Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006828.1 Kokia drynarioides strain JFW-HI SEQ_121427, 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: 79957
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 3 characters in sequence are not A, C, G, or T
Found at i:5364 original size:17 final size:16
Alignment explanation
Indices: 5344--5398 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
5334 TTATTCCAAG
5344 TTTAGAATTATTTTAAA
1 TTTA-AATTATTTTAAA
* *
5361 TTTAAATT-TATTAAG
1 TTTAAATTATTTTAAA
5376 TTTAAATTTATTTTAAA
1 TTTAAA-TTATTTTAAA
5393 TTTAAA
1 TTTAAA
5399 ATTTGAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 11 0.34
16 6 0.19
17 15 0.47
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:5387 original size:32 final size:33
Alignment explanation
Indices: 5327--5398 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
5317 AAATTTTTAT
5327 TTTAAATTTATTCCAAGTTTAGAATTATTTTAAA
1 TTTAAATTTATT-CAAGTTTAGAATTATTTTAAA
5361 TTTAAATTTATT-AAGTTTA-AATTTATTTTAAA
1 TTTAAATTTATTCAAGTTTAGAA-TTATTTTAAA
5393 TTTAAA
1 TTTAAA
5399 ATTTGAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 2 0.05
32 23 0.62
34 12 0.32
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (33 bp):
TTTAAATTTATTCAAGTTTAGAATTATTTTAAA
Found at i:5443 original size:36 final size:36
Alignment explanation
Indices: 5375--5443 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 36
5365 AATTTATTAA
* * *
5375 GTTTAAATTTATTTTAAATTTAAAATTTGAAATATT
1 GTTTAAATTAATATTAAATTTAAAATTAGAAATATT
5411 GTTTAAACTTAATATTAAATTTAAAA-TAGAAAT
1 GTTTAAA-TTAATATTAAATTTAAAATTAGAAAT
5444 TCCAATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 13 0.45
37 16 0.55
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (36 bp):
GTTTAAATTAATATTAAATTTAAAATTAGAAATATT
Found at i:6252 original size:3 final size:3
Alignment explanation
Indices: 6246--6300 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
6236 CTACTGATAT
* ** *
6246 TAA TAA TAA CAA TAA TTAA TGT TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6292 TAA TAA TAA
1 TAA TAA TAA
6301 AGGAAATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:17556 original size:49 final size:49
Alignment explanation
Indices: 17403--17709 Score: 160
Period size: 49 Copynumber: 6.2 Consensus size: 49
17393 GACCAGAGAA
* * *
17403 ACATGAAGGGAAAGATCCAAGCCGCAACGACGGATCCAGTACCACGAAGAT
1 ACATGAAGGGAAAGATCTAAGCCGCAACAACGGATCCAGTACCAC-AA-AG
* * * * * *
17454 ACA-AAAGGGAAAGATTTAAGTCGC-A-AAGGTGAACCTTGTA-CATCAGAAG
1 ACATGAAGGGAAAGATCTAAGCCGCAACAACG-GATCC-AGTACCA-CA-AAG
* *
17503 -CATGAAGGGAAGGATCTAAGCCGCAACAACGGATCCAGTACCGCAAAG
1 ACATGAAGGGAAAGATCTAAGCCGCAACAACGGATCCAGTACCACAAAG
* * * ** * *
17551 ACATGAAGGGAAATATTTATGCCGCAACGGCGAATCCAGTACCACGAAG
1 ACATGAAGGGAAAGATCTAAGCCGCAACAACGGATCCAGTACCACAAAG
* * * * * * * * * * *
17600 ACACGAATGGAAGGGTTTAAGTCGC-A-AAGGCGACCCTTGTACCTCAGAG
1 ACATGAAGGGAAAGATCTAAGCCGCAACAACG-GATCC-AGTACCACAAAG
* * *** *
17649 ACATGAAGGGAAAGATCTAAGTCGTAATGGCGGATCCAGTACCGCAAAG
1 ACATGAAGGGAAAGATCTAAGCCGCAACAACGGATCCAGTACCACAAAG
**
17698 ACACAAAGGGAA
1 ACATGAAGGGAA
17710 GGGTTTTAAT
Statistics
Matches: 186, Mismatches: 57, Indels: 28
0.69 0.21 0.10
Matches are distributed among these distances:
47 1 0.01
48 11 0.06
49 134 0.72
50 33 0.18
51 7 0.04
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.14
Consensus pattern (49 bp):
ACATGAAGGGAAAGATCTAAGCCGCAACAACGGATCCAGTACCACAAAG
Found at i:17626 original size:98 final size:98
Alignment explanation
Indices: 17507--17715 Score: 215
Period size: 98 Copynumber: 2.1 Consensus size: 98
