Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015169.1 Kokia drynarioides strain JFW-HI SEQ_130213, 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: 313940
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 186 characters in sequence are not A, C, G, or T
Found at i:2154 original size:22 final size:23
Alignment explanation
Indices: 2129--2174 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2119 TATGAAGGTT
*
2129 TGAATAAAAATTTA-ATAAAAAA
1 TGAATAAAAATTTACAGAAAAAA
**
2151 TGAATATGAATTTACAGAAAAAA
1 TGAATAAAAATTTACAGAAAAAA
2174 T
1 T
2175 ATTGAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
TGAATAAAAATTTACAGAAAAAA
Found at i:2331 original size:42 final size:43
Alignment explanation
Indices: 2190--2443 Score: 287
Period size: 43 Copynumber: 5.9 Consensus size: 43
2180 AAATTTGAGT
* * * * * *
2190 TTTAGTGGCGTTTGTAGGAAAAACGTCGCTAAAAATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * * *
2233 TTTTGTGACGTTTGTGGGATAAGCGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * *
2276 TTTAGCGGGGTTTGTGGGAAAAGCGCTGCTAAATACC-TGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* * *
2318 TTTAGCGGTGTTTGTGGGATAAGCGTCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
* *
2361 TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAAACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
** * *
2404 TTTAGCAACGTTTGTGAGG-TAAGCGCCGCTAAAGATCATG
1 TTTAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGACCATG
2444 GCTAAAGACC
Statistics
Matches: 180, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
42 37 0.21
43 141 0.78
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTC
Found at i:2341 original size:85 final size:86
Alignment explanation
Indices: 2198--2443 Score: 325
Period size: 85 Copynumber: 2.9 Consensus size: 86
2188 GTTTTAGTGG
* * * * * **
2198 CGTTTGTAGGAAAAACGTCGCTAAAAATCATGTTCTTTTGTGACGTTTGTGGGATAAGCGCCGCT
1 CGTTTGTGGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCAACGTTTGTGGGATAAGCGCCGCT
*
2263 AAAGACCATGTTCTTTAGCGG
66 AAAGACCATGTTCTTTAGCGA
* * * *** *
2284 GGTTTGTGGGAAAAGCGCTGCTAAATACC-TGTTCTTTAGCGGTGTTTGTGGGATAAGCGTCGCT
1 CGTTTGTGGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCAACGTTTGTGGGATAAGCGCCGCT
2348 AAAGACCATGTTCTTTAGCGA
66 AAAGACCATGTTCTTTAGCGA
2369 CGTTTGTGGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCAACGTTTGTGAGG-TAAGCGCCGC
1 CGTTTGTGGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCAACGTTTGTG-GGATAAGCGCCGC
*
2433 TAAAGATCATG
65 TAAAGACCATG
2444 GCTAAAGACC
Statistics
Matches: 137, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
85 76 0.55
86 59 0.43
87 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (86 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAAACCATGTTCTTTAGCAACGTTTGTGGGATAAGCGCCGCT
AAAGACCATGTTCTTTAGCGA
Found at i:2418 original size:128 final size:134
Alignment explanation
Indices: 2190--2550 Score: 430
Period size: 128 Copynumber: 2.7 Consensus size: 134
2180 AAATTTGAGT
* * * * * * * * *
2190 TTTAGTGGCGTTTGTAGGAAAAACGTCGCTAAAAATCATGTTCTTTTGTGACGTTTGTGGGATAA
1 TTTAGCGGTGTTTGTGGGATAAACGTCGCTAAAGACCATGTTCTTTAGCGACGTTTGTGGGAAAA
*** * *
2255 GCGCCGCTAAAGACCATGTTCTTTAGCGGGGTTTGTG-GG-A-AAAGCGC-T-GCTAAATACC-T
66 GCGCCGCTAAAGACCATGTTCTTTAGCAACGTTTGTGAGGAACAAAGAGCATGGCTAAAGACCAT
2314 GTTC
131 GTTC
*
2318 TTTAGCGGTGTTTGTGGGATAAGCGTCGCTAAAGACCATGTTCTTTAGCGACGTTTGTGGGAAAA
1 TTTAGCGGTGTTTGTGGGATAAACGTCGCTAAAGACCATGTTCTTTAGCGACGTTTGTGGGAAAA
* *
2383 GCGCCGCTAAAAACCATGTTCTTTAGCAACGTTTGTGAGGTAAGCGCCGCTAAAGATCATGGCTA
66 GCGCCGCTAAAGACCATGTTCTTTAGCAACGTTTGTGAGG-AA------C-AAAGAGCATGGCTA
2448 AAGACCATGTTC
123 AAGACCATGTTC
*
2460 TTTAGCGGTGTTTGTGGGATAAACGCCGCTAAAGACCATGTTCTTTAGCG-CGTTTGTGGGAAAA
1 TTTAGCGGTGTTTGTGGGATAAACGTCGCTAAAGACCATGTTCTTTAGCGACGTTTGTGGGAAAA
*
2524 GCGCCGCTAAAGACCATGTTCTATAGC
66 GCGCCGCTAAAGACCATGTTCTTTAGC
2551 GGCGTTTTTC
Statistics
Matches: 198, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
128 88 0.44
129 2 0.01
131 1 0.01
139 5 0.03
140 1 0.01
141 48 0.24
142 53 0.27
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (134 bp):
TTTAGCGGTGTTTGTGGGATAAACGTCGCTAAAGACCATGTTCTTTAGCGACGTTTGTGGGAAAA
GCGCCGCTAAAGACCATGTTCTTTAGCAACGTTTGTGAGGAACAAAGAGCATGGCTAAAGACCAT
GTTC
Found at i:2474 original size:56 final size:56
Alignment explanation
Indices: 2388--2499 Score: 154
Period size: 56 Copynumber: 2.0 Consensus size: 56
2378 GAAAAGCGCC
* *
2388 GCTAAAAACCATGTTCTTTAGCAACGTTTGTGAGG-TAAGCGCCGCTAAAGATCATG
1 GCTAAAAACCATGTTCTTTAGCAACGTTTGTG-GGATAAACGCCGCTAAAGACCATG
* ***
2444 GCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGGATAAACGCCGCTAAAGACCATG
1 GCTAAAAACCATGTTCTTTAGCAACGTTTGTGGGATAAACGCCGCTAAAGACCATG
2500 TTCTTTAGCG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 2 0.04
56 47 0.96
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (56 bp):
GCTAAAAACCATGTTCTTTAGCAACGTTTGTGGGATAAACGCCGCTAAAGACCATG
Found at i:2529 original size:42 final size:43
Alignment explanation
Indices: 2444--2557 Score: 187
Period size: 42 Copynumber: 2.7 Consensus size: 43
