Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012755.1 Kokia drynarioides strain JFW-HI SEQ_127766, 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: 79150
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Found at i:3839 original size:26 final size:25
Alignment explanation
Indices: 3776--3861 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
3766 CGTGCCTAGA
*
3776 CAGTATATTGCTCTTACGAGCCAAT
1 CAGTATATTGCTCTTACGAGCCATT
*
3801 CAGAATATTGCTCTTACGAGCCAGTT
1 CAGTATATTGCTCTTACGAGCCA-TT
* *
3827 CAGTATATCGCTCTTTCGAGCCAATT
1 CAGTATATTGCTCTTACGAGCC-ATT
*
3853 TAGTATATT
1 CAGTATATT
3862 TGTCTAGTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 22 0.42
26 29 0.56
27 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (25 bp):
CAGTATATTGCTCTTACGAGCCATT
Found at i:9224 original size:6 final size:6
Alignment explanation
Indices: 9211--9315 Score: 111
Period size: 6 Copynumber: 17.5 Consensus size: 6
9201 ACACACACAC
* * * * *
9211 ATATAT ATACAT ATATAT GTATAC ATATAT ATATAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * *
9259 ACATAT ATATAT ATATAT ACATAT ATACAT ATACAC ATATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
9307 ATATAT ATA
1 ATATAT ATA
9316 CCCATTAAGG
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:9224 original size:8 final size:8
Alignment explanation
Indices: 9213--9315 Score: 75
Period size: 8 Copynumber: 12.6 Consensus size: 8
9203 ACACACACAT
9213 ATATATAC
1 ATATATAC
9221 ATATAT--
1 ATATATAC
*
9227 ATGTATAC
1 ATATATAC
*
9235 ATATATAT
1 ATATATAC
*
9243 ATATATGTAT
1 ATATA--TAC
*
9253 ATGTATAC
1 ATATATAC
*
9261 ATATATATAT
1 --ATATATAC
9271 ATATATAC
1 ATATATAC
9279 ATATATAC
1 ATATATAC
*
9287 ATATACAC
1 ATATATAC
**
9295 ATATATGT
1 ATATATAC
*
9303 ATATATAT
1 ATATATAC
9311 ATATA
1 ATATA
9316 CCCATTAAGG
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
6 5 0.07
8 58 0.76
10 13 0.17
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (8 bp):
ATATATAC
Found at i:9240 original size:26 final size:26
Alignment explanation
Indices: 9211--9311 Score: 130
Period size: 26 Copynumber: 3.9 Consensus size: 26
9201 ACACACACAC
*
9211 ATATATATACATATATATGTATACAT
1 ATATATATATATATATATGTATACAT
*
9237 ATATATATATATGTATATGTATACAT
1 ATATATATATATATATATGTATACAT
* *
9263 ATATATATATATATACATATATACAT
1 ATATATATATATATATATGTATACAT
* * * *
9289 ATACACATATATGTATATATATA
1 ATATATATATATATATATGTATA
9312 TATACCCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (26 bp):
ATATATATATATATATATGTATACAT
Found at i:9482 original size:50 final size:50
Alignment explanation
Indices: 9416--9554 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
9406 AAATGTGATT
* * * *
9416 ACAGAAAGTTTAAGCTCGTCAGTTATT-TAGAAT-AAAGATGATCATGAAAG
1 ACAGAACGTTTAAGCTCGTCAGCTATTCAAG-ATCAAA-ATAATCATGAAAG
* **
9466 ACAGGACGTTTAAGCTCGTCAGCTATTCAAGATCAAAATAATCATGTCAG
1 ACAGAACGTTTAAGCTCGTCAGCTATTCAAGATCAAAATAATCATGAAAG
* *
9516 ATAGAACGTTTAAGCTCGTCAGCTATAC-AGAATCAAAAT
1 ACAGAACGTTTAAGCTCGTCAGCTATTCAAG-ATCAAAAT
9555 GAATAGTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
49 2 0.03
50 69 0.91
51 5 0.07
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (50 bp):
ACAGAACGTTTAAGCTCGTCAGCTATTCAAGATCAAAATAATCATGAAAG
Found at i:11972 original size:22 final size:22
Alignment explanation
Indices: 11932--11993 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
11922 TGATCTGAGG
*
11932 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
11953 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
11975 AAAAGA-AAAAGAAAATAGA
1 AAAA-ATAAAAGAAAATAGA
11994 GGTTCCGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 11 0.29
22 26 0.68
23 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:11979 original size:16 final size:15
Alignment explanation
Indices: 11958--11987 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11948 GAATTAAAAA
11958 TAAAAGAAAATAGAAT
1 TAAAAGAAAA-AGAAT
11974 TAAAAGAAAAAGAA
1 TAAAAGAAAAAGAA
11988 AATAGAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
TAAAAGAAAAAGAAT
Found at i:12815 original size:19 final size:19
