Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000186.1 Kokia drynarioides strain JFW-HI SEQ_110869, 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: 43657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:401 original size:29 final size:30
Alignment explanation
Indices: 369--427 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
359 TATAGTTTAA
*
369 TGTGCAATTGTATATAT-AAACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
398 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
428 GATCCAATTC
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:0.07, G:0.14, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:1847 original size:13 final size:14
Alignment explanation
Indices: 1816--1845 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1806 ACTGAGCTAA
1816 AAATTATTATTTTT
1 AAATTATTATTTTT
*
1830 AAATTATTTTTTTT
1 AAATTATTATTTTT
1844 AA
1 AA
1846 TTTTTAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATTATTATTTTT
Found at i:6641 original size:22 final size:21
Alignment explanation
Indices: 6596--6641 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6586 ATATTTTGAA
* *
6596 TAACAATTTATTTTTTAATAT
1 TAACAAGTTATTTTATAATAT
*
6617 TAACAAGTTATTCTTATAATTT
1 TAACAAGTTATT-TTATAATAT
6639 TAA
1 TAA
6642 ATATACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (21 bp):
TAACAAGTTATTTTATAATAT
Found at i:9381 original size:6 final size:6
Alignment explanation
Indices: 9366--9398 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9356 GAAGTGATTC
9366 TTTTATT TTTTAT TTTTA- TTTTAT TTTTAT TTT
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTT
9399 GTATGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 15 0.60
7 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:9389 original size:11 final size:11
Alignment explanation
Indices: 9373--9398 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9363 TTCTTTTATT
9373 TTTTATTTTTA
1 TTTTATTTTTA
9384 TTTTATTTTTA
1 TTTTATTTTTA
9395 TTTT
1 TTTT
9399 GTATGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:10443 original size:39 final size:39
Alignment explanation
Indices: 10387--10692 Score: 328
Period size: 39 Copynumber: 7.8 Consensus size: 39
10377 ATCATTGAAT
* * *
10387 TGCGATACTATATTGAACTAGCAGTAACACTGTAAACAC
1 TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
* * * *
10426 TACGATACTATATTGAACTGGAAGTGACAATGTAAACAC
1 TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
* *
10465 TACGATACTATACTGAACTGGCAGTGACATTGTAAACAC
1 TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
* * * *
10504 TGCGATACAATACTGAATTAGCAATGACACTGTAAACAC
1 TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
* * * * *
10543 TGTGATACTATACTGAATTGGCAGTAACACTATAAACAT
1 TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
* * * *
10582 TGCAATACTATATTGAACTAGC-GTTGACACTGTAAATAC
1 TGCGATACTATACTGAACTGGCAG-TGACACTGTAAACAC
* * *
10621 TACGATACTATACAGAATTGGCAGTGACACTGTAAACAC
1 TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
* * *
10660 TGCGATGCT-TGCCTGAACTGGCGGTGACACTGT
1 TGCGATACTAT-ACTGAACTGGCAGTGACACTGT
10693 TACATTGCAT
Statistics
Matches: 221, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
38 2 0.01
39 218 0.99
40 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (39 bp):
TGCGATACTATACTGAACTGGCAGTGACACTGTAAACAC
Found at i:23413 original size:21 final size:21
Alignment explanation
Indices: 23358--23414 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
23348 AATCTGTTCG
* *
23358 CATAACATGATTGACAATACA
1 CATAACATAATTAACAATACA
* * *
23379 CATAACACAGTTAACAATTCA
1 CATAACATAATTAACAATACA
*
23400 CATGACATAATTAAC
1 CATAACATAATTAAC
23415 TGTTTGTATA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (21 bp):
CATAACATAATTAACAATACA
Found at i:23446 original size:21 final size:21
Alignment explanation
Indices: 23404--23449 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23394 AATTCACATG
** * *
23404 ACATAATTAACTGTTTGTATA
1 ACATAATTAAAAGTTCGCATA
