Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009952.1 Kokia drynarioides strain JFW-HI SEQ_124697, 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: 220972
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 6 characters in sequence are not A, C, G, or T
Found at i:1283 original size:49 final size:48
Alignment explanation
Indices: 1194--1296 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 48
1184 AGACATGATA
** * * *
1194 GGAAAGATCTAAGCCGCAACGGCAGATCCAGTGCCGCGAAGTCATGAAG
1 GGAAAGATCTAAGCCGCAACGGCAGATCCAGAACCACGAAGACA-CAAG
**
1243 GGAAAGATCTAA-CTCGCAACGGTGGATCCAGAACCACGAAGACACAAG
1 GGAAAGATCTAAGC-CGCAACGGCAGATCCAGAACCACGAAGACACAAG
1291 GGAAAG
1 GGAAAG
1297 GTTTAAGTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
48 10 0.22
49 36 0.78
ACGTcount: A:0.37, C:0.23, G:0.29, T:0.11
Consensus pattern (48 bp):
GGAAAGATCTAAGCCGCAACGGCAGATCCAGAACCACGAAGACACAAG
Found at i:1956 original size:39 final size:39
Alignment explanation
Indices: 1908--2035 Score: 132
Period size: 39 Copynumber: 3.3 Consensus size: 39
1898 AAGCCATTTG
* *
1908 ATCTTTTACCCCGAGCCTGGGGCAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAACCA
* * * * *
1947 ATCTCTTACCCCGAGCCAGAGGCAGATTA-CAACCACTCG
1 ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAAC-CA
* * *
1986 ATCTCTTACCTCGAGCTTGAGGCAGATCATCGTCAACCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAACCA
* *
2025 AACTCCTACCC
1 ATCTCTTACCC
2036 TGATCACAGT
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
38 5 0.07
39 60 0.87
40 4 0.06
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAACCA
Found at i:1995 original size:78 final size:78
Alignment explanation
Indices: 1864--2035 Score: 220
Period size: 78 Copynumber: 2.2 Consensus size: 78
1854 CTACATCGTT
* * * * * * *
1864 AACCAATCTCTTACCCCGAGCCTGGGGCAGATTGAAGCCATTTGATCTTTTACCCCGAGCCTGGG
1 AACCAATCTCTTACCCCGAGCCAGAGGCAGATTGAAACCACTCGATCTCTTACCCCGAGCCTGAG
1929 GCAGATCATCATC
66 GCAGATCATCATC
* *
1942 AACCAATCTCTTACCCCGAGCCAGAGGCAGATT-ACAACCACTCGATCTCTTACCTCGAGCTTGA
1 AACCAATCTCTTACCCCGAGCCAGAGGCAGATTGA-AACCACTCGATCTCTTACCCCGAGCCTGA
*
2006 GGCAGATCATCGTC
65 GGCAGATCATCATC
* *
2020 AACCAAACTCCTACCC
1 AACCAATCTCTTACCC
2036 TGATCACAGT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
77 1 0.01
78 80 0.99
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (78 bp):
AACCAATCTCTTACCCCGAGCCAGAGGCAGATTGAAACCACTCGATCTCTTACCCCGAGCCTGAG
GCAGATCATCATC
Found at i:2495 original size:206 final size:206
Alignment explanation
Indices: 2121--2722 Score: 981
Period size: 206 Copynumber: 2.9 Consensus size: 206
2111 CAACTCAAAG
*
2121 GTGAGCAAATCTTCGAATCCCAGCTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAAT
1 GTGAGCAAATCTTCGAATCCCAGCTTTCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAAT
* * * *
2186 GGTTAGCTTCCTGATGAGATACTGAGATGTGGACCAAATTCGTCTTCTTGATGAGATACAAAGAT
66 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAA
* * *
2251 GCAGATTGAAACAAACGACACGGTTATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAAC
131 GCAGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
2316 CCACGCTCGAT
196 CCACGCTCGAT
* *
2327 GTGAGTAAATCTTCGAATCACAGCTTTCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAAT
1 GTGAGCAAATCTTCGAATCCCAGCTTTCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAAT
* * * *
2392 AGTTAGCTTCCTGATGAAATACTGAGAAGAGGACCAAATTCGTCTTCCTGATGAGATATAGAGAA
66 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAA
* * *
2457 ACGGATTGAAACAAACGACGTGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
131 GCAGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
*
2522 CCATGCTCGAT
196 CCACGCTCGAT
*
2533 GTGAGCAAATCTTCGAATCCCATC-TTCTTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAA
1 GTGAGCAAATCTTCGAATCCCAGCTTTC-TGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAA
* * *
2597 TGGTTAGCTTTCTGATGAGATTCTGAGAAGTGGACCAAATTCGTCTTCTTGATGTGATATAGAGA
65 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGA
*
2662 AGCAGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGGAGAAGACCAAAT
130 AGCAGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAAT
2723 TTGTCCTCCT
Statistics
Matches: 363, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
205 3 0.01
206 360 0.99
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (206 bp):
GTGAGCAAATCTTCGAATCCCAGCTTTCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAAAAT
GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAA
GCAGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
CCACGCTCGAT
Found at i:2719 original size:86 final size:86
Alignment explanation
Indices: 2608--2808 Score: 296
Period size: 86 Copynumber: 2.3 Consensus size: 86
2598 GGTTAGCTTT
* ** * * * *
2608 CTGATGAGATTCTGAGAAGTGGACCAAATTCGTCTTCTTGATGTGATATAGAGAAGC-AGATTGA
1 CTGATGAGATACTGAGAAGAAGACCAAATTCGTCCTCCTAATGTGATACAGAGAAGCGA-ATTGA
2672 AACAAACGACGCGGTCATCTTC
65 AACAAACGACGCGGTCATCTTC
* *
2694 CTGATGAGATACTGAGGAGAAGACCAAATTTGTCCTCCTAATGTGATACAGAGAAGCGAATTGAA
1 CTGATGAGATACTGAGAAGAAGACCAAATTCGTCCTCCTAATGTGATACAGAGAAGCGAATTGAA
2759 ACAAACGACGCGGTCATCTTC
66 ACAAACGACGCGGTCATCTTC
*
2780 ATGATGAGATACTGAGAAGAAGACCAAAT
1 CTGATGAGATACTGAGAAGAAGACCAAAT
2809 CAAACTCACG
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 102 0.99
87 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (86 bp):
CTGATGAGATACTGAGAAGAAGACCAAATTCGTCCTCCTAATGTGATACAGAGAAGCGAATTGAA
ACAAACGACGCGGTCATCTTC
Found at i:2776 original size:292 final size:292
Alignment explanation
Indices: 2398--3012 Score: 847
Period size: 292 Copynumber: 2.1 Consensus size: 292
2388 AAATAGTTAG
* * * * * *
2398 CTTCCTGATGAAATACTGAGAAGAGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAACGGAT
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATTCGTCCTCCTAATGAGATACAGAGAAACGAAT
* * *
2463 TGAAACAAACGACGTGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCATGC
66 TGAAACAAACGACGCGGTCATCTTCATGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
* *
2528 TCGATGTGAGCAAATCTTCGAATCCCAT-C-TTCTTGATGAGATACTGAGAAGCGGGTCGAAGCA
131 TCGATGTGAGCAAATCTTCGAA-CCCATGCTTTC-TGATGAGACACTGAGAAGCAGGTCGAAGCA
** * * * * * ** *
2591 ATAAAATGGTTAGCTTTCTGATGAGATTCTGAGAAGTGGACCAAATTCGTCTTCTTGATGTGATA
194 ATAAAATGGTTAGCTCCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACA
** *
2656 TAGAGAAGCAGATTGAAACAAACGACGCGGTCAT
259 TAGAGAAGCAGATCAAAACAAACGACGCGGTCAC
* * * *
2690 CTTCCTGATGAGATACTGAGGAGAAGACCAAATTTGTCCTCCTAATGTGATACAGAGAAGCGAAT
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATTCGTCCTCCTAATGAGATACAGAGAAACGAAT
*
2755 TGAAACAAACGACGCGGTCATCTTCATGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGC
66 TGAAACAAACGACGCGGTCATCTTCATGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
* *
2820 TCGATGTGAGCAAATCTTCGAACCCTTGCTTTCTGATGAGACACTGAGAAGCATGTCGAAGCAAT
131 TCGATGTGAGCAAATCTTCGAACCCATGCTTTCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT
*
2885 AAAGTGGTTAGCTCCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACATA
196 AAAATGGTTAGCTCCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACATA
** * ** *
2950 GAGAAGTGGATCAAAATAAGTGATGCGGTCAC
261 GAGAAGCAGATCAAAACAAACGACGCGGTCAC
*
2982 CTTCCTGATGAGATACTGAGAAGAAGGCCAA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAA
3013 GTCAATGAAA
Statistics
Matches: 281, Mismatches: 40, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
291 4 0.01
292 274 0.98
293 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (292 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATTCGTCCTCCTAATGAGATACAGAGAAACGAAT
TGAAACAAACGACGCGGTCATCTTCATGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGC
TCGATGTGAGCAAATCTTCGAACCCATGCTTTCTGATGAGACACTGAGAAGCAGGTCGAAGCAAT
AAAATGGTTAGCTCCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACATA
GAGAAGCAGATCAAAACAAACGACGCGGTCAC
Found at i:3369 original size:17 final size:18
Alignment explanation
Indices: 3346--3438 Score: 113
Period size: 17 Copynumber: 5.3 Consensus size: 18
3336 CCAAACTCAT
3346 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
* *
3364 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
*
3381 TTTAAATTCATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
3398 TTTAAATTTAATTTAAG-
1 TTTAAATTTATTTTAAGA
3415 TTTAAATTTATTTTCAA-A
1 TTTAAATTTATTTT-AAGA
3433 TTTAAA
1 TTTAAA
3439 GTAAATAATG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
17 43 0.67
18 21 0.33
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:3385 original size:35 final size:34
Alignment explanation
Indices: 3346--3438 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 34