Alignment explanation
Indices: 12791--12833 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12781 AAACATAAAT
12791 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
12810 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
12829 TAAAT
1 TAAAT
12834 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:17054 original size:22 final size:22
Alignment explanation
Indices: 17029--17076 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
17019 CGATCTGAGA
17029 AAAAATAAAAGAAAACAGAATT
1 AAAAATAAAAGAAAACAGAATT
* *
17051 AAAAATAAAAGAAAATATAATT
1 AAAAATAAAAGAAAACAGAATT
17073 AAAA
1 AAAA
17077 GAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (22 bp):
AAAAATAAAAGAAAACAGAATT
Found at i:17913 original size:19 final size:19
Alignment explanation
Indices: 17889--17931 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17879 AAACATAAAT
17889 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
17908 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
17927 TAAAT
1 TAAAT
17932 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:18821 original size:9 final size:9
Alignment explanation
Indices: 18722--18822 Score: 50
Period size: 10 Copynumber: 11.2 Consensus size: 9
18712 AAATACTCTA
18722 AAAATTA-T
1 AAAATTATT
18730 AAAATTATTT
1 AAAATTA-TT
18740 AAAATCTATT
1 AAAAT-TATT
*
18750 AAGAATTATA
1 AA-AATTATT
*
18760 AGAAATTATA
1 A-AAATTATT
*
18770 AAAAGTTTTT
1 AAAA-TTATT
* * *
18780 ATAGTTTTT
1 AAAATTATT
*
18789 AAAA-TAAT
1 AAAATTATT
*
18797 AAAA-TAAT
1 AAAATTATT
18805 AAAA--ATT
1 AAAATTATT
18812 AAAATTATT
1 AAAATTATT
18821 AA
1 AA
18823 GAATCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.08
8 21 0.28
9 15 0.20
10 27 0.36
11 6 0.08
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:19071 original size:18 final size:19
Alignment explanation
Indices: 19050--19091 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
19040 TTTTAAAATA
19050 ATTTATTT-ATTTATTTAT
1 ATTTATTTAATTTATTTAT
19068 ATTT-TTTAATTTATTTAT
1 ATTTATTTAATTTATTTAT
*
19086 AATTAT
1 ATTTAT
19092 CTAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 17 0.81
19 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATTTAATTTATTTAT
Found at i:19527 original size:36 final size:37
Alignment explanation
Indices: 19458--19543 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 37
19448 TAATTTTATG
*
19458 ATTTAATCCCTAAAATCTAAATTTTTACTATTCTACA
1 ATTTAATCCCTAAAAACTAAATTTTTACTATTCTACA
* *
19495 ATTTAATTCCTCAAAAAC-AAA-TTTTATTATTCTACA
1 ATTTAATCCCT-AAAAACTAAATTTTTACTATTCTACA
* *
19531 GTTCAAT-CCTAAA
1 ATTTAATCCCTAAA
19544 TTTCGTTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 3 0.07
35 3 0.07
36 19 0.44
37 13 0.30
38 5 0.12
ACGTcount: A:0.40, C:0.19, G:0.01, T:0.41
Consensus pattern (37 bp):
ATTTAATCCCTAAAAACTAAATTTTTACTATTCTACA
Found at i:24098 original size:23 final size:23
Alignment explanation
Indices: 24071--24117 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24061 ATTCTAATTT
*
24071 CATTAAAATCATGACAATTTTAC
1 CATTAAAATCATGACAACTTTAC
24094 CATTAAAATCATGACAACTTTAC
1 CATTAAAATCATGACAACTTTAC
24117 C
1 C
24118 GTAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (23 bp):
CATTAAAATCATGACAACTTTAC
Found at i:30541 original size:20 final size:20
Alignment explanation
Indices: 30518--30570 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
30508 AGTGTGCATA
30518 TAGGGGCACCAAAGTGCAAG
1 TAGGGGCACCAAAGTGCAAG
* * *
30538 TAGGGGCATCGAAGTGCAAT
1 TAGGGGCACCAAAGTGCAAG
*
30558 TAGGGCCACCAAA
1 TAGGGGCACCAAA
30571 CTGTAAACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.32, T:0.13
Consensus pattern (20 bp):
TAGGGGCACCAAAGTGCAAG
Found at i:31434 original size:20 final size:21
Alignment explanation
Indices: 31405--31457 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
31395 AAATTAAGTT
* *
31405 AAAATGATTTTAAAC-ATGTC
1 AAAATAATTTTAAACTATGCC
*
31425 AAAATAA-TTTGAACTATGCC
1 AAAATAATTTTAAACTATGCC
*
31445 AAAATCATTTTAA
1 AAAATAATTTTAA
31458 CACTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 6 0.23