2434 AAAGATCATG
*
2444 GCTAAAGACCATGTTCTTTAGCGGTGTTTGTGGGATAAACGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGATAAACGCC
2487 GCTAAAGACCATGTTCTTTAGC-GCGTTTGTGGGA-AAAGCGCC
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGATAAA-CGCC
*
2529 GCTAAAGACCATGTTCTATAGCGGCGTTT
1 GCTAAAGACCATGTTCTTTAGCGGCGTTT
2558 TTCCTCATAA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
41 3 0.04
42 36 0.54
43 28 0.42
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (43 bp):
GCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGATAAACGCC
Found at i:7325 original size:38 final size:38
Alignment explanation
Indices: 7274--7349 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
7264 CCAACTGTTA
*
7274 CAGAAGCTGTAAAAGCCATTGAGACGACCCTAGATATG
1 CAGAAGCTGTAAAAGCCACTGAGACGACCCTAGATATG
7312 CAGAAGCTGTAAAAGCCACTGAGACGACCCTAGATATG
1 CAGAAGCTGTAAAAGCCACTGAGACGACCCTAGATATG
7350 GGATGCTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (38 bp):
CAGAAGCTGTAAAAGCCACTGAGACGACCCTAGATATG
Found at i:8151 original size:24 final size:25
Alignment explanation
Indices: 8122--8170 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
8112 AAATATTTAT
*
8122 AAAC-AATAAAAAATATATTAAAAA
1 AAACAAATAAAAAATATAATAAAAA
8146 AAACAAAATAAAAAATATAATAAAA
1 AAAC-AAATAAAAAATATAATAAAA
8171 CAACAATGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
26 18 0.82
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (25 bp):
AAACAAATAAAAAATATAATAAAAA
Found at i:9006 original size:15 final size:16
Alignment explanation
Indices: 8978--9015 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8968 CCCTCTGTTA
8978 TTTTCTTTCACTTTTTT
1 TTTTCTTT-ACTTTTTT
8995 TTTTCTTT-CTTTTTT
1 TTTTCTTTACTTTTTT
*
9010 GTTTCT
1 TTTTCT
9016 CTCTCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
17 8 0.40
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTCTTTACTTTTTT
Found at i:17450 original size:219 final size:219
Alignment explanation
Indices: 17071--17509 Score: 763
Period size: 219 Copynumber: 2.0 Consensus size: 219
17061 TATTTTTCCC
*
17071 TGTTTTCTGGTTTAACAGATGGATGGCCTGTTCTGCTATTGTAAATCAAGACAAAATTAATTTTG
1 TGTTTTCTGGTTTAACAGATGGATGACCTGTTCTGCTATTGTAAATCAAGACAAAATTAATTTTG
*
17136 AATAATTGGCTTCTGAAATCTGAATCTTTCTTCTACACTGCCACTAATATAGATAATTTTCTCAA
66 AACAATTGGCTTCTGAAATCTGAATCTTTCTTCTACACTGCCACTAATATAGATAATTTTCTCAA
* * *
17201 TTGTATATTCAATGCTTTTGTATTAAATGTATTAGCCATGATGCATGGTGTTACCAGTGCATTGC
131 TTGCATATTCAATGCTTTTGTATTAAATGTATTAGCCATGATGCATGGTGTTACCAGTGCAGTAC
17266 ATATTCTTTATTCTGCTCTATTGT
196 ATATTCTTTATTCTGCTCTATTGT
* *
17290 TGTTTTCTGGTTTAACAGATGGCTGACCTGTTCTGCTGTTGTAAATCAAGACAAAATTAATTTTG
1 TGTTTTCTGGTTTAACAGATGGATGACCTGTTCTGCTATTGTAAATCAAGACAAAATTAATTTTG
* * *
17355 AACAATTGGCTTCTGAAATCTGAATCTTTCTTCTAGACTGCTACTAATATGGATAAATTTT-TCA
66 AACAATTGGCTTCTGAAATCTGAATCTTTCTTCTACACTGCCACTAATATAGAT-AATTTTCTCA
*
17419 ATTGCATATTCAATGCTTTTGTATTAAATGTATTAGCCATGATGCATGGTGTTACCGGTGCAGTA
130 ATTGCATATTCAATGCTTTTGTATTAAATGTATTAGCCATGATGCATGGTGTTACCAGTGCAGTA
17484 CATATTCTTTATTCTGCTCTATTGT
195 CATATTCTTTATTCTGCTCTATTGT
17509 T
1 T
17510 TATATACTTT
Statistics
Matches: 208, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
219 202 0.97
220 6 0.03
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (219 bp):
TGTTTTCTGGTTTAACAGATGGATGACCTGTTCTGCTATTGTAAATCAAGACAAAATTAATTTTG
AACAATTGGCTTCTGAAATCTGAATCTTTCTTCTACACTGCCACTAATATAGATAATTTTCTCAA
TTGCATATTCAATGCTTTTGTATTAAATGTATTAGCCATGATGCATGGTGTTACCAGTGCAGTAC
ATATTCTTTATTCTGCTCTATTGT
Found at i:26388 original size:22 final size:22
Alignment explanation
Indices: 26360--26404 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
26350 AACACAATGA
*
26360 AAAAAGAGTTGATAAAAATAGT
1 AAAAAGAGTTGAGAAAAATAGT
26382 AAAAAGAGTTGAGAAAAATAGT
1 AAAAAGAGTTGAGAAAAATAGT
26404 A
1 A
26405 GATCATGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (22 bp):
AAAAAGAGTTGAGAAAAATAGT
Found at i:40676 original size:15 final size:15
Alignment explanation
Indices: 40635--40680 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
40625 TTTTAACTTT
40635 TTTG-AAAAGTGTT-
1 TTTGAAAAAGTGTTA
**
40648 TTCCAAAAAG-GTTA
1 TTTGAAAAAGTGTTA
40662 TTTGAAAAAGTGTTA
1 TTTGAAAAAGTGTTA
40677 TTTG
1 TTTG
40681 TAATTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.19
14 13 0.50
15 8 0.31
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (15 bp):
TTTGAAAAAGTGTTA
Found at i:41129 original size:18 final size:17
Alignment explanation
Indices: 41108--41141 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41098 TATATAAAAT
41108 AAATATTGAATATATTAA
1 AAATATTGAAT-TATTAA
*
41126 AAATATTTAATTATTA
1 AAATATTGAATTATTA
41142 TTTGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAATATTGAATTATTAA
Found at i:64338 original size:22 final size:22
Alignment explanation
Indices: 64312--64357 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
64302 ACAAAGGTGC
64312 AACCAACCATATCACAAATGAT
1 AACCAACCATATCACAAATGAT
64334 AACCAACCATATCACAAATGAT
1 AACCAACCATATCACAAATGAT
64356 AA
1 AA