3336 CCAAACTCAT
**
3346 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTT-AAA
* *
3381 TTTAAATTCATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
3415 TTTAAATTTATTTTCAAATTTAAA
1 TTTAAATTTATTTT-AAATTTAAA
3439 GTAAATAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 16 0.31
35 35 0.69
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
Found at i:3401 original size:6 final size:6
Alignment explanation
Indices: 3378--3438 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
3368 ATTTGTTTTA
* * *
3378 AAATTT AAA-TT CATTTT AAATTT AAATTT -AATTT AAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
3424 -ATTTT CAAATTT AAA
1 AAATTT -AAATTT AAA
3439 GTAAATAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
5 12 0.28
6 27 0.63
7 4 0.09
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:3408 original size:23 final size:23
Alignment explanation
Indices: 3378--3424 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3368 ATTTGTTTTA
* *
3378 AAATTTAAATTCATTTTAAATTT
1 AAATTTAAATTAAGTTTAAATTT
*
3401 AAATTTAATTTAAGTTTAAATTT
1 AAATTTAAATTAAGTTTAAATTT
3424 A
1 A
3425 TTTTCAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATTTAAATTAAGTTTAAATTT
Found at i:3410 original size:11 final size:11
Alignment explanation
Indices: 3379--3437 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
3369 TTTGTTTTAA
*
3379 AATTTAAATTC
1 AATTTAAATTT
*
3390 ATTTTAAATTT
1 AATTTAAATTT
3401 AAATTT-AATTT
1 -AATTTAAATTT
3412 AAGTTTAAATTT
1 AA-TTTAAATTT
*
3424 ATTTTCAAATTT
1 AATTT-AAATTT
3436 AA
1 AA
3438 AGTAAATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.05
11 20 0.51
12 17 0.44
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:3679 original size:19 final size:20
Alignment explanation
Indices: 3640--3680 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3630 CAGCAACTTG
**
3640 CACCACTGCTCACCTGCCAC
1 CACCACTGCTCACAAGCCAC
3660 CACCACTGCT-ACAAGCCAC
1 CACCACTGCTCACAAGCCAC
3679 CA
1 CA
3681 TAGCTGACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.27, C:0.51, G:0.10, T:0.12
Consensus pattern (20 bp):
CACCACTGCTCACAAGCCAC
Found at i:4178 original size:22 final size:22
Alignment explanation
Indices: 4153--4198 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
4143 GTATTGAATG
*
4153 AATATTAATAATAATAATATTA
1 AATAATAATAATAATAATATTA
*
4175 AATAATAATAATAATAGTATTA
1 AATAATAATAATAATAATATTA
4197 AA
1 AA
4199 AAAAATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AATAATAATAATAATAATATTA
Found at i:4180 original size:16 final size:15
Alignment explanation
Indices: 4153--4187 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
4143 GTATTGAATG
4153 AATATTAATAATAAT
1 AATATTAATAATAAT
4168 AATATTAAATAATAAT
1 AATATT-AATAATAAT
4184 AATA
1 AATA
4188 ATAGTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATTAATAATAAT
Found at i:5334 original size:29 final size:28
Alignment explanation
Indices: 5267--5525 Score: 204
Period size: 29 Copynumber: 9.0 Consensus size: 28
5257 TGGAGGCCCA
* * *
5267 TAAACTGTCTAAAAATTATATTTTGACCC
1 TAAACTTTC-AAAAATTACATTTTTACCC
** * *
5296 TCGACTTTTCCAAAATTATATTTTTGACCC
1 TAAAC-TTTCAAAAATTACATTTTT-ACCC
* *
5326 TAAACTTTCCAAAATTTCATTTTTACCTC
1 TAAACTTTCAAAAATTACATTTTTACC-C
* **
5355 GAAAC-TT-AAAAAAAACATTTTTACCC
1 TAAACTTTCAAAAATTACATTTTTACCC
5381 TCAAAC-TTCTAAAAATTACATTTTTACCCC
1 T-AAACTTTC-AAAAATTACATTTTTA-CCC
*
5411 CAAACTTTC-AAAATTACATTTTTACCCC
1 TAAACTTTCAAAAATTACATTTTTA-CCC
** *
5439 CGAACTTCCAAAAATTACATTTTTACCCC
1 TAAACTTTCAAAAATTACATTTTTA-CCC
5468 TAAACTTTCAAAAATT-CAATTTTTGACCC
1 TAAACTTTCAAAAATTAC-ATTTTT-ACCC
* **
5497 AAAAGCTTTCAAAAATTACCCTTTTACCC
1 TAAA-CTTTCAAAAATTACATTTTTACCC
5526 ACGGATGTCC
Statistics
Matches: 191, Mismatches: 26, Indels: 26
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.01
27 20 0.10
28 32 0.17
29 104 0.54
30 33 0.17
31 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (28 bp):
TAAACTTTCAAAAATTACATTTTTACCC
Found at i:5452 original size:57 final size:57
Alignment explanation
Indices: 5306--5525 Score: 207
Period size: 57 Copynumber: 3.8 Consensus size: 57
5296 TCGACTTTTC
* * * * *
5306 CAAAATTATATTTTTGA-CCCTAAACTTTCC-AAAATTTCATTTTTACCTCGAAAC-TT
1 CAAAATTACATTTTT-ACCCCCAAAC-TTCCAAAAATTACATTTTTACCCCCAAACTTT
* ** * *
5362 AAAAAAAACATTTTTACCCTCAAACTTCTAAAAATTACATTTTTACCCCCAAACTTT
1 CAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTT
* *
5419 CAAAATTACATTTTTACCCCCGAACTTCCAAAAATTACATTTTTACCCCTAAACTTT
1 CAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTT
* * **
5476 CAAAAATT-CAATTTTTGA-CCCAAAAGCTTTCAAAAATTACCCTTTTACCC
1 C-AAAATTAC-ATTTTT-ACCCCCAAA-CTTCCAAAAATTACATTTTTACCC
5526 ACGGATGTCC
Statistics
Matches: 135, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
55 4 0.03
56 38 0.28
57 54 0.40
58 17 0.13
59 22 0.16
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (57 bp):
CAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCCCAAACTTT
Found at i:12275 original size:11 final size:11
Alignment explanation
Indices: 12259--12283 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12249 GAACAATCTG
12259 AATATTTTTTT
1 AATATTTTTTT
12270 AATATTTTTTT
1 AATATTTTTTT
12281 AAT
1 AAT
12284 TGAGTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:13426 original size:85 final size:84
Alignment explanation
Indices: 13283--13452 Score: 295
Period size: 85 Copynumber: 2.0 Consensus size: 84
13273 ATGCGCTTTA
* *
13283 CAAAAGTGCTTCCACATCAATGCGTTTTTTCTTGTCCCAACGATCAATTCCAACAGCTATTTGAA
1 CAAAAGCGCTTCCACATCAATGCGTTTTTTCTTGTCCCAACGATCAATTCCAACAGCTATTCGAA
13348 ATAGACATTGGACCCCTCCC
66 ATAGACATTGGA-CCCTCCC
* *
13368 CAAAAGCGCTTCCATATCAATGCGTTTTTTCTTGTCCCAACGGTCAATTCCAACAGCTATTCGAA
1 CAAAAGCGCTTCCACATCAATGCGTTTTTTCTTGTCCCAACGATCAATTCCAACAGCTATTCGAA
13433 ATAGACATTGGACCCTCCC
66 ATAGACATTGGACCCTCCC
13452 C
1 C
13453 CCAACGGTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
84 8 0.10
85 73 0.90
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (84 bp):
CAAAAGCGCTTCCACATCAATGCGTTTTTTCTTGTCCCAACGATCAATTCCAACAGCTATTCGAA
ATAGACATTGGACCCTCCC
Found at i:14340 original size:21 final size:21
Alignment explanation
Indices: 14314--14368 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
14304 CGCAGATTAG
*
14314 TACCGATACAAGTGACAGTTC
1 TACCGATACAAGTGACACTTC
*
14335 TACCGATACAAGTGACTCTTC
1 TACCGATACAAGTGACACTTC
14356 TACCGATACAAGT
1 TACCGATACAAGT
14369 CTTACCTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
TACCGATACAAGTGACACTTC
Found at i:14560 original size:17 final size:17
Alignment explanation
Indices: 14535--14568 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14525 CTCCTACCCT
14535 ATACGTCTACCGATACA
1 ATACGTCTACCGATACA
* *
14552 ATACTTCTACTGATACA
1 ATACGTCTACCGATACA
14569 CGCATGGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (17 bp):
ATACGTCTACCGATACA
Found at i:18682 original size:116 final size:115
Alignment explanation
Indices: 18457--18706 Score: 369
Period size: 116 Copynumber: 2.2 Consensus size: 115
18447 TTACGCAATG
* * *
18457 CTGCCCACACAAGCTGTGGAGAATCTGTAACAAATATCGAATCTCAGCCATTAGTAGAACATCTA
1 CTGCTCACACGAGCTGTGGAGAATCCGTAACAAATATCGAATCTCAGCCATTAGTAGAACATCTA
* * *
18522 AGACCAGCACCCATATAACATGTAATGCTCACACGAGCTATGAAGTGGGC
66 AGACCAACAACCATATAACATGTAATGCTCACACGAGCTATGAAGTGAGC
* * *
18572 CTGCTCAACACGAGTTGTGGAGAATCCGTAACAAATGTC-AGATCTCAGCCATTGGTAGAACATC
1 CTGCTC-ACACGAGCTGTGGAGAATCCGTAACAAATATCGA-ATCTCAGCCATTAGTAGAACATC
*
18636 TAAGACCAACAACCATATAACATGTAATGCTCACACGAG-TCGTGAAGTGAGC
64 TAAGACCAACAACCATATAACATGTAATGCTCACACGAGCT-ATGAAGTGAGC
18688 CTGCTCACACGAGCTGTGG
1 CTGCTCACACGAGCTGTGG
18707 GCCGAGATGT
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
115 19 0.16
116 102 0.84
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (115 bp):
CTGCTCACACGAGCTGTGGAGAATCCGTAACAAATATCGAATCTCAGCCATTAGTAGAACATCTA
AGACCAACAACCATATAACATGTAATGCTCACACGAGCTATGAAGTGAGC
Found at i:26176 original size:158 final size:158
Alignment explanation
Indices: 25888--26368 Score: 640
Period size: 158 Copynumber: 3.0 Consensus size: 158
25878 ATCTCCGAAT
* ** * *
25888 CATGTAGTGCTCACACGAGCTGTGAAATGGGTTTGCTCACACGAGCTGTGGGTCAAGATGTTAGG
1 CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTTAAG
* * *
25953 CTACGCAATACTGCTCACACGAGCTGTAGAGAA-TCTGCAACAAATGTCGGATCTCAGCTGTTGG
66 CTACGAAATACTGCTCACACGAGCTGTGGAGAATTC-GCAACAAATGTCGGATCTCAGCTATTGG
26017 TAAAACATCTAAGACCAGCACCCATATAA
130 TAAAACATCTAAGACCAGCACCCATATAA
* * *
26046 CATGTAATGCTTACACGAGCTGTGAAGTGGACCTGCTCACACGAGCTGTGGGTCGAGATGTTAAG
1 CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTTAAG
* * * *
26111 CTACGTAATGCTGCTCACACGAACTATGGAGAATTCGCAACAAATGTCGGATCTCAGCTATTGGT
66 CTACGAAATACTGCTCACACGAGCTGTGGAGAATTCGCAACAAATGTCGGATCTCAGCTATTGGT
* * *
26176 AGAACTTCTAAGACCAGTACCCATATAA
131 AAAACATCTAAGACCAGCACCCATATAA
* ** * *
26204 CATGTAATGCTCACACAAGCTACGAAATGGGCCTTCTCACATGAGCTGTGGGTCGAGATGTTAAG
1 CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTTAAG
* * * ** * * * * *
26269 CTACGAAATTCTGCTCACACGAGCTGTGGAGAATCCACAATGAATGCCTGATCTCAACCATCGGT
66 CTACGAAATACTGCTCACACGAGCTGTGGAGAATTCGCAACAAATGTCGGATCTCAGCTATTGGT
*
26334 AAAACATCTAAGACCAGCAACCATATAA
131 AAAACATCTAAGACCAGCACCCATATAA
26362 CATGTAA
1 CATGTAA
26369 ATCTCGAAAT
Statistics
Matches: 280, Mismatches: 42, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
158 278 0.99
159 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (158 bp):
CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCGAGATGTTAAG
CTACGAAATACTGCTCACACGAGCTGTGGAGAATTCGCAACAAATGTCGGATCTCAGCTATTGGT
AAAACATCTAAGACCAGCACCCATATAA
Found at i:31962 original size:14 final size:15
Alignment explanation
Indices: 31943--31971 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31933 ACCATCTTCA
31943 CATCATAAT-ATAAT
1 CATCATAATAATAAT
31957 CATCATAATAATAAT
1 CATCATAATAATAAT
31972 ATACCTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
CATCATAATAATAAT
Found at i:34316 original size:43 final size:43
Alignment explanation
Indices: 34263--34345 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
34253 CCAAAAACCG
*
34263 TAATTAATAAAAACA-ATAAAATTACATAAAACACTAAAACTCA
1 TAATTAATAAAAACATA-AAAATTAAATAAAACACTAAAACTCA
** *
34306 TAATTAATAAACGCTTAAAAATTAAATAAAACACTAAAAC
1 TAATTAATAAAAACATAAAAATTAAATAAAACACTAAAAC
34346 CCTAAACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.24
Consensus pattern (43 bp):
TAATTAATAAAAACATAAAAATTAAATAAAACACTAAAACTCA
Found at i:34335 original size:19 final size:19
Alignment explanation
Indices: 34307--34375 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
34297 TAAAACTCAT
34307 AATT-AATAAACGCTTAAA
1 AATTAAATAAACGCTTAAA
*
34325 AATTAAATAAAACAC-TAAA
1 AATTAAAT-AAACGCTTAAA
** *
34344 ACCCTAAACTTAAACGCTTACA
1 A-ATTAAA--TAAACGCTTAAA
34366 AATTAAATAA
1 AATTAAATAA
34376 TTCCTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
18 4 0.11
19 11 0.29
20 9 0.24
21 9 0.24
22 5 0.13
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.25
Consensus pattern (19 bp):
AATTAAATAAACGCTTAAA
Found at i:34370 original size:41 final size:42
Alignment explanation
Indices: 34280--34375 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 42
34270 TAAAAACAAT
*
34280 AAAATTACATAAAACACTAAAACTCATAATTAATAAACGCTTA
1 AAAATTAAATAAAACACTAAAACTCATAA-TAATAAACGCTTA
* *
34323 AAAATTAAATAAAACACTAAAAC-CCTAA-ACTTAAACGCTTA
1 AAAATTAAATAAAACACTAAAACTCATAATA-ATAAACGCTTA
*
34364 CAAATTAAATAA
1 AAAATTAAATAA
34376 TTCCTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 1 0.02
41 21 0.44
42 4 0.08
43 22 0.46
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (42 bp):
AAAATTAAATAAAACACTAAAACTCATAATAATAAACGCTTA
Found at i:34411 original size:21 final size:21
Alignment explanation
Indices: 34381--34458 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
34371 AATAATTCCT
*
34381 TAAAACCTAATTT-AAAATACA
1 TAAACCCTAATTTAAAAAT-CA
**
34402 TTGACCCTAATTTTAAAAATCA
1 TAAACCCTAA-TTTAAAAATCA
34424 TAAACCCTAATTTTAATAAAT-A
1 TAAACCCTAA-TTTAA-AAATCA
*
34446 CTAAACCTTAATT
1 -TAAACCCTAATT
34459 ACCAATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 7 0.15
22 22 0.47
23 18 0.38
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (21 bp):
TAAACCCTAATTTAAAAATCA
Found at i:34450 original size:23 final size:22
Alignment explanation
Indices: 34405--34458 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
34395 AAATACATTG
34405 ACCCTAATTTTAAAAATCATAA
1 ACCCTAATTTTAAAAATCATAA
34427 ACCCTAATTTTAATAAAT-ACTAA
1 ACCCTAATTTTAA-AAATCA-TAA
*
34450 ACCTTAATT
1 ACCCTAATT
34459 ACCAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (22 bp):
ACCCTAATTTTAAAAATCATAA
Found at i:34494 original size:15 final size:15
Alignment explanation
Indices: 34474--34503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34464 TTAAACCCTT
*
34474 AAAAAACACAAAAAC
1 AAAAAAAACAAAAAC
34489 AAAAAAAACAAAAAC
1 AAAAAAAACAAAAAC
34504 GCGTCCACGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAAAC
Found at i:40757 original size:21 final size:22
Alignment explanation
Indices: 40707--40758 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
40697 ATTTGCATGT
* *
40707 GTTCATATTTATAAGACTGCTT
1 GTTCTTATTTATAAGACTGCTC
40729 GTTCTTATTTATAAGACTGCTC
1 GTTCTTATTTATAAGACTGCTC
40751 G-TCTTATT
1 GTTCTTATT
40759 ATCAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (22 bp):
GTTCTTATTTATAAGACTGCTC
Found at i:41054 original size:10 final size:10
Alignment explanation
Indices: 41041--41147 Score: 61
Period size: 10 Copynumber: 11.1 Consensus size: 10
41031 TTATTTAAGC
41041 TTAAAAATTA
1 TTAAAAATTA
41051 TTAAAACATTA
1 TTAAAA-ATTA
41062 -TAAAAATT-
1 TTAAAAATTA
*
41070 TAAAAAATTA
1 TTAAAAATTA
41080 -TAGAAAATCTA
1 TTA-AAAAT-TA
41091 -T-AAAATTAA
1 TTAAAAATT-A
* *
41100 TTAAATATCA
1 TTAAAAATTA
41110 -T-AAAATT-
1 TTAAAAATTA
41117 TTAAAACATTA
1 TTAAAA-ATTA
*
41128 -TAAAAACTA
1 TTAAAAATTA
*
41137 TTAAATATTA
1 TTAAAAATTA
41147 T
1 T
41148 AAATATTACT
Statistics
Matches: 75, Mismatches: 9, Indels: 26
0.68 0.08 0.24
Matches are distributed among these distances:
8 6 0.08
9 24 0.32
10 34 0.45
11 11 0.15
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:41096 original size:48 final size:46
Alignment explanation
Indices: 41044--41155 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 46
41034 TTTAAGCTTA
*
41044 AAAATTATTAAAACATTATAAAAATTTAAAAAATTATAGAAAATCTAT
1 AAAATTATTAAAATATTATAAAAATTTAAAAAATTATA-AAAA-CTAT
* * *
41092 AAAATTAATT-AAATATCATAAAATTTTAAAACATTATAAAAACTAT
1 AAAATT-ATTAAAATATTATAAAAATTTAAAAAATTATAAAAACTAT
*
41138 TAAA-TATTATAAATATTA
1 AAAATTATTA-AAATATTA
41156 CTAAGATCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
44 3 0.05
45 1 0.02
46 14 0.25
47 4 0.07
48 30 0.55
49 3 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (46 bp):
AAAATTATTAAAATATTATAAAAATTTAAAAAATTATAAAAACTAT
Found at i:41274 original size:9 final size:9
Alignment explanation
Indices: 41042--41278 Score: 104
Period size: 9 Copynumber: 24.2 Consensus size: 9
41032 TATTTAAGCT
41042 TAAAAATTA
1 TAAAAATTA
41051 TTAAAACATTA
1 -TAAAA-ATTA
41062 TAAAAATT-
1 TAAAAATTA
41070 TAAAAAATTA
1 T-AAAAATTA
41080 TAGAAAATCTA
1 TA-AAAAT-TA
41091 T-AAAATTAA
1 TAAAAATT-A
* *
41100 TTAAATATCA
1 -TAAAAATTA
*
41110 T-AAAATTT
1 TAAAAATTA
41118 TAAAACATTA
1 TAAAA-ATTA
*
41128 TAAAAACTA
1 TAAAAATTA
*
41137 TTAAATATTA
1 -TAAAAATTA
*
41147 TAAATATTA
1 TAAAAATTA
**
41156 CTAAGATCTTA
1 -TAA-AAATTA
41167 TGAAAATATTA
1 T-AAAA-ATTA
41178 -AATAGATATTA
1 TAA-A-A-ATTA
*
41189 TAAAAAATA
1 TAAAAATTA
*
41198 TAGAAAATAA
1 TA-AAAATTA
* *
41208 TTAAAATGA
1 TAAAAATTA
41217 TAAAAATCTA
1 TAAAAAT-TA
41227 TAAAAATGTTA
1 TAAAAA--TTA
41238 TAAAAACTTA
1 TAAAAA-TTA
* *
41248 TTAGAAGTATA
1 -TAAAAAT-TA
*
41259 AAAAAATTA
1 TAAAAATTA
41268 TAAAAATTA
1 TAAAAATTA
41277 TA
1 TA
41279 TATATATATA
Statistics
Matches: 177, Mismatches: 26, Indels: 49
0.70 0.10 0.19
Matches are distributed among these distances:
8 7 0.04
9 64 0.36
10 61 0.34
11 42 0.24
12 3 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:41278 original size:20 final size:19
Alignment explanation
Indices: 41043--41278 Score: 104
Period size: 19 Copynumber: 12.0 Consensus size: 19
41033 ATTTAAGCTT
41043 AAAAATTATTAAAACATTATA
1 AAAAATTA-TAAAA-ATTATA
*
41064 AAAATTTA-AAAAATTATA
1 AAAAATTATAAAAATTATA
* *
41082 GAAAATCTAT-AAAATTAATT
1 AAAAAT-TATAAAAATT-ATA
* * *
41102 AAATATCAT-AAAATTTTA
1 AAAAATTATAAAAATTATA
* * *
41120 AAACATTATAAAAACTATT
1 AAAAATTATAAAAATTATA
* *
41139 AAATATTATAAATATTACTA
1 AAAAATTATAAAAATTA-TA
* **
41159 AGATCTTATGAAAATATTA-A
1 AAAAATTAT-AAAA-ATTATA
* *
41179 ATAGATATTATAAAAAATATA
1 A-A-AAATTATAAAAATTATA
* * * *
41200 GAAAATAATTAAAATGAT-
1 AAAAATTATAAAAATTATA
41218 AAAAATCTATAAAAATGTTATA
1 AAAAAT-TATAAAAA--TTATA
* * * *
41240 AAAACTTATTAGAAGTATAA
1 AAAAATTATAAAAATTAT-A
41260 AAAAATTATAAAAATTATA
1 AAAAATTATAAAAATTATA
41279 TATATATATA
Statistics
Matches: 158, Mismatches: 42, Indels: 32
0.68 0.18 0.14
Matches are distributed among these distances:
18 23 0.15
19 61 0.39
20 35 0.22
21 24 0.15
22 15 0.09
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAAATTATA
Found at i:41551 original size:9 final size:9
