Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 103 of 226
Found at i:31849425 original size:96 final size:96
Alignment explanation
Indices: 31849247--31849440 Score: 372
Period size: 96 Copynumber: 2.0 Consensus size: 96
31849237 ATATATATAC
31849247 GTAATTCAAGTAACATGTCTATTCAAACTTTTGATTTTACCAGTTATAACACAAACCTACTTAAA
1 GTAATTCAAGTAACATGTCTATTCAAACTTTTGATTTTACCAGTTATAACACAAACCTACTTAAA
31849312 CCTAAGTACATGTCATATGTTAAACCAAAAG
66 CCTAAGTACATGTCATATGTTAAACCAAAAG
31849343 GTAATT-AAGTAACATGTCTATTCAAACTTTTGATTTTACCAGTTATAACACAAAACCTACTTAA
1 GTAATTCAAGTAACATGTCTATTCAAACTTTTGATTTTACCAGTTATAACAC-AAACCTACTTAA
31849407 ACCTAAGTACATGTCATATGTTAAACCAAAAG
65 ACCTAAGTACATGTCATATGTTAAACCAAAAG
31849439 GT
1 GT
31849441 TGTACAAACA
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 45 0.46
96 52 0.54
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (96 bp):
GTAATTCAAGTAACATGTCTATTCAAACTTTTGATTTTACCAGTTATAACACAAACCTACTTAAA
CCTAAGTACATGTCATATGTTAAACCAAAAG
Found at i:31853469 original size:23 final size:23
Alignment explanation
Indices: 31853436--31853487 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
31853426 AAGAATGAGA
31853436 AAAATGAGAGAAAAAGATAAAAGGG
1 AAAATGAGAG-AAAA-ATAAAAGGG
* *
31853461 AAAATGAGAGGAAAATAAATGGG
1 AAAATGAGAGAAAAATAAAAGGG
31853484 AAAA
1 AAAA
31853488 GGGAAAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (23 bp):
AAAATGAGAGAAAAATAAAAGGG
Found at i:31854634 original size:19 final size:21
Alignment explanation
Indices: 31854593--31854637 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
31854583 TTTATATTTA
* *
31854593 AAAAAATATATTAATTATTAT
1 AAAAAATATATTAAGTATGAT
31854614 AAAAAA-ATATT-AGTATGAT
1 AAAAAATATATTAAGTATGAT
31854633 AAAAA
1 AAAAA
31854638 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 5 0.23
21 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAAATATATTAAGTATGAT
Found at i:31854637 original size:20 final size:22
Alignment explanation
Indices: 31854591--31854637 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
31854581 AATTTATATT
* *
31854591 TAAAAAAATATATTAATTATTA
1 TAAAAAAATATATTAAGTATGA
31854613 T-AAAAAA-ATATT-AGTATGA
1 TAAAAAAATATATTAAGTATGA
31854632 TAAAAA
1 TAAAAA
31854638 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 6 0.27
22 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
TAAAAAAATATATTAAGTATGA
Found at i:31857192 original size:17 final size:17
Alignment explanation
Indices: 31857167--31857200 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31857157 AACGGTTCTT
*
31857167 TTTAATTATTTTAATTA
1 TTTAATTATTCTAATTA
*
31857184 TTTATTTATTCTAATTA
1 TTTAATTATTCTAATTA
31857201 CTCTGTCCCC
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATTATTCTAATTA
Found at i:31858306 original size:6 final size:6
Alignment explanation
Indices: 31858287--31858361 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
31858277 AGCTGCTACT
* * *
31858287 CCAACC CCCACC CCATCC CCAACC CCAACC CCAACC CCAACC CCGACC
1 CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC CCAACC
*
31858335 CCATCC CCAACC CCAACC CCAACC CCA
1 CCAACC CCAACC CCAACC CCAACC CCA
31858362 TCTGCATCTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.28, C:0.68, G:0.01, T:0.03
Consensus pattern (6 bp):
CCAACC
Found at i:31862297 original size:22 final size:23
Alignment explanation
Indices: 31862268--31862316 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
31862258 TCGGTATACC
*
31862268 AAAT-GTTTTTCTT-AATTATAT
1 AAATAGTTTTTATTAAATTATAT
*
31862289 TAATAGTTTTTATTAAATTATAT
1 AAATAGTTTTTATTAAATTATAT
31862312 AAATA
1 AAATA
31862317 CTAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
AAATAGTTTTTATTAAATTATAT
Found at i:31864296 original size:23 final size:23
Alignment explanation
Indices: 31864265--31864432 Score: 210
Period size: 23 Copynumber: 7.3 Consensus size: 23
31864255 AGTGTTATTG
* *
31864265 ATCAATGGTAGCTTCGGCTAAAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
31864288 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
31864311 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* **
31864334 TTCAGTGGTAGCAACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
31864357 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
31864380 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
31864403 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31864426 ATCAGTG
1 ATCAGTG
31864433 TGGCACTTAT
Statistics
Matches: 122, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 122 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:31864322 original size:46 final size:46
Alignment explanation
Indices: 31864265--31864432 Score: 255
Period size: 46 Copynumber: 3.7 Consensus size: 46
31864255 AGTGTTATTG
* * * *
31864265 ATCAATGGTAGCTTCGGCTAAATTTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACAT
*
31864311 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCAACGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACAT
*
31864357 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACAT
* * *
31864403 ATCAGTGGTAACTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCAGCTACATTTCAGTG
31864433 TGGCACTTAT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 112 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCAGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:31865455 original size:41 final size:41
Alignment explanation
Indices: 31865388--31865628 Score: 347
Period size: 41 Copynumber: 5.9 Consensus size: 41
31865378 CTTACCTTTT
* ** *
31865388 GGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
1 GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* * * *
31865429 GGTGTTTTAGCGGCGTTTTTTGAAAAGTGCCGCTAATGCTG
1 GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* *
31865470 GGGGATTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCTG
1 GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
*
31865511 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
1 GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
* * *
31865552 GGGGCTTTAGCGGTGTTTTTGGAAAAGCACCGCTAATGCTG
1 GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
*
31865593 GGGGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
31865629 AAACATTTTA
Statistics
Matches: 179, Mismatches: 21, Indels: 0
0.89 0.10 0.00
Matches are distributed among these distances:
41 179 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (41 bp):
GGGGATTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTG
Found at i:31866013 original size:14 final size:15
Alignment explanation
Indices: 31865978--31866024 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
31865968 TATTTTAAGG
**
31865978 TTTAGGGAGCATGGA
1 TTTAGGGATTATGGA
31865993 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
31866008 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
31866021 TTTA
1 TTTA
31866025 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.26, C:0.02, G:0.34, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:31866045 original size:21 final size:21
Alignment explanation
Indices: 31866011--31866089 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
31866001 TTATGGATTA
*
31866011 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
*
31866031 GGGATTTAAGGTTTATGGGTT
1 GGGATTTAAGGTTTAAGGGTT
* * * *
31866052 AGGGGTTT-GGGTGTTAAGAGCTA
1 -GGGATTTAAGGT-TTAAG-GGTT
31866075 GGGATTTAAGGTTTA
1 GGGATTTAAGGTTTA
31866090 GGGATCATGG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
20 4 0.09
21 17 0.38
22 19 0.42
23 5 0.11
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.38
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTT
Found at i:31866146 original size:12 final size:11
Alignment explanation
Indices: 31866125--31866165 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
31866115 TGGGTTTAGA
31866125 TTAATTATTTT
1 TTAATTATTTT
31866136 TTAATTTATTTT
1 TTAA-TTATTTT
*
31866148 TTAAATATGTTT
1 TTAATTAT-TTT
31866160 TTAATT
1 TTAATT
31866166 TATATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TTAATTATTTT
Found at i:31866164 original size:24 final size:23
Alignment explanation
Indices: 31866124--31866178 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
31866114 TTGGGTTTAG
* *
31866124 ATTAATTATTTTTTAATTTATTT
1 ATTAAATATTTTTTAATTTATAT
*
31866147 TTTAAATATGTTTTTAATTTATAT
1 ATTAAATAT-TTTTTAATTTATAT
31866171 ATTAAATA
1 ATTAAATA
31866179 ATTTCATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTAAATATTTTTTAATTTATAT
Found at i:31866414 original size:21 final size:21
Alignment explanation
Indices: 31866375--31866432 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
31866365 GGTTTGAGAT
*
31866375 TTAGGGGTTA-GGGTAAAGAG
1 TTAGGGGTTAGGGGTTAAGAG
31866395 TTAGGGGTTAGGGGTTAAGAG
1 TTAGGGGTTAGGGGTTAAGAG
*
31866416 TTAGGGATTTAGGGGTT
1 TTAGGG-GTTAGGGGTT
31866433 CAAAGGTCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.29
21 15 0.44