23425 ACATAATTAAAAGTTCGCATA
1 ACATAATTAAAAGTTCGCATA
23446 ACAT
1 ACAT
23450 TACACAAGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (21 bp):
ACATAATTAAAAGTTCGCATA
Found at i:24286 original size:18 final size:18
Alignment explanation
Indices: 24238--24444 Score: 81
Period size: 18 Copynumber: 11.5 Consensus size: 18
24228 TATAAATAAC
* * *
24238 ACAGTTCACTAAATTAAT
1 ACAGTTCGCCAAATTAAA
* * *
24256 ACAATTCACCAAATTAAC
1 ACAGTTCGCCAAATTAAA
* *
24274 ACAGTTTGTCAAATTAAA
1 ACAGTTCGCCAAATTAAA
**
24292 ACAGTTCGCCAAATTATT
1 ACAGTTCGCCAAATTAAA
* * *
24310 ACAGTTCACCAAGTTAAT
1 ACAGTTCGCCAAATTAAA
** * **
24328 ACAGTTCATCAAGTTATT
1 ACAGTTCGCCAAATTAAA
* * *
24346 ACAATTTGCCAAATTAAC
1 ACAGTTCGCCAAATTAAA
** * * *
24364 TTAGTTCACCGAATTAAT
1 ACAGTTCGCCAAATTAAA
* * * *
24382 ATAGTTCTCCAATTTAAT
1 ACAGTTCGCCAAATTAAA
* * *
24400 ATAGTTCGCCAAGTTAAT
1 ACAGTTCGCCAAATTAAA
* * *
24418 ACAGTTCTCCATATTAAT
1 ACAGTTCGCCAAATTAAA
*
24436 ACATTTCGC
1 ACAGTTCGC
24445 ATGATTATAG
Statistics
Matches: 146, Mismatches: 43, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 146 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (18 bp):
ACAGTTCGCCAAATTAAA
Found at i:24314 original size:36 final size:36
Alignment explanation
Indices: 24248--24438 Score: 136
Period size: 36 Copynumber: 5.3 Consensus size: 36
24238 ACAGTTCACT
* ** *
24248 AAATTAATACAATTCACCAAATTAACACAGTTTGTC
1 AAATTAATACAGTTCACCAAATTATTACAGTTTGCC
* * **
24284 AAATTAAAACAGTTCGCCAAATTATTACAGTTCACC
1 AAATTAATACAGTTCACCAAATTATTACAGTTTGCC
* * * *
24320 AAGTTAATACAGTTCATCAAGTTATTACAATTTGCC
1 AAATTAATACAGTTCACCAAATTATTACAGTTTGCC
* * * *
24356 AAATTAACT-TAGTTCACCGAATTAATATAGTTCT-CC
1 AAATTAA-TACAGTTCACCAAATTATTACAGTT-TGCC
* * * * *
24392 AATTTAATATAGTTCGCCAAGTTAATACAGTTCT-CC
1 AAATTAATACAGTTCACCAAATTATTACAGTT-TGCC
*
24428 ATATTAATACA
1 AAATTAATACA
24439 TTTCGCATGA
Statistics
Matches: 120, Mismatches: 32, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
35 1 0.01
36 117 0.98
37 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (36 bp):
AAATTAATACAGTTCACCAAATTATTACAGTTTGCC
Found at i:24411 original size:54 final size:54
Alignment explanation
Indices: 24238--24438 Score: 137
Period size: 54 Copynumber: 3.7 Consensus size: 54
24228 TATAAATAAC
* * * * * ** * *
24238 ACAGTTCACTAAATTAA-TACAATTCACCAAATTAACACAGTTTGTCAAATTAAA
1 ACAGTTCGCCAAATTAATTA-AGTTCACCAAGTTAATACAGTTCATCAAGTTAAT
*
24292 ACAGTTCGCCAAATT-ATTACAGTTCACCAAGTTAATACAGTTCATCAAGTTATT
1 ACAGTTCGCCAAATTAATTA-AGTTCACCAAGTTAATACAGTTCATCAAGTTAAT
* * * *
24346 ACAATTTGCCAAATTAACTT-AGTTCACCGAA-TTAATATAGTTC-TCCAATTTAAT
1 ACAGTTCGCCAAATTAA-TTAAGTTCACC-AAGTTAATACAGTTCAT-CAAGTTAAT
* * *
24400 ATAGTTCGCCAAGTTAA-TACAGTTCTCCATA-TTAATACA
1 ACAGTTCGCCAAATTAATTA-AGTTCACCA-AGTTAATACA
24439 TTTCGCATGA
Statistics
Matches: 118, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 3 0.03
54 109 0.92
55 3 0.03
56 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
ACAGTTCGCCAAATTAATTAAGTTCACCAAGTTAATACAGTTCATCAAGTTAAT
Found at i:25339 original size:93 final size:93
Alignment explanation
Indices: 25230--25415 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
25220 AACAATAAGA
25230 AAGTCGAAAAAGAAAAGATGAATTTCTTTTGAAATTGAAGAAAGAAATTGTGTTTGGATGCTTGG
1 AAGTCGAAAAAGAAAAGATGAATTTCTTTTGAAATTGAAGAAAGAAATTGTGTTTGGATGCTTGG
25295 AAAATTGAGAGAATTTTGTGAAAAAACT
66 AAAATTGAGAGAATTTTGTGAAAAAACT
* * *
25323 AAGTCGAGAAGGAAAAGATTAATTTCTTTTGAAATTGAAGAAAGAAATTGTGTTTGGATGCTTGG
1 AAGTCGAAAAAGAAAAGATGAATTTCTTTTGAAATTGAAGAAAGAAATTGTGTTTGGATGCTTGG
25388 AAAATTGAGAGAATTTTGTGAAAAAACT
66 AAAATTGAGAGAATTTTGTGAAAAAACT
25416 CCTCATTTAG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (93 bp):
AAGTCGAAAAAGAAAAGATGAATTTCTTTTGAAATTGAAGAAAGAAATTGTGTTTGGATGCTTGG
AAAATTGAGAGAATTTTGTGAAAAAACT
Found at i:27304 original size:114 final size:112
Alignment explanation
Indices: 27130--27357 Score: 289
Period size: 114 Copynumber: 2.0 Consensus size: 112
27120 TTAAAGGACA
* * * *