64358 TTAAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.17
Consensus pattern (22 bp):
AACCAACCATATCACAAATGAT
Found at i:74241 original size:18 final size:18
Alignment explanation
Indices: 74215--74251 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74205 CATCTCTGTC
*
74215 ACCGGAAAATAAAACAAA
1 ACCGAAAAATAAAACAAA
*
74233 ACCGAAAAATAAATCAAA
1 ACCGAAAAATAAAACAAA
74251 A
1 A
74252 TCAAAACGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (18 bp):
ACCGAAAAATAAAACAAA
Found at i:76415 original size:18 final size:17
Alignment explanation
Indices: 76389--76430 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
76379 AATGTATTAT
*
76389 AAATTACATAATATATAA
1 AAATAACATAATATA-AA
76407 AAATAACATAATATAAA
1 AAATAACATAATATAAA
76424 ATAATAA
1 A-AATAA
76431 AAACTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATAACATAATATAAA
Found at i:78037 original size:16 final size:16
Alignment explanation
Indices: 78000--78041 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
77990 TTAGGGTTTA
* *
78000 AAATTTTTAATTAATT
1 AAATATTTATTTAATT
78016 -AA-ATTTATTTAATT
1 AAATATTTATTTAATT
78030 AAATATTTATTT
1 AAATATTTATTT
78042 TCATTCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTTATTTAATT
Found at i:78266 original size:31 final size:31
Alignment explanation
Indices: 78231--78309 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 31
78221 AAAATAACTA
78231 TTTTT-ACAATTTACCCTATAATAAATTAATG
1 TTTTTAAC-ATTTACCCTATAATAAATTAATG
78262 TTTTTAACATTTACCCTATAATAAATTAATG
1 TTTTTAACATTTACCCTATAATAAATTAATG
*
78293 TGTTTAACATTTACCCT
1 TTTTTAACATTTACCCT
78310 CTCAATTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 44 0.96
32 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (31 bp):
TTTTTAACATTTACCCTATAATAAATTAATG
Found at i:78341 original size:33 final size:33
Alignment explanation
Indices: 78297--78363 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
78287 TTAATGTGTT
*
78297 TAACATTTACCCTCTCAATTTATGTAAAATATG
1 TAACATATACCCTCTCAATTTATGTAAAATATG
78330 TAACATATACCCTCTCAATTTATGTAAAATATG
1 TAACATATACCCTCTCAATTTATGTAAAATATG
78363 T
1 T
78364 TTACCTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (33 bp):
TAACATATACCCTCTCAATTTATGTAAAATATG
Found at i:82326 original size:13 final size:14
Alignment explanation
Indices: 82303--82331 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
82293 ACCAGTGAAT
82303 TTTTAAGAATACTA
1 TTTTAAGAATACTA
82317 TTTT-AGAATACTA
1 TTTTAAGAATACTA
82330 TT
1 TT
82332 GTTATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTTAAGAATACTA
Found at i:93489 original size:27 final size:24
Alignment explanation
Indices: 93459--93511 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 24
93449 AATATATTTG
*
93459 AAATAATCAGAGTTTAACTGAAAAAAA
1 AAATAATAAGA-TTTAAC--AAAAAAA
93486 AAATAATAAGATTTAACAAAAAAA
1 AAATAATAAGATTTAACAAAAAAA
93510 AA
1 AA
93512 TTAGAGGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
26 6 0.24
27 10 0.40
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.21
Consensus pattern (24 bp):
AAATAATAAGATTTAACAAAAAAA
Found at i:93508 original size:26 final size:27
Alignment explanation
Indices: 93459--93511 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
93449 AATATATTTG
* **
93459 AAATAATCAGAGTTTAACTGAAAAAAA
1 AAATAATAAGAGTTTAACAAAAAAAAA
93486 AAATAATAAGA-TTTAACAAAAAAAAA
1 AAATAATAAGAGTTTAACAAAAAAAAA
93512 TTAGAGGCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.21
Consensus pattern (27 bp):
AAATAATAAGAGTTTAACAAAAAAAAA
Found at i:101313 original size:58 final size:59
Alignment explanation
Indices: 101239--101598 Score: 244
Period size: 58 Copynumber: 6.2 Consensus size: 59
101229 CGAAAATCAT
* *
101239 ATTTTTACCCTCGAACTTCCAATAATTCTATTTTTGACCTCGAAACTTCCAAAAATTAC
1 ATTTTTACCCCCGAACTTCCAAAAATTCTATTTTTGACCTCGAAACTTCCAAAAATTAC
* * *
101298 A-TTTTACCCCCGAACTTCTAAAAATTCCATTTTT-ACCCTCG-AACTTCCAAAAATTCC
1 ATTTTTACCCCCGAACTTCCAAAAATTCTATTTTTGA-CCTCGAAACTTCCAAAAATTAC
** * * *
101355 ATTTTTACCCCTAAACTTCCAAAAATTCTATTTTCGACCTCAAAACTTCCAAAAATTCC
1 ATTTTTACCCCCGAACTTCCAAAAATTCTATTTTTGACCTCGAAACTTCCAAAAATTAC
* * * * * * *
101414 AATTTTGA--CCCTAAATCTCCAAAATTTCCATTTTTGACC-CTAAAACTTTCAAAAATTACC
1 -ATTTTTACCCCCGAACT-TCCAAAAATTCTATTTTTGACCTC-GAAACTTCCAAAAATTA-C
* * * * * * *
101474 A-TTTT-GCCCCTAGACGTCCAAAAACTCCA-TTTCGACCTCAAAAC-TCTC--AAATTAC
1 ATTTTTACCCCCGA-ACTTCCAAAAATTCTATTTTTGACCTCGAAACTTC-CAAAAATTAC
** * * * * * * *
101529 CCTTTTACCCCCGAA-TGTCTAAAAATTCCATTTTTAACCCCAAAATTTCCCAAAATTACC
1 ATTTTTACCCCCGAACT-TCCAAAAATTCTATTTTTGACCTCGAAACTTCCAAAAATTA-C
101589 A-TTTTACCCC
1 ATTTTTACCCC
101599 TGAGAATTCA
Statistics
Matches: 242, Mismatches: 38, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
55 1 0.00
56 22 0.09
57 35 0.14
58 90 0.37
59 85 0.35
60 9 0.04
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (59 bp):
ATTTTTACCCCCGAACTTCCAAAAATTCTATTTTTGACCTCGAAACTTCCAAAAATTAC
Found at i:101426 original size:59 final size:59
Alignment explanation
Indices: 101252--101599 Score: 274
Period size: 59 Copynumber: 6.0 Consensus size: 59
