TATGATTTTTAT
1 TATGATTTTTAT
66349 T
1 T
66350 TTTAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATGATTTTTAT
Found at i:78000 original size:21 final size:21
Alignment explanation
Indices: 77974--78048 Score: 141
Period size: 21 Copynumber: 3.6 Consensus size: 21
77964 TCTTTGAGTA
77974 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
77995 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
*
78016 TTATATAAGCTTAAGGAAAAC
1 TTATATAAGCTTAAGGAAAGC
78037 TTATATAAGCTT
1 TTATATAAGCTT
78049 TAAACATCAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (21 bp):
TTATATAAGCTTAAGGAAAGC
Found at i:78553 original size:20 final size:20
Alignment explanation
Indices: 78508--78605 Score: 160
Period size: 20 Copynumber: 4.7 Consensus size: 20
78498 GCATGGGTAG
78508 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
78532 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
78552 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
78572 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
78592 TGCATCGATGCACT
1 TGCATCGATGCACT
78606 TCAAGGGGAA
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
20 58 0.78
22 1 0.01
23 2 0.03
24 13 0.18
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:96538 original size:18 final size:17
Alignment explanation
Indices: 96517--96558 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
96507 CGTATCATCG
96517 ACAAAATTTTTACTATTC
1 ACAAAA-TTTTACTATTC
96535 ACAAAA-TTTACTATTC
1 ACAAAATTTTACTATTC
96551 ACATAAAT
1 ACA-AAAT
96559 AGTAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.59
17 3 0.14
18 6 0.27
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (17 bp):
ACAAAATTTTACTATTC
Found at i:96546 original size:16 final size:17
Alignment explanation
Indices: 96525--96558 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
96515 CGACAAAATT
96525 TTTACTATTCACA-AAA
1 TTTACTATTCACATAAA
96541 TTTACTATTCACATAAA
1 TTTACTATTCACATAAA
96558 T
1 T
96559 AGTAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTACTATTCACATAAA
Found at i:101894 original size:14 final size:14
Alignment explanation
Indices: 101871--101908 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
101861 TCTGTCTATA
*
101871 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
101884 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
101899 TGCAGGGATT
1 TGCAGGGATT
101909 ACTTCCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:105372 original size:21 final size:20
Alignment explanation
Indices: 105343--105408 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
105333 GACAACCAAC
*
105343 TTTGAAAATGGTTTTCAAAG
1 TTTGTAAATGGTTTTCAAAG
105363 TTTGGTAAAT-G-TTTC----
1 TTT-GTAAATGGTTTTCAAAG
*
105378 TTTGAAAATGGTTTTCAAAG
1 TTTGTAAATGGTTTTCAAAG
105398 TTTAGTAAATG
1 TTT-GTAAATG
105409 TTTCTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 15
0.66 0.06 0.28
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 4 0.11
20 7 0.20
21 11 0.31
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTGTAAATGGTTTTCAAAG
Found at i:105429 original size:36 final size:35
Alignment explanation
Indices: 105342--105446 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
105332 TGACAACCAA
105342 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
105377 CTTTGAAAATGGTTTTCAAAGTTTAGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
105412 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAA-GTTT
1 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
105447 GGTAGATGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 43 0.65
36 23 0.35
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:110616 original size:21 final size:20
Alignment explanation
Indices: 110587--110652 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
110577 GGCAACCAAC
*
110587 TTTGAAAATGGTTTTCAAAG
1 TTTGTAAATGGTTTTCAAAG
110607 TTTGGTAAAT-G-TTTC----
1 TTT-GTAAATGGTTTTCAAAG
*
110622 TTTGAAAATGGTTTTCAAAG
1 TTTGTAAATGGTTTTCAAAG
110642 TTTAGTAAATG
1 TTT-GTAAATG
110653 TTTCTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 15
0.66 0.06 0.28
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 4 0.11
20 7 0.20
21 11 0.31
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTGTAAATGGTTTTCAAAG
Found at i:110673 original size:36 final size:35
Alignment explanation
Indices: 110586--110690 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
110576 TGGCAACCAA
110586 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
110621 CTTTGAAAATGGTTTTCAAAGTTTAGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
110656 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAA-GTTT
1 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
110691 GGTAGATGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 43 0.65
36 23 0.35
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:116003 original size:27 final size:27
Alignment explanation
Indices: 115972--116037 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
115962 ATAGTGTCTT
115972 TGAATCATTCAGAATGTACTTCTGTGC
1 TGAATCATTCAGAATGTACTTCTGTGC
115999 TGAATCATTCAGAATGTACTTCTGTGC
1 TGAATCATTCAGAATGTACTTCTGTGC
116026 TGAATCATTCAG
1 TGAATCATTCAG
116038 GGGTGAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
TGAATCATTCAGAATGTACTTCTGTGC
Found at i:116851 original size:2 final size:2
Alignment explanation
Indices: 116844--116879 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
116834 CTTTTCTCAA
116844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116880 TGATAAATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:162428 original size:17 final size:16
Alignment explanation
Indices: 162402--162440 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
162392 AATGACGTGG
162402 TCGGTT-AAATAAGTGA
1 TCGGTTAAAATAA-TGA
*
162418 TCGGTTAAAATTATGA
1 TCGGTTAAAATAATGA
162434 TCGGTTA
1 TCGGTTA
162441 TGTTATATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (16 bp):
TCGGTTAAAATAATGA
Found at i:162512 original size:23 final size:23
Alignment explanation
Indices: 162477--162533 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
162467 ATCAAGCACA
*
162477 ATAATATATTAGGTAGCGCTTAG
1 ATAATATAATAGGTAGCGCTTAG
* *
162500 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAG
*
162523 ATAATAAAATA
1 ATAATATAATA
162534 TGCATTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAG
Found at i:162595 original size:87 final size:86
Alignment explanation
Indices: 162445--162611 Score: 235
Period size: 87 Copynumber: 1.9 Consensus size: 86
162435 CGGTTATGTT
* * * *
162445 ATATCATTTAACCGGAAATATTATCAAGCACAATAATATATTAGGTAGCGCTTAGATAATGTAAT
1 ATATCATTTAACCAGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAAT
*
162510 AGGTAGCGCTTATATAATAAA
66 AGATAGCGCTTATATAATAAA
* * * *
162531 ATATGCATTTAACTAGAAATATTATAAAGTAGAATAACAAATTAGGTAGCGCTTATATAATGTAA
1 ATAT-CATTTAACCAGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAA
*
162596 TAGATAGCGTTTATAT
65 TAGATAGCGCTTATAT