Alignment explanation
Indices: 41516--41567 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
41506 GTAATTTTTA
41516 ATTAAAATT
1 ATTAAAATT
*
41525 TTTAAAATT
1 ATTAAAATT
41534 -TTAAAATT
1 ATTAAAATT
*
41542 ATTAATATT
1 ATTAAAATT
*
41551 ATTAGAA-T
1 ATTAAAATT
*
41559 ATTATAATT
1 ATTAAAATT
41568 TTTTAAGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 15 0.42
9 21 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (9 bp):
ATTAAAATT
Found at i:50125 original size:15 final size:16
Alignment explanation
Indices: 50105--50135 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50095 TTTAAATTAT
50105 ATAACAT-ATATAAAA
1 ATAACATAATATAAAA
50120 ATAACATAATATAAAA
1 ATAACATAATATAAAA
50136 TATTATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAACATAATATAAAA
Found at i:68346 original size:21 final size:21
Alignment explanation
Indices: 68322--68378 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
68312 TGTATACTTT
68322 TAATATAAAATATTTTTAAAA
1 TAATATAAAATATTTTTAAAA
* *
68343 TAATATAAATTA-TTTTATAA
1 TAATATAAAATATTTTTAAAA
68363 -AATA-AAAATATTTTTA
1 TAATATAAAATATTTTTA
68379 TATTAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 7 0.22
21 11 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATAAAATATTTTTAAAA
Found at i:68377 original size:19 final size:20
Alignment explanation
Indices: 68322--68385 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
68312 TGTATACTTT
*
68322 TAATATAAAATATTTTTAAAA
1 TAATA-AAAATATTTTTATAA
*
68343 TAATATAAAT-TATTTTATAA
1 TAATAAAAATAT-TTTTATAA
*
68363 -AATAAAAATATTTTTATAT
1 TAATAAAAATATTTTTATAA
68382 TAAT
1 TAAT
68386 TAAATTGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 16 0.44
20 15 0.42
21 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATAAAAATATTTTTATAA
Found at i:68411 original size:38 final size:38
Alignment explanation
Indices: 68322--68411 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 38
68312 TGTATACTTT
* *
68322 TAATATAAAATATTTTTAAAATAATATAAATTATTTTA
1 TAATATAAAATATTTTTAAAATAATATAAATTACTATA
* * * * *
68360 TAAAATAAAAATATTTTTATATTAAT-TAAATTGCTATC
1 TAATAT-AAAATATTTTTAAAATAATATAAATTACTATA
68398 TAATATAATAATAT
1 TAATATAA-AATAT
68412 GCTACAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 2 0.05
38 23 0.55
39 17 0.40
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (38 bp):
TAATATAAAATATTTTTAAAATAATATAAATTACTATA
Found at i:68836 original size:3 final size:3
Alignment explanation
Indices: 68818--68857 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
68808 TGAACATCAA
*
68818 ATT ATT GTT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
68858 GTTATGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:71834 original size:58 final size:58
Alignment explanation
Indices: 71744--71864 Score: 224
Period size: 58 Copynumber: 2.1 Consensus size: 58
71734 TTGTTCTCAA
* *
71744 TGAAAATTTGTTGTTAAAAACTCACTAGCTAAAGTTGAGATCTGATGTCTTGCATTTC
1 TGAAAATTGGTTGTTAAAAACTCACTAGCTAAAGTTGAGATCTAATGTCTTGCATTTC
71802 TGAAAATTGGTTGTTAAAAACTCACTAGCTAAAGTTGAGATCTAATGTCTTGCATTTC
1 TGAAAATTGGTTGTTAAAAACTCACTAGCTAAAGTTGAGATCTAATGTCTTGCATTTC
71860 TGAAA
1 TGAAA
71865 TGAATATGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (58 bp):
TGAAAATTGGTTGTTAAAAACTCACTAGCTAAAGTTGAGATCTAATGTCTTGCATTTC
Found at i:76233 original size:22 final size:21
Alignment explanation
Indices: 76208--76256 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
76198 GAATAGTATT
76208 GATTATAAATAGGTTTAA-TAAA
1 GATTA-AAA-AGGTTTAATTAAA
*
76230 GATTAAAAATGTTTAATTAAA
1 GATTAAAAAGGTTTAATTAAA
*
76251 GCTTAA
1 GATTAA
76257 TGATGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (21 bp):
GATTAAAAAGGTTTAATTAAA
Found at i:77164 original size:41 final size:41
Alignment explanation
Indices: 77108--77261 Score: 227
Period size: 41 Copynumber: 3.8 Consensus size: 41
77098 TAAATAGAAT
*
77108 ACTCATGTCTGGAGATGAGAATGAGATTATGAATAAGAAAG
1 ACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGAAAG
77149 ACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGAAAG
1 ACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGAAAG
* * * * *
77190 ACTCATGTCTCGAAATGAGAATGAGATTTTGATTCAGGAAG
1 ACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGAAAG
* * *
77231 ACTCATGTCTCGAGTTAAGAATGAGAATATG
1 ACTCATGTCTCGAGATGAGAATGAGATTATG
77262 GTTAAAGGAA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (41 bp):
ACTCATGTCTCGAGATGAGAATGAGATTATGAATAAGAAAG
Found at i:78722 original size:20 final size:20
Alignment explanation
Indices: 78675--78722 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
78665 CAAATAGATT
78675 TCGATTAAAAAATTAATAAA
1 TCGATTAAAAAATTAATAAA
* *
78695 TAGGTTAAAAAATTAATAAA
1 TCGATTAAAAAATTAATAAA
78715 TCGATTAA
1 TCGATTAA
78723 TGAGATATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (20 bp):
TCGATTAAAAAATTAATAAA
Found at i:85627 original size:17 final size:17
Alignment explanation
Indices: 85605--85684 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
85595 AGCCCAACAG
85605 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* *
85622 ATTTAAGTTTATATTAA
1 ATTTAAATTTATTTTAA
* **
85639 ATTT-AATTCCATTTGGA
1 ATTTAAATT-TATTTTAA
* *
85656 GTTTAAATTTATTATAA
1 ATTTAAATTTATTTTAA
*
85673 ATATTAAGTTTA
1 AT-TTAAATTTA
85685 AATTTATTTA
Statistics
Matches: 46, Mismatches: 14, Indels: 5
0.71 0.22 0.08
Matches are distributed among these distances:
16 3 0.07
17 31 0.67
18 12 0.26
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:86470 original size:3 final size:3
Alignment explanation
Indices: 86462--86554 Score: 55
Period size: 3 Copynumber: 30.3 Consensus size: 3
86452 TTGGTAACAT
* * * *
86462 TAA TAA TAA TAT TAA TAA TAA TAA -ATA TAA TAC TAA TAA CAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * *
86507 TAA TAT TAA TAA CT-G TAA TAA TAA TTAT TAT TAA TAA TTAA TAT TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA
86554 T
1 T
86555 TTTTAATAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
2 2 0.03
3 59 0.87
4 7 0.10
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:86543 original size:13 final size:13
Alignment explanation
Indices: 86507--86554 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
86497 ATAACATTAA
*
86507 TAATATTAATAAC
1 TAATATTAATAAT
* *
86520 T-GTAATAATAAT
1 TAATATTAATAAT
*
86532 TATTATTAATAAT
1 TAATATTAATAAT
86545 TAATATTAAT
1 TAATATTAAT
86555 TTTTAATAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
TAATATTAATAAT
Found at i:87661 original size:29 final size:30
Alignment explanation
Indices: 87558--87882 Score: 151
Period size: 29 Copynumber: 10.9 Consensus size: 30
87548 AAGGTCCCTA
* * * *
87558 AACTATCCAAAAATTACATTTTAAACCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCG
87588 AACTTTCC-AAAATT-CAATTTTTTTTTACCC-CG
1 AACTTTCCAAAAATTAC-A----TTTTTACCCTCG
*
87620 AACTTTCCTAAAATTACATTTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTTACCCTCG
* **
87650 AACTTTCC-AAAATTCCATTTTTGTCCTCG
1 AACTTTCCAAAAATTACATTTTTACCCTCG
**
87679 ATTTTTCCAAAAATTACCA-TTTTACCC-CGTG
1 AACTTTCCAAAAATTA-CATTTTTACCCTC--G
**
87710 AAC-TTCCAAAAATGCCATTTTTTACCC-C-
1 AACTTTCCAAAAATTACA-TTTTTACCCTCG
*
87738 AATTTTTCCAAAAATTACCA-TTTTACCCTCG
1 AA-CTTTCCAAAAATTA-CATTTTTACCCTCG
* * * * *
87769 AA-TATCTAAAAATTCCGTTTTTGA-CCTTG
1 AACTTTCCAAAAATTACATTTTT-ACCCTCG
** * *
87798 ATTTTTCC-AAAATTACAATTTTACCCTTG
1 AACTTTCCAAAAATTACATTTTTACCCTCG
* * * * * *
87827 GA-TGTCTAAAAATTCCGTTGTTGA-CCTCG
1 AACTTTCCAAAAATTACATT-TTTACCCTCG
*
87856 AACTTTCCCAAAATTACCA-TTTTACCC
1 AACTTTCCAAAAATTA-CATTTTTACCC
87883 CCAAGTGTCT
Statistics
Matches: 221, Mismatches: 46, Indels: 56
0.68 0.14 0.17
Matches are distributed among these distances:
28 8 0.04
29 102 0.46
30 69 0.31
31 18 0.08
32 9 0.04
33 14 0.06
34 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTTACCCTCG
Found at i:87702 original size:59 final size:59
Alignment explanation
Indices: 87563--87882 Score: 242
Period size: 59 Copynumber: 5.4 Consensus size: 59
87553 CCCTAAACTA
* * * * * **
87563 TCCAAAAATTA-CATTTTAAACCTCAAACTTTCCAAAATTCAATTTTTTTTTACCCCGAACTT
1 TCCAAAAATTACCATTTT-ACCCTCGAACTTTCCAAAATTCCA--TTTTTGT-CCTCGATTTT
*
87625 TCCTAAAATTA-CATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGTCCTCGATTTT
1 TCCAAAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTGTCCTCGATTTT
* * *
87684 TCCAAAAATTACCATTTTACCC-CGTGAAC-TTCCAAAAATGCCATTTTT-TACCCCAATTTT
1 TCCAAAAATTACCATTTTACCCTC--GAACTTTCC-AAAATTCCATTTTTGT-CCTCGATTTT
* * * * *
87744 TCCAAAAATTACCATTTTACCCTCGAA-TATCTAAAAATTCCGTTTTTGACCTTGATTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTTC-CAAAATTCCATTTTTGTCCTCGATTTT