101242 TTTACCCTCG
* * * * * **
101252 AACTTCCAATAATTCTATTTTTGACCTCGAAACTTCCAAAAATTACATTTT-ACCCCCG
1 AACTTCCAAAAATTCCATTTTCGACCTCAAAACTTCCAAAAATTCCATTTTGACCCCTA
* * * *
101310 AACTTCTAAAAATTCCATTTT-TACCCTC-GAACTTCCAAAAATTCCATTTTTACCCCTA
1 AACTTCCAAAAATTCCATTTTCGA-CCTCAAAACTTCCAAAAATTCCATTTTGACCCCTA
*
101368 AACTTCCAAAAATTCTATTTTCGACCTCAAAACTTCCAAAAATTCCAATTTTGA-CCCTA
1 AACTTCCAAAAATTCCATTTTCGACCTCAAAACTTCCAAAAATTCC-ATTTTGACCCCTA
* * *
101427 AA-TCTCCAAAATTTCCATTTTTGACC-CTAAAACTTTCAAAAATTACCATTTTG-CCCCTA
1 AACT-TCCAAAAATTCCATTTTCGACCTC-AAAACTTCCAAAAATT-CCATTTTGACCCCTA
* * * * **
101486 GACGTCCAAAAACTCCA-TTTCGACCTCAAAAC-TCTC--AAATTACCCTTTT-ACCCCCG
1 AACTTCCAAAAATTCCATTTTCGACCTCAAAACTTC-CAAAAATT-CCATTTTGACCCCTA
* ** * * *
101542 AA-TGTCTAAAAATTCCATTTTTAACCCCAAAATTTCCCAAAATTACCATTTT-ACCCCT
1 AACT-TCCAAAAATTCCATTTTCGACCTCAAAACTTCCAAAAATT-CCATTTTGACCCCT
101600 GAGAATTCAA
Statistics
Matches: 236, Mismatches: 36, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
56 28 0.12
57 34 0.14
58 67 0.28
59 99 0.42
60 8 0.03
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (59 bp):
AACTTCCAAAAATTCCATTTTCGACCTCAAAACTTCCAAAAATTCCATTTTGACCCCTA
Found at i:101479 original size:30 final size:29
Alignment explanation
Indices: 101252--101518 Score: 215
Period size: 29 Copynumber: 9.1 Consensus size: 29
101242 TTTACCCTCG
* * *
101252 AACTTCCAATAATTCTATTTTTGA-CCTCGA
1 AACTTCCAAAAATTCCA-TTTTGACCCT-AA
* ***
101282 AACTTCCAAAAATTACATTTT-ACCCCCG
1 AACTTCCAAAAATTCCATTTTGACCCTAA
* * **
101310 AACTTCTAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTGACCCTAA
*
101339 AACTTCCAAAAATTCCATTTTTACCCCT-A
1 AACTTCCAAAAATTCCATTTTGA-CCCTAA
*
101368 AACTTCCAAAAATTCTATTTTCGA-CCTCAA
1 AACTTCCAAAAATTCCATTTT-GACCCT-AA
101398 AACTTCCAAAAATTCCAATTTTGACCCTAA
1 AACTTCCAAAAATTCC-ATTTTGACCCTAA
* *
101428 ATC-TCCAAAATTTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTCCA-TTTTGACCCTAA
* *
101457 AACTTTCAAAAATTACCATTTTGCCCCT-A
1 AACTTCCAAAAATT-CCATTTTGACCCTAA
* * * *
101486 GACGTCCAAAAACTCCATTTCGA-CCTCAA
1 AACTTCCAAAAATTCCATTTTGACCCT-AA
101515 AACT
1 AACT
101519 CTCAAATTAC
Statistics
Matches: 196, Mismatches: 28, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.02
28 31 0.16
29 93 0.47
30 58 0.30
31 11 0.06
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTGACCCTAA
Found at i:101594 original size:30 final size:28
Alignment explanation
Indices: 101522--101622 Score: 73
Period size: 28 Copynumber: 3.5 Consensus size: 28
101512 CAAAACTCTC
* * ** *
101522 AAATTACCCTTTTACCCCCGAATGTCTAA
1 AAATTACCATTTTAACCCCGAAAAT-TCA
101551 AAATT-CCATTTTTAACCCC-AAAATTTCCCA
1 AAATTACCA-TTTTAACCCCGAAAA-TT--CA
*
101581 AAATTACCATTTT-ACCCCTGAGAATTCA
1 AAATTACCATTTTAACCCC-GAAAATTCA
101609 AAATTACCATTTTA
1 AAATTACCATTTTA
101623 CCCTTGGGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
28 20 0.34
29 20 0.34
30 12 0.21
31 6 0.10
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (28 bp):
AAATTACCATTTTAACCCCGAAAATTCA
Found at i:101615 original size:28 final size:28
Alignment explanation
Indices: 101578--101639 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
101568 CCAAAATTTC
101578 CCAAAATTACCATTTTACCCCTGAGAAT
1 CCAAAATTACCATTTTACCCCTGAGAAT
* * *
101606 TCAAAATTACCATTTTACCCTTGGGAAT
1 CCAAAATTACCATTTTACCCCTGAGAAT
101634 CCAAAA
1 CCAAAA
101640 AGTCTCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCTGAGAAT
Found at i:113046 original size:12 final size:12
Alignment explanation
Indices: 113030--113059 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
113020 TTTTAATCTG
113030 CTAAATAATTAA
1 CTAAATAATTAA
*
113042 TTAAATAATTAA
1 CTAAATAATTAA
113054 CTAAAT
1 CTAAAT
113060 TACATAGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
CTAAATAATTAA
Found at i:115808 original size:2 final size:2
Alignment explanation
Indices: 115801--115828 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
115791 AATACCTATG
115801 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
115829 CACTTGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:121172 original size:17 final size:18
Alignment explanation
Indices: 121113--121182 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
121103 ATTGACAGGT
121113 TAAAATT-TTAAAATATTG
1 TAAAATTATTAAAA-ATTG
*
121131 TAAAAATTATTTTAAAA-TG
1 T-AAAATTA-TTAAAAATTG
121150 TAAAATTATTAAAAATTG
1 TAAAATTATTAAAAATTG
*
121168 T-AAATTATTTAAAAT
1 TAAAATTATTAAAAAT
121183 ATTAAAAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 19 0.42
18 11 0.24
19 9 0.20
20 1 0.02
21 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
TAAAATTATTAAAAATTG
Found at i:121188 original size:17 final size:16
Alignment explanation
Indices: 121134--121188 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
121124 AATATTGTAA
*
121134 AAATTATTTTAAAATGTA
1 AAATTA-TTTAAAAT-TT
*
121152 AAATTATTAAAAATTGT
1 AAATTATTTAAAATT-T
121169 AAATTATTTAAAATATT
1 AAATTATTTAAAAT-TT
121186 AAA
1 AAA
121189 AAGTTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 24 0.75
18 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (16 bp):