20 16 0.62
21 4 0.15
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (21 bp):
AAAATAATTTTAAACTATGCC
Found at i:33795 original size:269 final size:268
Alignment explanation
Indices: 33317--33861 Score: 804
Period size: 269 Copynumber: 2.0 Consensus size: 268
33307 GCAAGGAAAT
* * *
33317 TCAAAAGACTCATGAAATTCAACAAAGCCAAAAGATTTCAAGAAAAGAAATCATCAAGGGTGAAC
1 TCAAAAGATTCATGAAATTCAACAAAGCCAAAAGATTTCAAGAAAAGAAATCATCAAAGGTAAAC
* * * * * * *
33382 CAAGCATAAAGGAAAAGGACCCAATCATTTTATATGAGTGCAAAAAGCCGAGTCTCGTTAAATTT
66 CAAGCATAAAGAAAAAGGACCCAATCATTTGATACGAGTGCAAAAAGCCGAGCCCCATCAAATTT
* * *
33447 GACTTCCCACAATAAAAGAGGAAAGGGGTATCAAAACAAAAGAAGAAAGCTATGATAGTAGCTTG
131 GACTTCCCACAATAAAAGAAGAAAGGGGCATCAAAACAAAAGAAGAAAGCTATAATAGTAGCTTG
* * *
33512 GACCGATTGTGATTCATCCGATGGTGACGAGCACAATGAAATTTCCTAAATATGTCTTATGGCTA
196 GACCGATAGTGATTCATCCGATGGTGACGAGCACAATGAAATTGCCCAAATATGTCTTATGGCTA
33577 TTAAAGAA
261 TTAAAGAA
* *
33585 TCAAAAGATTCATGAAATTCAATAAAGCCAAAAGATTTTCAAGAAAAGACATCATCAAAGGTAAA
1 TCAAAAGATTCATGAAATTCAACAAAGCCAAAAGA-TTTCAAGAAAAGAAATCATCAAAGGTAAA
* *
33650 CCAAGCATAAAGAAAAAGGACCCAATCATTTGCTACGAGTGCAAAAAGTCGAGCCCCATCAAATT
65 CCAAGCATAAAGAAAAAGGACCCAATCATTTGATACGAGTGCAAAAAGCCGAGCCCCATCAAATT
** * *
33715 TGACTTCCCACAATTTAAGAAGAAATGGGCATCAAAACAAAAGAAGAAAGCTATAATGGTAGCTT
130 TGACTTCCCACAATAAAAGAAGAAAGGGGCATCAAAACAAAAGAAGAAAGCTATAATAGTAGCTT
* * * * *
33780 GGGCCGATAGTGATTCATCCGATGGTGATGAGGACAATGAAATTGCCCAACTATGTTTTATGGCT
195 GGACCGATAGTGATTCATCCGATGGTGACGAGCACAATGAAATTGCCCAAATATGTCTTATGGCT
*
33845 ATTGAAGAA
260 ATTAAAGAA
33854 -CAAAAGAT
1 TCAAAAGAT
33862 AAATCTAAAC
Statistics
Matches: 246, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
268 41 0.17
269 205 0.83
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (268 bp):
TCAAAAGATTCATGAAATTCAACAAAGCCAAAAGATTTCAAGAAAAGAAATCATCAAAGGTAAAC
CAAGCATAAAGAAAAAGGACCCAATCATTTGATACGAGTGCAAAAAGCCGAGCCCCATCAAATTT
GACTTCCCACAATAAAAGAAGAAAGGGGCATCAAAACAAAAGAAGAAAGCTATAATAGTAGCTTG
GACCGATAGTGATTCATCCGATGGTGACGAGCACAATGAAATTGCCCAAATATGTCTTATGGCTA
TTAAAGAA
Found at i:40438 original size:81 final size:81
Alignment explanation
Indices: 40227--40442 Score: 272
Period size: 81 Copynumber: 2.7 Consensus size: 81
40217 CAGAATGGTT
* * ** * * *
40227 AGCTCTTACGAGCCTAGAATTAGAATAATTCTCTTTCAAGCCAGAATCAAAATAATGCTTTTTCG
1 AGCTCTTTCGAGCC-AGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGATTAACGCTTTTTCG
*
40292 ACCCAGAATCAAAATAA
65 ACCCAGAATCAAAACAA
* * * *
40309 TGCTCTTTCGACCCAGAATCAAAATAACGCTCTTTCAAGCTAGAATCAGATTAACGCTCTTTT-G
1 AGCTCTTTCGAGCCAGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGATTAACGCT-TTTTCG
*
40373 AGCCAGAATCAAAACAA
65 ACCCAGAATCAAAACAA
* *
40390 AGCTCTTTCAAGCCAGAATCAGAATAACGCTCTTTCGAGCCAGAATCAGATTA
1 AGCTCTTTCGAGCCAGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGATTA
40443 CTCCTCAAGC
Statistics
Matches: 114, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
81 99 0.87
82 15 0.13
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (81 bp):
AGCTCTTTCGAGCCAGAATCAGAATAACGCTCTTTCAAGCCAGAATCAGATTAACGCTTTTTCGA
CCCAGAATCAAAACAA
Found at i:40439 original size:27 final size:27
Alignment explanation
Indices: 40228--40437 Score: 231
Period size: 27 Copynumber: 7.7 Consensus size: 27
40218 AGAATGGTTA
* * * *
40228 GCTCTTACGAGCCTAGAATTAGAATAAT
1 GCTCTTTCGAGCC-AGAATCAAAATAAC
* * *
40256 TCTCTTTCAAGCCAGAATCAAAATAAT
1 GCTCTTTCGAGCCAGAATCAAAATAAC
* * *
40283 GCTTTTTCGACCCAGAATCAAAATAAT
1 GCTCTTTCGAGCCAGAATCAAAATAAC
*
40310 GCTCTTTCGACCCAGAATCAAAATAAC
1 GCTCTTTCGAGCCAGAATCAAAATAAC
* * * *
40337 GCTCTTTCAAGCTAGAATCAGATTAAC
1 GCTCTTTCGAGCCAGAATCAAAATAAC
* * *
40364 GCTCTTTTGAGCCAGAATCAAAACAAA
1 GCTCTTTCGAGCCAGAATCAAAATAAC
* *
40391 GCTCTTTCAAGCCAGAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAAAATAAC
40418 GCTCTTTCGAGCCAGAATCA
1 GCTCTTTCGAGCCAGAATCA
40438 GATTACTCCT
Statistics
Matches: 153, Mismatches: 29, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
27 143 0.93
28 10 0.07
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAAAATAAC
Found at i:43354 original size:24 final size:24
Alignment explanation
Indices: 43293--43355 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
43283 TAGACTAATA
* * *
43293 AGAGTTTGACTCAAACAACTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
43317 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
43341 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
43356 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:45310 original size:24 final size:24
Alignment explanation
Indices: 45283--45332 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
45273 GTTTGACTCT
*
45283 AACAACTAAACAGAGTTTAATTGA
1 AACAAATAAACAGAGTTTAATTGA
*
45307 AACAAATAAGCAGAGTTTAATTGA
1 AACAAATAAACAGAGTTTAATTGA
45331 AA
1 AA
45333 GATTATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (24 bp):
AACAAATAAACAGAGTTTAATTGA
Found at i:45520 original size:19 final size:19
Alignment explanation
Indices: 45495--45560 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
45485 AGTTTGAAAC
45495 AATTTTATAATGTTAAAAT
1 AATTTTATAATGTTAAAAT
* * *
45514 GATTTTAAACATGTCAAAAT
1 AATTTTATA-ATGTTAAAAT
*
45534 AATTTGAACTAA-GTTAAAAT
1 AATTT-TA-TAATGTTAAAAT
*
45554 CATTTTA
1 AATTTTA
45561 ACACTTAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 8 0.23
20 24 0.69
21 2 0.06
22 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (19 bp):
AATTTTATAATGTTAAAAT
Found at i:47358 original size:34 final size:34
Alignment explanation
Indices: 47311--47380 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
47301 TAGTTAAACA
*
47311 TTAGATAACTAGTGAGCCAATATTTGCTTCCATT
1 TTAGATAACTAGTGAGCCAACATTTGCTTCCATT
* *
47345 TTAGATAATTAGTGAGCTAACATTTGCTTCCATT
1 TTAGATAACTAGTGAGCCAACATTTGCTTCCATT
47379 TT
1 TT
47381 GCTTTGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (34 bp):
TTAGATAACTAGTGAGCCAACATTTGCTTCCATT
Found at i:47889 original size:22 final size:21
Alignment explanation
Indices: 47834--47889 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
47824 TATGCCAACC
*
47834 TAACAATATACCATTTTCATA
1 TAACAATATACCATTTTAATA
* * *
47855 TAACTGATGTACCATTTTAATTG
1 TAAC-AATATACCATTTTAA-TA
47878 TAACAATATACC
1 TAACAATATACC
47890 TACACCTTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 4 0.15
22 18 0.67
23 5 0.19
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (21 bp):
TAACAATATACCATTTTAATA
Found at i:51620 original size:23 final size:24
Alignment explanation
Indices: 51593--51641 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
51583 ATAGGCTTAG
51593 TAATAGTCCAAGA-TCCCAATTGT
1 TAATAGTCCAAGATTCCCAATTGT
51616 TAATAGTCCAAGATTCCCAATTGT
1 TAATAGTCCAAGATTCCCAATTGT
51640 TA
1 TA
51642 TTGTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (24 bp):
TAATAGTCCAAGATTCCCAATTGT
Found at i:52630 original size:30 final size:30
Alignment explanation
Indices: 52594--52652 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
52584 GAATTCGTTA
* *
52594 ACTCGACTCGACTTGACTCGAAAATTTTTT
1 ACTCGACTCGACTCGACTCGAAAAATTTTT
* *
52624 ACTCGACTTGACTCGATTCGAAAAATTTT
1 ACTCGACTCGACTCGACTCGAAAAATTTT
52653 CAAATTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (30 bp):
ACTCGACTCGACTCGACTCGAAAAATTTTT
Found at i:56249 original size:27 final size:27
Alignment explanation
Indices: 56225--56287 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
56215 GATAGTTGCT
**
56225 TTCTTTTTATGTATTATAATTGTTGTA
1 TTCTTTTTATGTACAATAATTGTTGTA
*
56252 TTTTTTTTATGTACAATAATTGTTGTA
1 TTCTTTTTATGTACAATAATTGTTGTA
*
56279 TTTTTTTTA
1 TTCTTTTTA
56288 GAAAATTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.65
Consensus pattern (27 bp):
TTCTTTTTATGTACAATAATTGTTGTA
Found at i:57834 original size:16 final size:16
Alignment explanation
Indices: 57815--57863 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
57805 ATTTTGTTTT
57815 TTATTTAATTTCTCAA
1 TTATTTAATTTCTCAA
*
57831 TTATTT--TTT-TGAA
1 TTATTTAATTTCTCAA
*
57844 GT-TTTAATTTCTCAA
1 TTATTTAATTTCTCAA
57859 TTATT
1 TTATT
57864 AATACAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 6 0.24
15 4 0.16
16 8 0.32