162612 TAACCTATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
86 4 0.06
87 66 0.94
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (86 bp):
ATATCATTTAACCAGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTAGATAATGTAAT
AGATAGCGCTTATATAATAAA
Found at i:166741 original size:201 final size:201
Alignment explanation
Indices: 166216--167200 Score: 1143
Period size: 201 Copynumber: 4.9 Consensus size: 201
166206 TAATTTTCAA
* * * * * *
166216 AAGTATCGACACTAATTTAA-AACGTGTCGATACATTCTGTATACATATTTTCTCATAAAACCGA
1 AAGTATCGACAC-AAATGAATAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGG
166280 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * * **
166345 AGGATTGACACTTTTTCTAAATGTATCGATACTTTTTCGTGAACTT-GTTTGGAAAATTTATTAT
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAAATACATTAT
166409 GGACATA-
195 GGACA-AC
* * * * * *
166416 AAGTGTCGACA-AAATGTATAAAGTATCGATACATTATGTATACCT-TTTTTTTA-AATAACCAG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTATACCTATTTTCTCATAA-AACCGG
* * * * * * * * *
166478 TATATTTAGACCGGTTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGATGTTTGT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * *
166543 AGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGG-AAATATATTC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAAATACATTA
166607 TGGACAAC
194 TGGACAAC
* * *
166615 ATGTATCGACACAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTATACCTATTTTCTCATAAAACCGG
* *
166679 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTTGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
** * *
166744 GGGATCGACACTTAATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACAC
130 GGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTG----GTTTGGAAAATAC
166808 ATTATGGAC-AC
190 ATTATGGACAAC
** ** * * *
166819 AAAGTATCGGTACAAATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCAT-AAACCGG
1 -AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGG
* * * ** * * *
166883 TATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTACGGATTTCAATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * *
166948 GGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTAGTTTGG-AAATACATTA
130 GGGATCGACACTTTTTATAAATGTATCGACACTTT-TTCGTGAACTTGGTTTGGAAAATACATTA
167012 TGGACAAC
194 TGGACAAC
* * * *
167020 ATGTATCGACACAAATGAATAAAGTATCGACACA-TATTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTATACCTATTTTCTCATAAAACCGG
*
167084 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
** * *
167149 GGGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTG
130 GGGATCGACACTTTTTATAAATGTATCGACACTT-TTTCGTGAACTTGGTTTG
167201 TTTAGAAAAC
Statistics
Matches: 653, Mismatches: 109, Indels: 46
0.81 0.13 0.06
Matches are distributed among these distances:
197 2 0.00
198 103 0.16
199 59 0.09
200 118 0.18
201 200 0.31
202 4 0.01
203 1 0.00
204 102 0.16
205 62 0.09
206 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (201 bp):
AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
GGATCGACACTTTTTATAAATGTATCGACACTTTTTCGTGAACTTGGTTTGGAAAATACATTATG
GACAAC
Found at i:167022 original size:405 final size:404
Alignment explanation
Indices: 166239--167223 Score: 1495
Period size: 405 Copynumber: 2.4 Consensus size: 404
166229 AATTTAAAAC
* * * *
166239 GTGTCGATACAT-TCTGTATACATATTTTCTCATAAAACCGATAAATTTAAACCGGTTACATTGT
1 GTGTCGACACATAT-TGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGT
* * * ** *
166303 AAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTAGGATTGACACTTTTTCTAAATG
65 AAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGGATCGACACTTAATATAAATG
* * *** * *
166368 TATCGATACTT-TTTCGTGAAC-----TTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACA
130 TGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACACATTATGGACACAAAGTATCGACA
* * *
166427 AAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAAATAACCAGTATATTTAGACCGG
194 AAATGTATAAAGTATCGATACATTATGAATACCTTTTTCTCAAATAACCAGTATATTTAGACCGG
* *
166492 TTACATTGTTATGTTACCGATTACATTATAATTATGTGTTTCGATGTTTGTAGGATCGACACTTT
259 TTACATTGTTATGTTACCGATTACATTATAATTACGTGTTTCAATGTTTGTAGGATCGACACTTT
* * *
166557 TTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATATATTCTGGACAACATGTATC
324 TTATAAATGTATCGACACTTTGTTCGTGCACTTAGTTTGGAAATACATTATGGACAACATGTATC
166622 GACACAAATGAATAAA
389 GACACAAATGAATAAA
166638 GTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTA
1 GTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTA
*
166703 AAGTGACCTATTACATTATAGTTACGGGTTTTGATGTTTTTGGGATCGACACTTAATATAAATGT
66 AAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGGATCGACACTTAATATAAATGT
166768 GTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTATGGACACAAAGTATCGGTAC-
131 GTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTATGGACACAAAGTATC-G-ACA
* * * * *
166832 AAATTTATAAAGTGTCGATACTTTATGAATACCTCTTTTCTCATA-AACCGGTATATTTAGACCG
194 AAATGTATAAAGTATCGATACATTATGAATACCT-TTTTCTCAAATAACCAGTATATTTAGACCG
* * * * *
166896 GTTACATTGTTATTTTACCTATTACATTATAATTACG-GATTTCAATGTTTTTGGGATCGATACT
258 GTTACATTGTTATGTTACCGATTACATTATAATTACGTG-TTTCAATGTTTGTAGGATCGACACT
166960 TTTTATAAATGTATCGACACTTTGTTCGTGCACTTAGTTTGGAAATACATTATGGACAACATGTA
322 TTTTATAAATGTATCGACACTTTGTTCGTGCACTTAGTTTGGAAATACATTATGGACAACATGTA
167025 TCGACACAAATGAATAAA
387 TCGACACAAATGAATAAA
*
167043 GTATCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTA
1 GTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTA
*
167108 AAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATATAAATGT
66 AAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGGATCGACACTTAATATAAATGT
*
167173 GTCGACACTTATTTGTGAACTTGTTTTGTTTAGAAAACACATTATGGACAC
131 GTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTATGGACAC
167224 TTGATATAAT
Statistics
Matches: 535, Mismatches: 40, Indels: 16
0.91 0.07 0.03
Matches are distributed among these distances:
399 131 0.24
400 4 0.01
404 30 0.06
405 361 0.67
406 9 0.02
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (404 bp):
GTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTGTA
AAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGGATCGACACTTAATATAAATGT
GTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTATGGACACAAAGTATCGACAAA
ATGTATAAAGTATCGATACATTATGAATACCTTTTTCTCAAATAACCAGTATATTTAGACCGGTT
ACATTGTTATGTTACCGATTACATTATAATTACGTGTTTCAATGTTTGTAGGATCGACACTTTTT
ATAAATGTATCGACACTTTGTTCGTGCACTTAGTTTGGAAATACATTATGGACAACATGTATCGA
CACAAATGAATAAA
Found at i:169856 original size:15 final size:15
Alignment explanation
Indices: 169836--169871 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
169826 TGATATCCTC
169836 AGAAGAGGTGGGTTG
1 AGAAGAGGTGGGTTG
169851 AGAAGAGGTGGGTTG
1 AGAAGAGGTGGGTTG
169866 AGAAGA
1 AGAAGA
169872 ACCCCGATTC
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:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (15 bp):
AGAAGAGGTGGGTTG
Found at i:170560 original size:198 final size:198
Alignment explanation
Indices: 170356--171102 Score: 1248