AAATTATTTAAAATTT
Found at i:121230 original size:25 final size:26
Alignment explanation
Indices: 121195--121245 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
121185 TAAAAAGTTG
*
121195 AAAAAATAAATT-AAAAATTTGTAAA
1 AAAAAAAAAATTGAAAAATTTGTAAA
* *
121220 AAAAAAAAAATTGTAAAATTTTTAAA
1 AAAAAAAAAATTGAAAAATTTGTAAA
121246 GAATGTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAAAAAAAATTGAAAAATTTGTAAA
Found at i:121455 original size:18 final size:17
Alignment explanation
Indices: 121432--121494 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
121422 ATGTTTAATA
121432 ATTTAAATAAATAATATT
1 ATTTAAATAAATAA-ATT
* *
121450 ATTTAAATTAACTTAATT
1 ATTTAAA-TAAATAAATT
**
121468 AAATAAA-AAATAAATT
1 ATTTAAATAAATAAATT
121484 ATTT-AATAAAT
1 ATTTAAATAAAT
121495 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
15 2 0.06
16 13 0.37
18 15 0.43
19 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAATAAATAAATT
Found at i:121489 original size:34 final size:31
Alignment explanation
Indices: 121435--121512 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 31
121425 TTTAATAATT
*
121435 TAAATAAATAATATTATTTAAATTAACTTAATTAAA
1 TAAATAAATAA-ATTATTT-AA-TAAATTAA--AAA
121471 TAAA-AAATAAATTATTTAATAAATTAAAAA
1 TAAATAAATAAATTATTTAATAAATTAAAAA
121501 TAAATAAATAAA
1 TAAATAAATAAA
121513 ATCGAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 7 0.17
31 7 0.17
32 7 0.17
33 2 0.05
34 7 0.17
35 6 0.15
36 4 0.10
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAATAAATAAATTATTTAATAAATTAAAAA
Found at i:121499 original size:23 final size:25
Alignment explanation
Indices: 121453--121505 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
121443 TAATATTATT
121453 TAAATTAACTTAATTAAATAAAAAA
1 TAAATTAACTTAATTAAATAAAAAA
* *
121478 TAAATT-ATTTAA-TAAATTAAAAA
1 TAAATTAACTTAATTAAATAAAAAA
121501 TAAAT
1 TAAAT
121506 AAATAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 15 0.58
24 5 0.19
25 6 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAATTAACTTAATTAAATAAAAAA
Found at i:122885 original size:21 final size:23
Alignment explanation
Indices: 122861--122909 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
122851 TTAATGGAGA
122861 ATATTTTTAATTA-ATT-ATATT
1 ATATTTTTAATTATATTAATATT
* *
122882 ATATTTTTATTTATTTTAATATT
1 ATATTTTTAATTATATTAATATT
122905 ATATT
1 ATATT
122910 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 2 0.08
23 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
ATATTTTTAATTATATTAATATT
Found at i:125774 original size:2 final size:2
Alignment explanation
Indices: 125767--125796 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
125757 CTTGTCTTGG
125767 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
125797 CCAAGGGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:127031 original size:52 final size:53
Alignment explanation
Indices: 126929--127037 Score: 157
Period size: 53 Copynumber: 2.1 Consensus size: 53
126919 TAAGATGTTC
* * *
126929 ATAATTATAAATATAAAAAATAAATCCAAACAATTGCAACCATAATTAACATT
1 ATAATTATAAATACAAAAAACAAATCCAAACAACTGCAACCATAATTAACATT
* * *
126982 ATAATTATGAATGCAAAAAACAAATCCAAACAACTGC-ATCATAATTAACATT
1 ATAATTATAAATACAAAAAACAAATCCAAACAACTGCAACCATAATTAACATT
127034 ATAA
1 ATAA
127038 AACATGGTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 18 0.36
53 32 0.64
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.27
Consensus pattern (53 bp):
ATAATTATAAATACAAAAAACAAATCCAAACAACTGCAACCATAATTAACATT
Found at i:136265 original size:16 final size:17
Alignment explanation
Indices: 136239--136311 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 17
136229 AAAAGATTAA
*
136239 AAAATAATATTA-AAAAC
1 AAAA-AATATTACAAAAT
*
136256 AAAAAATATTATAAAAT
1 AAAAAATATTACAAAAT
*
136273 ATTAAAATA-TA-AAAAT
1 A-AAAAATATTACAAAAT
*
136289 ATAAAAAAATTACAAAA-
1 A-AAAAATATTACAAAAT
136306 AAAAAA
1 AAAAAA
136312 AAACTACACT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
16 24 0.50
17 14 0.29
18 10 0.21
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAATATTACAAAAT
Found at i:136279 original size:18 final size:17
Alignment explanation
Indices: 136244--136305 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
136234 ATTAAAAAAT
*
136244 AATATTAAAAACA-AAA
1 AATATTAAAAATATAAA
*
136260 AATATTATAAAATATTAA
1 AATATTA-AAAATATAAA
136278 AATA-TAAAAATATAAA
1 AATATTAAAAATATAAA
*
136294 AAAATTACAAAA
1 AATATTA-AAAA
136306 AAAAAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 19 0.50
17 9 0.24
18 10 0.26
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATATTAAAAATATAAA
Found at i:136297 original size:26 final size:26
Alignment explanation
Indices: 136238--136298 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
136228 CAAAAGATTA
136238 AAAAATAATATTAAAAACAAAAAATAT
1 AAAAA-AATATTAAAAACAAAAAATAT
* * *
136265 TATAAAATATTAAAATA-TAAAAATAT
1 AAAAAAATATTAAAA-ACAAAAAATAT
136291 AAAAAAAT
1 AAAAAAAT
136299 TACAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAAAATATTAAAAACAAAAAATAT
Found at i:142239 original size:26 final size:25