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATTTAATTTCTCAA
Found at i:59650 original size:21 final size:21
Alignment explanation
Indices: 59620--59659 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59610 ATATAATAAT
59620 AAAATTACATCT-TAACTTTA
1 AAAATTACATCTATAACTTTA
*
59640 AAAATATACATGTATAACTT
1 AAAAT-TACATCTATAACTT
59660 AATTCCGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAATTACATCTATAACTTTA
Found at i:60336 original size:18 final size:17
Alignment explanation
Indices: 60313--60355 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
60303 ATTTAAAATT
*
60313 TTATTTAATATAATATTA
1 TTATTTAA-ATAATAATA
60331 TTATTTCAAATAATAATA
1 TTATTT-AAATAATAATA
*
60349 TGATTTA
1 TTATTTA
60356 TATTAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTTAAATAATAATA
Found at i:62575 original size:17 final size:17
Alignment explanation
Indices: 62553--62593 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
62543 GCTTGAACAG
*
62553 AGGGATTAGCATAATTT
1 AGGGATTAACATAATTT
62570 AGGGATTAACATAATTT
1 AGGGATTAACATAATTT
62587 AGGGATT
1 AGGGATT
62594 TTTACGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (17 bp):
AGGGATTAACATAATTT
Found at i:69236 original size:120 final size:118
Alignment explanation
Indices: 69071--69402 Score: 361
Period size: 120 Copynumber: 2.8 Consensus size: 118
69061 AAAAAAAAAG
* * *
69071 TTTTTTC-CG-ATATTGAAAAAGGTAGTGCTGACCATCTATTGGGCAAAACCCAGAAAAAAATTT
1 TTTTTTCTCGAATATTGAAAAAGGTGGTGC-GACCATCTATAGGGCAAAAACCAGAAAAAAATTT
* *
69134 CTCGGGTACTAAAAAAGGTGCTGCCGACCATCTATAGGGTAAAAACCATTAAAT-T
65 CTCGGGTACTAAAAAAGGTGGTGCCGACCATCTATAGGGCAAAAACCA--AAATAT
* * * *
69189 TTTTTTCTCGAATACTGAAAAAGATGGTGTCGACCATCTATAGGGCAAAAATTAGCAAAAAAAAA
1 TTTTTTCTCGAATATTGAAAAAGGTGGTG-CGACCATCTATAGGGC-AAAA--ACCAGAAAAAAA
* * * *
69254 TTT-T-GGGTACTGAAAAAGATGGTGCCAACCATCTATAGGGCAAAAACCAGAATAT
62 TTTCTCGGGTACTAAAAAAGGTGGTGCCGACCATCTATAGGGCAAAAACCAAAATAT
* * * * * *
69309 TTTTTTCTCGAGTATTG-AAAAGGTGGTGCCAACCATTTAGAGGGAAAAAACCAGTAAAAAATTT
1 TTTTTTCTCGAATATTGAAAAAGGTGGTG-CGACCATCTATAGGGCAAAAACCAGAAAAAAATTT
* *
69373 CTCGAGAACTAAAAAAGGTGGTGCCGACCA
65 CTCGGGTACTAAAAAAGGTGGTGCCGACCA
69403 ATAGGGGTCC
Statistics
Matches: 176, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
116 12 0.07
117 1 0.01
118 33 0.19
119 27 0.15
120 45 0.26
121 45 0.26
122 1 0.01
123 12 0.07
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (118 bp):
TTTTTTCTCGAATATTGAAAAAGGTGGTGCGACCATCTATAGGGCAAAAACCAGAAAAAAATTTC
TCGGGTACTAAAAAAGGTGGTGCCGACCATCTATAGGGCAAAAACCAAAATAT
Found at i:69389 original size:59 final size:59
Alignment explanation
Indices: 69086--69402 Score: 244
Period size: 59 Copynumber: 5.3 Consensus size: 59
69076 TCCGATATTG
* * * * * *
69086 AAAAAGGTAGTGCTGACCATCTATTGGGCAAAACCCAGAAAAAAATTTCTCGGGTACTA
1 AAAAAGGTGGTGCCGACCATCTATAGGGAAAAAACCAGAAAAAAATTTCTCGAGTACTA
* * * **** * *
69145 AAAAAGGTGCTGCCGACCATCTATAGGGTAAAAACCATTAAATTTTTTTTCTCGAATACTG
1 AAAAAGGTGGTGCCGACCATCTATAGGGAAAAAACCA-GAAA-AAAATTTCTCGAGTACTA
* * * * * *
69206 AAAAAGATGGTGTCGACCATCTATAGGGCAAAAATTAGCAAAAAAAAATTT-T-GGGTACTG
1 AAAAAGGTGGTGCCGACCATCTATAGGG-AAAAA--ACCAGAAAAAAATTTCTCGAGTACTA
* * * **** *
69266 AAAAAGATGGTGCCAACCATCTATAGGGCAAAAACCAGAATATTTTTTTCTCGAGTA-TT
1 AAAAAGGTGGTGCCGACCATCTATAGGGAAAAAACCAGAA-AAAAATTTCTCGAGTACTA
* * * * * *
69325 GAAAAGGTGGTGCCAACCATTTAGAGGGAAAAAACCAGTAAAAAATTTCTCGAGAACTA
1 AAAAAGGTGGTGCCGACCATCTATAGGGAAAAAACCAGAAAAAAATTTCTCGAGTACTA
69384 AAAAAGGTGGTGCCGACCA
1 AAAAAGGTGGTGCCGACCA
69403 ATAGGGGTCC
Statistics
Matches: 198, Mismatches: 51, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
57 5 0.03
58 15 0.08
59 89 0.45
60 39 0.20
61 37 0.19
62 7 0.04
63 3 0.02
64 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (59 bp):
AAAAAGGTGGTGCCGACCATCTATAGGGAAAAAACCAGAAAAAAATTTCTCGAGTACTA
Found at i:73292 original size:49 final size:49
Alignment explanation
Indices: 73209--73528 Score: 342
Period size: 49 Copynumber: 6.5 Consensus size: 49
73199 CTCCCCATTA
* * *
73209 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGTCGTTG
1 CGACTTAAACCTTTCCCTCCATATCTTCGAGGTACAAGATTCGCCGTTG
* * * * * * * *
73258 CGGCTTAAATCTTTCCCTTCATGTTTTTGAGGTACAAGGTTCGCTGTTG
1 CGACTTAAACCTTTCCCTCCATATCTTCGAGGTACAAGATTCGCCGTTG
* * *
73307 CGACTTAAACATTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTG
1 CGACTTAAACCTTTCCCTCCATATCTTCGAGGTACAAGATTCGCCGTTG
* * *
73356 C-ACCTTAAATCTTTCCCAT-C-TCATCTTCTGAGGTACAAGGTTCACCGTTG
1 CGA-CTTAAACCTTTCCC-TCCAT-ATCTTC-GAGGTACAAGATTCGCCGTTG
* * *
73406 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTA
1 CGACTTAAACCTTTCCCTCCATATCTTCGAGGTACAAGATTCGCCGTTG
* * * * *
73455 CGACTTAAATCTTTCCCTTCAT-GCTTCTGAGGTACAAGGTTCACCGTTG
1 CGACTTAAACCTTTCCCTCCATATCTTC-GAGGTACAAGATTCGCCGTTG
73504 CGACTTAAACCTTTCCCTCCATATC
1 CGACTTAAACCTTTCCCTCCATATC
73529 CTTATGGTGA
Statistics
Matches: 217, Mismatches: 45, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
48 6 0.03
49 169 0.78
50 40 0.18
51 2 0.01
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (49 bp):
CGACTTAAACCTTTCCCTCCATATCTTCGAGGTACAAGATTCGCCGTTG
Found at i:73489 original size:148 final size:148
Alignment explanation
Indices: 73209--73520 Score: 330
Period size: 148 Copynumber: 2.1 Consensus size: 148
73199 CTCCCCATTA
* * * ** * *
73209 CGACTTAAACCTTTCCC-TC-CATATCTTC-GTGGTACTAGATTCGTCGTTGCGGCTTAAATCTT
1 CGACTTAAACCTTTCCCATCTC--ATCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTT
* * * * * * * *
73271 TCCCTTCATGTTTTTGAGGTACAAGGTTCGCTGTTGCGACTTAAACATTTCCCTCCATATCTTCG
64 TCCCTCCATATCTTCGAGGTACAAGATTCGCCGTTACGACTTAAACATTTCCCTCCATAGCTTCG
* * *
73336 TGGTACTAGATTCGCCGTTG
129 AGGTACAAGATTCACCGTTG
*
73356 C-ACCTTAAATCTTTCCCATCTCATCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTT
1 CGA-CTTAAACCTTTCCCATCTCATCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTT
* * *
73420 CCCTCCATATCTTCGTGGTACTAGATTCGCCGTTACGACTTAAATC-TTTCCCTTCAT-GCTTCT
65 CCCTCCATATCTTCGAGGTACAAGATTCGCCGTTACGACTTAAA-CATTTCCCTCCATAGCTTC-
*
73483 GAGGTACAAGGTTCACCGTTG
128 GAGGTACAAGATTCACCGTTG
73504 CGACTTAAACCTTTCCC
1 CGACTTAAACCTTTCCC
73521 TCCATATCCT
Statistics
Matches: 134, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
146 1 0.01
147 24 0.18
148 106 0.79
149 3 0.02
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (148 bp):
CGACTTAAACCTTTCCCATCTCATCTTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTTC
CCTCCATATCTTCGAGGTACAAGATTCGCCGTTACGACTTAAACATTTCCCTCCATAGCTTCGAG
GTACAAGATTCACCGTTG
Found at i:73528 original size:98 final size:98
Alignment explanation
Indices: 73209--73528 Score: 527
Period size: 98 Copynumber: 3.3 Consensus size: 98
73199 CTCCCCATTA
* *
73209 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCC
1 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGACTTAAATCTTTCC
* * * *
73274 CTTCATGTTTTTGAGGTACAAGGTTCGCTGTTG
66 CTTCATGCTTCTGAGGTACAAGGTTCACCGTTG
*
73307 CGACTTAAACATTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGC-ACCTTAAATCTTTC
1 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGA-CTTAAATCTTTC
73371 CCATCTCAT-CTTCTGAGGTACAAGGTTCACCGTTG
65 CC-T-TCATGCTTCTGAGGTACAAGGTTCACCGTTG
*
73406 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTACGACTTAAATCTTTCC
1 CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGACTTAAATCTTTCC
73471 CTTCATGCTTCTGAGGTACAAGGTTCACCGTTG
66 CTTCATGCTTCTGAGGTACAAGGTTCACCGTTG
73504 CGACTTAAACCTTTCCCTCCATATC
1 CGACTTAAACCTTTCCCTCCATATC
73529 CTTATGGTGA
Statistics
Matches: 208, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
97 4 0.02
98 114 0.55
99 85 0.41
100 5 0.02
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (98 bp):
CGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCCGTTGCGACTTAAATCTTTCC
CTTCATGCTTCTGAGGTACAAGGTTCACCGTTG
Found at i:74973 original size:17 final size:17
Alignment explanation
Indices: 74929--75014 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
74919 TTGTCTGGAC
* *
74929 TTATTGGAAA-TTGAAT
1 TTATTTGAAATTTAAAT
*
74945 TTATTT-AAATTTAAGT
1 TTATTTGAAATTTAAAT
74961 TTATTTGAAATTTAAAT
1 TTATTTGAAATTTAAAT
74978 TTATTTGAAATTTAAAT
1 TTATTTGAAATTTAAAT
*
74995 TTATTAT-AAAATTAAAT