* * * * * * * * **
87803 TCC-AAAATTACAATTTTACCCTTGGA-TGTCTAAAAATTCCGTTGTTGACCTCGAACTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTTC-CAAAATTCCATTTTTGTCCTCGATTTT
*
87861 TCCCAAAATTACCATTTTACCC
1 TCCAAAAATTACCATTTTACCC
87883 CCAAGTGTCT
Statistics
Matches: 218, Mismatches: 29, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
58 51 0.23
59 74 0.34
60 55 0.25
61 1 0.00
62 33 0.15
63 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGTCCTCGATTTT
Found at i:87717 original size:30 final size:28
Alignment explanation
Indices: 87683--87765 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 28
87673 TCCTCGATTT
87683 TTCCAAAAATTACCATTTTACCCCGTGAA-C
1 TTCCAAAAATTACCATTTTACCCC---AATC
* *
87713 TTCCAAAAA-TGCCATTTTTTACCCCAATTT
1 TTCCAAAAATTACCA--TTTTACCCCAA-TC
87743 TTCCAAAAATTACCATTTTACCC
1 TTCCAAAAATTACCATTTTACCC
87766 TCGAATATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
28 2 0.04
29 12 0.27
30 18 0.40
31 13 0.29
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (28 bp):
TTCCAAAAATTACCATTTTACCCCAATC
Found at i:87781 original size:119 final size:118
Alignment explanation
Indices: 87608--87823 Score: 303
Period size: 119 Copynumber: 1.8 Consensus size: 118
87598 AATTCAATTT
* * *
87608 TTTTTTACCCCGAACTTTCCTAAAATTACATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTG
1 TTTTTTACCCCGAACTTTCCAAAAATTACATTTTTACCCTCGAACTATCAAAAATTCCATTTTTG
* *
87673 TCCTCGATTTTTCCAAAAATTACCATTTTACCCCGTGAACTTCCAAAAATGCCA
66 ACCTCGATTTTTCC-AAAATTACAATTTTACCCCGTGAACTTCCAAAAATGCCA
* *
87727 TTTTTTACCCC-AATTTTTCCAAAAATTACCA-TTTTACCCTCGAA-TATCTAAAAATTCCGTTT
1 TTTTTTACCCCGAA-CTTTCCAAAAATTA-CATTTTTACCCTCGAACTATC-AAAAATTCCATTT
*
87789 TTGACCTTGATTTTTCCAAAATTACAATTTTACCC
63 TTGACCTCGATTTTTCCAAAATTACAATTTTACCC
87824 TTGGATGTCT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 22 0.26
119 62 0.72
120 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (118 bp):
TTTTTTACCCCGAACTTTCCAAAAATTACATTTTTACCCTCGAACTATCAAAAATTCCATTTTTG
ACCTCGATTTTTCCAAAATTACAATTTTACCCCGTGAACTTCCAAAAATGCCA
Found at i:87819 original size:58 final size:59
Alignment explanation
Indices: 87623--87882 Score: 262
Period size: 59 Copynumber: 4.4 Consensus size: 59
87613 TACCCCGAAC
* * *
87623 TTTCCTAAAATTA-CATTTTTACCCTCGAACTT-TCCAAAATTCCATTTTTGTCCTCGATT
1 TTTCCAAAAATTACCA-TTTTACCCTCGAACTTCT-AAAAATTCCATTTTTGACCTCGATT
* * * * *
87682 TTTCCAAAAATTACCATTTTACCC-CGTGAACTTCCAAAAATGCCATTTTTTACCCCAATT
1 TTTCCAAAAATTACCATTTTACCCTC--GAACTTCTAAAAATTCCATTTTTGACCTCGATT
* *
87742 TTTCCAAAAATTACCATTTTACCCTCGAA-TATCTAAAAATTCCGTTTTTGACCTTGATT
1 TTTCCAAAAATTACCATTTTACCCTCGAACT-TCTAAAAATTCCATTTTTGACCTCGATT
* * * * * **
87801 TTTCC-AAAATTACAATTTTACCCTTGGA-TGTCTAAAAATTCCGTTGTTGACCTCGAAC
1 TTTCCAAAAATTACCATTTTACCCTCGAACT-TCTAAAAATTCCATTTTTGACCTCGATT
*
87859 TTTCCCAAAATTACCATTTTACCC
1 TTTCCAAAAATTACCATTTTACCC
87883 CCAAGTGTCT
Statistics
Matches: 170, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
58 52 0.31
59 66 0.39
60 51 0.30
61 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (59 bp):
TTTCCAAAAATTACCATTTTACCCTCGAACTTCTAAAAATTCCATTTTTGACCTCGATT
Found at i:98806 original size:18 final size:18
Alignment explanation
Indices: 98783--98818 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
98773 CATCTAACAC
*
98783 TGTTCCTTGTAATTATTT
1 TGTTCCTTGTAAATATTT
98801 TGTTCCTTGTAAATATTT
1 TGTTCCTTGTAAATATTT
98819 GACAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (18 bp):
TGTTCCTTGTAAATATTT
Found at i:99309 original size:49 final size:49
Alignment explanation
Indices: 99248--99847 Score: 422
Period size: 49 Copynumber: 12.3 Consensus size: 49
99238 GTACCATGAC
*
99248 ACATGAAGGGAAAGATTTAAGCCGCAAAGGCGAATCCAGTACCACGAAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
* * * * *
99297 ATATGGAGGGAAAGATTTAAGTCACAACGGCGAA-CCATGTACCTCAGAAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA-GTACCAC-GAAG
* * * *
99347 -CATAAAGGGAAAGATTTAAGCCGCGATGACGAATCCAGTACCAC-AGAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGA-AG
* * *
99395 ACGTGAAGTGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
* * * * *
99444 ACACGAAGGGAAAGGTTTAAGCCGTAACGGCGAATCCAATACCATGAAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
** * * *
99493 ACACAAAGGGAAATG-TTTAAGTCGCAACGACGAA-CCTTA-TACCTC-AGAG
1 ACATGAAGGGAAA-GATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-AG
* *
99542 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACAAAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
* * * * * * *
99591 ACACGAAAGGAAA-AGTTTAAGTCGCAATGACGAA-CCTTGTACCTC-AGAG
1 ACATGAAGGGAAAGA-TTTAAGCCGCAACGGCGAATCC-AGTACCACGA-AG
* * * ** * *
99640 AAATGAGGGGAAAGATTTAAGTCGCAACGATGGATCCAGTACCATGAAG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
*** * * * * * *
99689 ACGCAAAAGGAAAGGTTTAAGTCGTAATGGCGAA-CCTAATACCTTA-G-AG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACC--ACGAAG
* * * *
99738 ACACGAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCATG-A-
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
* * * * * *
99785 A-TTGAAAGGGAAAGATTTAAGCCGCAATGGTGAATCCAGTGCCATGAAA
1 ACATG-AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
**
99834 ACACAAAGGGAAAG
1 ACATGAAGGGAAAG
99848 TTGCAATGGC
Statistics
Matches: 429, Mismatches: 93, Indels: 58
0.74 0.16 0.10
Matches are distributed among these distances:
46 1 0.00
47 39 0.09
48 18 0.04
49 351 0.82
50 19 0.04
51 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (49 bp):
ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAG
Found at i:99422 original size:98 final size:100
Alignment explanation
Indices: 99248--99781 Score: 493
Period size: 98 Copynumber: 5.4 Consensus size: 100
99238 GTACCATGAC
* * *
99248 ACATGAAGGGAAAGATTTAAGCCGCAAAGGCGAATCCAGTACCAC-GAAGATATGGAGGGAAAGA
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAAGACATGAAGGGAAAGA
99312 TTTAAGTCACAACGGCGAACCATGTACCTCAGAAG
66 TTTAAGTCACAACGGCGAACCATGTACCTCAGAAG
* * * * * *
99347 -CATAAAGGGAAAGATTTAAGCCGCGATGACGAATCCAGTACCACAG-AGACGTGAAGTGAAAGA
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAAGACATGAAGGGAAAGA
* *
99410 TTTAAGCCACAACGGCGAATCCA-GTACCAC-GAAG
66 TTTAAGTCACAACGGCGAA-CCATGTACCTCAGAAG
* * * * * **
99444 ACACGAAGGGAAAGGTTTAAGCCGTAACGGCGAATCCAATACCA-TGAAGACACAAAGGGAAATG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAAGACATGAAGGGAAA-G
* * * *
99508 -TTTAAGTCGCAACGACGAACCTTATACCTCAG-AG
65 ATTTAAGTCACAACGGCGAACCATGTACCTCAGAAG
* * *
99542 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACA-AAGACACGAAAGGAAA-A
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAAGACATGAAGGGAAAGA
* * * *
99605 GTTTAAGTCGCAATGACGAACCTTGTACCTCAG-AG
66 -TTTAAGTCACAACGGCGAACCATGTACCTCAGAAG
* * * ** * * *** * *
99640 AAATGAGGGGAAAGATTTAAGTCGCAACGATGGATCCAGTACCA-TGAAGACGCAAAAGGAAAGG
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAAGACATGAAGGGAAAGA
** * * *
99704 TTTAAGTCGTAATGGCGAACC-TAATACCTTAG-AG
66 TTTAAGTCACAACGGCGAACCAT-GTACCTCAGAAG
* * *
99738 ACACGAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCA
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCA
99782 TGAATTGAAA
Statistics
Matches: 359, Mismatches: 63, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
97 8 0.02
98 345 0.96
99 6 0.02
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (100 bp):
ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACAGAAGACATGAAGGGAAAGA
TTTAAGTCACAACGGCGAACCATGTACCTCAGAAG
Found at i:99651 original size:147 final size:146
Alignment explanation
Indices: 99248--99683 Score: 479
Period size: 147 Copynumber: 3.0 Consensus size: 146
99238 GTACCATGAC
* * * * *
99248 ACATGAAGGGAAAGATTTAAGCCGCAAAGGCGAATCCAGTACCACGAAGATATG-GAGGGAAAGA
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAAAGGAAAAG-
* * * *
99312 TTTAAGTCACAACGGCGAACCATGTACCTCAGA-AGCATAAAGGGAAAGATTTAAGCCGCGATGA
65 TTTAAGTCGCAACGGCGAACC-TGTACCTCAGAGA-CATAAAGGGAAAGATTTAAGTCGCAACGA
99376 CGAATCCAGTACCACAGAG
128 CGAATCCAGTACCACAGAG
* * * * *
99395 ACGTGAAGTGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGACACGAAGGGAAAGGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAAAGGAAAAGT
* * ** * *
99460 TTAAGCCGTAACGGCGAATCCAATACCATGA-AGACACAAAGGGAAATG-TTTAAGTCGCAACGA
66 TTAAGTCGCAACGGCGAA-CCTGTACC-TCAGAGACATAAAGGGAAA-GATTTAAGTCGCAACGA
*
99523 CGAA-CCTTA-TACCTCAGAG
128 CGAATCC--AGTACCACAGAG
* *
99542 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACAAAGACACGAAAGGAAAAGT
1 ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAAAGGAAAAGT
* * * * * *
99607 TTAAGTCGCAATGACGAACCTTGTACCTCAGAGAAATGAGGGGAAAGATTTAAGTCGCAACGATG
66 TTAAGTCGCAACGGCGAACC-TGTACCTCAGAGACATAAAGGGAAAGATTTAAGTCGCAACGACG
*
99672 GATCCAGTACCA
130 AATCCAGTACCA
99684 TGAAGACGCA
Statistics
Matches: 235, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
146 8 0.03
147 213 0.91
148 14 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (146 bp):
ACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAAAGGAAAAGT
TTAAGTCGCAACGGCGAACCTGTACCTCAGAGACATAAAGGGAAAGATTTAAGTCGCAACGACGA
ATCCAGTACCACAGAG
Found at i:99803 original size:47 final size:47
Alignment explanation
Indices: 99743--99832 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
99733 TAGAGACACG
*
99743 AAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCATGAATTGA
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCATGAATTGA
** * *
99790 AAGGGAAAGATTTAAGCCGCAATGGTGAATCCAGTGCCATGAA
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCATGAA
99833 AACACAAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (47 bp):
AAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCATGAATTGA
Found at i:100330 original size:17 final size:17
Alignment explanation
Indices: 100308--100351 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
100298 CGGGCCTAAC
*
100308 AAATTTAAATTTATTTT
1 AAATTTAAATTTATATT
*
100325 AAATTTAAGTTTATATT
1 AAATTTAAATTTATATT
100342 AAATTTAAAT
1 AAATTTAAAT
100352 CCCTTTGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATATT
Found at i:101180 original size:9 final size:9
Alignment explanation
Indices: 101163--101221 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 9
101153 TTTTGACAAC
101163 ATTAATAAT
1 ATTAATAAT
*
101172 ATTATTAAT
1 ATTAATAAT
*
101181 AATAATAA-
1 ATTAATAAT
101189 A-T-ATAAT
1 ATTAATAAT
* *
101196 ACTAATAAC
1 ATTAATAAT
101205 ATTAATAAT
1 ATTAATAAT
101214 ATTAATAA
1 ATTAATAA
101222 CTGTAAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 2 0.05
9 33 0.80
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (9 bp):
ATTAATAAT
Found at i:102257 original size:30 final size:30
Alignment explanation
Indices: 102218--102480 Score: 147
Period size: 30 Copynumber: 8.9 Consensus size: 30
102208 AAGGTCCCTA
*
102218 AACTATCCAAAAATTACATTTTATCCCTCG
1 AACTTTCCAAAAATTACATTTTATCCCTCG
* * *
102248 AACTTTCC-AAAATTCCATTTTTACCCCT-A
1 AACTTTCCAAAAATTACA-TTTTATCCCTCG
* *
102277 AACTTTCCAAAAATTACATTTT-TACCCCCA
1 AACTTTCCAAAAATTACATTTTAT-CCCTCG
* *
102307 AACTTTCC-AAAATTCCATTTTTAT-TCTC-
1 AACTTTCCAAAAATTACA-TTTTATCCCTCG
* * * *
102335 AATTTTTCAAAAAATTACAATTTTACCCCCCCG
1 AA-CTTTCCAAAAATTAC-ATTTTA-TCCCTCG
** * *
102368 AAC-TTCCAAAAATGCCATTTTTTACCTCG
1 AACTTTCCAAAAATTACATTTTATCCCTCG
* *
102397 -ATTTTCCAAAAATTACCATTTTA-CCCCCG
1 AACTTTCCAAAAATTA-CATTTTATCCCTCG
* * * *
102426 AA-TGT-CTAAAATTCCATTTT-TGACCTCG
1 AACTTTCCAAAAATTACATTTTAT-CCCTCG
*
102454 AACTTTCCCAAAATTACCATTTT-TCCC
1 AACTTTCCAAAAATTA-CATTTTATCCC
102481 CTGGGTGTCC
Statistics
Matches: 174, Mismatches: 39, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
27 6 0.03
28 16 0.09
29 59 0.34
30 70 0.40
31 19 0.11
32 2 0.01
33 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTATCCCTCG
Found at i:102311 original size:59 final size:57
Alignment explanation
Indices: 102213--102481 Score: 240
Period size: 59 Copynumber: 4.6 Consensus size: 57
102203 TCCCAAAGGT
* *
102213 CCCTAAACTATCCAAAAATTACATTTTATCCCTCGAACTTTCCAAAATTCCATTTTTA
1 CCCTAAACTTTCCAAAAATTACATTTTA-CCCCCGAACTTTCCAAAATTCCATTTTTA
*
102271 CCCCTAAACTTTCCAAAAATTACATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTA
1 -CCCTAAACTTTCCAAAAATTACA-TTTTACCCCCGAACTTTCCAAAATTCCATTTTTA
** ** * *
102330 TTCTCAATTTTTCAAAAAATTACAATTTTACCCCCCCGAAC-TTCCAAAAATGCCATTTTTTA
1 CCCT-AAACTTTCCAAAAATTAC-ATTTTA--CCCCCGAACTTTCC-AAAATTCCA-TTTTTA
** * * *
102392 -CCTCGATTTTCCAAAAATTACCATTTTACCCCCGAA-TGTCTAAAATTCCATTTTTGA
1 CCCTAAACTTTCCAAAAATTA-CATTTTACCCCCGAACTTTCCAAAATTCCATTTTT-A
* * *
102449 -CCTCGAACTTTCCCAAAATTACCATTTTTCCCC
1 CCCT-AAACTTTCCAAAAATTA-CATTTTACCCC
102482 TGGGTGTCCA
Statistics
Matches: 176, Mismatches: 23, Indels: 23
0.79 0.10 0.10
Matches are distributed among these distances:
56 5 0.03
57 12 0.07
58 36 0.20
59 69 0.39
60 29 0.16
61 19 0.11
62 6 0.03
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (57 bp):
CCCTAAACTTTCCAAAAATTACATTTTACCCCCGAACTTTCCAAAATTCCATTTTTA
Found at i:102419 original size:28 final size:28
Alignment explanation
Indices: 102223--102476 Score: 105
Period size: 29 Copynumber: 8.6 Consensus size: 28
102213 CCCTAAACTA
102223 TCCAAAAATTA-CATTTTATCCCTCGAACTT
1 TCCAAAAATTACCATTTTA--CCTCGAA-TT
* *
102253 TCC-AAAATT-CCATTTTTACCCCTAAACTT
1 TCCAAAAATTACCA-TTTTACCTC-GAA-TT
* *
102282 TCCAAAAATTA-CATTTTTACCCCCAAACTT
1 TCCAAAAATTACCA-TTTTA-CCTCGAA-TT
*
102312 TCC-AAAATT-CCATTTTTATTCTC-AATTTT
1 TCCAAAAATTACCA-TTTTA-CCTCGAA--TT
* * * *
102341 TCAAAAAATTACAATTTTACCCCCCCGAACT
1 TCCAAAAATTACCATTTTA---CCTCGAATT
* *
102372 TCCAAAAA-TGCCATTTTTTACCTCGATTT
1 TCCAAAAATTACCA--TTTTACCTCGAATT
* *
102401 TCCAAAAATTACCATTTTACCCCCGAATG
1 TCCAAAAATTACCATTTTA-CCTCGAATT
*
102430 T-CTAAAATT-CCATTTTTGACCTCGAACTT
1 TCCAAAAATTACCA-TTTT-ACCTCGAA-TT
*
102459 TCCCAAAATTACCATTTT
1 TCCAAAAATTACCATTTT
102477 TCCCCTGGGT
Statistics
Matches: 176, Mismatches: 26, Indels: 44
0.72 0.11 0.18
Matches are distributed among these distances:
27 3 0.02
28 27 0.15
29 60 0.34
30 60 0.34
31 17 0.10
32 7 0.04
33 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (28 bp):
TCCAAAAATTACCATTTTACCTCGAATT
Found at i:104581 original size:5 final size:5
Alignment explanation
Indices: 104571--104608 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
104561 AATTATAAAA
104571 TATTT TATTT TAACTTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT T-A-TTT TATTT TATTT TATTT TATTT T
104609 TGAGTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 25 0.81
6 2 0.06
7 4 0.13
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:106150 original size:82 final size:81
Alignment explanation
Indices: 106013--106175 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 81
106003 CTTTTAGTTA
106013 AGAGGCTTAGAGAGGAAGCAGTTCAGCCTAGTTATCCGAGGGTGAGGCCTATGGTTTTGGTAGCT
1 AGAGGCTTAGAGAGGAAGCAGTTCAGCCTAGTTATCCGAGGGTGAGGCCTATGGTTTTGGTAGCT
106078 CTTGTGGGTAGTATTG
66 CTTGTGGGTAGTATTG
*
106094 NAGAGGCTTAGAGAGGAAGCAGTTCAGCCTAGTTATCCGAGGGTGAGGCCTGTGGTTTTGGTAGC
1 -AGAGGCTTAGAGAGGAAGCAGTTCAGCCTAGTTATCCGAGGGTGAGGCCTATGGTTTTGGTAGC
106159 TCTTGTGGGTAGTATTG
65 TCTTGTGGGTAGTATTG
106176 GTGGTTTTAC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.20, C:0.13, G:0.36, T:0.29
Consensus pattern (81 bp):
AGAGGCTTAGAGAGGAAGCAGTTCAGCCTAGTTATCCGAGGGTGAGGCCTATGGTTTTGGTAGCT
CTTGTGGGTAGTATTG
Found at i:110809 original size:21 final size:21
Alignment explanation
Indices: 110785--110837 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
110775 CCATTGACCA
*
110785 TTGACCGTTGA-TAGTTGATCG
1 TTGACCGTTGATTA-TTGATAG
*
110806 TTGACCGTTAATTATTGATAG
1 TTGACCGTTGATTATTGATAG
*
110827 TTGACCATTGA
1 TTGACCGTTGA
110838 CTGTCGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (21 bp):
TTGACCGTTGATTATTGATAG
Found at i:113474 original size:22 final size:21
Alignment explanation
Indices: 113449--113496 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
113439 ATAATCCGTC
*
113449 TCATCTCAATTCTATTTTCATA
1 TCATCTC-ATTCTAGTTTCATA
* *
113471 TCATTCTCATTTTAGTTTCATT
1 TCA-TCTCATTCTAGTTTCATA
113493 TCAT
1 TCAT
113497 AACCAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 17 0.77
23 4 0.18
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.54
Consensus pattern (21 bp):
TCATCTCATTCTAGTTTCATA
Found at i:114471 original size:3 final size:3
Alignment explanation
Indices: 114463--114491 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
114453 TTTTACTTTT
114463 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114492 CCTATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:116527 original size:41 final size:41
Alignment explanation
Indices: 116469--116549 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
116459 ACATTTAATA
* *
116469 ACCGAGTCGTAAATCTTCCTTTATAA-ACAATCTTATGCTCT
1 ACCGAGTCATAAATCTTCCTTTA-AATACAATCTCATGCTCT
* *
116510 ACCGAGTCATAAGTCTTCCTTTAAATATAATCTCATGCTC
1 ACCGAGTCATAAATCTTCCTTTAAATACAATCTCATGCTC
116550 ATTTTGAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (41 bp):
ACCGAGTCATAAATCTTCCTTTAAATACAATCTCATGCTCT
Found at i:116575 original size:41 final size:41
Alignment explanation
Indices: 116521--116734 Score: 320
Period size: 41 Copynumber: 5.2 Consensus size: 41