Alignment explanation
Indices: 142171--142267 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 25
142161 CGAAGTACTT
* * *
142171 AACAGAAACGCATAAGTGCTAGGGA
1 AACAGAAGCACATAAGTGCTGGGGA
*
142196 GACAGAAGCACATAAGTGCTGGGGA
1 AACAGAAGCACATAAGTGCTGGGGA
142221 AACAGAAGGCACATAAGTGCT-GGGA
1 AACAGAA-GCACATAAGTGCTGGGGA
*
142246 AACAGAAGCACACACAGTGCTG
1 AACAGAAGCACATA-AGTGCTG
142268 AACAGAAACG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 6 0.10
25 44 0.70
26 13 0.21
ACGTcount: A:0.40, C:0.19, G:0.30, T:0.11
Consensus pattern (25 bp):
AACAGAAGCACATAAGTGCTGGGGA
Found at i:146945 original size:19 final size:19
Alignment explanation
Indices: 146921--146957 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
146911 GATTAACACG
146921 ACTCGAACTTAAGTCATAT
1 ACTCGAACTTAAGTCATAT
146940 ACTCGAACTTAAGTCATA
1 ACTCGAACTTAAGTCATA
146958 CTTAAAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (19 bp):
ACTCGAACTTAAGTCATAT
Found at i:162420 original size:17 final size:17
Alignment explanation
Indices: 162394--162428 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
162384 CTTGAATTCA
162394 GTGTTGGATACAAGTAT
1 GTGTTGGATACAAGTAT
* *
162411 GTGTTTGATACGAGTAT
1 GTGTTGGATACAAGTAT
162428 G
1 G
162429 GACTGTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.31, T:0.37
Consensus pattern (17 bp):
GTGTTGGATACAAGTAT
Found at i:182509 original size:6 final size:6
Alignment explanation
Indices: 182494--182538 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
182484 GGGTGGAGAG
*
182494 GGGGAA GGGGAG GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGG
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGG
182539 AGTTTAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:188934 original size:6 final size:6
Alignment explanation
Indices: 188924--188961 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
188914 ACCTATGCTC
* *
188924 AATCCT GATCCT GATCCT AATCCT AATCCT AATCCT AA
1 AATCCT AATCCT AATCCT AATCCT AATCCT AATCCT AA
188962 GACAACCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (6 bp):
AATCCT
Found at i:193449 original size:83 final size:83
Alignment explanation
Indices: 193278--193447 Score: 247
Period size: 83 Copynumber: 2.1 Consensus size: 83
193268 CTCAAAAGTG
*
193278 AAAAATTGCTATTTCAATCCCCTCATAAATAATAAAATTATAAATTAATATATGATGTAATTGTA
1 AAAAATTGCTATTTCAATCCCCTCATAAATAATAAAATTATAAATTAATATATGATGAAATTGTA
193343 CTTTGACCCCAAAAAATA
66 CTTTGACCCCAAAAAATA
* * * *
193361 AAAAATTGTTATTTCAATCCCCTCATAAA-AATTGAAATTCTAAATTAATATATGGTGAAATT-T
1 AAAAATTGCTATTTCAATCCCCTCATAAATAA-TAAAATTATAAATTAATATATGATGAAATTGT
*
193424 CACTTTGACCTC-AAAAATA
65 -ACTTTGACCCCAAAAAATA
193443 AAAAA
1 AAAAA
193448 ATCTTTTTAG
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
82 15 0.19
83 64 0.81
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (83 bp):
AAAAATTGCTATTTCAATCCCCTCATAAATAATAAAATTATAAATTAATATATGATGAAATTGTA
CTTTGACCCCAAAAAATA
Found at i:194610 original size:81 final size:81
Alignment explanation
Indices: 194525--194768 Score: 436
Period size: 81 Copynumber: 3.0 Consensus size: 81
194515 TACTGAAACC
194525 TTAATTAATTTAAATAAAAAACAATTTTAAACTAA-ATTTTTTTGTTGACATAAAACTCTTAAAA
1 TTAATTAATTTAAATAAAAAACAATTTTAAACTAACA-TTTTTTGTTGACATAAAACTCTTAAAA
194589 ATATATAAAAAGTAGAA
65 ATATATAAAAAGTAGAA
* *
194606 TTAATTAATTTAAATAAGAAACAATTTTAAACTAACATTTTTTGTTGACATAAAACTCCTAAAAA
1 TTAATTAATTTAAATAAAAAACAATTTTAAACTAACATTTTTTGTTGACATAAAACTCTTAAAAA
194671 TATATAAAAAGTAGAA
66 TATATAAAAAGTAGAA
*
194687 TTAATTAATTTAAATAAAAAACAATTTTAAACTAACATTTCTTGTTGACATAAAACTCTTAAAAA
1 TTAATTAATTTAAATAAAAAACAATTTTAAACTAACATTTTTTGTTGACATAAAACTCTTAAAAA
*
194752 TATATAAAAAGTCGAA
66 TATATAAAAAGTAGAA
194768 T
1 T
194769 AAAATAAATA
Statistics
Matches: 156, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
81 155 0.99
82 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (81 bp):
TTAATTAATTTAAATAAAAAACAATTTTAAACTAACATTTTTTGTTGACATAAAACTCTTAAAAA
TATATAAAAAGTAGAA
Found at i:194774 original size:21 final size:22
Alignment explanation
Indices: 194748--194793 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
194738 AAAACTCTTA
* *
194748 AAAATATATAA-AAAGTCGAAT
1 AAAATAAATAATAAAATCGAAT
*
194769 AAAATAAATAATAAAATTGAAT
1 AAAATAAATAATAAAATCGAAT
194791 AAA
1 AAA
194794 TACAATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAATAAATAATAAAATCGAAT
Found at i:200012 original size:49 final size:49
Alignment explanation
Indices: 199955--200055 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
199945 TGGCCTAATG
* * * *
199955 GTCAAATGTGTTTATTG-CCTTAGGTGTGATTTGAGTTCGAGTCGTGCCA
1 GTCAAATGTGTTCATTGTCC-CAGGTGTGATTTGAATTCAAGTCGTGCCA
200004 GTCAAATGTGTTCATTGTCCCAGGTGTGATTTGAATTCAAGTCGTGCCA
1 GTCAAATGTGTTCATTGTCCCAGGTGTGATTTGAATTCAAGTCGTGCCA
200053 GTC
1 GTC
200056 GCGTTACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
49 45 0.96
50 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (49 bp):
GTCAAATGTGTTCATTGTCCCAGGTGTGATTTGAATTCAAGTCGTGCCA
Found at i:200473 original size:31 final size:30