27130 TTTGAAAAAATCTGAAGGGGCATACTCGATCGTGCAACTTCTGCAAAAATCACACCCAACACGTT
1 TTTGAAAAAATCTAAAGGGGCATAATCGATCGTGCAAATTCTACAAAAATCACACCCAACACGTT
* * * *
27195 AGGGCACAATTCTTTGAAATTTTCACACGAAA-GAGTATTGCTTCGAT
66 AAGGCACAATTCTTTAAAATTTTCACACAAAAGGA-TATTGCCTCGAT
* *
27242 TTTGAAAATAATTTAAAGGAGG-ATAATCGATGGTGCAAATTCTACAAAAAATCACACCCAACAC
1 TTTGAAAA-AATCTAAAGG-GGCATAATCGATCGTGCAAATTCTAC-AAAAATCACACCCAACAC
* * *
27306 GTTAAGGTACAATTTTTTAAAATTTTTACACAAAAGGATATTGCCTCGAT
63 GTTAAGGCACAATTCTTTAAAATTTTCACACAAAAGGATATTGCCTCGAT
27356 TT
1 TT
27358 AAAAAAAAAC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
112 8 0.08
113 27 0.27
114 62 0.63
115 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (112 bp):
TTTGAAAAAATCTAAAGGGGCATAATCGATCGTGCAAATTCTACAAAAATCACACCCAACACGTT
AAGGCACAATTCTTTAAAATTTTCACACAAAAGGATATTGCCTCGAT
Found at i:30072 original size:18 final size:19
Alignment explanation
Indices: 30029--30075 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
30019 CAGTATAAAA
30029 TAAATTT-A-AATACAATT
1 TAAATTTAATAATACAATT
30046 TAAATTTAATAATA-AATT
1 TAAATTTAATAATACAATT
30064 GTAAA-TTAATAA
1 -TAAATTTAATAA
30076 AAAGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.26
18 12 0.44
19 8 0.30
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAATTTAATAATACAATT
Found at i:32090 original size:58 final size:57
Alignment explanation
Indices: 32027--32185 Score: 158
Period size: 58 Copynumber: 2.7 Consensus size: 57
32017 GTATAACGGT
* * **
32027 AATTTTTAGACACTTG-GGGTAAAATGATGATTTATGGAGGGTCCAAGGTCAAAAATGG
1 AATTTTTGGACA-TTGAGGGTAAAATGATAATTTAT-GAAAGTCCAAGGTCAAAAATGG
* * * * *
32085 AATTTTTGGACATTCGAGGGTAAAATGGTAATTTCTGAAAGTTCGAGGTTAAAAATGG
1 AATTTTTGGACATT-GAGGGTAAAATGATAATTTATGAAAGTCCAAGGTCAAAAATGG
* * *
32143 AATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGT
1 AATTTTTGGACA-TTGAGGGTAAAATGATAATTTAT-GAAAGT
32186 TTGGAGTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
57 2 0.02
58 60 0.70
59 24 0.28
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (57 bp):
AATTTTTGGACATTGAGGGTAAAATGATAATTTATGAAAGTCCAAGGTCAAAAATGG
Found at i:32129 original size:29 final size:30
Alignment explanation
Indices: 32078--32335 Score: 195
Period size: 29 Copynumber: 8.8 Consensus size: 30
32068 TCCAAGGTCA
*
32078 AAAATGG-AATTTTTGGACA-TTCGAGGGT
1 AAAATGGTAATTTTTGGAAAGTTCGAGGGT
* *
32106 AAAATGGTAATTTCT-GAAAGTTCGAGGTT
1 AAAATGGTAATTTTTGGAAAGTTCGAGGGT
*
32135 AAAAATGG-AATTTTTGGAAA-TTTGAGGGT
1 -AAAATGGTAATTTTTGGAAAGTTCGAGGGT
* *
32164 AAAATGGTAATTTTTGGAAAGTTTG-GAGT
1 AAAATGGTAATTTTTGGAAAGTTCGAGGGT
* * * *
32193 AAAAAAT-G-AAGTCTTTAGAAA-TTTGGGGGT
1 --AAAATGGTAA-TTTTTGGAAAGTTCGAGGGT
*
32223 AAAATGGTAATTTTTGGGGAA-TTCG-GGGTT
1 AAAATGGTAATTTTT-GGAAAGTTCGAGGG-T
*
32253 AAAAATGG-ATTTTTTGGAAA-TTCGAGGGT
1 -AAAATGGTAATTTTTGGAAAGTTCGAGGGT
* *
32282 AAAAT-ATAATTTTTGAAAAGTTCGAGGGTT
1 AAAATGGTAATTTTTGGAAAGTTCGAGGG-T
* *
32312 AAAAT-TTAATTTTTAGAAAGTTCG
1 AAAATGGTAATTTTTGGAAAGTTCG
32336 GGAATCAAAA
Statistics
Matches: 189, Mismatches: 22, Indels: 36
0.77 0.09 0.15
Matches are distributed among these distances:
28 37 0.20
29 73 0.39
30 67 0.35
31 12 0.06
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAAGTTCGAGGGT
Found at i:32196 original size:58 final size:59
Alignment explanation
Indices: 32077--32303 Score: 257
Period size: 59 Copynumber: 3.9 Consensus size: 59
32067 GTCCAAGGTC
* * *
32077 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTCT-GAAAG-TTCGAGGTT
1 AAAAATGGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGA-GTT
* *
32135 AAAAATGGAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGAGTA
1 AAAAATGGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGAGTT
* * * * * * *
32194 AAAAAT-GAAGTCTTTAGAAATTTGGGGGTAAAATGGTAATTTTTGGGGAA-TTCGGGGTT
1 AAAAATGGAA-TTTTTGGAAATTCGAGGGTAAAATGGTAATTTTT-GGAAAGTTTGGAGTT
* * *
32253 AAAAATGGATTTTTTGGAAATTCGAGGGTAAAAT-ATAATTTTTGAAAAGTT
1 AAAAATGGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTT
32304 CGAGGGTTAA
Statistics