22 9 0.26
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAGGGGTTAAGAG
Found at i:31866462 original size:338 final size:336
Alignment explanation
Indices: 31865819--31866497 Score: 813
Period size: 338 Copynumber: 2.0 Consensus size: 336
31865809 TACTGATTAT
* *
31865819 TTTTTAATTTATATATTAAAAATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAAAT
1 TTTTTAATTTATATATTAAAAATTTTCATATATAATTGAAAAAGAGATAGTATTAATTTTAAAAT
*
31865884 ATTGAATTAATTATCACTATAGTTTAGGATTTTTGGTTTAAGGTATATGATTTATTTAAGATTTA
66 ATTGAATTAATTATCACTATAGTTTAGGATTTTTGGTTTAAGGTATATGATTAATTTAAGATTTA
* * * * *
31865949 AGGTCGGTTTAAGAGTTACTATTTTAAGGTTTAGGGAGCATGGATTTAGGGATTATGGATTAGGG
131 AGGCCAGTTTAAGAGTTACTATTTTAAGATTTAGGGAACATGGATTTAGGGATTATGGATTAAGG
* * * * * * * *
31866014 ATTATGGTTTAAGGGTTGGGATTTAAGGTTTATGGGTTAGGGGTTTGGGTGTTAAGAGCTAGGGA
196 ATTAAGGTTTAAGAGTTGGGAGTTAAGGGTAAAGAGTTAGGGGTTAGGGTGTTAAGAGCTAGGGA
** * *
31866079 TTTAAGGTTTAGGGATCATGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTA-TTTTTTAATTT
261 TTTAAGG--T-GGGATCAAAGGTCGGGTTAAGGTTTAGGGTTTAGATTAATTAGTTTTTTAATTT
* *
31866143 ATTTTTTAAATATG
323 ATATATTAAATATG
31866157 TTTTTAATTTATATATTAAATAA-TTTCATATATAATTGAAAAAGATAAGATAGTATTAATTTTA
1 TTTTTAATTTATATATTAAA-AATTTTCATATATAATTGAAAAAG---AGATAGTATTAATTTTA
* * *
31866221 AAATATTTAATTAATTTTCA-TAATAGTTTAGG-TTTATATGGTTTATA-GTATATGGTTAATTT
62 AAATATTGAATTAATTATCACT-ATAGTTTAGGATTT-T-TGGTTTA-AGGTATATGATTAATTT
* * *
31866283 AAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGATTTGGGGATTATATATGGATTTAGGGAT
123 AAGATTTAAGGCCAGTTTAAGAGTTACTATTTTAAGATTTAGGG---A-ACATGGATTTAGGGAT
* * * *
31866348 TATGGTTTAAGGTTTAAGGTTTGAGATTTAGGG-GTT-AGGGTAAAGAGTTAGGGGTTAGGG-GT
184 TATGGATTAAGGATTAAGGTTTAAGAGTT-GGGAGTTAAGGGTAAAGAGTTAGGGGTTAGGGTGT
* *
31866410 TAAGAGTTAGGGATTT-A-G-GGGTTCAAAGGTCGGGTTAAGGTTTAGGGTTTAGATTAATTAGT
248 TAAGAGCTAGGGATTTAAGGTGGGATCAAAGGTCGGGTTAAGGTTTAGGGTTTAGATTAATTAG-
*
31866472 TTTTTTAATTTGTATATTAAATATG
312 TTTTTTAATTTATATATTAAATATG
31866497 T
1 T
31866498 CCTTATATAA
Statistics
Matches: 291, Mismatches: 35, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
338 76 0.26
339 2 0.01
340 27 0.09
341 46 0.16
342 60 0.21
343 2 0.01
344 17 0.06
345 20 0.07
346 38 0.13
347 3 0.01
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (336 bp):
TTTTTAATTTATATATTAAAAATTTTCATATATAATTGAAAAAGAGATAGTATTAATTTTAAAAT
ATTGAATTAATTATCACTATAGTTTAGGATTTTTGGTTTAAGGTATATGATTAATTTAAGATTTA
AGGCCAGTTTAAGAGTTACTATTTTAAGATTTAGGGAACATGGATTTAGGGATTATGGATTAAGG
ATTAAGGTTTAAGAGTTGGGAGTTAAGGGTAAAGAGTTAGGGGTTAGGGTGTTAAGAGCTAGGGA
TTTAAGGTGGGATCAAAGGTCGGGTTAAGGTTTAGGGTTTAGATTAATTAGTTTTTTAATTTATA
TATTAAATATG
Found at i:31866794 original size:20 final size:20
Alignment explanation
Indices: 31866769--31866812 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31866759 AAATTATAAG
31866769 AAAAAATAAAATACAAAAA-T
1 AAAAAATAAAATA-AAAAACT
*
31866789 AAAAAATGAAATAAAAAACT
1 AAAAAATAAAATAAAAAACT
31866809 AAAA
1 AAAA
31866813 TTTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAAATAAAATAAAAAACT
Found at i:31866813 original size:13 final size:13
Alignment explanation
Indices: 31866771--31866813 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
31866761 ATTATAAGAA
* *
31866771 AAAATAAAATACA
1 AAAATAAAAAACT
31866784 AAAATAAAAAA-T
1 AAAATAAAAAACT
*
31866796 GAAATAAAAAACT
1 AAAATAAAAAACT
31866809 AAAAT
1 AAAAT
31866814 TTATAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAACT
Found at i:31870756 original size:24 final size:24
Alignment explanation
Indices: 31870729--31870805 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
31870719 TTTATGTGTG
31870729 GTGTTTAATTTTTTGTTGCTGTCT
1 GTGTTTAATTTTTTGTTGCTGTCT
31870753 GTG--TAA--TTTTG-TG-TG---
1 GTGTTTAATTTTTTGTTGCTGTCT
*
31870768 GTGTTTAATTTTTTGTTACTGTCT
1 GTGTTTAATTTTTTGTTGCTGTCT
31870792 GTGTTCTAATTTTT
1 GTGTT-TAATTTTT
31870806 CATATGTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 19
0.68 0.02 0.31
Matches are distributed among these distances:
15 3 0.07
17 3 0.07
18 2 0.05
19 7 0.17
20 6 0.14
21 2 0.05
22 3 0.07
24 8 0.19
25 8 0.19
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (24 bp):
GTGTTTAATTTTTTGTTGCTGTCT
Found at i:31870778 original size:17 final size:17
Alignment explanation
Indices: 31870723--31870779 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
31870713 ATAAATTTTA
31870723 TGTGTGGTGTTTAATTTTT
1 TGTGTGGTGTTTAA--TTT
* *
31870742 TGTTGCTGTCTGTGTAATTT
1 TG-TG-TG-GTGTTTAATTT
31870762 TGTGTGGTGTTTAATTT
1 TGTGTGGTGTTTAATTT
31870779 T
1 T
31870780 TTGTTACTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
17 10 0.32
18 2 0.06
19 4 0.13
20 7 0.23
21 2 0.06
22 6 0.19
ACGTcount: A:0.11, C:0.04, G:0.26, T:0.60
Consensus pattern (17 bp):
TGTGTGGTGTTTAATTT
Found at i:31870783 original size:19 final size:19
Alignment explanation
Indices: 31870716--31870783 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
31870706 TAGTTTGATA
*
31870716 AATTTTATGTGTGGTGTTT
1 AATTTTTTGTGTGGTGTTT
* *
31870735 AATTTTTTGTTGCTGTCTGTGT
1 AATTTTTTG-TG-TG-GTGTTT
31870757 AA--TTTTGTGTGGTGTTT
1 AATTTTTTGTGTGGTGTTT
31870774 AATTTTTTGT
1 AATTTTTTGT
31870784 TACTGTCTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 6 0.15
18 2 0.05
19 16 0.41
20 7 0.18
21 2 0.05
22 6 0.15
ACGTcount: A:0.13, C:0.03, G:0.24, T:0.60
Consensus pattern (19 bp):
AATTTTTTGTGTGGTGTTT
Found at i:31870971 original size:35 final size:35
Alignment explanation
Indices: 31870903--31870968 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
31870893 TAATTGTGTT
31870903 ATTAATTTATTATTTTAAATTTTAAAATTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAAATTAAATTC
* *
31870938 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTTTAAAATTAAA
31870969 ATTTTCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAAATTAAATTC
Found at i:31871226 original size:43 final size:43
Alignment explanation
Indices: 31871122--31871367 Score: 244
Period size: 43 Copynumber: 5.7 Consensus size: 43
31871112 GTTATATTTT
* * * * * *
31871122 TAGCGGCGTTTTTGCGAAAAGCGCCGCTAAAGGT-TTGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTA
* **
31871164 TAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGATCATGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTA
* * *
31871207 TAGCGGCGTTTGTGGTAAAAACGCCGTTAAAGATCATGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTA
** * *
31871250 TAGCGGCGTTTGTGGGAAAAGCGTTGGTAAAGAGT-GTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-TCATGGTCTA
* * * * * * * *
31871293 TAGCGGTGTTTGCGGGAGAAGCGCTGCTAAAGGTCTTGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTA
*
31871336 TAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
31871368 TTAGCGACGC
Statistics
Matches: 171, Mismatches: 30, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
42 30 0.18
43 140 0.82
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTCTA
Found at i:31871323 original size:129 final size:128
Alignment explanation
Indices: 31871122--31871367 Score: 294
Period size: 129 Copynumber: 1.9 Consensus size: 128
31871112 GTTATATTTT
* * * * * *
31871122 TAGCGGCGTTTTTGCGAAAAGCGCCGCTAAAGGTTTGTTCTTTAGCGGTGTTTGTGATAAAAGCG
1 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTGTGGTCTATAGCGGTGTTTGCGAGAAAAGCG
* * * *
31871187 CCGCTAAAGATCATGGTCTATAGCGGCGTTTGTGGTAAAAACGCCGTTAAAGATCATGGTCTA
66 CCGCTAAAGATCATGGCCTATAGCGGCGTTTGCGGGAAAAACGCCGCTAAAGATCATGGTCTA
* ** * * *
31871250 TAGCGGCGTTTGTGGGAAAAGCGTTGGTAAAGAGTGTGGTCTATAGCGGTGTTTGCGGGAGAAGC
1 TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAG-GTGTGGTCTATAGCGGTGTTTGCGAGAAAAGC
* * * * *
31871315 GCTGCTAAAGGTCTTGGCCTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAG
65 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGCGGGAAAAACGCCGCTAAAG
31871368 TTAGCGACGC
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
128 27 0.28
129 69 0.72
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (128 bp):
TAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGGTGTGGTCTATAGCGGTGTTTGCGAGAAAAGCG
CCGCTAAAGATCATGGCCTATAGCGGCGTTTGCGGGAAAAACGCCGCTAAAGATCATGGTCTA
Found at i:31872949 original size:6 final size:6
Alignment explanation
Indices: 31872938--31872963 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31872928 AGTATAGACA
31872938 TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TT
31872964 GAATTTATTA
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:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTATAT
Found at i:31873353 original size:16 final size:16
Alignment explanation
Indices: 31873324--31873381 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
31873314 CTTATTCGTT
* *
31873324 CCACTTCACCAGCTCG
1 CCACTTCGCTAGCTCG
*
31873340 CCGCTTCGCTAGCTCG
1 CCACTTCGCTAGCTCG
* *
31873356 CCCCTTCGCCAGCTCG
1 CCACTTCGCTAGCTCG
*
31873372 TCACTTCGCT
1 CCACTTCGCT
31873382 CCAAACTCGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.10, C:0.48, G:0.17, T:0.24