Period size: 198 Copynumber: 3.7 Consensus size: 198
170346 GACCATTTAA
*
170356 ATTCTGGACACAAAGTATCGACACAAATTAAAAAAGTGTTGATACTTCATGTACACCTGTTTTCT
1 ATTCTGGACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCT
170421 CATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCT
66 CATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCT
170486 CGAAGTTTTTGGGATCGATACTTTTTATACATGTATCGACACATTATGGTGACCTTGGTAAGGAA
131 CGAAGTTTTTGGGATCGATACTTTTTATACATGTATCGACACATTATGGTGACCTTGGTAAGGAA
170551 ATC
196 ATC
170554 ATTCTGGACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCT
1 ATTCTGGACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCT
* *
170619 CATAAACCAGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTATATTATAATTATGGGTCT
66 CATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCT
*
170684 CGATGTTTTTGGGATCGATACTTTTTATACATGTATCGACACATTATGGTGACCTTGGTAAGGAA
131 CGAAGTTTTTGGGATCGATACTTTTTATACATGTATCGACACATTATGGTGACCTTGGTAAGGAA
170749 ATC
196 ATC
* *
170752 ATTTTGGACACAAAGTATCGACACAAATTTAAAAAGTGTCGATACTTCATGTACACCTGTTTTCT
1 ATTCTGGACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCT
*
170817 CATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAGTTATGGGTCT
66 CATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCT
* * * * ** *
170882 CCATGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACATT-TCCATG-CACTTGGTAAAG
131 CGAAGTTTTTGGGATCGATACTTTTTATACATGTATCGACACATTAT-GGTGAC-CTTGGTAAGG
170945 AAATC
194 AAATC
* *
170950 ATTCTGGACACAAAGTATGGGATCGACACAAATTAAACAAGTGTCGATACTTTATGTACACCTGT
1 ATTCTGGACACAAAG--T---ATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGT
171015 TTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATG
61 TTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATG
*
171080 GTTCTCGATA-TTTTTGGGATCGA
126 GGTCTCGA-AGTTTTTGGGATCGA
171103 CACAAATTAA
Statistics
Matches: 518, Mismatches: 23, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
197 2 0.00
198 391 0.75
200 1 0.00
203 124 0.24
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (198 bp):
ATTCTGGACACAAAGTATCGACACAAATTAAAAAAGTGTCGATACTTCATGTACACCTGTTTTCT
CATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCT
CGAAGTTTTTGGGATCGATACTTTTTATACATGTATCGACACATTATGGTGACCTTGGTAAGGAA
ATC
Found at i:172633 original size:17 final size:17
Alignment explanation
Indices: 172611--172646 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
172601 GAATCATTAG
172611 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
172628 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
172645 GA
1 GA
172647 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (17 bp):
GATTAATATCTTTTCAT
Found at i:172970 original size:18 final size:18
Alignment explanation
Indices: 172947--172985 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
172937 TTCTCCTCAT
172947 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
172965 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
172983 TTC
1 TTC
172986 AAATTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:173677 original size:22 final size:24
Alignment explanation
Indices: 173649--173703 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
173639 AACCTGCATT
173649 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
173671 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
173695 TATAA-AAAA
1 TATAATAAAA
173704 CAAAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
24 16 0.59
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:174791 original size:18 final size:18
Alignment explanation
Indices: 174768--174805 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
174758 AGTACATATA
*
174768 TCCACCCTTTGGTTGCTT
1 TCCACCCATTGGTTGCTT
174786 TCCACCCATTGGTTGCTT
1 TCCACCCATTGGTTGCTT
174804 TC
1 TC
174806 TACCAATTGA
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:0.08, C:0.34, G:0.16, T:0.42
Consensus pattern (18 bp):
TCCACCCATTGGTTGCTT
Found at i:174814 original size:18 final size:18
Alignment explanation
Indices: 174776--174814 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
174766 TATCCACCCT
*
174776 TTGGTTGCTTTCCACCCA
1 TTGGTTGCTTTCCACCAA
*
174794 TTGGTTGCTTTCTACCAA
1 TTGGTTGCTTTCCACCAA
174812 TTG
1 TTG
174815 ACTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (18 bp):
TTGGTTGCTTTCCACCAA
Found at i:175473 original size:157 final size:160
Alignment explanation
Indices: 175186--175504 Score: 617
Period size: 157 Copynumber: 2.0 Consensus size: 160
175176 AGATCACTTT
175186 CTACATGTAATCGGTCCCAAATGCTTTTTTACTTTGAAAACCCCAAACAACAACACATAAAAACC
1 CTACATGTAATCGGTCCCAAATGCTTTTTTACTTTGAAAACCCCAAACAACAACACATAAAAACC
175251 CTAATTACTGTAATAATAAAAAACTAGGGTTTCAACAACGTACCTTTCGATTTGAAATGCAGCAA
66 CTAATTACTGTAATAATAAAAAACTAGGGTTTCAACAACGTACCTTTCGATTTGAAATGCAGCAA
175316 CAAAC-AAACAAACTTC-ACGTAGAAACGC
131 CAAACAAAACAAACTTCAACGTAGAAACGC
175344 CTACATGTAATCGGT-CCAAATGCTTTTTTACTTTGAAAACCCCAAACAACAACACATAAAAACC
1 CTACATGTAATCGGTCCCAAATGCTTTTTTACTTTGAAAACCCCAAACAACAACACATAAAAACC
175408 CTAATTACTGTAATAATAAAAAACTAGGGTTTCAACAACGTACCTTTCGATTTGAAATGCAGCAA
66 CTAATTACTGTAATAATAAAAAACTAGGGTTTCAACAACGTACCTTTCGATTTGAAATGCAGCAA
175473 CAAACAAAACAAACTTCAACGTAGAAACGC
131 CAAACAAAACAAACTTCAACGTAGAAACGC
175503 CT
1 CT
175505 TCTGAAATGC
Statistics
Matches: 159, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
157 119 0.75
158 26 0.16
159 14 0.09
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (160 bp):
CTACATGTAATCGGTCCCAAATGCTTTTTTACTTTGAAAACCCCAAACAACAACACATAAAAACC
CTAATTACTGTAATAATAAAAAACTAGGGTTTCAACAACGTACCTTTCGATTTGAAATGCAGCAA
CAAACAAAACAAACTTCAACGTAGAAACGC
Found at i:175795 original size:20 final size:20
Alignment explanation
Indices: 175749--175795 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
175739 ACCGGTAGCG
*
175749 CTTTACCGGTTTTTTCATTT
1 CTTTACCGGTTTTATCATTT
**
175769 CGATACCGGTTTTATCATATT
1 CTTTACCGGTTTTATCAT-TT
175790 -TTTACC
1 CTTTACC
175796 TATTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.11, T:0.51
Consensus pattern (20 bp):
CTTTACCGGTTTTATCATTT
Found at i:176159 original size:142 final size:136
Alignment explanation
Indices: 175905--176224 Score: 464
Period size: 142 Copynumber: 2.3 Consensus size: 136
175895 ATTAATTTAT
* * *
175905 GACACTTTAAATATATTCGGTATCTTTTACCGG-TTTATCATTTCGAGACCTCTTTTGTCATATT
1 GACACTTTCAATATATCCGGTAGCTTTTACCGGTTTTATCATTTCGAGACCTCTTTTGTCATATT
*
175969 ATTACCGGATATATTACTATGGATCGATACATTTGTATAAAGTATCGACA-CTTTTCAGGCGCTA
66 ATTACCGGATATATTACTATGGATCGACACATTTGTATAAAGTATCGACACCTTTT-AGGCGCTA
176033 TAACTTCTTCTC
130 TAA---C-T-TC
*
176045 GACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATAT
1 GACACTTTCAATATATCCGGTAGC-TTTTACCGGTTTTATCATTTCGAGACCTCTTTTGTCATAT
* * * *
176110 TATTACCTGTTATATTGCTATGGATCGACACATTTTTATAAAGTATCGACACCTTTTAGGCGCTA
65 TATTACCGGATATATTACTATGGATCGACACATTTGTATAAAGTATCGACACCTTTTAGGCGCTA
176175 TAACTTC
130 TAACTTC
*
176182 GACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCAT
1 GACACTTTCAATATATCCGGTAGC-TTTTACCGGTTTTATCAT