Matches: 143, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
57 3 0.02
58 54 0.38
59 76 0.53
60 10 0.07
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGAAATTCGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGAGTT
Found at i:32214 original size:59 final size:58
Alignment explanation
Indices: 32077--32330 Score: 237
Period size: 59 Copynumber: 4.3 Consensus size: 58
32067 GTCCAAGGTC
* * * *
32077 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTCT-GAAAG-TTCGAGGTT
1 AAAAAT-GAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGA-GTT
*
32135 AAAAATGGAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGAGTA
1 AAAAAT-GAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGAGTT
* * * * * *
32194 AAAAATGAAGTCTTTAGAAATTTGGGGGTAAAATGGTAATTTTTGGGGAA-TTCGGGGTT
1 AAAAATGAA-TTTTTGGAAATTTGAGGGTAAAATGGTAATTTTT-GGAAAGTTTGGAGTT
* * * * * *
32253 AAAAATGGATTTTTTGGAAATTCGAGGGTAAAAT-ATAATTTTTGAAAAGTTCGAGGGTT
1 AAAAAT-GAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTG-GAGTT
* * *
32312 AAAATTTAATTTTTAGAAA
1 AAAAATGAATTTTTGGAAA
32331 GTTCGGGAAT
Statistics
Matches: 165, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.02
58 66 0.40
59 86 0.52
60 10 0.06
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
AAAAATGAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTGGAGTT
Found at i:32346 original size:30 final size:30
Alignment explanation
Indices: 32263--32357 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
32253 AAAAATGGAT
* * *
32263 TTTTTGGAAA-TTCGAGGGT-AAAATATAA
1 TTTTTGAAAAGTTCGAGGATCAAAATTTAA
* *
32291 TTTTTGAAAAGTTCGAGGGTTAAAATTTAA
1 TTTTTGAAAAGTTCGAGGATCAAAATTTAA
*
32321 TTTTT-AGAAAGTTCG-GGAATCAAAATATAAA
1 TTTTTGA-AAAGTTCGAGG-ATCAAAAT-TTAA
32352 TTTTTG
1 TTTTTG
32358 GACAGTTTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 9 0.16
29 12 0.21
30 27 0.48
31 8 0.14
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (30 bp):
TTTTTGAAAAGTTCGAGGATCAAAATTTAA
Found at i:33392 original size:13 final size:13
Alignment explanation
Indices: 33374--33425 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
33364 TTTATTAAAC
*
33374 ATTTATTAATATT
1 ATTTATTATTATT
*
33387 ATTTATTACTATT
1 ATTTATTATTATT
*
33400 ATTAATTATTATT
1 ATTTATTATTATT
*
33413 -GTTATTATTATT
1 ATTTATTATTATT
33425 A
1 A
33426 ATCGTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:33402 original size:3 final size:3
Alignment explanation
Indices: 33376--33425 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
33366 TATTAAACAT
* * *
33376 TTA TTA ATA TTA TTTA TTA CTA TTA TTAA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
33423 TTA
1 TTA
33426 ATCGTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:33404 original size:22 final size:21
Alignment explanation
Indices: 33376--33427 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
33366 TATTAAACAT
33376 TTATTAATATTATTTATTACTA
1 TTATTAATATTA-TTATTACTA
* *
33398 TTATTAATTATTATTGTTATTA
1 TTATTAA-TATTATTATTACTA
33420 TTATTAAT
1 TTATTAAT
33428 CGTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 21 0.78
23 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTAATATTATTATTACTA
Found at i:33408 original size:16 final size:16
Alignment explanation
Indices: 33383--33425 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
33373 CATTTATTAA
*
33383 TATTATTTATTACTAT
1 TATTAATTATTACTAT
* *
33399 TATTAATTATTATTGT
1 TATTAATTATTACTAT
33415 TATT-ATTATTA
1 TATTAATTATTA
33426 ATCGTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
TATTAATTATTACTAT
Found at i:34028 original size:6 final size:6
Alignment explanation
Indices: 34009--34102 Score: 71
Period size: 6 Copynumber: 16.7 Consensus size: 6
33999 GGACATTATT
34009 AATTTA AA--TA AATTTA AATTTA AATTTA TAA--TA AATTTA AATTTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTT-A
* * *
34055 AA--TA AATTTA AACTTA AA-ATA AATTTA ATTTTA GAA--TA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA
34099 AATT
1 AATT
34103 CTATTGGACC