Consensus pattern (16 bp):
CCACTTCGCTAGCTCG
Found at i:31886661 original size:13 final size:13
Alignment explanation
Indices: 31886643--31886668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31886633 CTATAGGGGA
31886643 CGCATGGCCGTGT
1 CGCATGGCCGTGT
31886656 CGCATGGCCGTGT
1 CGCATGGCCGTGT
31886669 GTCACACACG
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:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (13 bp):
CGCATGGCCGTGT
Found at i:31887700 original size:26 final size:26
Alignment explanation
Indices: 31887671--31887720 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
31887661 TTTTACATCG
*
31887671 TTGCTCACATGAGCTATGAAATGGAT
1 TTGCTCACATGAGCTACGAAATGGAT
*
31887697 TTGCTCACATGAGCTGCGAAATGG
1 TTGCTCACATGAGCTACGAAATGG
31887721 GCTCCTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (26 bp):
TTGCTCACATGAGCTACGAAATGGAT
Found at i:31891968 original size:29 final size:29
Alignment explanation
Indices: 31891914--31891969 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
31891904 GCATTTAAAG
*
31891914 ATATTTACAAAAAGAGACAACTAATTTCA
1 ATATTTACAAAAAGAGACAACAAATTTCA
31891943 ATATTTACAAAAAGA-ACAACCAAATTT
1 ATATTTACAAAAAGAGACAA-CAAATTT
31891970 TGCAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (29 bp):
ATATTTACAAAAAGAGACAACAAATTTCA
Found at i:31899588 original size:30 final size:30
Alignment explanation
Indices: 31899551--31899645 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 30
31899541 TGAATGTTGC
* *
31899551 CACGGGCGTGTGTCTTAGTCATGTGTGAAA
1 CACGGGCGTGTGTCTCAGCCATGTGTGAAA
*
31899581 CATGGGCGTGTGTCTCAGCCATGTGTGAAA
1 CACGGGCGTGTGTCTCAGCCATGTGTGAAA
* * * * *
31899611 CACGGGCATGTGCCTCAGCCGTGAGTGACA
1 CACGGGCGTGTGTCTCAGCCATGTGTGAAA
31899641 CACGG
1 CACGG
31899646 CCATGCGACA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (30 bp):
CACGGGCGTGTGTCTCAGCCATGTGTGAAA
Found at i:31905368 original size:53 final size:53
Alignment explanation
Indices: 31905223--31905376 Score: 175
Period size: 53 Copynumber: 2.9 Consensus size: 53
31905213 CCTCATAGGG
* * **
31905223 TAGAATGACTAAAATACCCCCATAGGGTAGAATAACCGAAATACCCCCATAGGA
1 TAGAATGACCAAAATACCCCCATAGGGTAGAATAACCAAAATA-CCCCATAAAA
* * * * *
31905277 TAAAATGACCGAAATACCCCCATAAGGCAGAATTACCAAAATACCCCATAAAA
1 TAGAATGACCAAAATACCCCCATAGGGTAGAATAACCAAAATACCCCATAAAA
* * *
31905330 TGGAATGACCAAAATACCCCCACAGGGTA-AACTGACCAAAATACCCC
1 TAGAATGACCAAAATACCCCCATAGGGTAGAA-TAACCAAAATACCCC
31905377 TATAGGTTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 2 0.02
53 45 0.54
54 36 0.43
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (53 bp):
TAGAATGACCAAAATACCCCCATAGGGTAGAATAACCAAAATACCCCATAAAA
Found at i:31905421 original size:27 final size:27
Alignment explanation
Indices: 31905171--31905419 Score: 203
Period size: 27 Copynumber: 9.3 Consensus size: 27
31905161 AGAGGTCAAT
* * * *
31905171 AAATGATCGAATTACCCCCACAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31905198 AAATGACAGAATTACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
31905225 GAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31905252 GAATAACCGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
31905279 AAATGACCGAAATACCCCCATAAGGCA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *** *
31905306 GAATTACCAAAATA-CCCCATAAAATG
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31905332 GAATGACCAAAATACCCCCACAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
31905359 AACTGACCAAAATACCCCTATAGGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
31905386 AAATGACTGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
31905413 AAATGAC
1 AAATGAC
31905420 TGTTATACCC
Statistics
Matches: 179, Mismatches: 42, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
26 21 0.12
27 158 0.88
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:31905430 original size:107 final size:107
Alignment explanation
Indices: 31905171--31905402 Score: 261
Period size: 107 Copynumber: 2.2 Consensus size: 107
31905161 AGAGGTCAAT
* * * * * *** * *
31905171 AAATGATCGAATTACCCCCACAAGGTAAAATGA-CAGAATTACCCTCATAGGGTAGAATGACTAA
1 AAATGACCGAAATACCCCCATAAGGCAAAATGACCA-AAATACCC-CATAAAATGGAATGACCAA
* *
31905235 AATACCCCCATAGGGTAGAATAACCGAAATACCCCCATAGGATA
64 AATACCCCCACAGGGTAGAATAACCAAAATACCCCCATAGGATA
* *
31905279 AAATGACCGAAATACCCCCATAAGGCAGAATTACCAAAATACCCCATAAAATGGAATGACCAAAA
1 AAATGACCGAAATACCCCCATAAGGCAAAATGACCAAAATACCCCATAAAATGGAATGACCAAAA
* * *
31905344 TACCCCCACAGGGTA-AACTGACCAAAATACCCCTATAGGTTA
66 TACCCCCACAGGGTAGAA-TAACCAAAATACCCCCATAGGATA
*
31905386 AAATGACTGAAATACCC
1 AAATGACCGAAATACCC
31905403 TTATAGGGTA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
106 2 0.02
107 66 0.63
108 34 0.33
109 2 0.02
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.17
Consensus pattern (107 bp):
AAATGACCGAAATACCCCCATAAGGCAAAATGACCAAAATACCCCATAAAATGGAATGACCAAAA
TACCCCCACAGGGTAGAATAACCAAAATACCCCCATAGGATA
Found at i:31909094 original size:12 final size:14
Alignment explanation
Indices: 31909062--31909100 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
31909052 TATCTCAAAT
*
31909062 TTCAATTTACCATA
1 TTCAATTTATCATA
31909076 TTCAATTTATCA-A
1 TTCAATTTATCATA
31909089 -TCAATTTATCAT
1 TTCAATTTATCAT
31909101 TTCTTTACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 1 0.04
14 11 0.48
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (14 bp):
TTCAATTTATCATA
Found at i:31914079 original size:24 final size:25
Alignment explanation
Indices: 31914051--31914101 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
31914041 ATCGTAATAA
*
31914051 GACAACATTTTAAAAA-TAATATAT
1 GACAACATTTTAAAAACAAATATAT
**
31914075 GACAATTTTTTAAAAACAAATATAT
1 GACAACATTTTAAAAACAAATATAT
31914100 GA
1 GA
31914102 TAATAAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (25 bp):
GACAACATTTTAAAAACAAATATAT
Found at i:31915901 original size:50 final size:50
Alignment explanation
Indices: 31915860--31916502 Score: 367
Period size: 50 Copynumber: 12.9 Consensus size: 50
31915850 ATTTGCCGTC
* * * *
31915860 GTAGCTTTAATCTGTTTCATTGCACGGCCAGGGAAGTAAGATTTGCTGTT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * * ** * * * *
31915910 GTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACTGTT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* **
31915960 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * * ** * * * * * *
31916010 GTAGCTTTAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACCGAT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * ** * * * * * *
31916060 GTGGCTTTAATCTATTCCACTACATCGCCTGGGGAGTAAGATTCACTATT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* ** * * * *
31916110 GTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCG-TCGTT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCT-GTT
* * ** * * *
31916160 GTGGCCTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* ** * * * * * *
31916210 GTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* ** * * *
31916260 GTGGCTTTAATCTGTTCCACTACATCGCCTGGG-AGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* ** * * * * **
31916309 GTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCATT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * ** * * *
31916359 GTGGCGTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCGTTATT
1 GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* ** * * * * * *
31916409 GTAGCTTTAGTCT-TTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
1 GTAGCTTTAATCTGTTT-AACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* ** * *
31916459 GT-GACTTTAATCTATTCCACTGCACCGCCTGGGAAATAAGATTC
1 GTAG-CTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTC
31916503 TTCCTTCACC
Statistics
Matches: 430, Mismatches: 157, Indels: 12
0.72 0.26 0.02
Matches are distributed among these distances:
49 40 0.09
50 387 0.90
51 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
GTAGCTTTAATCTGTTTAACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
Found at i:31916008 original size:100 final size:100
Alignment explanation
Indices: 31915829--31916502 Score: 909
Period size: 100 Copynumber: 6.8 Consensus size: 100
31915819 TTCTATCTGG
* * ** * * * * *
31915829 CTGCAGTGTCGGGGAAACAAGATTTGCCGTCGTAGCTTTAATCTGTTTCATTGCACGGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
* *
31915894 AGTAAGATTTGCTGTTGTGGCTTTAATCTTTTTAA
66 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* *
31915929 CTACAATGTCGGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
31915994 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
66 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* * * * * * * *
31916029 TTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTACATCGCCTGGGG
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
* *
31916094 AGTAAGATTCACTATTGTAGCTTTAATCTTTTTAA
66 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* ** * * *