176225 ATTTTTACCT
Statistics
Matches: 166, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
137 43 0.26
138 1 0.01
139 1 0.01
140 21 0.13
141 9 0.05
142 86 0.52
143 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (136 bp):
GACACTTTCAATATATCCGGTAGCTTTTACCGGTTTTATCATTTCGAGACCTCTTTTGTCATATT
ATTACCGGATATATTACTATGGATCGACACATTTGTATAAAGTATCGACACCTTTTAGGCGCTAT
AACTTC
Found at i:177767 original size:21 final size:19
Alignment explanation
Indices: 177717--177790 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
177707 TATTATTTAA
* *
177717 TTATAAAAATATAAAGATA-
1 TTATAAATATATTAA-ATAG
177736 TTATAAAATATATTAATTTATAG
1 TTAT-AAATATATTAA---ATAG
*
177759 TT-TAAATATAATAAATAG
1 TTATAAATATATTAAATAG
177777 TTATAAATATATTA
1 TTATAAATATATTA
177791 TTCTAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.13
19 14 0.31
20 9 0.20
21 10 0.22
22 4 0.09
23 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TTATAAATATATTAAATAG
Found at i:194315 original size:56 final size:56
Alignment explanation
Indices: 194255--194412 Score: 235
Period size: 56 Copynumber: 2.8 Consensus size: 56
194245 CCGGAGTCTA
* * * *
194255 TATTTTTATGATTCTTAATGGCAACAACTGATAGATATACTCGATTTTGGGACCCT
1 TATTTTTATGATTATTAATGGTAACAACTGATAGATATACTCGATTTCGGGACCCC
*
194311 TATTTTTATGCTTATTAATGGTAACAACTGATAGATATACTCGATTTCGGGACCCC
1 TATTTTTATGATTATTAATGGTAACAACTGATAGATATACTCGATTTCGGGACCCC
* * * *
194367 TATTTTTATGTTTATTAATGATAACAACTAATAGATATATTCGATT
1 TATTTTTATGATTATTAATGGTAACAACTGATAGATATACTCGATT
194413 GAGAATGAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 93 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (56 bp):
TATTTTTATGATTATTAATGGTAACAACTGATAGATATACTCGATTTCGGGACCCC
Found at i:201233 original size:17 final size:17
Alignment explanation
Indices: 201207--201241 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
201197 TATATATATA
*
201207 TATATCTAAATTCATGT
1 TATATATAAATTCATGT
201224 TATATATAAATTCATGT
1 TATATATAAATTCATGT
201241 T
1 T
201242 TCTAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (17 bp):
TATATATAAATTCATGT
Found at i:204805 original size:20 final size:19
Alignment explanation
Indices: 204772--204815 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
204762 GTCGTTTTGG
204772 TTTTTTTTAATAAAA-AATA
1 TTTTTTTTAATAAAATAA-A
*
204791 TTTTTTTTATTTAAAATAAA
1 TTTTTTTTA-ATAAAATAAA
204811 TTTTT
1 TTTTT
204816 AAAATTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTTTAATAAAATAAA
Found at i:206178 original size:21 final size:21
Alignment explanation
Indices: 206154--206194 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
206144 ATATAAAAAA
206154 TATTTTTATTAAATATTTTAG
1 TATTTTTATTAAATATTTTAG
* *
206175 TATTTTTATTTAATTTTTTA
1 TATTTTTATTAAATATTTTA
206195 AATAATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTTTTATTAAATATTTTAG
Found at i:208499 original size:186 final size:185
Alignment explanation
Indices: 208170--208547 Score: 686
Period size: 190 Copynumber: 2.0 Consensus size: 185
208160 TGGTCAATTC
208170 TTTTTTTTTCTTGGATCGTAAGTTTCGTTTTTGCTCCTGTTAGCACCGGTCATCATGAATCTGGA
1 TTTTTTTTTCTTGGATCGTAAGTTTCGTTTTTGCTCCTGTTAGCACCGGTCATCATGAATCTGGA
208235 AAATGAGCGGCGATTTACAATGCTATTGTAGTAGTTTTGAATTTATCGTTCTGAAAAGAGATGCT
66 AAATGAGCGGCGATTTACAATGCTATTGTAGTAGTTTTGAATTTATCGTTCTGAAAAGAGATGCT
208300 GTTTATATATATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGA
131 G-TTATATATATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGA
208356 TTTTTTTTTCTTGGATCGTAAGTTTCGTTTTTGCTCCTGTTAGCACCGGATCATCATGAATCTGG
1 TTTTTTTTTCTTGGATCGTAAGTTTCGTTTTTGCTCCTGTTAGCACCGG-TCATCATGAATCTGG
208421 AAAATGAG-GCGCGATTTACAATGCTATTGTAGTAGTTTTGAATTTATATCGTTCTGAAAAGAAG
65 AAAATGAGCG-GCGATTTACAATGCTATTGTAGTAGTTTTGAA-TT-TATCGTTCTGAAAAG-AG
208485 ATGCTGTTTATATATATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGA
126 ATGCTG-TTATATATATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGA
208546 TT
1 TT
208548 CAATATATAT
Statistics
Matches: 187, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
186 50 0.27
187 55 0.29
188 2 0.01
189 15 0.08
190 65 0.35
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.42
Consensus pattern (185 bp):
TTTTTTTTTCTTGGATCGTAAGTTTCGTTTTTGCTCCTGTTAGCACCGGTCATCATGAATCTGGA
AAATGAGCGGCGATTTACAATGCTATTGTAGTAGTTTTGAATTTATCGTTCTGAAAAGAGATGCT
GTTATATATATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGA
Found at i:208575 original size:51 final size:50
Alignment explanation
Indices: 208500--208601 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 50
208490 GTTTATATAT
208500 ATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGATTCA
1 ATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGATTCA
208550 ATATATATATGATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGATTCA
1 ATATATATAT-ATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGATTCA
208601 A
1 A
208602 AGTCTTTACA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 10 0.20
51 41 0.80
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (50 bp):
ATATATATATATCTCTTAAGTAACTGTTGGAATCTAATTTCAAGGATTCA
Found at i:220612 original size:29 final size:30
Alignment explanation
Indices: 220548--220801 Score: 241
Period size: 30 Copynumber: 8.5 Consensus size: 30
220538 TAAAAATAAC
*
220548 AGAAACTTAAAGGACTAAAATAGCTAAAAT
1 AGAAAGTTAAAGGACTAAAATAGCTAAAAT
* *
220578 AGAAAGTTAAATGACTAAAA-ATCTAAAAT
1 AGAAAGTTAAAGGACTAAAATAGCTAAAAT
* * * *
220607 AGAAAGCTAAGGGATTAAAATAG-TAAAAAC
1 AGAAAGTTAAAGGACTAAAATAGCT-AAAAT
* * * *
220637 ATAAAGCTAAAGGACCAAAATAGCTAAAAC
1 AGAAAGTTAAAGGACTAAAATAGCTAAAAT
* *
220667 AGAAACTTACAAGG-CTAAAATAG-TAAAAGC
1 AGAAAGTTA-AAGGACTAAAATAGCTAAAA-T
* * *
220697 AAAAACTTAAAGGACTAAAATAGCTAAAAC
1 AGAAAGTTAAAGGACTAAAATAGCTAAAAT
* *
220727 AGAAAGTTCAAGGACCAAAATAGCTAAAAT
1 AGAAAGTTAAAGGACTAAAATAGCTAAAAT
* * *
220757 AGGAAA-TCAAAGAACTAAAATAGC-AAAAC
1 A-GAAAGTTAAAGGACTAAAATAGCTAAAAT
220786 AGAAAGTTAAAGGACT
1 AGAAAGTTAAAGGACT
220802 GAACAATAAT
Statistics
Matches: 185, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.02
29 47 0.25
30 120 0.65
31 14 0.08
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (30 bp):
AGAAAGTTAAAGGACTAAAATAGCTAAAAT
Found at i:220750 original size:90 final size:89
Alignment explanation
Indices: 220545--220755 Score: 232
Period size: 89 Copynumber: 2.4 Consensus size: 89
220535 AAATAAAAAT
* * * * *
220545 AACAGAAACTTAAAGGACTAAAATAGCTAAAATAGAAAGTTAAATGACTAAAAATCTAAAATAGA
1 AACAGAAAGTTAAAGGACCAAAATAGCTAAAACAGAAACTTAAATGACTAAAAATCTAAAACAGA
* * *
220610 AAGCTAAGGGATTAAAATAGTAAA
66 AAACTAAAGGACTAAAATAGTAAA
* * * *
220634 AACATAAAGCTAAAGGACCAAAATAGCTAAAACAGAAACTTACAA-GGCT-AAAATAGTAAAAGC
1 AACAGAAAGTTAAAGGACCAAAATAGCTAAAACAGAAACTTA-AATGACTAAAAAT-CTAAAA-C
220697 A-AAAACTTAAAGGACTAAAATAGCT-AA
63 AGAAAAC-TAAAGGACTAAAATAG-TAAA
*
220724 AACAGAAAGTTCAAGGACCAAAATAGCTAAAA
1 AACAGAAAGTTAAAGGACCAAAATAGCTAAAA
220756 TAGGAAATCA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
88 5 0.05
89 48 0.47
90 48 0.47