Statistics
Matches: 71, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
4 11 0.15
5 9 0.13
6 45 0.63
7 6 0.08
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:34043 original size:23 final size:23
Alignment explanation
Indices: 34009--34057 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
33999 GGACATTATT
34009 AATTTAAATAAATTTAAATTT-A
1 AATTTAAATAAATTTAAATTTCA
34031 AATTTATAATAAATTTAAATTTCA
1 AATTTA-AATAAATTTAAATTTCA
34055 AAT
1 AAT
34058 AAATTTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTTAAATAAATTTAAATTTCA
Found at i:34045 original size:17 final size:16
Alignment explanation
Indices: 34023--34102 Score: 106
Period size: 17 Copynumber: 4.8 Consensus size: 16
34013 TAAATAAATT
34023 TAAATTTAAATTTATAA
1 TAAATTTAAATTTA-AA
34040 TAAATTTAAATTTCAAA
1 TAAATTTAAATTT-AAA
*
34057 TAAATTTAAACTTAAAA
1 TAAATTTAAA-TTTAAA
*
34074 TAAATTTAATTTTAGAA
1 TAAATTTAAATTTA-AA
34091 TAAATTTAAATT
1 TAAATTTAAATT
34103 CTATTGGACC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
16 3 0.05
17 50 0.89
18 3 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:34065 original size:34 final size:34
Alignment explanation
Indices: 34023--34102 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
34013 TAAATAAATT
*
34023 TAAATTTAAATTTATAATAAATTTAAATTTCA-AA
1 TAAATTTAAATTTAAAATAAATTT-AATTTCAGAA
* *
34057 TAAATTTAAACTTAAAATAAATTTAATTTTAGAA
1 TAAATTTAAATTTAAAATAAATTTAATTTCAGAA
34091 TAAATTTAAATT
1 TAAATTTAAATT
34103 CTATTGGACC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 6 0.15
34 35 0.85
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (34 bp):
TAAATTTAAATTTAAAATAAATTTAATTTCAGAA
Found at i:36503 original size:79 final size:79
Alignment explanation
Indices: 36389--37032 Score: 694
Period size: 79 Copynumber: 8.2 Consensus size: 79
36379 ATAGTTTTAG
* ** * *
36389 GGGTAAAAGATTAGATTATTTCAATCTATCC-CATGGTCGGGGTAAGAGATCGAATGATCTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCT-GCCTCATGGTCGGGGTAAGAGATCGGATGATCTTC-A
* *
36453 AT-TGTCCTTTGGTTA
64 ATCTGCCCTCTGGTTA
* * * * *
36468 GGGTAAAAGATTGAATTACTTTAATTTGCCTCATGGTCGAGGTAAGAGATCGGATGATCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGATCTTCAAT
* *
36533 TTGCCCTCTAGTTA
66 CTGCCCTCTGGTTA
* * * * * * * *
36547 GGGTAAAATATTAGATTGCTTTAATTTGCTTCATGGTCGGGGTAAAAGATCGGATGGTCTTCGAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGATCTTCAAT
* *
36612 CTACCCTCTAGTTA
66 CTGCCCTCTGGTTA
* * *
36626 GGGTAAAAGATTGGATTGCTTTAATCTGCCTTATGGTCGGGGTAAGAGATCGGATGATCTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGATCTTCAAT
36691 CTGCCCTCTGGTTA
66 CTGCCCTCTGGTTA
* * * *
36705 GGGTAAAAGATTGGATTGCTTCAATCTGTCC-CACGATAGGGGTAAGAGATTGGAT-AGTC-TCT
1 GGGTAAAAGATTGGATTGCTTCAATCTG-CCTCATGGTCGGGGTAAGAGATCGGATGA-TCTTC-
* * *
36767 AATCTGTCATTTGGTTA
63 AATCTGCCCTCTGGTTA
* * * ** * * *
36784 GGGTAAAAGATCT-GATAGTCTTCAATCTGGCCT-TTAGTTAGAGTAAAAGATTGGATGATCTTC
1 GGGTAAAAGAT-TGGATTG-CTTCAATCT-GCCTCATGGTCGGGGTAAGAGATCGGATGATCTTC
36847 AATCTGCCCTCTGGTTA
63 AATCTGCCCTCTGGTTA
* * * * *
36864 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGAGTAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGATCTTCAAT
36929 CTGCCCTCTGGTTA
66 CTGCCCTCTGGTTA
* * *
36943 GGGTAAAAGATTGGACTGCTTCAATCTGCC-CTATGGTCAGGGTAAGAGATTGGATG-TCTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTC-ATGGTCGGGGTAAGAGATCGGATGATCTTCAA
37006 TCTGCCCTCTGGTTA
65 TCTGCCCTCTGGTTA
37021 GGGTAAAAGATT
1 GGGTAAAAGATT
37033 AGATGGTTTT
Statistics
Matches: 483, Mismatches: 68, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
78 44 0.09
79 375 0.78
80 60 0.12
81 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAGAGATCGGATGATCTTCAAT
CTGCCCTCTGGTTA
Found at i:36689 original size:40 final size:40
Alignment explanation
Indices: 36389--37119 Score: 441
Period size: 40 Copynumber: 18.5 Consensus size: 40
36379 ATAGTTTTAG
* * * **
36389 GGGTAAAAGATTAGATTAT-TTCAATCTATCCC-ATGGTCG
1 GGGTAAAAGATTGGATGATCTTCAATCT-GCCCTATGGTTA
* * * * *