31916129 CTGCAATGTCGGGGAAGCAAGGTTCGTCGTTGTGGCCTTAATCTGTTCCACTGCAACGCTAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
*
31916194 AATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
66 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* * * *
31916229 CTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATCGCCTGGG-
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
31916293 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
66 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* * * *
31916328 CTGCAATGTCGGGGAAGCAAGGTTCGCCATTGTGGCGTTAATCTGTTCCACTGCACCGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
* * * * *
31916393 AATAAGATTCGTTATTGTAGCTTTAGTCTTTTCAA
66 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* * * *
31916428 CTGCAATGTCGGGGAAGCAAGATTCACCGATGTGACTTTAATCTATTCCACTGCACCGCCTGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
*
31916493 AATAAGATTC
66 AGTAAGATTC
31916503 TTCCTTCACC
Statistics
Matches: 501, Mismatches: 72, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
99 90 0.18
100 411 0.82
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
CTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGA
AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
Found at i:31917763 original size:7 final size:7
Alignment explanation
Indices: 31917744--31917785 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
31917734 TTAGCCTCTC
31917744 CATTTTT
1 CATTTTT
31917751 -ACTTTTT
1 CA-TTTTT
31917758 CATTTTTT
1 CA-TTTTT
31917766 CATTTTT
1 CATTTTT
31917773 CATTTTT
1 CATTTTT
31917780 -ATTTTT
1 CATTTTT
31917786 TTGACTCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
6 7 0.22
7 17 0.53
8 8 0.25
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
CATTTTT
Found at i:31917771 original size:15 final size:14
Alignment explanation
Indices: 31917744--31917785 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
31917734 TTAGCCTCTC
31917744 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
31917758 CATTTTTTCATTTTT
1 CATTTTTAC-TTTTT
31917773 CATTTTTA-TTTTT
1 CATTTTTACTTTTT
31917786 TTGACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:31948045 original size:6 final size:6
Alignment explanation
Indices: 31948034--31948089 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
31948024 AGGCAACCCA
* *
31948034 ATTTTT ATTTTT ATTTTT ATTTTT A-CTTT ATTTATT A-CTTT A-TTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT
31948080 A-TTTT ATTTT
1 ATTTTT ATTTT
31948090 ACTTATTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
5 16 0.37
6 24 0.56
7 3 0.07
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:31948051 original size:12 final size:11
Alignment explanation
Indices: 31948036--31948089 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 11
31948026 GCAACCCAAT
31948036 TTTTATTTTTA
1 TTTTATTTTTA
31948047 TTTTTATTTTTA
1 -TTTTATTTTTA
*
31948059 CTTTATTTATTA
1 TTTTATTT-TTA
*
31948071 CTTTA-TTTTA
1 TTTTATTTTTA
31948081 TTTTATTTT
1 TTTTATTTT
31948090 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
10 7 0.18
11 12 0.32
12 19 0.50
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:31948084 original size:27 final size:29
Alignment explanation
Indices: 31948043--31948096 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
31948033 AATTTTTATT
*
31948043 TTTATTTTTATTTTTACTTTATTTATTAC
1 TTTATTTTTATTTTTACTTTACTTATTAC
*
31948072 TTTA-TTTTA-TTTTATTTTACTTATT
1 TTTATTTTTATTTTTACTTTACTTATT
31948097 TGGATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 5 0.22
29 4 0.17
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTATTTTTATTTTTACTTTACTTATTAC
Found at i:31949123 original size:10 final size:9
Alignment explanation
Indices: 31949107--31949141 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
31949097 CCTAAAGCAT
31949107 AAAAAAAAG
1 AAAAAAAAG
31949116 AGAAAAAAAG
1 A-AAAAAAAG
31949126 AAAAAAAAG
1 AAAAAAAAG
31949135 AAAAAAA
1 AAAAAAA
31949142 TATTTTGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:31953313 original size:20 final size:19
Alignment explanation
Indices: 31953290--31953335 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31953280 AATTCTATTT
*
31953290 AAAAAAATTAAAAATCTATA
1 AAAAAAATCAAAAA-CTATA
**
31953310 AAAAAAATCAATTACTATA
1 AAAAAAATCAAAAACTATA
31953329 AAAAAAA
1 AAAAAAA
31953336 AAGATAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATCAAAAACTATA
Found at i:31953439 original size:9 final size:9
Alignment explanation
Indices: 31953425--31953457 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
31953415 CAGCAATGGT
31953425 TGTAACCTC
1 TGTAACCTC
*
31953434 TGTAACCTA
1 TGTAACCTC
31953443 TGTAACCTC
1 TGTAACCTC
31953452 TGTAAC
1 TGTAAC
31953458 ATGTTTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (9 bp):
TGTAACCTC
Found at i:31954652 original size:20 final size:22
Alignment explanation
Indices: 31954627--31954678 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 22
31954617 ACTAGTTAAT
31954627 CTAAACCCT-AAATCATAAA-C
1 CTAAACCCTAAAATCATAAACC
*
31954647 CTAAACCCTAAAATTATAAACC
1 CTAAACCCTAAAATCATAAACC
31954669 CATAAACCCT
1 C-TAAACCCT
31954679 TAACACATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.32
21 9 0.32
22 2 0.07
23 8 0.29
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CTAAACCCTAAAATCATAAACC
Found at i:31954726 original size:7 final size:7
Alignment explanation
Indices: 31954714--31954805 Score: 62
Period size: 7 Copynumber: 13.0 Consensus size: 7
31954704 CTCCAGCCTT
31954714 TAAACCA
1 TAAACCA
31954721 TAAACCA
1 TAAACCA
*
31954728 TAAATCA
1 TAAACCA
*
31954735 TAACCCA
1 TAAACCA
*
31954742 TAATCCA
1 TAAACCA
*
31954749 TAAACCT
1 TAAACCA
**
31954756 TAAAATA
1 TAAACCA
31954763 GTAACACC-
1 -TAA-ACCA
*
31954771 TAAACCT
1 TAAACCA
31954778 TAAACTC-
1 TAAAC-CA
31954785 TAAACCA
1 TAAACCA
* *
31954792 TATACCC
1 TAAACCA
31954799 TAAACCA
1 TAAACCA
31954806 AAAAACCCTA
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
6 4 0.06
7 56 0.86
8 4 0.06
9 1 0.02
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:31955154 original size:41 final size:41
Alignment explanation
Indices: 31955089--31955218 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
31955079 ATAAATTAAT
* * * *
31955089 TAAATCCCAGAGCATTAGTGGCGTTTTTTTAAAAATGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGTTTTTTCAAAAACGCCGC
* * *
31955130 TAAA-CCCAAGAGCATTAGCGGCGTTTCTCCAAAAACGCCGT
1 TAAAGCCC-AGAGCATTAGCGGCGTTTTTTCAAAAACGCCGC
*
31955171 TAAAGCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
1 TAAAGCCCAGAGCATTAGCGGCGTTTTTTCAAAAACGCCGC
31955212 TAAAGCC
1 TAAAGCC
31955219 TCGAAAGTGG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.04
41 71 0.92
42 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
TAAAGCCCAGAGCATTAGCGGCGTTTTTTCAAAAACGCCGC
Found at i:31955281 original size:40 final size:40
Alignment explanation
Indices: 31955257--31955369 Score: 115
Period size: 40 Copynumber: 2.9 Consensus size: 40
31955247 TGCTTCTTGA
* *
31955257 AAAATGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAG
1 AAAACGCCGCTAATGCTCTATTTTTAGCGGCGTTCTTCAG
* *
31955297 AAAGCGCCGCTAATGCTCTA-TTGTAGCGGCGTT-TTC-G
1 AAAACGCCGCTAATGCTCTATTTTTAGCGGCGTTCTTCAG
** * *
31955334 TAAAAGCGTTGCTAATACTCGATTTTTAGCGGCGTT
1 -AAAA-CGCCGCTAATGCTCTATTTTTAGCGGCGTT
31955370 TTTTGTCCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
37 1 0.02
38 6 0.10
39 24 0.39
40 30 0.49
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (40 bp):
AAAACGCCGCTAATGCTCTATTTTTAGCGGCGTTCTTCAG
Found at i:31955371 original size:40 final size:40
Alignment explanation
Indices: 31955262--31955372 Score: 138
Period size: 39 Copynumber: 2.8 Consensus size: 40
31955252 CTTGAAAAAT
31955262 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAGAAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAGAAAGC
*
31955302 GCCGCTAATGCTCTA-TTGTAGCGGCG-TTTTC-GTAAAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAG--AAAGC
** * *
31955341 GTTGCTAATACTCGATTTTTAGCGGCGTTTTT
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTT
31955373 TGTCCAAACG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 26 0.43
40 25 0.41
41 4 0.07
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (40 bp):
GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAGAAAGC
Found at i:31964395 original size:16 final size:16
Alignment explanation
Indices: 31964374--31964426 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
31964364 ACTGCTTTCA
31964374 AATTTAAATTATTTTG
1 AATTTAAATTATTTTG
* * *
31964390 ATTTTAGATTAATTTG
1 AATTTAAATTATTTTG
* *
31964406 AATTTGAATTTTTTTG
1 AATTTAAATTATTTTG
31964422 AATTT
1 AATTT
31964427 GAAACTTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
AATTTAAATTATTTTG
Found at i:31964435 original size:16 final size:16
Alignment explanation
Indices: 31964402--31964435 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31964392 TTTAGATTAA