17497 CAGAAGCATG
* * * * *
17507 AAGGGAAGGATCTAAGCCGCAACAACG-GATCC-AGTACCGCAAAGACATGAAGGGAAATATTTA
1 AAGGGAAGGGTTTAAGCCGC-A-AACGCGACCCTAGTACCGCAAAGACATGAAGGGAAAGATCTA
* * *
17570 TGCCGCAACGGCGAATCCAGTACCACGAAGACACG
64 AGCCGCAACGGCGAATCCAGTACCACAAAGACACA
* * * * * *
17605 AATGGAAGGGTTTAAGTCGCAAAGGCGACCCTTGTACCTCAGAGACATGAAGGGAAAGATCTAAG
1 AAGGGAAGGGTTTAAGCCGCAAACGCGACCCTAGTACCGCAAAGACATGAAGGGAAAGATCTAAG
* * * * *
17670 TCGTAATGGCGGATCCAGTACCGCAAAGACACA
66 CCGCAACGGCGAATCCAGTACCACAAAGACACA
17703 AAGGGAAGGGTTT
1 AAGGGAAGGGTTT
17716 TAATCCCAAC
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
96 3 0.03
97 5 0.06
98 81 0.91
ACGTcount: A:0.36, C:0.21, G:0.28, T:0.15
Consensus pattern (98 bp):
AAGGGAAGGGTTTAAGCCGCAAACGCGACCCTAGTACCGCAAAGACATGAAGGGAAAGATCTAAG
CCGCAACGGCGAATCCAGTACCACAAAGACACA
Found at i:17683 original size:147 final size:148
Alignment explanation
Indices: 17403--17709 Score: 393
Period size: 147 Copynumber: 2.1 Consensus size: 148
17393 GACCAGAGAA
* *
17403 ACATGAAGGGAAAGATCCAAGCCGCAACGACGGATCCAGTACCACGAAGATACAAAAGGGAAAGA
1 ACATGAAGGGAAAGATCCAAGCCGCAACGACGAATCCAGTACCACGAAGACACAAAAGGGAAAGA
* *
17468 TTTAAGTCGCAAAGGTGAACCTTGTACATCAGAAGCATGAAGGGAAGGATCTAAGCCGCAACAAC
66 TTTAAGTCGCAAAGGCGAACCTTGTACATCAGAAGCATGAAGGGAAAGATCTAAGCCGCAACAAC
17533 GGATCCAGTACCGCAAAG
131 GGATCCAGTACCGCAAAG
* ** * * * * * *
17551 ACATGAAGGGAAATATTTATGCCGCAACGGCGAATCCAGTACCACGAAGACAC-GAATGGAAGGG
1 ACATGAAGGGAAAGATCCAAGCCGCAACGACGAATCCAGTACCACGAAGACACAAAAGGGAAAGA
* * * * ***
17615 TTTAAGTCGCAAAGGCGACCCTTGTACCTCAG-AGACATGAAGGGAAAGATCTAAGTCGTAATGG
66 TTTAAGTCGCAAAGGCGAACCTTGTACATCAGAAG-CATGAAGGGAAAGATCTAAGCCGCAACAA
17679 CGGATCCAGTACCGCAAAG
130 CGGATCCAGTACCGCAAAG
**
17698 ACACAAAGGGAA
1 ACATGAAGGGAA
17710 GGGTTTTAAT
Statistics
Matches: 136, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
146 2 0.01
147 88 0.65
148 46 0.34
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.14
Consensus pattern (148 bp):
ACATGAAGGGAAAGATCCAAGCCGCAACGACGAATCCAGTACCACGAAGACACAAAAGGGAAAGA
TTTAAGTCGCAAAGGCGAACCTTGTACATCAGAAGCATGAAGGGAAAGATCTAAGCCGCAACAAC
GGATCCAGTACCGCAAAG
Found at i:17730 original size:98 final size:98
Alignment explanation
Indices: 17540--17750 Score: 244
Period size: 98 Copynumber: 2.2 Consensus size: 98
17530 AACGGATCCA
* * * * * * *
17540 GTACCGCAAAGACATGAAGGGAAATATTTATGCCGCAACGGCGAATCCAGTACCACGAAGACACG
1 GTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACA
* * *
17605 AATGGAAGGGTTTAAGTCGCAAAGGCGACCCTT
66 AAGGGAAGGGTTTAAGTCCCAAAGGCGAACCTT
* * * * *
17638 GTACCTCAGAGACATGAAGGGAAAGATCTAAGTCGTAATGGCGGATCCAGTACCGCAAAGACACA
1 GTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACA
*
17703 AAGGGAAGGGTTTTAA-TCCCAACGGCGAACCTT
66 AAGGGAAGGG-TTTAAGTCCCAAAGGCGAACCTT
* *
17736 GTACCTTAGAAACAT
1 GTACCTCAGAGACAT
17751 AAAAGATCGA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 89 0.95
99 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (98 bp):
GTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGAATCCAGTACCACAAAGACACA
AAGGGAAGGGTTTAAGTCCCAAAGGCGAACCTT
Found at i:18373 original size:17 final size:16
Alignment explanation
Indices: 18353--18424 Score: 83
Period size: 17 Copynumber: 4.4 Consensus size: 16
18343 TTATTCCAAG
18353 TTTAGAATTATTTTAAA
1 TTTA-AATTATTTTAAA
18370 TTTAAATTTATTTTAAA
1 TTTAAA-TTATTTTAAA
* *
18387 TTTAAATT-TATTAAG
1 TTTAAATTATTTTAAA
*
18402 TTCAAATTTATTTTAAA
1 TTTAAA-TTATTTTAAA
18419 TTTAAA
1 TTTAAA
18425 ATTTGAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
15 10 0.22
16 6 0.13
17 30 0.65