Alignment explanation
Indices: 200436--200504 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
200426 ATATATGAAT
*
200436 TTTAATTTAATGTGTAATTATATACATAAAA-
1 TTTAATTTAA--TGTAATTATACACATAAAAC
* *
200467 TTTAATTTGATGTAATTATACACGTAAAAC
1 TTTAATTTAATGTAATTATACACATAAAAC
200497 TTTAATTT
1 TTTAATTT
200505 TGATTCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 17 0.50
30 8 0.24
31 9 0.26
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTAATTTAATGTAATTATACACATAAAAC
Found at i:200480 original size:29 final size:30
Alignment explanation
Indices: 200448--200504 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
200438 TAATTTAATG
*
200448 TGTAATTATATACATAAAA-TTTAATTTGA
1 TGTAATTATACACATAAAACTTTAATTTGA
*
200477 TGTAATTATACACGTAAAACTTTAATTT
1 TGTAATTATACACATAAAACTTTAATTT
200505 TGATTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (30 bp):
TGTAATTATACACATAAAACTTTAATTTGA
Found at i:212102 original size:6 final size:6
Alignment explanation
Indices: 212091--212116 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
212081 TCCTTCCTCT
212091 CCATCA CCATCA CCATCA CCATCA CC
1 CCATCA CCATCA CCATCA CCATCA CC
212117 CTCCTCCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.54, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCA
Found at i:226290 original size:2 final size:2
Alignment explanation
Indices: 226285--226319 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
226275 CTGTGGAGTT
226285 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
226320 TTTGGTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:229955 original size:13 final size:15
Alignment explanation
Indices: 229937--229969 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
229927 CTTCAATTCA
229937 ATTTTT-AT-TATTT
1 ATTTTTAATATATTT
229950 ATTTTTAATATATTT
1 ATTTTTAATATATTT
229965 ATTTT
1 ATTTT
229970 ATAAAGACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 2 0.11
15 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTAATATATTT
Found at i:236677 original size:15 final size:17
Alignment explanation
Indices: 236637--236679 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
236627 ATATAATTAT
*
236637 TACAAATAAACAATATT
1 TACAAATAAACAATATA
*
236654 TAAAAATAAA-AATA-A
1 TACAAATAAACAATATA
236669 TACAAATAAAC
1 TACAAATAAAC
236680 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 9 0.41
16 4 0.18
17 9 0.41
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (17 bp):
TACAAATAAACAATATA
Found at i:237780 original size:2 final size:2
Alignment explanation
Indices: 237773--237802 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
237763 TTCTAATTAA
237773 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
237803 AAAATTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:243526 original size:138 final size:138
Alignment explanation
Indices: 243342--243618 Score: 500
Period size: 138 Copynumber: 2.0 Consensus size: 138
243332 ACCCTTGTGT
**
243342 TCGTTAAATTCGAGGGTAAAAAAAAATAAAAAAACAATTATTAAATTTTTTTGAATGTTCATTTA
1 TCGTTAAATTAAAGGGTAAAAAAAAATAAAAAAACAATTATTAAATTTTTTTGAATGTTCATTTA
*
243407 GATAACTAATTTATTTACTGTTTTTCTCAGTCTTCTTTGGCATGTAAGATTATGTATTTATATGA
66 GATAACTAATTTATTTACTGTTTTTCTCAGTCCTCTTTGGCATGTAAGATTATGTATTTATATGA
243472 CATGATCA
131 CATGATCA
243480 TCGTTAAATTAAAGGGTAAAAAAAAATAAAAAAACAATTATTAAATTTTTTTGAATGTTCATTTA
1 TCGTTAAATTAAAGGGTAAAAAAAAATAAAAAAACAATTATTAAATTTTTTTGAATGTTCATTTA
* *
243545 GATAACTAATTTGTTTACTGTTTTTCTCAGTCCTCTTTGGCATGTAAGATTGTGTATTTATATGA
66 GATAACTAATTTATTTACTGTTTTTCTCAGTCCTCTTTGGCATGTAAGATTATGTATTTATATGA
*
243610 TATGATCA
131 CATGATCA
243618 T
1 T
243619 TGTTCATTGA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (138 bp):
TCGTTAAATTAAAGGGTAAAAAAAAATAAAAAAACAATTATTAAATTTTTTTGAATGTTCATTTA
GATAACTAATTTATTTACTGTTTTTCTCAGTCCTCTTTGGCATGTAAGATTATGTATTTATATGA
CATGATCA
Found at i:243887 original size:27 final size:27
Alignment explanation
Indices: 243856--243908 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
243846 TATCATAACA
243856 TAATTCAACTACAAATAATTTAAACCC
1 TAATTCAACTACAAATAATTTAAACCC
* * **
243883 TAATTCAATTATAGGTAATTTAAACC
1 TAATTCAACTACAAATAATTTAAACC
243909 TTGTATCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (27 bp):
TAATTCAACTACAAATAATTTAAACCC
Found at i:245128 original size:96 final size:96
Alignment explanation
Indices: 244964--245157 Score: 352
Period size: 96 Copynumber: 2.0 Consensus size: 96
244954 CATCAGTTAT
* * *
244964 AATTATCCCACACTAAGTTACAAAGTTGAAGGCTGAGATGTTATAATCATCCCACAAATTGCCAT
1 AATTATCCCACACTAAGTTACAAAATTGAAGGCCGAGATGTTACAATCATCCCACAAATTGCCAT
245029 CTCCACCTTCATTTTCTCTTTCAAATTCTAG
66 CTCCACCTTCATTTTCTCTTTCAAATTCTAG
245060 AATTATCCCACACTAAGTTACAAAATTGAAGGCCGAGATGTTACAATCATCCCACAAATTGCCAT
1 AATTATCCCACACTAAGTTACAAAATTGAAGGCCGAGATGTTACAATCATCCCACAAATTGCCAT
*
245125 CTCCACCTTTATTTTCTCTTTCAAATTCTAG
66 CTCCACCTTCATTTTCTCTTTCAAATTCTAG
245156 AA
1 AA
245158 AAATTTCATC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.32
Consensus pattern (96 bp):
AATTATCCCACACTAAGTTACAAAATTGAAGGCCGAGATGTTACAATCATCCCACAAATTGCCAT