91 1 0.01
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (89 bp):
AACAGAAAGTTAAAGGACCAAAATAGCTAAAACAGAAACTTAAATGACTAAAAATCTAAAACAGA
AAACTAAAGGACTAAAATAGTAAA
Found at i:231487 original size:19 final size:19
Alignment explanation
Indices: 231463--231509 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
231453 GTTCGGTTAA
*
231463 CGGTTAATGGGGAAAAATT
1 CGGTTAATGGAGAAAAATT
*
231482 CGGTTAATGGAGAGAAATT
1 CGGTTAATGGAGAAAAATT
231501 CGGTTAATG
1 CGGTTAATG
231510 AAACTTGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (19 bp):
CGGTTAATGGAGAAAAATT
Found at i:234176 original size:4 final size:4
Alignment explanation
Indices: 234167--234238 Score: 81
Period size: 4 Copynumber: 18.0 Consensus size: 4
234157 CAACTTGTAC
* * * *
234167 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATGT ATGT ATGT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
234215 ATGT ATGT ATAT GTAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT
234239 GTGTGGTTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:236005 original size:2 final size:2
Alignment explanation
Indices: 235998--236049 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
235988 ATGTTTCCAA
235998 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
236040 CT CT CT CT CT
1 CT CT CT CT CT
236050 TTTAAAAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:237541 original size:16 final size:17
Alignment explanation
Indices: 237520--237552 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
237510 CGTATATCTA
237520 ATCCGAAAATTT-GGAT
1 ATCCGAAAATTTCGGAT
237536 ATCCGAAAATTTCGGAT
1 ATCCGAAAATTTCGGAT
237553 GCCTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (17 bp):
ATCCGAAAATTTCGGAT
Found at i:238767 original size:201 final size:203
Alignment explanation
Indices: 238530--238934 Score: 787
Period size: 201 Copynumber: 2.0 Consensus size: 203
238520 GTTTAAATAC
238530 TAAATACATAATTTACCCTAAATACTAATGTTAATTTAATAATATCATTATTATTTCATCATATA
1 TAAATACATAATTTACCCTAAATACTAATGTTAATTTAATAATATCATTATTATTTCATCATATA
238595 TAAATAATTATGTATTACTCTTATGCATGGGTTCAGCTCAAATTCGGTCCATAAAAACATATACC
66 TAAATAATTATGTATTACTCTTATGCATGGGTTCAGCTCAAATTCGGTCCATAAAAACATATACC
238660 TATCTAAAGGTCAGGTTATCTATTAGACCAGATAAGTGTAA-C-GTACAAATCAAGTTAACTCAT
131 TATCTAAAGGTCAGGTTATCTATTAGACCAGATAAGTGTAACCTGTACAAATCAAGTTAACTCAT
238723 TGGTTAAA
196 TGGTTAAA
238731 TAAATACATAATTTACCCTAAATACTAATGTTAATTTAATAATATCATTATTATTTCATCATATA
1 TAAATACATAATTTACCCTAAATACTAATGTTAATTTAATAATATCATTATTATTTCATCATATA
238796 TAAATAATTATGTATTACTCTTATGCATGGGTTCAGCTCAAATTCGGTCCATAAAAACATATACC
66 TAAATAATTATGTATTACTCTTATGCATGGGTTCAGCTCAAATTCGGTCCATAAAAACATATACC
238861 TATCTAAAGGTCAGGTTATCTATTAGACCAGATAAGTGTAACTCTGTACAAATCAAGTTAACTCA
131 TATCTAAAGGTCAGGTTATCTATTAGACCAGATAAGTGTAAC-CTGTACAAATCAAGTTAACTCA
238926 TTGGTTAAA
195 TTGGTTAAA
238935 AGAATGATTG
Statistics
Matches: 201, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
201 171 0.85
203 1 0.00
204 29 0.14
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (203 bp):
TAAATACATAATTTACCCTAAATACTAATGTTAATTTAATAATATCATTATTATTTCATCATATA
TAAATAATTATGTATTACTCTTATGCATGGGTTCAGCTCAAATTCGGTCCATAAAAACATATACC
TATCTAAAGGTCAGGTTATCTATTAGACCAGATAAGTGTAACCTGTACAAATCAAGTTAACTCAT
TGGTTAAA
Found at i:244163 original size:2 final size:2
Alignment explanation
Indices: 244158--244188 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
244148 TTACACACAC
244158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
244189 ATAATCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:252243 original size:11 final size:11
Alignment explanation
Indices: 252235--252259 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
252225 TAATTATTAT
252235 ATATATATTTA
1 ATATATATTTA
252246 ATATATATTTA
1 ATATATATTTA
252257 ATA
1 ATA
252260 ATAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:252263 original size:3 final size:3
Alignment explanation
Indices: 252255--252336 Score: 139
Period size: 3 Copynumber: 27.7 Consensus size: 3
252245 AATATATATT
* *
252255 TAA TAA TAA TAA TAA TGA TAA TAA T-A TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
252302 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
252337 TGGATAAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 72 0.97
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:252990 original size:113 final size:113
Alignment explanation
Indices: 252652--253081 Score: 689
Period size: 112 Copynumber: 3.9 Consensus size: 113
252642 AGAATTATGC
* * *
252652 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
252716 TATGAAC--T-TCTGGAAAAGATAATCCATCAATTGATGAATTCAGGC
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
252761 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG-TCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
252825 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
252873 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
252938 TATGAACTTTCTCTAGAAAGGATGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
252986 AAAAGGTTGAACAAATTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
253048 TATGAACCTTCTCTGGCAAAA-ACTGATCCATCAA
66 TATGAACTTTCTCTGG-AAAAGA-TGATCCATCAA
253082 GTGGATTCGA
Statistics
Matches: 302, Mismatches: 12, Indels: 12
0.93 0.04 0.04
Matches are distributed among these distances:
109 53 0.18
110 60 0.20
111 15 0.05
112 88 0.29
113 86 0.28
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
Found at i:252996 original size:225 final size:220
Alignment explanation
Indices: 252652--253081 Score: 677
Period size: 225 Copynumber: 1.9 Consensus size: 220
252642 AGAATTATGC
* *
252652 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
* *
252717 ATGAACTTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTC
66 ATGAACTTCTAGAAAAGATAATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTC
*
252782 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAG-TCTTCTCATTATGAACTTTCTCTGG-AAAA
131 TCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAA
252845 GA-TGATCCATCAAATGATGGATTCAGGT
193 -ACTGATCCATCAAATGATGGATTCAGGT
*
252873 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * *
252938 TATGAACTTTCTCTAGAAAGGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
65 TATGAAC--T-TCTAGAAAAGATAATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAATT
253003 CTTCTCATTATGAACTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA
127 CTTCTCATTATGAACTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA
253068 AACTGATCCATCAA
192 AACTGATCCATCAA
253082 GTGGATTCGA
Statistics
Matches: 192, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
221 37 0.19
222 52 0.27
223 25 0.13
224 16 0.08
225 62 0.32
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (220 bp):
AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCTAGAAAAGATAATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAATTCTTC
TCATTATGAACTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAAAACT
GATCCATCAAATGATGGATTCAGGT