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:18375 original size:6 final size:6
Alignment explanation
Indices: 18364--18424 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
18354 TTAGAATTAT
* * *
18364 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTATTAA GTTCAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA -TTTAAA TTTAAA
18413 TTTAAA TTTAAA
1 TTTAAA TTTAAA
18425 ATTTGAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 8 0.18
6 29 0.66
7 2 0.05
8 2 0.05
9 3 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:19247 original size:19 final size:19
Alignment explanation
Indices: 19223--19260 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19213 TAAGCGGCAT
19223 TAATAACACTTAATAATAA
1 TAATAACACTTAATAATAA
*
19242 TAATAACACTTATTAATAA
1 TAATAACACTTAATAATAA
19261 AAAAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATAACACTTAATAATAA
Found at i:20059 original size:29 final size:29
Alignment explanation
Indices: 20026--20224 Score: 145
Period size: 30 Copynumber: 6.8 Consensus size: 29
20016 AATTGTCTAG
20026 AAATTACATTTTTACCCTCGAACTTTCCA
1 AAATTACATTTTTACCCTCGAACTTTCCA
* * *
20055 AAATTCCATTTTTAACCAT-AAACTTTCCAA
1 AAATTACATTTTT-ACCCTCGAACTTTCC-A
* * * * *
20085 AAATAACATTTTTA-CTTCCAAATTTTCTA
1 AAATTACATTTTTACCCT-CGAACTTTCCA
* * *
20114 AAATTAAATTTTTTA-CCTCGATCTTTTCAA
1 AAATTACA-TTTTTACCCTCGAAC-TTTCCA
**
20144 AAATTACATTTTTACCCTTAAACTTTCCA
1 AAATTACATTTTTACCCTCGAACTTTCCA
* * * *
20173 AAATTCCATTTTTTACTCT-GATCTTTCTAA
1 AAATTACA-TTTTTACCCTCGAACTTTC-CA
*
20203 AAATTACATTTTTACCCCCGAA
1 AAATTACATTTTTACCCTCGAA
20225 TTTACCCCCG
Statistics
Matches: 131, Mismatches: 29, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
28 2 0.02
29 62 0.47
30 67 0.51
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTTACCCTCGAACTTTCCA
Found at i:20095 original size:30 final size:29
Alignment explanation
Indices: 20026--20216 Score: 93
Period size: 29 Copynumber: 6.5 Consensus size: 29
20016 AATTGTCTAG
* * *
20026 AAATTACATTTTTACCCTCGAACTTTCC-A
1 AAATAACATTTTTAACCT-AAACTTTCCAA
**
20055 AAATTCCATTTTTAACCATAAACTTTCCAA
1 AAATAACATTTTTAACC-TAAACTTTCCAA
* * *
20085 AAATAACATTTTT-ACTTCCAAATTTTCTAA
1 AAATAACATTTTTAAC--CTAAACTTTCCAA
* * * * *
20115 AATTAA-ATTTTTTACCTCGATCTTTTCAA
1 AAATAACATTTTTAACCT-AAACTTTCCAA
* *
20144 AAATTACATTTTTACCCTTAAACTTTCC-A
1 AAATAACATTTTTAACC-TAAACTTTCCAA
** * * * *
20173 AAATTCCATTTTTTACTCTGATCTTTCTAA
1 AAATAACATTTTTAAC-CTAAACTTTCCAA
*
20203 AAATTACATTTTTA
1 AAATAACATTTTTA
20217 CCCCCGAATT
Statistics
Matches: 122, Mismatches: 30, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
28 1 0.01
29 62 0.51
30 57 0.47
31 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
AAATAACATTTTTAACCTAAACTTTCCAA
Found at i:20176 original size:59 final size:59
Alignment explanation
Indices: 20026--20462 Score: 254
Period size: 59 Copynumber: 7.2 Consensus size: 59
20016 AATTGTCTAG
** * * * *
20026 AAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCAT-AAACTTTCCAA
1 AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTTACC-TCGATCTTTTCAA
* * * **
20085 AAATAACATTTTTA--CTTCCAAATTTTCTAAAATTAAATTTTTTACCTCGATCTTTTCAA
1 AAATTACATTTTTACCCTT--AAACTTTCCAAAATTCCATTTTTTACCTCGATCTTTTCAA
20144 AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTTA-CTCTGATC-TTTCTAA
1 AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTTACCTC-GATCTTTTC-AA
* *
20203 AAATTACATTTTTACCCCCGAATTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCAATCT
1 AAATTACATTTTTA--CCC----TTA------AACTTTCCAAAATTCCATTTTTTACCTCGATCT
*
20268 TTCCAA
54 TTTCAA