1 TTATT-TGAAATTTAAAT
75012 TTA
1 TTA
75015 GAAAGTCCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
15 3 0.05
16 15 0.24
17 43 0.69
18 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TTATTTGAAATTTAAAT
Found at i:75074 original size:15 final size:15
Alignment explanation
Indices: 75050--75101 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
75040 CAAAGTCCAC
75050 TTACAAATGGCCCAA
1 TTACAAATGGCCCAA
*
75065 TTACAGATGGCCCAA
1 TTACAAATGGCCCAA
75080 TTACAAATGGCCCAA
1 TTACAAATGGCCCAA
75095 TTACAAA
1 TTACAAA
75102 CTACCCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.21
Consensus pattern (15 bp):
TTACAAATGGCCCAA
Found at i:75109 original size:30 final size:30
Alignment explanation
Indices: 75050--75109 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
75040 CAAAGTCCAC
* *
75050 TTACAAATGGCCCAATTACAGATGGCCCAA
1 TTACAAATGGCCCAATTACAAATGACCCAA
75080 TTACAAATGGCCCAATTACAAACT-ACCCAA
1 TTACAAATGGCCCAATTACAAA-TGACCCAA
75110 AAGCCCAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (30 bp):
TTACAAATGGCCCAATTACAAATGACCCAA
Found at i:77031 original size:58 final size:59
Alignment explanation
Indices: 76852--77372 Score: 556
Period size: 59 Copynumber: 8.9 Consensus size: 59
76842 AAAAATCCCA
** *
76852 CAAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
1 CAAAAATCCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
* ** *
76911 CAAAAATCCCATTTTTTACCTTAAACTTTCCAAAAATTACCATTTTACCCTCGAA-TTCC
1 CAAAAATCCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTT-C
* * * * * *
76970 CAAAAATCCCATTTTTAACCCCGAACCTTCTAAAAATTACCA-TTTACCCCCAAAATTC
1 CAAAAATCCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
* * * *
77028 C-AAAATCCTATTTTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
1 CAAAAATCCCA-TTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
* ** ***
77087 CAAAAATCCTATTTTTGACCTTAAACTTTCCAAAAATTACCATTTTACCCTTAAAC-TC
1 CAAAAATCCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
* ** *
77145 CAAAAAATCCCATTTTTGACATTAAACTTTCCAAAAATTACCATTTTACCCCCCAAACTTC
1 C-AAAAATCCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTA-CCCCCGAACTTC
* * * *
77206 CACAAATCCTATTTTTGACCTCGAAACCTT-CTAAAATTACCATTTTACCCCCGAACTTC
1 CAAAAATCCCATTTTTGACCTCG-AACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
* * * *
77265 CAAAAATCTCATTTTTGA-TTCGAACCTTT-CGAAAATTACCATTTTACCCTCGAACTTC
1 CAAAAATCCCATTTTTGACCTCGAA-CTTTCCAAAAATTACCATTTTACCCCCGAACTTC
* * * * *
77323 CAGAAATCCCATTTTTGA-TTCCGAACCTTCC-AAAACTACCATTTTGCCCC
1 CAAAAATCCCATTTTTGACCT-CGAACTTTCCAAAAATTACCATTTTACCCC
77373 TCCTGTGCAT
Statistics
Matches: 398, Mismatches: 52, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
57 10 0.03
58 115 0.29
59 216 0.54
60 49 0.12
61 8 0.02
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (59 bp):
CAAAAATCCCATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTC
Found at i:77183 original size:176 final size:177
Alignment explanation
Indices: 76862--77372 Score: 653
Period size: 176 Copynumber: 2.9 Consensus size: 177
76852 CAAAAATTAC
* *
76862 ATTTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTT
1 ATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCTATTTTT
* * * *
76927 TACCTTAAACTTTCCAAAAATTACCATTTTACCCTCGAATTCCCAAAAATCCCATTTTTAACCCC
66 GACCTTAAACTTTCCAAAAATTACCATTTTACCCTCGAACT-CCAAAAATCCCATTTTTGACACC
* *
76992 GAACCTTCTAAAAATTACCA-TTTA-CCCCCAAAATTCCA-AAATCCT
130 AAACCTTCCAAAAATTACCATTTTACCCCCCAAAATTCCACAAATCCT
*
77037 ATTTTTTAACCCCAAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCTATTTT
1 A-TTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCTATTTT
** *
77102 TGACCTTAAACTTTCCAAAAATTACCATTTTACCCTTAAACTCCAAAAAATCCCATTTTTGACAT
65 TGACCTTAAACTTTCCAAAAATTACCATTTTACCCTCGAACTCC-AAAAATCCCATTTTTGACAC
* * *
77167 TAAACTTTCCAAAAATTACCATTTTACCCCCCAAACTTCCACAAATCCT
129 CAAACCTTCCAAAAATTACCATTTTACCCCCCAAAATTCCACAAATCCT
* * *
77216 ATTTTTGACCTCGAAACCTT-CTAAAATTACCATTTTACCCCCGAACTTCCAAAAAT-CTCATTT
1 ATTTTTGACC-CCAAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCT-ATTT
* * *