**
31964402 TTTGAATTTGAATTTT
1 TTTGAATTTGAAACTT
31964418 TTTGAATTTGAAACTT
1 TTTGAATTTGAAACTT
31964434 TT
1 TT
31964436 ATATTTAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTGAATTTGAAACTT
Found at i:31965899 original size:26 final size:26
Alignment explanation
Indices: 31965866--31965916 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
31965856 TTATCATATC
* *
31965866 TGGAAAGTCCGTCATGGACTATCTTT
1 TGGAAAGTCCGCCAAGGACTATCTTT
*
31965892 TGGAAAGTTCGCCAAGGACTATCTT
1 TGGAAAGTCCGCCAAGGACTATCTT
31965917 CTGGGACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (26 bp):
TGGAAAGTCCGCCAAGGACTATCTTT
Found at i:31969734 original size:49 final size:49
Alignment explanation
Indices: 31969679--31969779 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
31969669 CTCGTTTTCT
* * * *
31969679 CGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCA-TATAC
1 CGATGCCATAGCCCAACTATGGTCCTACACGGAATCACATATCACT-TAC
* *
31969728 CGATGCCATAGCCCAGCTATGGTCCTATACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCCTACACGGAATCACATATCACTTAC
31969777 CGA
1 CGA
31969780 AAGTACTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCCTACACGGAATCACATATCACTTAC
Found at i:31971892 original size:8 final size:8
Alignment explanation
Indices: 31971879--31971903 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31971869 TATACTAAAC
31971879 AATAAAAT
1 AATAAAAT
31971887 AATAAAAT
1 AATAAAAT
31971895 AATAAAAT
1 AATAAAAT
31971903 A
1 A
31971904 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:31973206 original size:12 final size:12
Alignment explanation
Indices: 31973191--31973219 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
31973181 AAAATCCTGG
31973191 TAAAATAAAAAC
1 TAAAATAAAAAC
31973203 TAAAATAAAAAC
1 TAAAATAAAAAC
31973215 TAAAA
1 TAAAA
31973220 CCGAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAATAAAAAC
Found at i:31974396 original size:17 final size:17
Alignment explanation
Indices: 31974355--31974397 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
31974345 GTCGGGTAAC
*
31974355 ATATCCAAGTGAACTCTA
1 ATAT-CAAGCGAACTCTA
31974373 ACT-TCAAGCGAACTCTA
1 A-TATCAAGCGAACTCTA
31974390 ATATCAAG
1 ATATCAAG
31974398 TGATTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 1 0.05
17 18 0.82
18 2 0.09
19 1 0.05
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (17 bp):
ATATCAAGCGAACTCTA
Found at i:31975090 original size:6 final size:6
Alignment explanation
Indices: 31975081--31975207 Score: 245
Period size: 6 Copynumber: 21.2 Consensus size: 6
31975071 GCACATGCAC
*
31975081 ATGTAG ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
31975129 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
31975177 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT A
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT A
31975208 GAAGTATACT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 120 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:31977547 original size:18 final size:18
Alignment explanation
Indices: 31977526--31977575 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
31977516 CTTTTCAATA
*
31977526 TAAATTTTTATATTATTT
1 TAAATTTTTAAATTATTT
* * *
31977544 TAAAATTTGAAATTTTTT
1 TAAATTTTTAAATTATTT
31977562 TAAAATTTTTAAAT
1 T-AAATTTTTAAAT
31977576 AGATATTAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TAAATTTTTAAATTATTT
Found at i:31993613 original size:5 final size:6
Alignment explanation
Indices: 31993598--31993633 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
31993588 TGAAAATGAA
31993598 AAAAAG AAAAAG AAAAAG AAAAATG AAAAATG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAA-G AAAAA-G AAAA
31993634 TGACCTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:31993613 original size:12 final size:13
Alignment explanation
Indices: 31993584--31993633 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
31993574 GGTTTTCTCC
*
31993584 AAAATGAAAATGAA
1 AAAATGAAAAAG-A
*
31993598 AAAAAGAAAAAGA
1 AAAATGAAAAAGA
31993611 AAAA-GAAAAATGA
1 AAAATGAAAAA-GA
31993624 AAAATGAAAA
1 AAAATGAAAA
31993634 TGACCTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 6 0.19
13 11 0.34
14 15 0.47
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (13 bp):
AAAATGAAAAAGA
Found at i:31993613 original size:13 final size:14
Alignment explanation
Indices: 31993590--31993633 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
31993580 CTCCAAAATG
31993590 AAAATGAAAAAAAGA
1 AAAATG-AAAAAAGA
31993605 AAAA-G-AAAAAGA
1 AAAATGAAAAAAGA
*
31993617 AAAATGAAAAATGA
1 AAAATGAAAAAAGA
31993631 AAA
1 AAA
31993634 TGACCTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 10 0.38
15 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAATGAAAAAAGA
Found at i:31994075 original size:30 final size:30
Alignment explanation
Indices: 31994039--31994101 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
31994029 TGTTTTTCTA
31994039 GTTGAAATAAACTTCTATAATTCAAAAAAG
1 GTTGAAATAAACTTCTATAATTCAAAAAAG
31994069 GTTGAAATAAACTTCTATAATTCAAAAAAG
1 GTTGAAATAAACTTCTATAATTCAAAAAAG
31994099 GTT
1 GTT
31994102 CTATCTTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.32
Consensus pattern (30 bp):
GTTGAAATAAACTTCTATAATTCAAAAAAG
Found at i:32014947 original size:15 final size:16
Alignment explanation
Indices: 32014916--32014949 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32014906 CAACTAACCC
32014916 TAAAAAAAATAAAAAT
1 TAAAAAAAATAAAAAT
*
32014932 TAAATAAAAT-AAAAT
1 TAAAAAAAATAAAAAT
32014947 TAA
1 TAA
32014950 GTTGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAAAATAAAAAT
Found at i:32015380 original size:19 final size:17
Alignment explanation
Indices: 32015358--32015395 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
32015348 TATGACCCCT
32015358 ATTTTAAATTTATTTTTAA
1 ATTTTAAA-TTA-TTTTAA
32015377 ATTTTAAATTATTTTAA
1 ATTTTAAATTATTTTAA
32015394 AT
1 AT
32015396 ACATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAAATTATTTTAA
Found at i:32019574 original size:27 final size:27
Alignment explanation
Indices: 32019393--32019563 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
32019383 GTAATGGGCC
32019393 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
32019420 TAGAATGATCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* * *
32019447 TAAAATGATGGAAATACACTCAAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
32019474 TAAAATGA-CTAAAATACCCTCGAAGAG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * *
32019501 TAAAATGATCAAAATACCCTCGAAAGA
1 TAAAATGATCGAAATACCCTCGAAGGG
* * *
32019528 TTAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
32019555 TAAAATGAT
1 TAAAATGAT
32019564 TGTTATACCC
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
27 118 0.99
28 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.18
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCTCGAAGGG
Found at i:32025325 original size:21 final size:21
Alignment explanation
Indices: 32025282--32025338 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
32025272 TAAGAATATG
* * **
32025282 AAAATATATAAAATTATTGTA
1 AAAATAAATAATATTATCATA
32025303 AAAATAAATAATATTATCATA
1 AAAATAAATAATATTATCATA
* *
32025324 AATATAAATATTATT
1 AAAATAAATAATATT
32025339 TAATTATCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATAAATAATATTATCATA
Found at i:32025345 original size:26 final size:26
Alignment explanation
Indices: 32025315--32025366 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
32025305 AATAAATAAT
*
32025315 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAAGATAAATATTATTTA
* *
32025341 ATTATCATTAAGATAAATATTTTTTA
1 ATTATCATAAAGATAAATATTATTTA
32025367 TGTCAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATCATAAAGATAAATATTATTTA
Found at i:32028403 original size:16 final size:17
Alignment explanation
Indices: 32028373--32028405 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
32028363 AATTTATAAT
32028373 TTATAATATAGTAATAG
1 TTATAATATAGTAATAG
*
32028390 TTAT-ATATATTAATAG
1 TTATAATATAGTAATAG
32028406 ATTTAGTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
TTATAATATAGTAATAG
Found at i:32028703 original size:12 final size:12
Alignment explanation
Indices: 32028688--32028729 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
32028678 TAATCTATAA
32028688 TATAATAATAGT
1 TATAATAATAGT
32028700 TATATATTAATAGT
1 TATA-A-TAATAGT
*
32028714 TATAGTAATAGT
1 TATAATAATAGT
32028726 TATA
1 TATA
32028730 TACTATGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 15 0.56
13 1 0.04
14 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (12 bp):
TATAATAATAGT
Found at i:32028710 original size:14 final size:14
Alignment explanation
Indices: 32028687--32028731 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
32028677 CTAATCTATA
32028687 ATATAATAATAGTT
1 ATATAATAATAGTT
*
32028701 ATATATTAATAG-T
1 ATATAATAATAGTT
*
32028714 -TATAGTAATAGTT