*** * *
20274 AAATTACATTTTTACCCCCGAAC-TTCCAAAAATTCCATTTTTAACCTTGAT-TTTTCCAA
1 AAATTACATTTTTACCCTTAAACTTTCC-AAAATTCCATTTTTTACCTCGATCTTTT-CAA
* * * * * * * * *
20333 AATTTACCA-TTTTACCCCTGAAC-TTCTAAAAATTCTATTTTTAACATCGATTTTTTTAA
1 AAATTA-CATTTTTACCCTTAAACTTTC-CAAAATTCCATTTTTTACCTCGATCTTTTCAA
* * * *
20392 AAATTACCA--TTTACCCCTAAAC-TTCCAAAAACTCCATTTTTGACC-CTGAT-TTTCCCAA
1 AAATTA-CATTTTTACCCTTAAACTTTCC-AAAATTCCATTTTTTACCTC-GATCTTT-TCAA
20450 AAATTACCATTTT
1 AAATTA-CATTTT
20463 ACTCCCGAAT
Statistics
Matches: 306, Mismatches: 41, Indels: 61
0.75 0.10 0.15
Matches are distributed among these distances:
57 6 0.02
58 58 0.19
59 174 0.57
60 8 0.03
61 6 0.02
65 3 0.01
69 3 0.01
71 42 0.14
72 6 0.02
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (59 bp):
AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTTACCTCGATCTTTTCAA
Found at i:20231 original size:71 final size:71
Alignment explanation
Indices: 20154--20295 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 71
20144 AAATTACATT
** * * *
20154 TTTACCCTTAAACTTTCCAAAATTCCATTTTTTA-CTCTGATCTTTCTAAAAATTACATTTTTAC
1 TTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTC-AATCTTTCCAAAAATTACATTTTTAC
20218 CCCCGAA
65 CCCCGAA
*
20225 TTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCAATCTTTCCAAAAATTACATTTTTACC
1 TTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCAATCTTTCCAAAAATTACATTTTTACC
20290 CCCGAA
66 CCCGAA
20296 CTTCCAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 61 0.95
72 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.39
Consensus pattern (71 bp):
TTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCAATCTTTCCAAAAATTACATTTTTACC
CCCGAA
Found at i:20269 original size:29 final size:30
Alignment explanation
Indices: 20237--20345 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 30
20227 TACCCCCGAA
20237 CTTTCC-AAAATTCCATTTTTAACCTCAAT
1 CTTTCCAAAAATTCCATTTTTAACCTCAAT
* * *
20266 CTTTCCAAAAATTACATTTTTACCCCCGAA-
1 CTTTCCAAAAATTCCATTTTTAACCTC-AAT
**
20296 C-TTCCAAAAATTCCATTTTTAACCTTGAT
1 CTTTCCAAAAATTCCATTTTTAACCTCAAT
* *
20325 TTTTCCAAAATTTACCATTTT
1 CTTTCCAAAAATT-CCATTTT
20346 ACCCCTGAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.02
29 27 0.42
30 28 0.43
31 9 0.14
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (30 bp):
CTTTCCAAAAATTCCATTTTTAACCTCAAT
Found at i:20367 original size:189 final size:190
Alignment explanation
Indices: 20036--20403 Score: 460
Period size: 189 Copynumber: 1.9 Consensus size: 190
20026 AAATTACATT
* *
20036 TTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCATAAACTTTCCAAAAATAACATTTTTACT
1 TTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCATAAACTTTCCAAAAATAACATTTTTACC
* * * * * *
20101 TCCAAATTTTCTAAAATTAAATTTTTTACCTCGATCTTTTCAAAAATTACATTTTTACCCTTAAA
66 CCCAAACTTCCAAAAATTAAATTTTTAACCTCGATCTTTTCAAAAATTACATTTTTACCCCTAAA
* *
20166 CTTTCCAAAATTCCATTTTTTAC-TCTGATCTTTCTAAAAATTA-CATTTTTACCCCCGAA
131 CTTTCAAAAATTCCATTTTTAACATC-GATCTTTCTAAAAATTACCATTTTTACCCCCGAA
* *
20225 TTTACCCCCGAACTTTCCAAAATTCCATTTTTAACC-TCAATCTTTCCAAAAATTACATTTTTAC
1 TTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCAT-AAACTTTCCAAAAATAACATTTTTAC
* ** * *
20289 CCCCGAACTTCCAAAAATTCCATTTTTAACCTTGAT-TTTTCCAAAATTTACCA-TTTTACCCCT
65 CCCCAAACTTCCAAAAATTAAATTTTTAACCTCGATCTTTT-CAAAAATTA-CATTTTTACCCCT
* * * *
20352 GAAC-TTCTAAAAATTCTATTTTTAACATCGATTTTTTTAAAAATTACCATTT
128 AAACTTTC-AAAAATTCCATTTTTAACATCGATCTTTCTAAAAATTACCATTT
20404 ACCCCTAAAC
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
188 8 0.05
189 135 0.89
190 9 0.06
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (190 bp):
TTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCATAAACTTTCCAAAAATAACATTTTTACC
CCCAAACTTCCAAAAATTAAATTTTTAACCTCGATCTTTTCAAAAATTACATTTTTACCCCTAAA
CTTTCAAAAATTCCATTTTTAACATCGATCTTTCTAAAAATTACCATTTTTACCCCCGAA
Found at i:20375 original size:29 final size:30
Alignment explanation
Indices: 20225--20549 Score: 145
Period size: 29 Copynumber: 11.1 Consensus size: 30
20215 TACCCCCGAA
*
20225 TTTACCCCCGAACTTTCC-AAAATT-CCATT
1 TTTACCCCTGAAC-TTCCAAAAATTACCATT
* *
20254 TTTA-ACCTCAATCTTTCCAAAAATTA-CATT
1 TTTACCCCTGAA-C-TTCCAAAAATTACCATT
*
20284 TTTACCCCCGAACTTCCAAAAATT-CCATT
1 TTTACCCCTGAACTTCCAAAAATTACCATT
* * ** *
20313 TTTAACCTTGATTTTTCCAAAATTTACCA-T
1 TTTACCCCTGA-ACTTCCAAAAATTACCATT
* *
20343 TTTACCCCTGAACTTCTAAAAATT-CTATT
1 TTTACCCCTGAACTTCCAAAAATTACCATT
* * ** **
20372 TTTA-ACATCGATTTTTTTAAAAATTACCA--
1 TTTACCCCT-GA-ACTTCCAAAAATTACCATT
* *
20401 TTTACCCCTAAACTTCCAAAAACT-CCATT
1 TTTACCCCTGAACTTCCAAAAATTACCATT
**
20430 TTTGA-CCCTGATTTTCCCAAAAATTACCA-T
1 TTT-ACCCCTGAACTT-CCAAAAATTACCATT
*
20460 TTTACTCCC-GAA-TGTCTAAAAATT-CCATT
1 TTTAC-CCCTGAACT-TCCAAAAATTACCATT
* *
20489 TTTAACCCC-AAACTTTCTC-GAAATTACCATT
1 TTT-ACCCCTGAAC-TTC-CAAAAATTACCATT
20520 TTT--CCCTCGAA-TGTCC-AAAATTACCATT
1 TTTACCCCT-GAACT-TCCAAAAATTACCATT
20548 TT
1 TT
20550 GCCTCTAGGT
Statistics
Matches: 223, Mismatches: 44, Indels: 59
0.68 0.13 0.18
Matches are distributed among these distances:
27 3 0.01
28 37 0.17
29 85 0.38
30 74 0.33
31 24 0.11
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTACCCCTGAACTTCCAAAAATTACCATT
Found at i:20513 original size:59 final size:57
Alignment explanation
Indices: 20225--20549 Score: 268
Period size: 59 Copynumber: 5.5 Consensus size: 57
20215 TACCCCCGAA
*
20225 TTTACCCCCGAACTTTCC-AAAATTCCATTTTTAACCTCAATCTTTCCAAAAATTA-CATT
1 TTTA-CCCCGAAC-TTCCAAAAATTCCATTTTTAACCTCAATTTTTCC-AAAATTACCA-T
**
20284 TTTACCCCCGAACTTCCAAAAATTCCATTTTTAACCTTGATTTTTCCAAAATTTACCAT
1 TTTA-CCCCGAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCAAAA-TTACCAT
* * * * **
20343 TTTACCCCTGAACTTCTAAAAATTCTATTTTTAACATCGATTTTTTTAAAAATTACCA-
1 TTTACCCC-GAACTTCCAAAAATTCCATTTTTAACCTC-AATTTTTCCAAAATTACCAT
* * * * *
20401 TTTACCCCTAAACTTCCAAAAACTCCATTTTTGACC-CTGATTTTCCCAAAAATTACCAT
1 TTTACCCC-GAACTTCCAAAAATTCCATTTTTAACCTC-AATTTTTCC-AAAATTACCAT
* * ** *
20460 TTTACTCCCGAA-TGTCTAAAAATTCCATTTTTAACCCCAAACTTTCTCGAAATTACCAT
1 TTTAC-CCCGAACT-TCCAAAAATTCCATTTTTAACCTCAATTTTTC-CAAAATTACCAT
*
20519 TTTTCCCTCGAA-TGTCC-AAAATTACCATTTT
1 TTTACCC-CGAACT-TCCAAAAATT-CCATTTT
20550 GCCTCTAGGT
Statistics
Matches: 219, Mismatches: 34, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
57 5 0.02
58 61 0.28
59 137 0.63
60 16 0.07
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (57 bp):
TTTACCCCGAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCAAAATTACCAT
Found at i:20544 original size:28 final size:28
Alignment explanation
Indices: 20449--20549 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 28
20439 GATTTTCCCA
* *
20449 AAAATTACCATTTTACTCCCGAATGTCTA
1 AAAATTACCATTTTTC-CCCGAATGTCTC
* *
20478 AAAATT-CCATTTTTAACCCCAAACTTTCTC
1 AAAATTACCATTTTT--CCCCGAA-TGTCTC
*
20508 GAAATTACCATTTTTCCCTCGAATGTC-C
1 AAAATTACCATTTTTCCC-CGAATGTCTC
20536 AAAATTACCATTTT
1 AAAATTACCATTTT
20550 GCCTCTAGGT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
28 21 0.36
29 17 0.29
30 13 0.22
31 8 0.14
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (28 bp):
AAAATTACCATTTTTCCCCGAATGTCTC
Found at i:20550 original size:117 final size:118
Alignment explanation
Indices: 20225--20549 Score: 351