36428 GGGTAAGAGATCGAATGATCTTCAAAT-TGTCCTTTGGTTA
1 GGGTAAAAGATTGGATGATCTTC-AATCTGCCCTATGGTTA
* * * * *
36468 GGGTAAAAGATTGAATTA-CTTTAATTTG-CCTCATGG-TC
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCT-ATGGTTA
* * * * *
36506 GAGGTAAGAGATCGGATGATCTTCAATTTGCCCTCTAGTTA
1 G-GGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* * * * * **
36547 GGGTAAAATATTAGAT--TGCTTTAATTTG-CTTCATGGTCG
1 GGGTAAAAGATTGGATGAT-CTTCAATCTGCCCT-ATGGTTA
* * * * * *
36586 GGGTAAAAGATCGGATGGTCTTCGATCTACCCTCTAGTTA
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* * **
36626 GGGTAAAAGATTGGAT--TGCTTTAATCTGCCTTATGGTCG
1 GGGTAAAAGATTGGATGAT-CTTCAATCTGCCCTATGGTTA
* * * *
36665 GGGTAAGAGATCGGATGATCTTTAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* *
36705 GGGTAAAAGATTGGAT--TGCTTCAATCTGTCCC-A-CGATA
1 GGGTAAAAGATTGGATGAT-CTTCAATCTG-CCCTATGGTTA
* * * *
36743 GGGGTAAGAGATTGGAT-AGTC-TCTAATCTGTCATTTGGTTA
1 -GGGTAAAAGATTGGATGA-TCTTC-AATCTGCCCTATGGTTA
* * *
36784 GGGTAAAAGATCT-GAT-AGTCTTCAATCTGGCCTTTAGTTA
1 GGGTAAAAGAT-TGGATGA-TCTTCAATCTGCCCTATGGTTA
* *
36824 GAGTAAAAGATTGGATGATCTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* * *
36864 GGGTAAAAGATTGGAT--TGCTTCAATCTACCCCATGG-TC
1 GGGTAAAAGATTGGATGAT-CTTCAATCTGCCCTATGGTTA
* * *
36902 GGAGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
1 GG-GTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
*
36943 GGGTAAAAGATTGGACTG--CTTCAATCTGCCCTATGGTCA
1 GGGTAAAAGATTGGA-TGATCTTCAATCTGCCCTATGGTTA
* *
36982 GGGTAAGAGATTGGATG-TCTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* * * * * * *
37021 GGGTAAAAGATTAGATGGTTTTAAATCTACCCTCTGATTA
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* * * * * *
37061 AGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGATTA
1 GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
* **
37101 AGGCGAAAGATTGGATGAT
1 GGGTAAAAGATTGGATGAT
37120 TGTAACTTGC
Statistics
Matches: 541, Mismatches: 114, Indels: 73
0.74 0.16 0.10
Matches are distributed among these distances:
38 22 0.04
39 212 0.39
40 281 0.52
41 26 0.05
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGATCTTCAATCTGCCCTATGGTTA
Found at i:36932 original size:238 final size:237
Alignment explanation
Indices: 36389--37116 Score: 731
Period size: 237 Copynumber: 3.1 Consensus size: 237
36379 ATAGTTTTAG
* ** * * *
36389 GGGTAAAAGATTAGATTATTTCAATCTATCCCATGGTCGGGGTAAGAGATCGAATGATCTTCAAA
1 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGAGTAAGAGATCGGATGATCTTC-AA
* * * * * * * * *
36454 T-TGTCCTTTGGTTAGGGTAAAAGATTGAATTACTTTAATTTG-CCTCATGGTC-GAGGTAAGAG
65 TCTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAATCTGCCCT-ACGATCAG-GGTAAGAG
* * * * * * * ** *
36516 ATCGGATGATCTTCAATTTGCCCTCTAGTTAGGGTAAAATATTAGATTG-CTTTAAT-TTGCTTC
128 ATTGGATG-TCTTCAATCTGCCATCTGGTTAGGGTAAAAGATTAGATAGTCTTAAATCTACCCTC
* *** * * * *
36579 ATGGTCGGGGTAAAAGATCGGATGGTCTTCGATCTACCCTCTAGTTA
192 -TGATTAAGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* * ** * *
36626 GGGTAAAAGATTGGATTGCTTTAATCTGCCTTATGGTCGGGGTAAGAGATCGGATGATCTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGAGTAAGAGATCGGATGATCTTCAAT
*
36691 CTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGTCCC-ACGAT-AGGGGTAAGAGA
66 CTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAATCTG-CCCTACGATCA-GGGTAAGAGA
* * * **
36754 TTGGATAGTC-TCTAATCTGTCATTTGGTTAGGGTAAAAGATCT-GATAGTCTTCAATCTGGCCT
129 TTGGAT-GTCTTC-AATCTGCCATCTGGTTAGGGTAAAAGAT-TAGATAGTCTTAAATCTACCCT
* *
36817 -TTAGTT-AGAGTAAAAGATTGGATGATCTTCAATCTGCCCTCTGGTTA
191 CTGA-TTAAG-GTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* *
36864 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGAGTAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGAGTAAGAGATCGGATGATCTTCAAT
* *
36929 CTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGATT
66 CTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAATCTGCCCTACGATCAGGGTAAGAGATT
* * *
36994 GGATGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTAGATGGTTTTAAATCTACCCTCTGAT