116511 CCGAGTCATA
* * * *
116521 AGTCTTCCTTTAAATATAATCTCATGCTCATTTTGAGTAATG
1 AGTCTTCC-TTAAACATAATCTCATGCTCATTCTGAGTCACG
116563 AGTCTTCCTTAAACATAATCTCATGCTCATTCTGAGTCACG
1 AGTCTTCCTTAAACATAATCTCATGCTCATTCTGAGTCACG
* * *
116604 AGTCTTCCTTAAGCATAATATCATGCTCATTTTGAGTCACG
1 AGTCTTCCTTAAACATAATCTCATGCTCATTCTGAGTCACG
*
116645 AGTCTTCCTTAAACATAATCTCATGCTCATTCCGAGTCACG
1 AGTCTTCCTTAAACATAATCTCATGCTCATTCTGAGTCACG
* * *
116686 AGTCTTCCTTAAACATAATCTCATGCTCATCCTGAGACATG
1 AGTCTTCCTTAAACATAATCTCATGCTCATTCTGAGTCACG
116727 AGTCTTCC
1 AGTCTTCC
116735 ATTTACACAT
Statistics
Matches: 157, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 149 0.95
42 8 0.05
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.36
Consensus pattern (41 bp):
AGTCTTCCTTAAACATAATCTCATGCTCATTCTGAGTCACG
Found at i:116631 original size:82 final size:82
Alignment explanation
Indices: 116497--116734 Score: 336
Period size: 82 Copynumber: 2.9 Consensus size: 82
116487 CTTTATAAAC
* * ** *
116497 AATCTTATGCTC-TACCGAGTCATAAGTCTTCCTTTAAATATAATCTCATGCTCATTTTGAGTAA
1 AATCTCATGCTCATTCCGAGTCACGAGTCTTCC-TTAAACATAATCTCATGCTCATTTTGAGTAA
116561 TGAGTCTTCCTTAAACAT
65 TGAGTCTTCCTTAAACAT
* * * * *
116579 AATCTCATGCTCATTCTGAGTCACGAGTCTTCCTTAAGCATAATATCATGCTCATTTTGAGTCAC
1 AATCTCATGCTCATTCCGAGTCACGAGTCTTCCTTAAACATAATCTCATGCTCATTTTGAGTAAT
116644 GAGTCTTCCTTAAACAT
66 GAGTCTTCCTTAAACAT
**
116661 AATCTCATGCTCATTCCGAGTCACGAGTCTTCCTTAAACATAATCTCATGCTCATCCTGAG-ACA
1 AATCTCATGCTCATTCCGAGTCACGAGTCTTCCTTAAACATAATCTCATGCTCATTTTGAGTA-A
116725 TGAGTCTTCC
65 TGAGTCTTCC
116735 ATTTACACAT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
82 121 0.88
83 16 0.12
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (82 bp):
AATCTCATGCTCATTCCGAGTCACGAGTCTTCCTTAAACATAATCTCATGCTCATTTTGAGTAAT
GAGTCTTCCTTAAACAT
Found at i:119173 original size:89 final size:89
Alignment explanation
Indices: 119022--119200 Score: 340
Period size: 89 Copynumber: 2.0 Consensus size: 89
119012 CATTGGAAAT
* *
119022 ACAAGATGGGAAGAGAATGGAGGGTTTTCTGCAACAGAAAAGAAGGAATGGGGAATGAAGGGTCA
1 ACAAGATGGGAAGAGAAGGGAGGGTTTTCGGCAACAGAAAAGAAGGAATGGGGAATGAAGGGTCA
119087 AACTAGGCTTAAATACCCAACAAA
66 AACTAGGCTTAAATACCCAACAAA
119111 ACAAGATGGGAAGAGAAGGGAGGGTTTTCGGCAACAGAAAAGAAGGAATGGGGAATGAAGGGTCA
1 ACAAGATGGGAAGAGAAGGGAGGGTTTTCGGCAACAGAAAAGAAGGAATGGGGAATGAAGGGTCA
119176 AACTAGGCTTAAATACCCAACAAA
66 AACTAGGCTTAAATACCCAACAAA
119200 A
1 A
119201 ATGGGTCATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.43, C:0.12, G:0.30, T:0.15
Consensus pattern (89 bp):
ACAAGATGGGAAGAGAAGGGAGGGTTTTCGGCAACAGAAAAGAAGGAATGGGGAATGAAGGGTCA
AACTAGGCTTAAATACCCAACAAA
Found at i:134698 original size:6 final size:6
Alignment explanation
Indices: 134686--134729 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
134676 ACAATGTTGG
* * *
134686 AAATGA CAATGA CAATGA CAATGA AAATGA AAATGA AAATGA AA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AA
134730 GATGCAGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.61, C:0.07, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:146248 original size:21 final size:21
Alignment explanation
Indices: 146222--146293 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
146212 GTTTTTAGTA
146222 TCGGTAGAAGTAAGACTTGTT
1 TCGGTAGAAGTAAGACTTGTT
146243 TCGGTAGAAGTAAGACTTGTT
1 TCGGTAGAAGTAAGACTTGTT
* * * *
146264 TCGATAGAAGTTACACTTGTA
1 TCGGTAGAAGTAAGACTTGTT
146285 TCGGTAGAA
1 TCGGTAGAA
146294 CTTTCCCAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (21 bp):
TCGGTAGAAGTAAGACTTGTT
Found at i:150966 original size:22 final size:20
Alignment explanation
Indices: 150932--150978 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
150922 TCATTATTGA
*
150932 GAAATTGATAAATTAGGCTT
1 GAAATTGATAAATTAAGCTT
150952 GAAATTGATAGAAATTAAGCTT
1 GAAATTGAT--AAATTAAGCTT
150974 -AAATT
1 GAAATT
150979 ATGATAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
22 10 0.42
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (20 bp):
GAAATTGATAAATTAAGCTT
Found at i:153870 original size:14 final size:14
Alignment explanation
Indices: 153853--153879 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
153843 TTCGTTTAAC
153853 TCGAATAATTCGAT
1 TCGAATAATTCGAT
153867 TCGAATAATTCGA
1 TCGAATAATTCGA
153880 AATTCGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
TCGAATAATTCGAT
Found at i:163728 original size:17 final size:17
Alignment explanation
Indices: 163708--163758 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
163698 ATTAAAAACA
163708 TTAATTCAACTTTTTTT
1 TTAATTCAACTTTTTTT
*
163725 TTAATTCAACTCTTTTT
1 TTAATTCAACTTTTTTT
163742 TTAATTCAACTTTTTTT
1 TTAATTCAACTTTTTTT
163759 AAAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATTCAACTTTTTTT
Found at i:164033 original size:13 final size:13
Alignment explanation
Indices: 164015--164040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
164005 ACACTCATAG
164015 GAAAATTACAGTT
1 GAAAATTACAGTT
164028 GAAAATTACAGTT
1 GAAAATTACAGTT
164041 TTCATCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
GAAAATTACAGTT
Found at i:174793 original size:31 final size:31
Alignment explanation
Indices: 174755--174818 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
174745 AATTATGCAT
*
174755 TTTGTTAGCTCTTTTGGTTACTCAATTGTAG
1 TTTGTTAGCTCTTTTAGTTACTCAATTGTAG
174786 TTTGTTAGCTCTTTTAGTTACTCAATTGTAG
1 TTTGTTAGCTCTTTTAGTTACTCAATTGTAG
174817 TT
1 TT
174819 AATAGAGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.53
Consensus pattern (31 bp):
TTTGTTAGCTCTTTTAGTTACTCAATTGTAG
Found at i:176795 original size:52 final size:51
Alignment explanation
Indices: 176619--176796 Score: 186
Period size: 52 Copynumber: 3.5 Consensus size: 51
176609 AAAAAGGGTC
* * *
176619 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTACGAGGTC
1 CGATGACTAAGTGTCATCGTGAGTATATG-ATCCTTTATGGATTAAGAGGTT
* ** * *
176671 CAATGACTCTGTGTCATCATGAG--TA--ATCCTTTATGGATTTAA-AAGTT
1 CGATGACTAAGTGTCATCGTGAGTATATGATCCTTTATGGA-TTAAGAGGTT
* *
176718 CGATGACTAAGTGTCATCGCGAGTATATGGATCCTTTACGGATTAAGAGGTT
1 CGATGACTAAGTGTCATCGTGAGTATAT-GATCCTTTATGGATTAAGAGGTT
**
176770 CGATGACTCTGTGTCATCGTGAGTATA
1 CGATGACTAAGTGTCATCGTGAGTATA
176797 CGAATCTCTC
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
47 33 0.33
48 3 0.03
49 2 0.02
50 1 0.01
51 4 0.04
52 58 0.57
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (51 bp):
CGATGACTAAGTGTCATCGTGAGTATATGATCCTTTATGGATTAAGAGGTT
Found at i:183044 original size:31 final size:31
Alignment explanation
Indices: 183006--183064 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
182996 TATTTTGGTT
183006 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
* *
183037 ATTGAACTATTTGAAAGTTTTTATTTAA
1 ATTGAACTATTCGAAAGTTTTCATTTAA
183065 ACCATTGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTTTTCATTTAAGTC
Found at i:183071 original size:31 final size:31
Alignment explanation
Indices: 183006--183071 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
182996 TATTTTGGTT
**
183006 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCGAAAGTTTTCATTTAAACC
* *
183037 ATTGAACTATTTGAAAGTTTTTATTTAAACC
1 ATTGAACTATTCGAAAGTTTTCATTTAAACC
183068 ATTG
1 ATTG
183072 GACTGTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTTTTCATTTAAACC
Found at i:185831 original size:55 final size:55
Alignment explanation
Indices: 185680--185833 Score: 177
Period size: 55 Copynumber: 2.7 Consensus size: 55
185670 ATATTTTATG
* *
185680 ATTTTTATT-AATTCATATTTTAATAATAAT-TATATTAAGAATGTTATTAAATTATAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATCT-TATTAA-AATATGATTAAATTATAT
* *** *
185737 ACTATTTTATTAAATTGTATTTAATAATAATCACGTTAAAATATGATTAAATTATTT
1 A-T-TTTTATTAAATTATATTTAATAATAATCTTATTAAAATATGATTAAATTATAT
185794 ATTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
1 ATTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
185834 TTAACAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
55 34 0.41
56 1 0.01
57 17 0.21
58 17 0.21
59 9 0.11
60 4 0.05
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (55 bp):
ATTTTTATTAAATTATATTTAATAATAATCTTATTAAAATATGATTAAATTATAT
Found at i:185975 original size:44 final size:45
Alignment explanation
Indices: 185925--186018 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 45
185915 ATTATAGTAT
*
185925 CATTCTATTCAACCAAACACAAT-AATACT-ATTACAGCTCTATTC
1 CATTCTATTCAACCAAACA-AATAAATACTGATTACAGCCCTATTC
*
185969 CATTCTATTCAACCAAACAACTGAAATACTGATTACAGCCCTATTC
1 CATTCTATTCAACCAAACAAAT-AAATACTGATTACAGCCCTATTC
186015 CATT
1 CATT