Period size: 117 Copynumber: 2.8 Consensus size: 118
20215 TACCCCCGAA
* *
20225 TTTACCCCCGAACTT-TCCAAAATTCCATTTTTAACCTCAATCTTTC-CAAAAATTA-CATTTTT
1 TTTACCCCTGAACTTCT-AAAAATTCCATTTTTAACCTCAATCTTTCTC-AAAATTACCATTTTT
* * * * *
20287 ACCCCCGAACTTCCAAAAATTCCATTTTTAACCTTGATTTTTCCAAAATTTACCAT
64 -CCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTCCCAAAAATTACCAT
* * * * * * **
20343 TTTACCCCTGAACTTCTAAAAATTCTATTTTTAACATCGATTTTTTTAAAAATTACCATTTACCC
1 TTTACCCCTGAACTTCTAAAAATTCCATTTTTAACCTCAATCTTTCTCAAAATTACCATTTTTCC
* *
20408 CT-AAACTTCCAAAAACTCCATTTTTGACCCTGATTTTCCCAAAAATTACCAT
66 CTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTCCCAAAAATTACCAT
* * *
20460 TTTACTCCC-GAA-TGTCTAAAAATTCCATTTTTAACCCCAAACTTTCTCGAAATTACCATTTTT
1 TTTAC-CCCTGAACT-TCTAAAAATTCCATTTTTAACCTCAATCTTTCTCAAAATTACCATTTTT
20523 CCCTCGAA-TGTCC-AAAATTACCATTTT
64 CCCTCGAACT-TCCAAAAATT-CCATTTT
20550 GCCTCTAGGT
Statistics
Matches: 169, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
116 1 0.01
117 100 0.59
118 62 0.37
119 6 0.04
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (118 bp):
TTTACCCCTGAACTTCTAAAAATTCCATTTTTAACCTCAATCTTTCTCAAAATTACCATTTTTCC
CTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTCCCAAAAATTACCAT
Found at i:25161 original size:44 final size:44
Alignment explanation
Indices: 25075--25166 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
25065 CATTTTGGCT
* * *
25075 TGCACCCACTCGATCTTGCATTTAGACTGTCCGCCGCTTCGGCG
1 TGCACCCACTCGATCTTGCATTTAGACCGTCCGCCACCTCGGCG
* *
25119 TGCACCCACTCGGGT-TTGCATTTAGACCGTCCGCCACCTCGGCT
1 TGCACCCACTC-GATCTTGCATTTAGACCGTCCGCCACCTCGGCG
25163 TGCA
1 TGCA
25167 ATTCAACAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.14, C:0.37, G:0.23, T:0.26
Consensus pattern (44 bp):
TGCACCCACTCGATCTTGCATTTAGACCGTCCGCCACCTCGGCG
Found at i:25244 original size:30 final size:30
Alignment explanation
Indices: 25193--25321 Score: 134
Period size: 30 Copynumber: 4.3 Consensus size: 30
25183 CTTTGATAGA
* * *
25193 CTCGCACTTT-ACTTGCTATCTTCAACAGG
1 CTCGCACTTTGGCTTACTATCTTTAACAGG
* *
25222 CTCGCACTTTGGCTTACTATCTTTGATAGG
1 CTCGCACTTTGGCTTACTATCTTTAACAGG
*
25252 CTCGCACTTTGGCTTACTGTCTTTAACAGG
1 CTCGCACTTTGGCTTACTATCTTTAACAGG
** * * * *
25282 CTCGCTTTTTAGCTTATTGTCTTTAACAGA
1 CTCGCACTTTGGCTTACTATCTTTAACAGG
*
25312 CTCACACTTT
1 CTCGCACTTT
25322 TGATGGCTCG
Statistics
Matches: 83, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 10 0.12
30 73 0.88
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (30 bp):
CTCGCACTTTGGCTTACTATCTTTAACAGG
Found at i:25305 original size:60 final size:59
Alignment explanation
Indices: 25183--25321 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
25173 CAGGCTCACA
* *
25183 CTTTGATAGACTCGCACTTTACTTGCTATCTTCAACAGGCTCGCACTTTGGCTTACTAT
1 CTTTGATAGACTCGCACTTTACTTACTATCTTCAACAGGCTCGCACTTTAGCTTACTAT
* * * * ** * *
25242 CTTTGATAGGCTCGCACTTTGGCTTACTGTCTTTAACAGGCTCGCTTTTTAGCTTATTGT
1 CTTTGATAGACTCGCACTTT-ACTTACTATCTTCAACAGGCTCGCACTTTAGCTTACTAT
* * *
25302 CTTTAACAGACTCACACTTT
1 CTTTGATAGACTCGCACTTT
25322 TGATGGCTCG
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
59 19 0.29
60 46 0.71
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (59 bp):
CTTTGATAGACTCGCACTTTACTTACTATCTTCAACAGGCTCGCACTTTAGCTTACTAT
Found at i:27439 original size:31 final size:32
Alignment explanation
Indices: 27404--27472 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
27394 AAGTTTATAA
*
27404 TTTAGGCACTATCGTTATATAC-TTTTATCAT
1 TTTAGGCACTATCGTTACATACTTTTTATCAT
* *
27435 TTTAGTCATTATCGTTACATACTTTTTTATCAT