131 GGATGTCTTCAATCTGCCATCTGGTTAGGGTAAAAGATTAGATAGTCTTAAATCTACCCTCTGAT
* * *
37059 TAAGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGATTA
196 TAAGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
* **
37101 AGGCGAAAGATTGGAT
1 GGGTAAAAGATTGGAT
37117 GATTGTAACT
Statistics
Matches: 408, Mismatches: 65, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
236 6 0.01
237 229 0.56
238 166 0.41
239 7 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (237 bp):
GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGAGTAAGAGATCGGATGATCTTCAAT
CTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAATCTGCCCTACGATCAGGGTAAGAGATT
GGATGTCTTCAATCTGCCATCTGGTTAGGGTAAAAGATTAGATAGTCTTAAATCTACCCTCTGAT
TAAGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTTA
Found at i:37072 original size:79 final size:79
Alignment explanation
Indices: 36428--37116 Score: 565
Period size: 79 Copynumber: 8.7 Consensus size: 79
36418 CCCATGGTCG
* * * * * * * *
36428 GGGTAAGAGATCGAATGATCTTCAAAT-TGTCCTTTGGTTAGGGTAAAAGATTGAATTACTTTAA
1 GGGTAAGAGATTGGATGGTCTTC-AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAA
* * *
36492 TTTG-CCTCATG-GTC
65 TCTGCCCTC-TGATTA
* * * * * * *
36506 GAGGTAAGAGATCGGATGATCTTCAATTTGCCCTCTAGTTAGGGTAAAATATTAGATTGCTTTAA
1 G-GGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAA
* * * **
36571 TTTG-CTTCATGGTCG
65 TCTGCCCTC-TGATTA
* * * * * *
36586 GGGTAAAAGATCGGATGGTCTTCGATCTACCCTCTAGTTAGGGTAAAAGATTGGATTGCTTTAAT
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
* * * **
36651 CTGCCTTATGGTCG
66 CTGCCCTCTGATTA
* * *
36665 GGGTAAGAGATCGGATGATCTTTAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
*
36730 CTGTCCCAC-GA-TA
66 CTG-CCCTCTGATTA
* * * * *
36743 GGGGTAAGAGATTGGATAGTC-TCTAATCTGTCATTTGGTTAGGGTAAAAGATCT-GATAGTCTT
1 -GGGTAAGAGATTGGATGGTCTTC-AATCTGCCCTCTGGTTAGGGTAAAAGAT-TGGATTG-CTT
* *
36806 CAATCTGGCCT-TTAGTTA
62 CAATCTGCCCTCTGA-TTA
* * *
36824 GAGTAAAAGATTGGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
* * *
36889 CTACCC-CATG-GTC
66 CTGCCCTC-TGATTA
*
36902 GGAGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAA
1 GG-GTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAA
* * *
36967 TCTGCCCTATGGTCA
65 TCTGCCCTCTGATTA
* * * *
36982 GGGTAAGAGATTGGAT-GTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTAGATGGTTTTAAA
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-CTTCAA
*
37046 TCTACCCTCTGATTA
65 TCTGCCCTCTGATTA
* * * * * * **
37061 AGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGATTAAGGCGAAAGATTGGAT
1 GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGAT
37117 GATTGTAACT
Statistics
Matches: 505, Mismatches: 85, Indels: 40
0.80 0.13 0.06
Matches are distributed among these distances:
78 45 0.09
79 358 0.71
80 98 0.19
81 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (79 bp):
GGGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
CTGCCCTCTGATTA
Found at i:37079 original size:158 final size:159
Alignment explanation
Indices: 36389--37116 Score: 699
Period size: 158 Copynumber: 4.6 Consensus size: 159
36379 ATAGTTTTAG
** * * ** * * *
36389 GGGTAAAAGATTAGATTATTTCAATCTATCC-CATGGTCGGGGTAAGAGATCGAATGATCTTCAA
1 GGGTAAAAGATTAGATTGCTTCAATCTACCCTCATGATTAGGGTAAGAGATTGGATGGTCTTC-A
* * * * *
36453 AT-TGTCCTTTGGTTAGGGTAAAAGATTGAATTACTTTAATTTG-CCTCATGGTC-GAGGTAAGA
65 ATCTGTCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCT-ATGGTCAG-GGTAAGA
* *
36515 GATCGGATGATCTTCAATTTGCCCTCTAGTTA
128 GATCGGATGATCTTCAATCTGCCCTCTGGTTA
* * ** * * ** * * *
36547 GGGTAAAATATTAGATTGCTTTAAT-TTGCTTCATGGTCGGGGTAAAAGATCGGATGGTCTTCGA
1 GGGTAAAAGATTAGATTGCTTCAATCTACCCTCATGATTAGGGTAAGAGATTGGATGGTCTTCAA
** * * * *
36611 TCTACCCTCTAGTTAGGGTAAAAGATTGGATTGCTTTAATCTGCCTTATGGTCGGGGTAAGAGAT
66 TCTGTCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGAT
*
36676 CGGATGATCTTTAATCTGCCCTCTGGTTA
131 CGGATGATCTTCAATCTGCCCTCTGGTTA
* ** * *
36705 GGGTAAAAGATTGGATTGCTTCAATCTGTCC-CACGA-TAGGGGTAAGAGATTGGATAGTC-TCT