1 ATATAATAATAGTT
32028727 ATATA
1 ATATA
32028732 CTATGAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.37
13 2 0.07
14 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (14 bp):
ATATAATAATAGTT
Found at i:32030121 original size:20 final size:19
Alignment explanation
Indices: 32030093--32030154 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
32030083 AAAGTCTAAT
32030093 AAATTATAAAAAAATTATA
1 AAATTATAAAAAAATTATA
*
32030112 AAATTAATAAAACATATT-TA
1 AAATT-ATAAAA-AAATTATA
* *
32030132 AAATTTTATAAAAATTCATA
1 AAATTATAAAAAAATT-ATA
32030152 AAA
1 AAA
32030155 CTCATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.11
19 9 0.26
20 18 0.51
21 4 0.11
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTATAAAAAAATTATA
Found at i:32030183 original size:40 final size:39
Alignment explanation
Indices: 32030093--32030183 Score: 89
Period size: 40 Copynumber: 2.3 Consensus size: 39
32030083 AAAGTCTAAT
* *
32030093 AAATTATAA-AAAAATTATAAAATTAATAAAACATATTTA
1 AAATT-TAATAAAAATTATAAAACTAATAAAACATATTAA
* *
32030132 AAATTTTATAAAAATTCATAAAACTCATAAATA-ATA-TAA
1 AAATTTAATAAAAATT-ATAAAACTAATAAA-ACATATTAA
32030171 AAATTCTAATAAA
1 AAATT-TAATAAA
32030184 TTATATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.05
39 19 0.44
40 21 0.49
41 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (39 bp):
AAATTTAATAAAAATTATAAAACTAATAAAACATATTAA
Found at i:32030193 original size:28 final size:27
Alignment explanation
Indices: 32030138--32030203 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
32030128 TTTAAAATTT
*
32030138 TATAAAAATTCATAAAACTCATAAATAA
1 TATAAAAATTC-TAAAAATCATAAATAA
* *
32030166 TATAAAAATTCTAATAAATTATATATAA
1 TATAAAAATTCTAA-AAATCATAAATAA
32030194 -A-AAAAATTCT
1 TATAAAAATTCT
32030204 TCTTCTCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.26
27 4 0.12
28 21 0.62
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (27 bp):
TATAAAAATTCTAAAAATCATAAATAA
Found at i:32033841 original size:20 final size:20
Alignment explanation
Indices: 32033767--32033867 Score: 85
Period size: 20 Copynumber: 5.0 Consensus size: 20
32033757 TGTACATTCC
* *
32033767 TTAAAGTATCAATACTTTTC
1 TTAAAGTATCGATACTTTTA
* * *
32033787 TCAAAGTATCGATGCTTTTC
1 TTAAAGTATCGATACTTTTA
* * **
32033807 TCAAAGTTTTAATACTTTTA
1 TTAAAGTATCGATACTTTTA
* *
32033827 TTAAAGTATTGATACCTTTA
1 TTAAAGTATCGATACTTTTA
* *
32033847 TTATAGTATCGATACCTTTA
1 TTAAAGTATCGATACTTTTA
32033867 T
1 T
32033868 CCTGGTATCG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.46
Consensus pattern (20 bp):
TTAAAGTATCGATACTTTTA
Found at i:32033875 original size:20 final size:20
Alignment explanation
Indices: 32033831--32033882 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
32033821 CTTTTATTAA
* *
32033831 AGTATTGATACCTTTATTAT
1 AGTATCGATACCTTTATCAT
*
32033851 AGTATCGATACCTTTATCCT
1 AGTATCGATACCTTTATCAT
*
32033871 GGTATCGATACC
1 AGTATCGATACC
32033883 ATTTTACGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (20 bp):
AGTATCGATACCTTTATCAT
Found at i:32036868 original size:45 final size:45
Alignment explanation
Indices: 32036819--32036924 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 45
32036809 GCTATATGCC
*
32036819 AGAAATGAGTAAGACCATAACTAAAAGATTCTATGACATCATGAT
1 AGAAATGAGTAAGACCATAACTAAAAGATGCTATGACATCATGAT
** * *
32036864 AGAAATGAGTAAGATAATAACTGAAAGATGCTATGACATCATTAT
1 AGAAATGAGTAAGACCATAACTAAAAGATGCTATGACATCATGAT
* *
32036909 GGAAATAAGTAAGACC
1 AGAAATGAGTAAGACC
32036925 CTGGTTGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (45 bp):
AGAAATGAGTAAGACCATAACTAAAAGATGCTATGACATCATGAT
Found at i:32037195 original size:27 final size:27
Alignment explanation
Indices: 32037135--32037196 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
32037125 AATAAAATAT
* * * * *
32037135 TAAACACGGGATAGTTTGTTGGGACAC
1 TAAACATGGAATAGTTCGTCGGAACAC
32037162 TAAACATGGAATAGTTCGTCGGAACAC
1 TAAACATGGAATAGTTCGTCGGAACAC
32037189 TAAACATG
1 TAAACATG
32037197 AAGATCCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (27 bp):
TAAACATGGAATAGTTCGTCGGAACAC
Found at i:32039871 original size:34 final size:34
Alignment explanation
Indices: 32039795--32039873 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
32039785 ATCACAATGC
* **
32039795 TAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 TAGT-ATCAGTAGGGCCTTGGCCCAATAACAGTAA
* *
32039830 TAGTATCAGTGGGGCCTTGGCCC-ATAACAGTTA
1 TAGTATCAGTAGGGCCTTGGCCCAATAACAGTAA
32039863 TAGATATCAGT
1 TAG-TATCAGT
32039874 CATGCTATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 10 0.26
34 24 0.63
35 4 0.11
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
TAGTATCAGTAGGGCCTTGGCCCAATAACAGTAA
Found at i:32040354 original size:27 final size:27
Alignment explanation
Indices: 32040332--32040910 Score: 508
Period size: 27 Copynumber: 21.3 Consensus size: 27
32040322 AGGGGTATAA
32040332 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
32040359 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
32040386 C-GATCATTCTACCCTATG-GGTGTATTT
1 CAG-TCATTTTACCCTATGAGG-GTATTT
*
32040413 CAGTCATTTTACCTTATG-GAGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
**
32040440 TGGTCATTTTACCCTAT-AGGGGTACTTT
1 CAGTCATTTTACCCTATGA-GGGTA-TTT
*
32040468 -AGTCATTTTACACTATAAGGGTATGGGGGTATTT
1 CAGTCATTTTACCCTAT----G-A---GGGTATTT
* *
32040502 CAGTCATTCTACCTTATG-GAGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
* *
32040529 CGGTCATTCTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
32040556 CGGTCATTTTACCCTAT-AGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
32040582 CGGTCAATTTAACCTAT-AGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
32040608 C-GATCATTTTACCTTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
32040635 C-GATCATTTTAGCCTATGA-GATATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
32040661 C-GATCATTCTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
*
32040688 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
32040715 C-GATCATTTTACTCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
*
32040742 CGGTC-TTTCTACCCTAT-AGGGGTATTT
1 CAGTCATTT-TACCCTATGA-GGGTATTT
*
32040769 CAGTCA-TTTATCCTATG-GGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
32040794 CGGTCAATTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * * *
32040821 CGGTCATTCTACCCTATGAAGGTACTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
32040848 CGGTCATTCTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
** * * *
32040875 TGGTTAATTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
32040902 CAGTCATTT
1 CAGTCATTT
32040911 ATCGACCTCT
Statistics
Matches: 470, Mismatches: 52, Indels: 60
0.81 0.09 0.10
Matches are distributed among these distances:
25 14 0.03
26 92 0.20
27 331 0.70
28 9 0.02
31 1 0.00
33 1 0.00
34 3 0.01
35 19 0.04
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:32040552 original size:89 final size:88
Alignment explanation
Indices: 32040400--32040874 Score: 278
Period size: 79 Copynumber: 5.8 Consensus size: 88
32040390 CATTCTACCC
* * * *
32040400 TATGGGTGTATTTCAGTCATTTTACCTTATGGAGGTATTTTGGTCATTTTACCCTATAGGGGTAC
1 TATGGGGGTATTTCAGTCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGGGGTA-
32040465 TTT-AGTCATTTTACACTATAAGGG
65 TTTCAGTCATTTTACACTAT-AGGG
32040489 TATGGGGGTATTTCAGTCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTAT-GAGGGTA
1 TATGGGGGTATTTCAGTCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAG-GGGTA
* *
32040553 TTTCGGTCATTTTAC-C-CTA---
65 TTTCAGTCATTTTACACTATAGGG
* * * * * *
32040572 TA---GGGTATTTCGGTCAATT-TAACC-TATAG-GGTATTTCGATCATTTTACCTTATGGGGGT
1 TATGGGGGTATTTCAGTC-ATTCT-ACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGGGGT
32040631 ATTTC-GATCATTTTAGC-CTAT---G
64 ATTTCAG-TCATTTTA-CACTATAGGG
* * * * * *
32040653 -A----GATATTTC-GATCATTCTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTA
1 TATGGGGGTATTTCAG-TCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGGGGTA
*
32040712 TTTC-GATCATTTT--AC--T---C
65 TTTCAG-TCATTTTACACTATAGGG
* * * * *
32040729 TATGGGGGTATTTCGGTCTTTCTACCCTATAGG-GGTATTTCAGTCATT-TATCCTAT-GGGGTA
1 TATGGGGGTATTTCAGTCATTCTACCTTAT-GGAGGTATTTCGGTCATTCTACCCTATAGGGGTA
* * *
32040791 TTTCGGTCAATTTAC-C------C
65 TTTCAGTCATTTTACACTATAGGG
* * * * *
32040808 TATGGGGGTATTTCGGTCATTCTACCCTATGAAGGTACTTCGGTCATTCTACCCTATGGGGGTAT
1 TATGGGGGTATTTCAGTCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGGGGTAT
32040873 TT
66 TT
32040875 TGGTTAATTT
Statistics
Matches: 332, Mismatches: 27, Indels: 62
0.79 0.06 0.15
Matches are distributed among these distances:
76 1 0.00
77 1 0.00
78 10 0.03
79 111 0.33
80 78 0.23
81 51 0.15
82 3 0.01
83 2 0.01
86 1 0.00
87 1 0.00
88 5 0.02
89 68 0.20
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (88 bp):
TATGGGGGTATTTCAGTCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGGGGTAT
TTCAGTCATTTTACACTATAGGG
Found at i:32040684 original size:106 final size:106