1 TTTAGGCACTATCGTTACATAC-TTTTTATCAT
27468 TTTAG
1 TTTAG
27473 CCACCCACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 19 0.58
33 14 0.42
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (32 bp):
TTTAGGCACTATCGTTACATACTTTTTATCAT
Found at i:27601 original size:31 final size:33
Alignment explanation
Indices: 27566--27642 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
27556 AAATTTTCAA
* *
27566 TTTAGGT-ACTGTCGTTATATA-TTTTTATCAT
1 TTTAGGTCACTATCGTTACATACTTTTTATCAT
*
27597 TTTA-GTCACTATTGTTACATACTTTTTATCAT
1 TTTAGGTCACTATCGTTACATACTTTTTATCAT
27629 TTTA-GTCACCTATC
1 TTTAGGTCA-CTATC
27643 CTTAATTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 15 0.38
32 18 0.46
33 4 0.10
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (33 bp):
TTTAGGTCACTATCGTTACATACTTTTTATCAT
Found at i:27632 original size:161 final size:161
Alignment explanation
Indices: 27359--27667 Score: 480
Period size: 161 Copynumber: 1.9 Consensus size: 161
27349 AATCATTTAG
*
27359 CTTTTATAAATATTCATTTTGGGCACCAAATTTAAAAGTTTATAATTTAGGCACTATCGTTATAT
1 CTTTTATAAATATTCATTTTGGGCACCAAATTTAAAAATTTATAATTTAGGCACTATCGTTATAT
*
27424 ACTTTTATCATTTTAGTCATTATCGTTACATACTTTTTTATCATTTTAGCCACCCA-CCGTTAAT
66 ACTTTTATCATTTTAGTCACTATCGTTACATACTTTTTTATCATTTTAGCCACCCATCC-TTAAT
27488 TTGCCATTAAATATACTCAGTCGGTCACTCAA
130 TTGCCATTAAATATACTCAGTCGGTCACTCAA
* * *
27520 CTTTTATAAGTATTCATTTTGGGCACCAAAATTTAAAAATTT-TCAATTTAGGTACTGTCGTTAT
1 CTTTTATAAATATTCATTTTGGGCACC-AAATTTAAAAATTTAT-AATTTAGGCACTATCGTTAT
* * * *
27584 ATATTTTTATCATTTTAGTCACTATTGTTACATAC-TTTTTATCATTTTAGTCACCTATCCTTAA
64 ATACTTTTATCATTTTAGTCACTATCGTTACATACTTTTTTATCATTTTAGCCACCCATCCTTAA
*
27648 TTTTCCATTAAATATACTCA
129 TTTGCCATTAAATATACTCA
27668 TTTTTAGTCA
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
161 70 0.52
162 65 0.48
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (161 bp):
CTTTTATAAATATTCATTTTGGGCACCAAATTTAAAAATTTATAATTTAGGCACTATCGTTATAT
ACTTTTATCATTTTAGTCACTATCGTTACATACTTTTTTATCATTTTAGCCACCCATCCTTAATT
TGCCATTAAATATACTCAGTCGGTCACTCAA
Found at i:27738 original size:18 final size:18
Alignment explanation
Indices: 27707--27741 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27697 CATTTCTGTC
27707 ATTTATTTTCTTTTTTAG
1 ATTTATTTTCTTTTTTAG
27725 ATTTAATTTT-TTTTTTA
1 ATTT-ATTTTCTTTTTTA
27742 AACTTGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTATTTTCTTTTTTAG
Found at i:33450 original size:74 final size:75
Alignment explanation
Indices: 33349--33495 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 75
33339 TTACATGCTA
33349 ATGTAAAAAACTTTTCATGTATTCACATCAAAATATTAAAAAAAAATCAATTCAATTTATCTAAT
1 ATGTAAAAAAC-TTTCATGTATTCACATCAAAATATTAAAAAAAAATCAATTCAATTTATCTAAT
33414 TTAATAGTAGC
65 TTAATAGTAGC
*
33425 ATGTAAAAAAC-TTCATGTATTCACATCAAAATATTAAAAAAAAATCAATTCAATTTGTCTAATT
1 ATGTAAAAAACTTTCATGTATTCACATCAAAATATTAAAAAAAAATCAATTCAATTTATCTAATT
33489 TAATAGT
66 TAATAGT
33496 TTGGGTAAGC
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
74 59 0.84
76 11 0.16
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (75 bp):
ATGTAAAAAACTTTCATGTATTCACATCAAAATATTAAAAAAAAATCAATTCAATTTATCTAATT
TAATAGTAGC
Found at i:37790 original size:29 final size:30
Alignment explanation
Indices: 37758--37816 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
37748 TATGGTTTAA
37758 TGTGCAATTGTATACAT-AAAGTTTGATTT
1 TGTGCAATTGTATACATGAAAGTTTGATTT
* * *
37787 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAAGTTTGATTT
37817 AATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAAGTTTGATTT
Found at i:40612 original size:62 final size:62