CTCCACCTTCATTTTCTCTTTCAAATTCTAG
Found at i:247839 original size:2 final size:2
Alignment explanation
Indices: 247832--247862 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
247822 TCTTGTTGTT
247832 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
247863 TTTAAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:259512 original size:34 final size:34
Alignment explanation
Indices: 259469--259537 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
259459 TGGCTGATTG
259469 TTTCTCTAAATAGTATACCCATTTATCGTTATTA
1 TTTCTCTAAATAGTATACCCATTTATCGTTATTA
259503 TTTCTCTAAATAGTATACCCATTTATCGTTATTA
1 TTTCTCTAAATAGTATACCCATTTATCGTTATTA
259537 T
1 T
259538 GATTTTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (34 bp):
TTTCTCTAAATAGTATACCCATTTATCGTTATTA
Found at i:269170 original size:8 final size:8
Alignment explanation
Indices: 269157--269212 Score: 85
Period size: 8 Copynumber: 7.0 Consensus size: 8
269147 TTTTCTCGCC
269157 CGCCCGCT
1 CGCCCGCT
269165 CGCCCGCT
1 CGCCCGCT
*
269173 CGCCCGCC
1 CGCCCGCT
* *
269181 CGCTCGCC
1 CGCCCGCT
269189 CGCCCGCT
1 CGCCCGCT
269197 CGCCCGCT
1 CGCCCGCT
269205 CGCCCGCT
1 CGCCCGCT
269213 TGCTCTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 44 1.00
ACGTcount: A:0.00, C:0.64, G:0.25, T:0.11
Consensus pattern (8 bp):
CGCCCGCT
Found at i:269176 original size:20 final size:20
Alignment explanation
Indices: 269151--269212 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
269141 TAGTTCTTTT
269151 CTCGCCCGCCCGCTCGCCCG
1 CTCGCCCGCCCGCTCGCCCG
269171 CTCGCCCGCCCGCTCGCCCG
1 CTCGCCCGCCCGCTCGCCCG
* *
269191 CCCGCTCGCCCGCTCGCCCG
1 CTCGCCCGCCCGCTCGCCCG
269211 CT
1 CT
269213 TGCTCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.00, C:0.65, G:0.24, T:0.11
Consensus pattern (20 bp):
CTCGCCCGCCCGCTCGCCCG
Found at i:269217 original size:12 final size:12
Alignment explanation
Indices: 269153--269203 Score: 84
Period size: 12 Copynumber: 4.2 Consensus size: 12
269143 GTTCTTTTCT
* *
269153 CGCCCGCCCGCT
1 CGCCCGCTCGCC
269165 CGCCCGCTCGCC
1 CGCCCGCTCGCC
269177 CGCCCGCTCGCC
1 CGCCCGCTCGCC
269189 CGCCCGCTCGCC
1 CGCCCGCTCGCC
269201 CGC
1 CGC
269204 TCGCCCGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.00, C:0.67, G:0.25, T:0.08
Consensus pattern (12 bp):
CGCCCGCTCGCC
Found at i:269294 original size:13 final size:13
Alignment explanation
Indices: 269276--269300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
269266 TTCAGAAAAC
269276 AATAAAAATAAAT
1 AATAAAAATAAAT
269289 AATAAAAATAAA
1 AATAAAAATAAA
269301 AACCAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAAATAAAT
Found at i:274694 original size:22 final size:23
Alignment explanation
Indices: 274669--274724 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
274659 GTCCAAAAAC
* *
274669 AAGCTTGTTTA-TAAATCTTTTG
1 AAGCATGTTTAGTAAATCGTTTG
* *
274691 AAGCATGTTTAGTAAGTGGTTTG
1 AAGCATGTTTAGTAAATCGTTTG
*
274714 AAGCCTGTTTA
1 AAGCATGTTTA
274725 AAAGTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (23 bp):
AAGCATGTTTAGTAAATCGTTTG
Found at i:280803 original size:3 final size:3
Alignment explanation
Indices: 280795--280834 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
280785 TTTAGCGTGC
280795 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
280835 GTTTTCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:281004 original size:15 final size:15
Alignment explanation
Indices: 280960--281011 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
280950 GTGAAGGAAA
*
280960 AAAAGAAAGAAAGAT
1 AAAAGAAAGAAAGAG
*
280975 AAAA-TAAGAAA-AG
1 AAAAGAAAGAAAGAG
280988 AAAAGAAAGAAAGAG
1 AAAAGAAAGAAAGAG
*
281003 AAAAAAAAG
1 AAAAGAAAG
281012 TACGTCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 5 0.16
14 12 0.39
15 14 0.45
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (15 bp):
AAAAGAAAGAAAGAG
Found at i:284050 original size:52 final size:51
Alignment explanation
Indices: 283987--284088 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
283977 CTTCCCCTTA
* * * *
283987 CTTATCTTACATCAGTTGTTTTGAAACACACAACATT-TTGCAAAGCTAAAGC
1 CTTATCCTACATCACTTGTTTCGAAACACA-AA-ATTCCTGCAAAGCTAAAGC
284039 CTTATCCTACATCACTTGTTTCGAAACACAAAATTCCTGCAAAGCTAAAG
1 CTTATCCTACATCACTTGTTTCGAAACACAAAATTCCTGCAAAGCTAAAG
284089 TATGCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 3 0.07
51 15 0.33
52 27 0.60
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (51 bp):
CTTATCCTACATCACTTGTTTCGAAACACAAAATTCCTGCAAAGCTAAAGC
Found at i:285702 original size:21 final size:21
Alignment explanation
Indices: 285676--285739 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
285666 AAAATAGTAA
*
285676 AAAAAATAGCTTCAAAACAAT
1 AAAAAATAGCATCAAAACAAT
*
285697 AAAAAA-A-CAATCAAAACAGT
1 AAAAAATAGC-ATCAAAACAAT
*
285717 AAAAAATAGCACCAAAACAAT
1 AAAAAATAGCATCAAAACAAT
285738 AA
1 AA
285740 TATAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.03
20 16 0.44
21 18 0.50
22 1 0.03
ACGTcount: A:0.67, C:0.16, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAAATAGCATCAAAACAAT
Done.