Alignment explanation
Indices: 32040489--32040911 Score: 473
Period size: 106 Copynumber: 4.0 Consensus size: 106
32040479 ACTATAAGGG
32040489 TATGGGGGTATTTC-AGTCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTAT-GAGGGT
1 TATGGGGGTATTTCGA-TCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGA-GGT
* * * *
32040552 ATTTCGGTCATTTTACCCTATAGGGTATTTCGGTCAATTTAACC
64 ATTTCGATCA-TTTACCCTATGGGGTATTTCAGTCAATTTACCC
* * * * * * *
32040596 TAT-AGGGTATTTCGATCATTTTACCTTATGGGGGTATTTCGATCATTTTAGCCTAT-GAGATAT
1 TATGGGGGTATTTCGATCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGAGGTAT
*
32040659 TTCGATCATTCTACCCTATGGGGGTATTTCAGTCATTTTACCC
66 TTCGATCATT-TACCCTAT-GGGGTATTTCAGTCAATTTACCC
* * * *
32040702 TATGGGGGTATTTCGATCATTTTA-CTCTATGGGGGTATTTCGGTCTTTCTACCCTATAGGGGTA
1 TATGGGGGTATTTCGATCATTCTACCT-TATGGAGGTATTTCGGTCATTCTACCCTATAGAGGTA
* *
32040766 TTTC-AGTCATTTATCCTATGGGGTATTTCGGTCAATTTACCC
65 TTTCGA-TCATTTACCCTATGGGGTATTTCAGTCAATTTACCC
* * * * * *
32040808 TATGGGGGTATTTCGGTCATTCTACCCTATGAAGGTACTTCGGTCATTCTACCCTATGGGGGTAT
1 TATGGGGGTATTTCGATCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGAGGTA-
* * *
32040873 TTTGGTTAATTTACCCTATGGGGGTATTTCAGTC-ATTTA
65 TTTCGATCATTTACCCTAT-GGGGTATTTCAGTCAATTTA
32040912 TCGACCTCTC
Statistics
Matches: 270, Mismatches: 35, Indels: 22
0.83 0.11 0.07
Matches are distributed among these distances:
104 2 0.01
105 19 0.07
106 146 0.54
107 77 0.29
108 26 0.10
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (106 bp):
TATGGGGGTATTTCGATCATTCTACCTTATGGAGGTATTTCGGTCATTCTACCCTATAGAGGTAT
TTCGATCATTTACCCTATGGGGTATTTCAGTCAATTTACCC
Found at i:32040810 original size:133 final size:133
Alignment explanation
Indices: 32040334--32040913 Score: 627
Period size: 133 Copynumber: 4.3 Consensus size: 133
32040324 GGGTATAACA
*
32040334 GTCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTCTAC
1 GTCATTTTACCCTATAG-GGGTATTTCAGTCA-TTTATCCTATG-GGGTATTTCGATCATTCTAC
* * * * *
32040398 CCTATGGGTGTATTTCAGTCATTTTACCTTATGGAGGTATTTTGGTCATTTTACCCTATAGGGGT
63 CCTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGT
*
32040463 ACTTT-A
128 A-TTTCG
* *
32040469 GTCATTTTACACTATAAGGGTATGGGGGTATTTCAGTCATTCTA-CCTTATGGAGGTATTTCGGT
1 GTCATTTTAC-C-CT-A---TA--GGGGTATTTCAGTCATT-TATCC-TATGG-GGTATTTCGAT
* * * * *
32040533 CATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-AGGGTATTTCGGTCAATTTAACCT
55 CATTCTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCT
*
32040597 AT-AGGGTATTTCG
120 ATGGGGGTATTTCG
* * * * * *
32040610 ATCATTTTACCTTATGGGGGTATTTC-GATCATTTTAGCCTATGAGATATTTCGATCATTCTACC
1 GTCATTTTACCCTATAGGGGTATTTCAG-TCA-TTTATCCTATGGGGTATTTCGATCATTCTACC
** * *
32040674 CTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACTCTATGGGGGTA
64 CTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGTA
32040739 TTTCG
129 TTTCG
*
32040744 GTC-TTTCTACCCTATAGGGGTATTTCAGTCATTTATCCTATGGGGTATTTCGGTCAATT-TACC
1 GTCATTT-TACCCTATAGGGGTATTTCAGTCATTTATCCTATGGGGTATTTCGATC-ATTCTACC
* * * *
32040807 CTATGGGGGTATTTCGGTCATTCTACCCTATGAAGGTACTTCGGTCATTCTACCCTATGGGGGTA
64 CTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGTA
*
32040872 TTTTG
129 TTTCG
* * *
32040877 GTTAATTTACCCTATGGGGGTATTTCAGTCATTTATC
1 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTATC
32040914 GACCTCTCGA
Statistics
Matches: 377, Mismatches: 46, Indels: 46
0.80 0.10 0.10
Matches are distributed among these distances:
132 48 0.13
133 159 0.42
134 41 0.11
135 12 0.03
136 1 0.00
137 1 0.00
138 2 0.01
139 1 0.00
140 4 0.01
141 15 0.04
142 26 0.07
143 66 0.18
144 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (133 bp):
GTCATTTTACCCTATAGGGGTATTTCAGTCATTTATCCTATGGGGTATTTCGATCATTCTACCCT
ATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGTATT
TCG
Found at i:32045349 original size:19 final size:19
Alignment explanation
Indices: 32045324--32045375 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 19
32045314 AAGGCCGTGG
32045324 CTTTCTTTCTTCTTTCTCT
1 CTTTCTTTCTTCTTTCTCT
* *
32045343 GTTTCTTTCTT-TTT-TTT
1 CTTTCTTTCTTCTTTCTCT
32045360 CTTTCTTT-TTCTTTCT
1 CTTTCTTTCTTCTTTCT
32045376 GTTTCGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.43
18 4 0.14
19 10 0.36
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (19 bp):
CTTTCTTTCTTCTTTCTCT
Found at i:32045354 original size:23 final size:22
Alignment explanation
Indices: 32045324--32045375 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
32045314 AAGGCCGTGG
32045324 CTTTCTTTCTTCTTTC-TCTGTTT
1 CTTTCTTT-TT-TTTCTTCTGTTT
*
32045347 CTTTCTTTTTTTTCTTTCTTTTT
1 CTTTCTTTTTTTTC-TTCTGTTT
32045370 CTTTCT
1 CTTTCT
32045376 GTTTCGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 2 0.08
23 20 0.77
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (22 bp):
CTTTCTTTTTTTTCTTCTGTTT
Found at i:32045362 original size:13 final size:14
Alignment explanation
Indices: 32045325--32045375 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
32045315 AGGCCGTGGC
32045325 TTTCTTTC-TTCTT
1 TTTCTTTCTTTCTT
*
32045338 TCTCTGTTTCTTTCTT
1 T-T-TCTTTCTTTCTT
32045354 TTT-TTTCTTTCTT
1 TTTCTTTCTTTCTT
32045367 TTTCTTTCT
1 TTTCTTTCT
32045376 GTTTCGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 14 0.42
14 7 0.21
15 6 0.18
16 6 0.18
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:32045476 original size:26 final size:26
Alignment explanation
Indices: 32045422--32045476 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
32045412 TATTTGTTTT
* **
32045422 ATTATTTCACATTCTATTTTCATTTC
1 ATTATTTCACATTCGATTTTCATACC
32045448 ATTATTTCAC-TTCGATTTCTCATACC
1 ATTATTTCACATTCGATTT-TCATACC
32045474 ATT
1 ATT
32045477 CCATTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTATTTCACATTCGATTTTCATACC
Found at i:32046288 original size:23 final size:20
Alignment explanation
Indices: 32046262--32046318 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
32046252 AAGGCTGTGG
*
32046262 CTTTCTTTCTTCTTTCTCTGTTT
1 CTTTCTTTCTT-TTTCT-T-TCT
32046285 CTTTCTTT-TTTTTCTTTCT
1 CTTTCTTTCTTTTTCTTTCT
*
32046304 CTTTCTTTCTGTTTC
1 CTTTCTTTCTTTTTC
32046319 GTTTTGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.32
20 6 0.19
21 5 0.16
22 2 0.06
23 8 0.26
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.72
Consensus pattern (20 bp):
CTTTCTTTCTTTTTCTTTCT
Found at i:32046300 original size:13 final size:14
Alignment explanation
Indices: 32046262--32046313 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
32046252 AAGGCTGTGG
*
32046262 CTTTCTTTCTTCTTT
1 CTTTCTTTCTT-TCT
* *
32046277 CTCTGTTTCTTTCT
1 CTTTCTTTCTTTCT
*
32046291 -TTTTTTTCTTTCT
1 CTTTCTTTCTTTCT
32046304 CTTTCTTTCT
1 CTTTCTTTCT
32046314 GTTTCGTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.37
14 10 0.33
15 9 0.30
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (14 bp):
CTTTCTTTCTTTCT
Found at i:32046311 original size:19 final size:19
Alignment explanation
Indices: 32046263--32046311 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
32046253 AGGCTGTGGC
*
32046263 TTTCTTTCTTCTTTCTCTG
1 TTTCTTTCTTTTTTCTCTG
*
32046282 TTTCTTTCTTTTTTTTCT-
1 TTTCTTTCTTTTTTCTCTG
32046300 TTCTCTTTCTTT
1 TT-TCTTTCTTT
32046312 CTGTTTCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCTTTCTTTTTTCTCTG
Found at i:32046852 original size:938 final size:947
Alignment explanation
Indices: 32044447--32047344 Score: 4844
Period size: 938 Copynumber: 3.0 Consensus size: 947
32044437 ATTTGCAACA
* *
32044447 TATTTTACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAGTAT
1 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
* *
32044512 CAATCATAAAACTTTATTATTCATTTACCATTATTAACACGACTTGGAGTCGGACGGATACACGG
66 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
* *
32044577 ATCCAACCAAAACACACTAGTTTGGCACCAAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
131 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTAGATAATTCGAAGTAATAAATTGA
32044642 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
196 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
32044707 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
261 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
*
32044772 CCTATGGCATGCCATCTATATCTAACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
326 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
32044837 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
391 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
*
32044902 ATCATAATGCCAAATACTCACCTCAATCACTTACCAGAAACATTGAATCAAAATACAACAATTAA
456 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAAT--AACAATTAA
32044967 TAACTAAGTTCGGATTATAGAAATACAAATAAGAAATTTTGAACTATCCCTCATCGACTTTATCT
519 T-ACTAAG-TC-----------A-AC---------A---T--A-TATCCCTCATCGACTTTATCT
* * *
32045032 TT-TCCCTTTTTCACTCAAATTCCTAAATTTTGAATTTGTCACAATTTAGTCCATATTACTCAAA
555 TTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAATTTTTCACAATTTAGTCCATATTACTCAAA