1 GGGTAAAAGATTAGATTGCTTCAATCTACCCTCATGATTA-GGGTAAGAGATTGGATGGTCTTC-
* * * * * * * * *
36767 AATCTGTCATTTGGTTAGGGTAAAAGATCT-GATAGTCTTCAATCTGGCCTTTAGTTAGAGTAAA
64 AATCTGTCCTCTGGTTAGGGTAAAAGAT-TGGATTG-CTTCAATCTGCCCTATGGTCAGGGTAAG
*
36831 AGATTGGATGATCTTCAATCTGCCCTCTGGTTA
127 AGATCGGATGATCTTCAATCTGCCCTCTGGTTA
* * *
36864 GGGTAAAAGATTGGATTGCTTCAATCTACCC-CATG-GTCGGAGTAAGAGATTGGATGGTCTTCA
1 GGGTAAAAGATTAGATTGCTTCAATCTACCCTCATGATTAGG-GTAAGAGATTGGATGGTCTTCA
* *
36927 ATCTGCCCTCTGGTTAGGGTAAAAGATTGGACTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGA
65 ATCTGTCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGA
*
36992 TTGGATG-TCTTCAATCTGCCCTCTGGTTA
130 TCGGATGATCTTCAATCTGCCCTCTGGTTA
* * * * * *
37021 GGGTAAAAGATTAGATGGTTTTAAATCTACCCTC-TGATTAAGGTAAAAGATTGAATGGTCTTCA
1 GGGTAAAAGATTAGATTG-CTTCAATCTACCCTCATGATTAGGGTAAGAGATTGGATGGTCTTCA
* * **
37085 ATCTGTCCTCTGATTAAGGCGAAAGATTGGAT
65 ATCTGTCCTCTGGTTAGGGTAAAAGATTGGAT
37117 GATTGTAACT
Statistics
Matches: 470, Mismatches: 84, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
157 44 0.09
158 287 0.61
159 137 0.29
160 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (159 bp):
GGGTAAAAGATTAGATTGCTTCAATCTACCCTCATGATTAGGGTAAGAGATTGGATGGTCTTCAA
TCTGTCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGAT
CGGATGATCTTCAATCTGCCCTCTGGTTA
Found at i:37090 original size:317 final size:317
Alignment explanation
Indices: 36509--37091 Score: 805
Period size: 317 Copynumber: 1.8 Consensus size: 317
36499 CATGGTCGAG
* * * * *
36509 GTAAGAGATCGGATGATCTTCAATTTGCCCTCTAGTTAGGGTAAAATATTAGATTGCTTTAATTT
1 GTAAAAGATCGGATGATCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTAGATTGCTTCAATCT
* ** * *
36574 GCTTCATGGTCGGGGTAAAAGATCGGATGGTCTTCGATCTACCCTCTAGTTAGGGTAAAAGATTG
66 ACCCCATGGTCGGAGTAAAAGATCGGATGGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTG
* * * * *
36639 GATTGCTTTAATCTGCCTTATGGTCGGGGTAAGAGATCGGATGATCTTTAATCTGCCCTCTGGTT
131 GACTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGGTT
* * * * * * *
36704 AGGGTAAAAGATTGGATTGCTTCAATCTGTCCCACGATAGGGGTAAGAGATTGGATAGTCTCTAA
196 AGGGTAAAAGATTAGATGGCTTAAATCTGACCCACGATAGAGGTAAAAGATTGAATAGTCTCTAA
36769 TCTGTCATTTGGTTAGGGTAAAAGATCTGATAGTCTTCAATCTGGCCTTTAGTTAGA
261 TCTGTCATTTGGTTAGGGTAAAAGATCTGATAGTCTTCAATCTGGCCTTTAGTTAGA
* * *
36826 GTAAAAGATTGGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCT
1 GTAAAAGATCGGATGATCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTAGATTGCTTCAATCT
* * * *
36891 ACCCCATGGTCGGAGTAAGAGATTGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTG
66 ACCCCATGGTCGGAGTAAAAGATCGGATGGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTG
*
36956 GACTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGATTGGATG-TCTTCAATCTGCCCTCTGGTT
131 GACTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGGTT
* * *
37020 AGGGTAAAAGATTAGATGGTTTTAAATCT-ACCCTCTGATTA-AGGTAAAAGATTGAATGGTCT-
196 AGGGTAAAAGATTAGATGG-CTTAAATCTGACCCAC-GA-TAGAGGTAAAAGATTGAATAGTCTC
37082 TCAATCTGTC
258 T-AATCTGTC
37092 CTCTGATTAA
Statistics
Matches: 229, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
316 42 0.18
317 185 0.81
318 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (317 bp):
GTAAAAGATCGGATGATCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTAGATTGCTTCAATCT
ACCCCATGGTCGGAGTAAAAGATCGGATGGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTG
GACTGCTTCAATCTGCCCTATGGTCAGGGTAAGAGATCGGATGATCTTCAATCTGCCCTCTGGTT
AGGGTAAAAGATTAGATGGCTTAAATCTGACCCACGATAGAGGTAAAAGATTGAATAGTCTCTAA
TCTGTCATTTGGTTAGGGTAAAAGATCTGATAGTCTTCAATCTGGCCTTTAGTTAGA
Found at i:38524 original size:17 final size:17
Alignment explanation
Indices: 38504--38543 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38494 CGACCTTCCC
38504 TTTTTTCTTTTCTTCTT
1 TTTTTTCTTTTCTTCTT
* * *
38521 TTTTTCCTTTTTTTGTT
1 TTTTTTCTTTTCTTCTT
38538 TTTTTT
1 TTTTTT
38544 TTGGTGAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTCTTCTT
Done.