77279 TTGA--TTCGAACCTTT-CGAAAATTACCATTTTACCCTCGAACTTCCAGAAATCCCATTTTTGA
64 TTGACCTT--AAACTTTCCAAAAATTACCATTTTACCCTCGAAC-TCCAAAAATCCCATTTTTGA
** * * *
77341 TTCCGAACCTTCC-AAAACTACCATTTTGCCCC
126 CACCAAACCTTCCAAAAATTACCATTTTACCCC
77373 TCCTGTGCAT
Statistics
Matches: 294, Mismatches: 32, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
175 3 0.01
176 151 0.51
177 52 0.18
178 73 0.25
179 15 0.05
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (177 bp):
ATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCTATTTTT
GACCTTAAACTTTCCAAAAATTACCATTTTACCCTCGAACTCCAAAAATCCCATTTTTGACACCA
AACCTTCCAAAAATTACCATTTTACCCCCCAAAATTCCACAAATCCT
Found at i:77207 original size:30 final size:29
Alignment explanation
Indices: 76852--77271 Score: 237
Period size: 30 Copynumber: 14.2 Consensus size: 29
76842 AAAAATCCCA
*
76852 CAAAAATTA-CATTTTTGA-CCCCGAACTTTC
1 CAAAAATTACCA-TTTT-ACCCCCAAAC-TTC
*
76882 CAAAAATTACCATTTTACCCCCGAACTTC
1 CAAAAATTACCATTTTACCCCCAAACTTC
* **
76911 CAAAAA-TCCCATTTTTTA-CCTTAAACTTTC
1 CAAAAATTACCA--TTTTACCCCCAAAC-TTC
* *
76941 CAAAAATTACCATTTTACCCTCGAA-TTCC
1 CAAAAATTACCATTTTACCCCCAAACTT-C
* * *
76970 CAAAAA-TCCCATTTTTAACCCCGAACCTTC
1 CAAAAATTACCA-TTTT-ACCCCCAAACTTC
* *
77000 TAAAAATTACCA-TTTACCCCCAAAATTC
1 CAAAAATTACCATTTTACCCCCAAACTTC
*
77028 C-AAAA-T-CCTATTTTTTAACCCCAAACTTTC
1 CAAAAATTACC-A--TTTTACCCCCAAAC-TTC
*
77058 CAAAAATTACCATTTTACCCCCGAACTTC
1 CAAAAATTACCATTTTACCCCCAAACTTC
**
77087 CAAAAA-T-CCTATTTTTGA-CCTTAAACTTTC
1 CAAAAATTACC-A-TTTT-ACCCCCAAAC-TTC
**
77117 CAAAAATTACCATTTTACCCTTAAAC-TC
1 CAAAAATTACCATTTTACCCCCAAACTTC
* * ***
77145 CAAAAAATCCCATTTTTGA-CATTAAACTTTC
1 CAAAAATTACCA-TTTT-ACCCCCAAAC-TTC
77176 CAAAAATTACCATTTTACCCCCCAAACTTC
1 CAAAAATTACCATTTTA-CCCCCAAACTTC
* * *
77206 CACAAA-T-CCTATTTTTGACCTCGAAACCTT-
1 CAAAAATTACC-A-TTTT-ACCCCCAAA-CTTC
* *
77236 CTAAAATTACCATTTTACCCCCGAACTTC
1 CAAAAATTACCATTTTACCCCCAAACTTC
77265 CAAAAAT
1 CAAAAAT
77272 CTCATTTTTG
Statistics
Matches: 308, Mismatches: 42, Indels: 81
0.71 0.10 0.19
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 6 0.02
28 39 0.13
29 90 0.29
30 120 0.39
31 41 0.13
32 6 0.02
33 2 0.01
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCCAAACTTC
Found at i:77318 original size:30 final size:29
Alignment explanation
Indices: 76854--77367 Score: 162
Period size: 30 Copynumber: 17.5 Consensus size: 29
76844 AAATCCCACA
*
76854 AAAATTA-CATTTTTGACCC-CGAACTTTCC
1 AAAATTACCA-TTTT-ACCCTCGAACCTTCC
*
76883 AAAAATTACCATTTTACCCCCGAA-CTTCC
1 -AAAATTACCATTTTACCCTCGAACCTTCC
* * ** *
76912 AAAAATCCCATTTTTTA-CCTTAAACTTTCC
1 AAAATTACCA--TTTTACCCTCGAACCTTCC
76942 AAAAATTACCATTTTACCCTCGAA--TTCCC
1 -AAAATTACCATTTTACCCTCGAACCTT-CC
* * *
76971 AAAAATCCCATTTTTAACCC-CGAACCTTCTA
1 AAAATTACCA-TTTT-ACCCTCGAACCTTC-C
* **
77002 AAAATTACCA-TTTACCC-CCAAAATTCC
1 AAAATTACCATTTTACCCTCGAACCTTCC
* *
77029 AAAA-T-CCTATTTTTTAACCC-CAAACTTTCC
1 AAAATTACC-A--TTTT-ACCCTCGAACCTTCC
*
77059 AAAAATTACCATTTTACCCCCGAA-CTTCC
1 -AAAATTACCATTTTACCCTCGAACCTTCC
* ** *
77088 AAAAAT-CCTATTTTTGA-CCTTAAACTTTCC
1 AAAATTACC-A-TTTT-ACCCTCGAACCTTCC
* *
77118 AAAAATTACCATTTTACCCT-TAAAC-TCC
1 -AAAATTACCATTTTACCCTCGAACCTTCC
* * * ** *
77146 AAAAAATCCCATTTTTGA-CATTAAACTTTCC
1 -AAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * *
77177 AAAAATTACCATTTTACCCCCCAAACTTCC
1 -AAAATTACCATTTTACCCTCGAACCTTCC
*
77207 ACAAA-T-CCTATTTTTGA-CCTCGAAACCTTCT
1 A-AAATTACC-A-TTTT-ACCCTCG-AACCTTCC
*
77238 AAAATTACCATTTTACCCCCGAA-CTTCC
1 AAAATTACCATTTTACCCTCGAACCTTCC
* **** *
77266 AAAAAT-CTCATTTTTGATTCGAACCTTTCG
1 AAAATTAC-CATTTTACCCTCGAACC-TTCC
77296 AAAATTACCATTTTACCCTCGAA-CTTCC
1 AAAATTACCATTTTACCCTCGAACCTTCC
* **
77324 AGAAA-TCCCATTTTTGATTC-CGAACCTTCC
1 A-AAATTACCA-TTTT-ACCCTCGAACCTTCC
*
77354 AAAACTACCATTTT
1 AAAATTACCATTTT
77368 GCCCCTCCTG
Statistics
Matches: 362, Mismatches: 71, Indels: 103
0.68 0.13 0.19
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 7 0.02
28 75 0.21
29 85 0.23
30 130 0.36
31 53 0.15
32 6 0.02
33 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACCTTCC
Done.