Alignment explanation
Indices: 40515--40638 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
40505 TTCAATCCAC
*
40515 ATTATAATATTTGTCGATTGAGTCTTAGTTTGATTGGCATA-AGCATTGTTGCCAATGTAGAG
1 ATTATAATATCTGTCGATTGAGTCTTAGTTTGATTGGCATAGA-CATTGTTGCCAATGTAGAG
40577 ATTATAATATCTGTCGATTGAGTCTTAGTTTGATTGGCATAGACATTGTTGCCAATGTAGAG
1 ATTATAATATCTGTCGATTGAGTCTTAGTTTGATTGGCATAGACATTGTTGCCAATGTAGAG
40639 GACATGGGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 59 0.98
63 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (62 bp):
ATTATAATATCTGTCGATTGAGTCTTAGTTTGATTGGCATAGACATTGTTGCCAATGTAGAG
Found at i:41547 original size:31 final size:31
Alignment explanation
Indices: 41489--41548 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
41479 TTTAATTTGA
* *
41489 TCAATTTTAGTTCATATATTTTTCGAATTGG
1 TCAATATTAGTTCATATATTTTCCGAATTGG
* * *
41520 TCAATATTAGTTCTTGTGTTTTCCGAATT
1 TCAATATTAGTTCATATATTTTCCGAATT
41549 TTGAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.52
Consensus pattern (31 bp):
TCAATATTAGTTCATATATTTTCCGAATTGG
Found at i:47834 original size:3 final size:3
Alignment explanation
Indices: 47813--47857 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
47803 TGGCTGATAT
* * *
47813 TGA TGA TTA TGA TGC TGA TGA TGA TGA TGA TGG TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
47858 ACCATTTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:51095 original size:20 final size:22
Alignment explanation
Indices: 51065--51108 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
51055 TGATATTATT
51065 TTTTAAAATTC-G-AAAATTAAA
1 TTTTAAAATTCAGTAAAA-TAAA
51086 TTTT-AAATTCAGTAAAATAAA
1 TTTTAAAATTCAGTAAAATAAA
51107 TT
1 TT
51109 GGGGATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (22 bp):
TTTTAAAATTCAGTAAAATAAA
Found at i:58499 original size:61 final size:62
Alignment explanation
Indices: 58434--58564 Score: 160
Period size: 62 Copynumber: 2.1 Consensus size: 62
58424 CTTTTTCCTA
*
58434 ATTTGGTACCTAAACTTGA-T-TTTTTTTTCTTAAGTTGATACTTAATCTTTTT-TGGGATCCG
1 ATTTGGTACCTAAACTTGACTCTTTTTTTT-TTAAGTTGATACCTAATCTTTTTCTGGGAT-CG
* * * * **
58495 ATTTGGTACTTAGACTTGACTCTTTTTTTTTTAATTTGGTACCTAATCTTTTTCTTTGATCG
1 ATTTGGTACCTAAACTTGACTCTTTTTTTTTTAAGTTGATACCTAATCTTTTTCTGGGATCG
58557 ATTTGGTA
1 ATTTGGTA
58565 TTTGAACTTG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 17 0.28
62 31 0.52
63 12 0.20
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.53
Consensus pattern (62 bp):
ATTTGGTACCTAAACTTGACTCTTTTTTTTTTAAGTTGATACCTAATCTTTTTCTGGGATCG
Found at i:60215 original size:4 final size:4
Alignment explanation
Indices: 60206--60240 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
60196 AATAGTACAA
*
60206 ATAG ATAG ATAT ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
60241 CCATGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (4 bp):
ATAG
Found at i:78692 original size:16 final size:17
Alignment explanation
Indices: 78671--78706 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
78661 CCACTTATAC
78671 TTTAT-ATTTTTTTAAT
1 TTTATAATTTTTTTAAT
*
78687 TTTATAATTTTTTTTAT
1 TTTATAATTTTTTTAAT
78704 TTT
1 TTT
78707 TAAAGTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATAATTTTTTTAAT
Found at i:78715 original size:17 final size:18
Alignment explanation
Indices: 78677--78715 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78667 ATACTTTATA
*
78677 TTTTTTTAATTTTATAAT
1 TTTTTTTAATTTTATAAG
*
78695 TTTTTTTATTTTTA-AAG
1 TTTTTTTAATTTTATAAG
78712 TTTT
1 TTTT
78716 CATCACTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTTAATTTTATAAG
Done.