Found at i:254000 original size:84 final size:84
Alignment explanation
Indices: 253821--254380 Score: 1003
Period size: 84 Copynumber: 6.7 Consensus size: 84
253811 GTTCTTACCA
* * *
253821 AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTATCCTTATTCTTCCAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCA-CATTATTCTTCCAAA
253886 TTCAATGATTGGTTCTGTCC
65 TTCAATGATTGGTTCTGTCC
253906 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
253971 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
253990 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
254055 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
* * *
254074 GACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATTGAGGACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
254139 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
* * *
254158 AACCAGATCATATAACTCAAAGAACACTTCCATAAGATGTTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
254223 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
* *
254242 AACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATTGAACACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
254307 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
*
254326 AACCAGATCAGATAACTAAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
254381 ATTTGTTCCA
Statistics
Matches: 459, Mismatches: 16, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
84 412 0.90
85 47 0.10
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (84 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
TCAATGATTGGTTCTGTCC
Found at i:255523 original size:9 final size:8
Alignment explanation
Indices: 255510--255581 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 8
255500 CTTGACCCCC
255510 TTTCTTTT
1 TTTCTTTT
255518 TCTTCTTTT
1 T-TTCTTTT
255527 TTCTCTTTT
1 TT-TCTTTT
255536 TTT-TTATT
1 TTTCTT-TT
*
255544 ATT-TTTT
1 TTTCTTTT
* *
255551 ATTATTTT
1 TTTCTTTT
255559 TTTCTTTT
1 TTTCTTTT
*
255567 TTTTTCTTT
1 TTTCT-TTT
255576 TTTCTT
1 TTTCTT
255582 CAAGCATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
7 7 0.13
8 24 0.44
9 23 0.43
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTCTTTT
Found at i:255529 original size:10 final size:10
Alignment explanation
Indices: 255514--255582 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
255504 ACCCCCTTTC
255514 TTTTTCTTCT
1 TTTTTCTTCT
255524 TTTTTC-TCT
1 TTTTTCTTCT
* *
255533 TTTTTTTTAT
1 TTTTTCTTCT
*
255543 TATTTT-TTAT
1 T-TTTTCTTCT
*
255553 TATTTTTTTCT
1 T-TTTTCTTCT
*
255564 TTTTTTTTCT
1 TTTTTCTTCT
255574 TTTTTCTTC
1 TTTTTCTTC
255583 AAGCATAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.15
10 36 0.69
11 8 0.15
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:255534 original size:22 final size:21
Alignment explanation
Indices: 255509--255578 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
255499 CCTTGACCCC
*
255509 CTTTCTTTTTCTTCTTTTTTCT
1 CTTT-TTTTTCTTATTTTTTCT
* *
255531 CTTTTTTTTTATTATTTTTTAT
1 C-TTTTTTTTCTTATTTTTTCT
255553 -TATTTTTTTCTT-TTTTTT-T
1 CT-TTTTTTTCTTATTTTTTCT
255572 CTTTTTT
1 CTTTTTT
255579 CTTCAAGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 6 0.15
20 8 0.20
21 9 0.22
22 15 0.37
23 3 0.07
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (21 bp):
CTTTTTTTTCTTATTTTTTCT
Found at i:262939 original size:62 final size:63
Alignment explanation
Indices: 262863--262987 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 63
262853 TTTCTTTCCA
262863 GCTCCCATTTTTCTTTTTCAATATTGGATTCTTCCATCTTTT-GCCTCTGACTTCAAGTTCAG
1 GCTCCCATTTTTCTTTTTCAATATTGGATTCTTCCATCTTTTGGCCTCTGACTTCAAGTTCAG
262925 GCTCCCATTTTTCTTTTTCAATATTGGATTCTTCCATCTTTTGGCCTCTGACTTCAAGTTCAG
1 GCTCCCATTTTTCTTTTTCAATATTGGATTCTTCCATCTTTTGGCCTCTGACTTCAAGTTCAG
262988 CAATCAACTG
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 42 0.68
63 20 0.32
ACGTcount: A:0.16, C:0.26, G:0.12, T:0.46
Consensus pattern (63 bp):
GCTCCCATTTTTCTTTTTCAATATTGGATTCTTCCATCTTTTGGCCTCTGACTTCAAGTTCAG
Found at i:267540 original size:11 final size:11
Alignment explanation
Indices: 267517--267548 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
267507 TGTAATTAAT
267517 TATTTATATATA
1 TATTTA-ATATA
267529 TATTTAATATA
1 TATTTAATATA
267540 TATTTAATA
1 TATTTAATA
267549 ATAATGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:267552 original size:3 final size:3
Alignment explanation
Indices: 267544--267623 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
267534 AATATATATT
* *
267544 TAA TAA TAA TGA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
267592 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
267624 TGGATAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:268559 original size:64 final size:63
Alignment explanation
Indices: 268465--268623 Score: 221
Period size: 64 Copynumber: 2.5 Consensus size: 63
268455 TGCACTAAGA
* **
268465 GTGCATCGATGCATGATGTGCATTCGATGTTTCA-AACAAGCCCGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCATAA-AA-CCCGAGTGCATCGATGCATGGTAT
* * * *
268529 GTGCATCGATGCATAAAATGGATTCAATGTTTTCATAAAACCTGAGTGCTTCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACCCGAGTGCATCGATGCATGGTAT
268593 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
268624 CAATTTATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 2 0.02
64 73 0.87
65 7 0.08
66 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACCCGAGTGCATCGATGCATGGTAT
Found at i:270996 original size:64 final size:63
Alignment explanation
Indices: 270859--271081 Score: 229
Period size: 64 Copynumber: 3.5 Consensus size: 63
270849 TTATATGAAT
** **
270859 GTGCATCGATGCATTGGTAGTGCATCGATGCA--CTTTTAA-AATAAAGACATCGAATGCAATTC
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAT-AA-ACATCGAATGCAA-TC
270921 -
63 G
*
270921 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAT-AAACATCGAATGCAATCG
* ** * * ** *
270985 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATA-AACATCGAATGCAATCG
* * *
271049 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
271082 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
62 30 0.22
63 3 0.02
64 100 0.73
65 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAACATCGAATGCAATCG
Found at i:271400 original size:12 final size:12
Alignment explanation
Indices: 271382--271417 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
271372 CATATATGTT
271382 CATGTGATATGA
1 CATGTGATATGA
*
271394 TATGTGATATGA
1 CATGTGATATGA
*
271406 CATGTAATATGA
1 CATGTGATATGA
271418 AACATGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:271579 original size:15 final size:15
Alignment explanation
Indices: 271561--271607 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
271551 GAGGGTATAA
*
271561 TAGTCCTTTGGGATG
1 TAGTCCTTCGGGATG
271576 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
271591 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
271606 TA
1 TA
271608 ATGGTCCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.36