186019 GCAGTTTCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.04
44 19 0.42
45 6 0.13
46 18 0.40
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (45 bp):
CATTCTATTCAACCAAACAAATAAATACTGATTACAGCCCTATTC
Found at i:186051 original size:16 final size:16
Alignment explanation
Indices: 186032--186066 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
186022 GTTTCATTAC
186032 ATTACAACTCTATTTT
1 ATTACAACTCTATTTT
* *
186048 ATTATAGCTCTATTTT
1 ATTACAACTCTATTTT
186064 ATT
1 ATT
186067 CCATTCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTACAACTCTATTTT
Found at i:186073 original size:94 final size:94
Alignment explanation
Indices: 185953--186133 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 94
185943 ACAATAATAC
* *
185953 TATTACAGCTCTATTCCATTCTATTCAACCAAACAACTGAAATACTGATTACAGCCCTATTCCAT
1 TATTACAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATACTGATTACAGCCCTATTACAT
*
186018 TGCAG-TTTCATTACATTACAACTCTATTT
66 TACAGCTTT-ATTACATTACAACTCTATTT
* ** * *
186047 TATTATAGCTCTATTTTATTCCATTCAACCAAACAACTGAAATATTGATTACAGCTCTATTACAT
1 TATTACAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATACTGATTACAGCCCTATTACAT
*
186112 TACAGCTTTATTCCATTACAAC
66 TACAGCTTTATTACATTACAAC
186134 GAACCAAACG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 74 0.96
95 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (94 bp):
TATTACAGCTCTATTCCATTCCATTCAACCAAACAACTGAAATACTGATTACAGCCCTATTACAT
TACAGCTTTATTACATTACAACTCTATTT
Found at i:186104 original size:46 final size:46
Alignment explanation
Indices: 185925--186112 Score: 145
Period size: 46 Copynumber: 4.1 Consensus size: 46
185915 ATTATAGTAT
* * *
185925 CATTCTATTCAACCAAAC-AC-AATAATACT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACAACTGA-AATATTGATTACAGCTCTATTC
* * *
185969 CATTCTATTCAACCAAACAACTGAAATACTGATTACAGCCCTATTC
1 CATTCCATTCAACCAAACAACTGAAATATTGATTACAGCTCTATTC
* * ** * * *
186015 CATTGCAGTTTCATTA-CATTACAACT-CTAT-TTTATTATAGCTCTATTT
1 CATTCCA--TTCA--ACCA-AACAACTGAAATATTGATTACAGCTCTATTC
* *
186063 TATTCCATTCAACCAAACAACTGAAATATTGATTACAGCTCTATTA
1 CATTCCATTCAACCAAACAACTGAAATATTGATTACAGCTCTATTC
186109 CATT
1 CATT
186113 ACAGCTTTAT
Statistics
Matches: 112, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
44 25 0.22
45 12 0.11
46 42 0.38
48 22 0.20
49 4 0.04
50 7 0.06
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAACTGAAATATTGATTACAGCTCTATTC
Found at i:186115 original size:16 final size:16
Alignment explanation
Indices: 186094--186131 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
186084 TGAAATATTG
186094 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTAC
* *
186110 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTAC
186126 ATTACA
1 ATTACA
186132 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTAC
Found at i:186213 original size:31 final size:31
Alignment explanation
Indices: 186175--186236 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
186165 TTTTATTTTG
186175 GTCATTGAACTATTCGAAAGTTTTCATTTAA
1 GTCATTGAACTATTCGAAAGTTTTCATTTAA
* * *
186206 GTCATTGAATTATTTGAAAGTTTTTATTTAA
1 GTCATTGAACTATTCGAAAGTTTTCATTTAA
186237 ACTATTAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (31 bp):
GTCATTGAACTATTCGAAAGTTTTCATTTAA
Found at i:188599 original size:6 final size:6
Alignment explanation
Indices: 188568--188598 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
188558 AAATAGAAAC
*
188568 AAGAAT AAGAAT AAGAAT AAGAAT ATGAAT A
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT A
188599 TACAAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (6 bp):
AAGAAT
Found at i:189309 original size:9 final size:9
Alignment explanation
Indices: 189268--189328 Score: 61
Period size: 9 Copynumber: 6.4 Consensus size: 9
189258 TTTTAGAACA
189268 TTTTT-AAT
1 TTTTTAAAT
*
189276 TTTTTAACT
1 TTTTTAAAT
189285 TTCTTTATATAT
1 TT-TTTA-A-AT
189297 TTTTTAAAT
1 TTTTTAAAT
189306 TTTTTAAAT
1 TTTTTAAAT
*
189315 TTTTATATAT
1 TTTT-TAAAT
189325 TTTT
1 TTTT
189329 AAAAATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
8 5 0.11
9 19 0.42
10 13 0.29
11 5 0.11
12 3 0.07
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:189319 original size:28 final size:28
Alignment explanation
Indices: 189268--189354 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
189258 TTTTAGAACA
*
189268 TTTTT-AATTTTTTAACTTTCTTTATATAT
1 TTTTTAAATTTTTTAA-ATT-TTTATATAT
189297 TTTTTAAATTTTTTAAATTTTTATATAT
1 TTTTTAAATTTTTTAAATTTTTATATAT
* * * * *
189325 TTTTAAAAATATATAAATTTTGATA-AT
1 TTTTTAAATTTTTTAAATTTTTATATAT
189352 TTT
1 TTT
189355 AAAAATCATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
27 5 0.10
28 29 0.57
29 7 0.14
30 10 0.20
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTTAAATTTTTTAAATTTTTATATAT
Found at i:189329 original size:10 final size:10
Alignment explanation
Indices: 189288--189354 Score: 54
Period size: 9 Copynumber: 7.2 Consensus size: 10
189278 TTTAACTTTC
*
189288 TTTATATATT
1 TTTATAAATT
189298 TTT-TAAATT
1 TTTATAAATT
189307 TTT-TAAATT
1 TTTATAAATT
*
189316 TTTATATATT
1 TTTATAAATT
*
189326 TTTA-AAA-A
1 TTTATAAATT
*
189334 TATATAAATT
1 TTTATAAATT
*
189344 TTGAT-AATT
1 TTTATAAATT
189353 TT
1 TT
189355 AAAAATCATT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
8 3 0.07
9 28 0.61
10 15 0.33
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTATAAATT
Found at i:189454 original size:9 final size:9
Alignment explanation
Indices: 189440--189469 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
189430 ACATCAATTT
189440 ATTATTCGA
1 ATTATTCGA
189449 ATTATTCGA
1 ATTATTCGA
*
189458 GTTATTCGA
1 ATTATTCGA
189467 ATT
1 ATT
189470 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:190141 original size:17 final size:17
Alignment explanation
Indices: 190084--190145 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
190074 TTATATTATG
* *
190084 TTATTTTTAATTTAATAT
1 TTATTTTTTA-TTAAAAT
*
190102 TTAATTTTTTACT-AAAT
1 TT-ATTTTTTATTAAAAT
**
190119 AAATTTTTTATTAAAAT
1 TTATTTTTTATTAAAAT
190136 TTATTTTTTA
1 TTATTTTTTA
190146 AATTTAATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
16 9 0.26
17 15 0.44
18 3 0.09
19 7 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTTTTTATTAAAAT
Found at i:192983 original size:8 final size:9
Alignment explanation
Indices: 192952--192983 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
192942 TATTTTTAAT
192952 ATTTTTTAC
1 ATTTTTTAC
192961 ATTTTTTAC
1 ATTTTTTAC
192970 A-TTTTTA-
1 ATTTTTTAC
192977 ATTTTTT
1 ATTTTTT
192984 TGTAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.05
8 11 0.50
9 10 0.45
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTTTAC
Found at i:193065 original size:23 final size:24
Alignment explanation
Indices: 193030--193082 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
193020 AATTATCGTA
*
193030 TTTTTCATAAATTTTATATATTTT
1 TTTTTCATAAATTTTATATATATT
* *
193054 TTTTTC-TGAATTTTTTATATATT
1 TTTTTCATAAATTTTATATATATT
*
193077 TATTTC
1 TTTTTC
193083 CATTTTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTTCATAAATTTTATATATATT
Found at i:201683 original size:9 final size:9
Alignment explanation
Indices: 201636--201675 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
201626 TAAATAGATT
201636 ATATTTAT-
1 ATATTTATA
201644 ATATTTATA
1 ATATTTATA
201653 ATATTTATA
1 ATATTTATA
201662 ATATTTATA
1 ATATTTATA
201671 ATATT
1 ATATT
201676 ATAGATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTTATA
Found at i:212036 original size:12 final size:13
Alignment explanation
Indices: 212010--212039 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
212000 TCGGACTTGT
212010 AAATATTTAATAA
1 AAATATTTAATAA
212023 AAATATTT-ATAA
1 AAATATTTAATAA
212035 AAATA
1 AAATA
212040 AATTGTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATTTAATAA
Found at i:218472 original size:20 final size:20
Alignment explanation
Indices: 218435--218472 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
218425 TTCAAGGTAT
*
218435 CGGTAGAAGTGAAGTTCTAC
1 CGGTAGAAGTGAACTTCTAC
*
218455 CGGTAGAAGTGGACTTCT
1 CGGTAGAAGTGAACTTCT
218473 TATCAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (20 bp):
CGGTAGAAGTGAACTTCTAC
Found at i:219483 original size:22 final size:22
Alignment explanation
Indices: 219455--219498 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
219445 AAAGAATAAT
219455 CATTTAAAGTAGATGAGTTAGA
1 CATTTAAAGTAGATGAGTTAGA
219477 CATTTAAAGTAGATGAGTTAGA
1 CATTTAAAGTAGATGAGTTAGA
219499 AGTTACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.32
Consensus pattern (22 bp):
CATTTAAAGTAGATGAGTTAGA
Done.