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:277900 original size:64 final size:64
Alignment explanation
Indices: 277809--277985 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
277799 TTAAAATAAG
* ** *
277809 ACATTGAATGCAATTC-GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGA-
1 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAAT-AC
277872 A
64 A
* *
277873 ACATCGAATGCAATCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACT
1 ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATACA
* ** * * * *
277937 ACATCGAATACCTTTGATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCAT
277986 ACCTTCATTA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
63 3 0.03
64 94 0.97
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (64 bp):
ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATACA
Found at i:278313 original size:22 final size:22
Alignment explanation
Indices: 278287--278330 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
278277 TATATATGTT
* **
278287 CATGTGATATGATGTGATATGA
1 CATGTAATATGAAATGATATGA
278309 CATGTAATATGAAATGATATGA
1 CATGTAATATGAAATGATATGA
278331 AGTGACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (22 bp):
CATGTAATATGAAATGATATGA
Found at i:278479 original size:15 final size:15
Alignment explanation
Indices: 278461--278507 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
278451 GAGGGTATAA
278461 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
278476 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
278491 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
278506 TA
1 TA
278508 ATGGTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:285950 original size:19 final size:19
Alignment explanation
Indices: 285926--285977 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
285916 ATAAGCCCGA
*
285926 GTGCATTGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
285945 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
*
285964 ATGCATCGATGCAT
1 GTGCATCGATGCAT
285978 AAAATGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:286333 original size:34 final size:34
Alignment explanation
Indices: 286290--286401 Score: 224
Period size: 34 Copynumber: 3.3 Consensus size: 34
286280 TGTTTTCAAC
286290 ACATAAACAAGGGAAAAATATGATGTGGCAAATG
1 ACATAAACAAGGGAAAAATATGATGTGGCAAATG
286324 ACATAAACAAGGGAAAAATATGATGTGGCAAATG
1 ACATAAACAAGGGAAAAATATGATGTGGCAAATG
286358 ACATAAACAAGGGAAAAATATGATGTGGCAAATG
1 ACATAAACAAGGGAAAAATATGATGTGGCAAATG
286392 ACATAAACAA
1 ACATAAACAA
286402 ATGGAAATAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (34 bp):
ACATAAACAAGGGAAAAATATGATGTGGCAAATG
Found at i:289099 original size:3 final size:3
Alignment explanation
Indices: 289091--289140 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
289081 CTAAGTCCAT
289091 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
289139 AT
1 AT
289141 CTAAAATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:289651 original size:22 final size:21
Alignment explanation
Indices: 289608--289666 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
289598 CATAAATATT
* * *
289608 TTAATTAAAATATTTATATTTA
1 TTAAATAAAA-ATATATTTTTA
*
289630 TTAAAATAAAACTATATTTTTA
1 TT-AAATAAAAATATATTTTTA
289652 TTAAATAAAAATATA
1 TTAAATAAAAATATA
289667 AGGTACATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 12 0.39
22 12 0.39
23 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATAAAAATATATTTTTA
Found at i:289659 original size:21 final size:22
Alignment explanation
Indices: 289626--289666 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
289616 AATATTTATA
*
289626 TTTATTAAAATAAAACTATATT
1 TTTATTAAAATAAAAATATATT
289648 TTTATT-AAATAAAAATATA
1 TTTATTAAAATAAAAATATA
289667 AGGTACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTATTAAAATAAAAATATATT
Found at i:290321 original size:20 final size:20
Alignment explanation
Indices: 290296--290368 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
290286 TAATACAAAA
*
290296 TCGCAATGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
290316 TCGCAACGCGATACTTATTT
1 TCGCAACGCGATACTGACTT
290336 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
290356 TCGCAACGAGATA
1 TCGCAACGCGATA
290369 ATACATAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:290535 original size:21 final size:21
Alignment explanation
Indices: 290484--290536 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
290474 ATTATTACTA
290484 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
290505 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
290526 TCGCAATGCGA
1 TCGCAATGCGA
290537 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:290590 original size:20 final size:20
Alignment explanation
Indices: 290565--290660 Score: 95
Period size: 20 Copynumber: 4.8 Consensus size: 20
290555 GAATTTGTAT
*
290565 TATCGCAATGCGATACTGAC
1 TATCGCAACGCGATACTGAC
*
290585 TATCGCAACGCGATAAT-AC
1 TATCGCAACGCGATACTGAC
* *
290604 AAAATCGCAATGCGATACTGAC
1 --TATCGCAACGCGATACTGAC
* *
290626 TTTCTCAACGCGATACTGAC
1 TATCGCAACGCGATACTGAC
* *
290646 TTTCGCAACGAGATA
1 TATCGCAACGCGATA
290661 ATACATAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.71
21 14 0.23
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
TATCGCAACGCGATACTGAC
Found at i:290875 original size:22 final size:22
Alignment explanation
Indices: 290847--290890 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
290837 CACTCTCTCA
290847 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
290869 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
290891 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:291203 original size:20 final size:20
Alignment explanation
Indices: 291154--291212 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
291144 TTTATTCTCT
* **
291154 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
291174 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
291194 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
291213 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:292553 original size:18 final size:18
Alignment explanation
Indices: 292532--292579 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
292522 TCCACTTCGG
292532 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
* * *
292550 GAGCTATAACCTTACCCA
1 GAGCCATCACCTCACCCA
292568 GAGCCATCACCT
1 GAGCCATCACCT
292580 GATCGACCCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.42, G:0.12, T:0.17
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:293168 original size:19 final size:20
Alignment explanation
Indices: 293114--293180 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
293104 TAGTTTACTT
* *
293114 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
293134 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
293154 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
293173 TCGCAACG
1 TCGCAACG
293181 ATAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:293188 original size:14 final size:14
Alignment explanation
Indices: 293169--293227 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
293159 ATGCGAAATG
293169 AAAATCGCAACGAT
1 AAAATCGCAACGAT
293183 AAAATCGCAATGCGAAAT
1 AAAATCGCAA--CG--AT
*
293201 GAAAATCGCAACGAC
1 -AAAATCGCAACGAT
293216 AAAATCGCAACG
1 AAAATCGCAACG
293228 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 22 0.56
15 1 0.03
16 2 0.05
17 2 0.05
18 2 0.05
19 10 0.26
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAT
Found at i:293195 original size:33 final size:33
Alignment explanation
Indices: 293153--293244 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
293143 GGAAATGGCT
*
293153 ATCGCAATGCGAAATGAAAATCGCAACGATAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
293186 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
293219 ATCGCAACGCGAAATGAAAATTGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
293245 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:293207 original size:19 final size:19
Alignment explanation
Indices: 293153--293249 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
293143 GGAAATGGCT
293153 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
293172 ATCGCAA--CG--AT-AAA
1 ATCGCAATGCGAAATGAAA
293186 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
293205 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
293219 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
293238 ATTGCAATGCGA
1 ATCGCAATGCGA
293250 TTTGTGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 20 0.31
15 3 0.05
16 4 0.06
17 4 0.06
18 3 0.05
19 30 0.47
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:293280 original size:14 final size:14
Alignment explanation
Indices: 293261--293318 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
293251 TTGTGTTTCG
293261 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
293275 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
293292 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
293308 CGTTGCGATTT
1 CGTTGCGATTT
293319 GCATTTCGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:293293 original size:33 final size:33
Alignment explanation
Indices: 293245--293335 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
293235 AAAATTGCAA
** *
293245 TGCGATTTGTGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
*
293278 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
293311 TGCGATTTGCATTTCGCATTGCGAT
1 TGCGATTTGCATTTCGCATTGCGAT
293336 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (33 bp):
TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
Found at i:293301 original size:19 final size:19
Alignment explanation
Indices: 293277--293335 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
293267 GATTTTGTCG
293277 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
293296 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
293310 TTGCGATTTGCATTTCGCA
1 TTGCGATTTTCATTTCGCA
293329 TTGCGAT
1 TTGCGAT
293336 AGCCATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.19
15 2 0.06
16 4 0.12
17 4 0.12
18 3 0.09
19 13 0.41
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:293354 original size:20 final size:20
Alignment explanation
Indices: 293320--293374 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
293310 TTGCGATTTG
*
293320 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
293339 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
293359 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
293375 AAGTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:293794 original size:21 final size:20
Alignment explanation
Indices: 293742--293802 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
293732 GACTCACCTG
293742 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGTCCCCT
* ** *
293762 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
293783 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
293803 CCCCCACCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:293831 original size:43 final size:42
Alignment explanation
Indices: 293739--293831 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 42
293729 CCCGACTCAC
* * * *
293739 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCCCCAACCATTCAAGAGGCCA
* *
293781 CTATCATCCCTCAAGAGTCCCCCCCCCACCATTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGT-CCCCCCCAACCATTCAAGAGGCCA
293824 CTGTCATC
1 CTGTCATC
293832 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 17 0.40
43 26 0.60
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCCCCAACCATTCAAGAGGCCA
Found at i:293840 original size:43 final size:42
Alignment explanation
Indices: 293742--293861 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 42
293732 GACTCACCTG
* * * *
293742 TCATCCCTCAAGA-GTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGGTCCCC-CCCACCATTCAAGAGGCCACTA
*
293784 TCATCCCTCAAGA-GTCCCCCCCCCACCATTCAAGAGGCCACTG
1 TCATCCCTCAAGAGGT--CCCCCCCACCATTCAAGAGGCCACTA
** * * *
293827 TCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 TCATCCCTCAAGAGGTCCCCCCCACCATTCAAGAG
293862 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 32 0.49
43 27 0.42
44 6 0.09
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGGTCCCCCCCACCATTCAAGAGGCCACTA
Found at i:295275 original size:14 final size:14
Alignment explanation
Indices: 295241--295279 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
295231 TTGATTGTTT
295241 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
295255 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
295269 TGTTGATTTGT
1 AATTGATTTGT
295280 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:295502 original size:19 final size:19
Alignment explanation
Indices: 295419--295483 Score: 130
Period size: 19 Copynumber: 3.4 Consensus size: 19
295409 GCAACGAGAG
295419 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
295438 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
295457 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
295476 AATCGCAA
1 AATCGCAA
295484 CGAGAAAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:295527 original size:20 final size:20
Alignment explanation
Indices: 295502--295557 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
295492 TCGCAATGCA
*
295502 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
295522 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
295542 ATTTTCGCGTTACGAT
1 ATTTTCGCGTTGCGAT
295558 TTCCCCGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:296129 original size:20 final size:20
Alignment explanation
Indices: 296108--296191 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
296098 TGTATTATCT
* *
296108 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
296128 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
296148 CATTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
296168 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
296188 CGTT
1 CGTT
296192 ACGATTTTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Done.