32045096 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
620 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
*
32045161 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGAGTAGT
685 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGGGTAGT
*
32045226 ATTAACACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACCAACCAATT
750 ATTAACACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACTAACCAATT
32045291 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTT
815 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTT
32045356 TTTTCTTTCTTTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTTT
880 TTTTCTTTCTTTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTTT
32045421 TAT
945 TAT
*
32045424 TATTTCACATTCTATTTTCATTTCATTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
1 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
32045489 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
66 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
* *
32045554 ATCCAACCAAAACACACCAGTTTGGCACCCAGTGCCTTAGTAGACAATTCGAAGTAATAAATTGA
131 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTAGATAATTCGAAGTAATAAATTGA
* * *
32045619 CACCTAGTATCTCATCGGCTAAACCGAAGTAAATTGGCACCCATTGCCTCATCGAATTAATCCGA
196 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
* *
32045684 AGTAGTAAATTGACACCCAGTGTATCATTGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
261 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
*
32045749 CCTATGGCATGCCATCTATATCTGACTCAGTCCGATATGGTTAATAGGGTTTAATTTCACAATTC
326 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
32045814 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
391 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
32045879 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAAT-ACAA-TAAT-
456 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATAACAATTAATA
32045941 C-AA-TC-AC-T-TA-CCCTCATCGACTTTATCTTTCCCCCTTTTTCACTTAAATTCCTAAATTT
521 CTAAGTCAACATATATCCCTCATCGACTTTATCTTTCCCCCTTTTTCACTTAAATTCCTAAATTT
*
32046000 TGAATTTTTCACAATTTAGTCCATATTACTCAAAATCTACAATTTATTCTACAATTCAATCCTTT
586 TGAATTTTTCACAATTTAGTCCATATTACTCAAAATTTACAATTTATTCTACAATTCAATCCTTT
*
32046065 TTCATTTCTAACTTAAAAATCCCTAAAACTAAAATTATTCAACATAGACAAAACTTAGAAACTCA
651 TTCATTTCTAACTTAAAAATCCCTAAAACTAAAATTATTCAACATAGACAAAACTTAAAAACTCA
32046130 ATAATTTCTAAATTTTTAACATGGGTCGGGTAGTATTAACACCGAGATTCCAAAAACATAAAAAT
716 ATAATTTCTAAATTTTTAACATGGGTCGGGTAGTATTAACACCGAGATTCCAAAAACATAAAAAT
* * *
32046195 TACAAGAAAAATGGACTAAATTTACTAACCAATTGAACTTGAAAAATTGAAACCCCCAAGGCTGT
781 TACAAGAAAAAGGGACTAAATTGACTAACCAATTGAACTTGAAAAATTGAAACCCCCAAGGCCGT
*
32046260 GGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTTTTTTCTTTCTCTTTCTTTCTGTTTCGTTTTG
846 GGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTTTTTTCTTTCTTTTTCTTTCTGTTTCGTTTTG
32046325 GTTTTCTATTCCTTTTTCTTTTATTTATTTGTTTTAT
911 GTTTTCTATTCCTTTTTCTTTTATTTATTTGTTTTAT
32046362 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
1 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
32046427 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
66 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
32046492 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTAGATAATTCGAAGTAATAAATTGA
131 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTAGATAATTCGAAGTAATAAATTGA
32046557 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
196 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
*
32046622 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCTAAGAAATCCCTGAACTCTTCCAAT
261 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
*
32046687 CCTACGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
326 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
32046752 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
391 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
32046817 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATGCAACAATTAA
456 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAAT--AACAATTAA
32046882 TAACTAAGTTCGGATTATAGAAATACAAATAAGAAATTTTGAACTATCCCTCATCGACTTTATCT
519 T-ACTAAG-TC-----------A-AC---------A---T--A-TATCCCTCATCGACTTTATCT
*
32046947 TTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAATTTTTCACAATTTATTCCATATTACTCAAA
555 TTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAATTTTTCACAATTTAGTCCATATTACTCAAA
32047012 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
620 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
32047077 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGGGTAGT
685 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGGGTAGT
* *
32047142 ATTAATACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACTAACCATTT
750 ATTAACACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACTAACCAATT
*
32047207 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTACTTCTTTCTCTGTTTCTTTCTTTT
815 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTTCTTCTTTCTCTGTTTCTTTC-TTT
*
32047272 TTTTTATTTCTTTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTT
879 TTTTTCTTTCTTTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTT
32047337 TTAT
944 TTAT
32047341 TATT
1 TATT
32047345 ATAATATAAT
Statistics
Matches: 1829, Mismatches: 50, Indels: 82
0.93 0.03 0.04
Matches are distributed among these distances:
937 20 0.01
938 879 0.48
941 4 0.00
942 5 0.00
944 1 0.00
945 2 0.00
947 2 0.00
955 2 0.00
960 2 0.00
968 2 0.00
970 2 0.00
971 1 0.00
973 5 0.00
974 4 0.00
977 494 0.27
978 330 0.18
979 74 0.04
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.36
Consensus pattern (947 bp):
TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTAGATAATTCGAAGTAATAAATTGA
CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATAACAATTAATA
CTAAGTCAACATATATCCCTCATCGACTTTATCTTTCCCCCTTTTTCACTTAAATTCCTAAATTT
TGAATTTTTCACAATTTAGTCCATATTACTCAAAATTTACAATTTATTCTACAATTCAATCCTTT
TTCATTTCTAACTTAAAAATCCCTAAAACTAAAATTATTCAACATAGACAAAACTTAAAAACTCA
ATAATTTCTAAATTTTTAACATGGGTCGGGTAGTATTAACACCGAGATTCCAAAAACATAAAAAT
TACAAGAAAAAGGGACTAAATTGACTAACCAATTGAACTTGAAAAATTGAAACCCCCAAGGCCGT
GGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTTTTTTCTTTCTTTTTCTTTCTGTTTCGTTTTG
GTTTTCTATTCCTTTTTCTTTTATTTATTTGTTTTAT
Found at i:32059241 original size:85 final size:85
Alignment explanation
Indices: 32059098--32059272 Score: 350
Period size: 85 Copynumber: 2.1 Consensus size: 85
32059088 GGCCATGAGA
32059098 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
1 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
32059163 GGATTAATAAAATAAAGAGC
66 GGATTAATAAAATAAAGAGC
32059183 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
1 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
32059248 GGATTAATAAAATAAAGAGC
66 GGATTAATAAAATAAAGAGC
32059268 ATGGG
1 ATGGG
32059273 CAATAAAATA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
GGATTAATAAAATAAAGAGC
Found at i:32060631 original size:40 final size:39
Alignment explanation
Indices: 32060441--32060624 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
32060431 CGAATGATGT
* * * *
32060441 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
32060481 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
32060521 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
32060559 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
32060600 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32060625 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32060646 original size:79 final size:79
Alignment explanation
Indices: 32060493--32060647 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
32060483 GGACTAAGAT
* * **
32060493 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
32060558 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* *
32060572 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
*
32060635 TATAT-TCGGTTAA
63 TAAATCTCGGTTAA
32060648 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 42 0.65
80 21 0.32
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:32065804 original size:84 final size:83
Alignment explanation
Indices: 32065663--32065838 Score: 318
Period size: 84 Copynumber: 2.1 Consensus size: 83
32065653 GGCCGGCCAT
32065663 GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
32065728 TAAGGATTAATAAAATAAA
66 TAAGGATTAAT-AAATAAA
32065747 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTT-GGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCT-AAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
32065811 GTAAGGATTAATAAATAAA
65 GTAAGGATTAATAAATAAA
*
32065830 TAGCATGGG
1 GAGCATGGG
32065839 CAATAAAATA
Statistics
Matches: 90, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
83 15 0.17
84 54 0.60
85 21 0.23
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (83 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
TAAGGATTAATAAATAAA
Found at i:32067110 original size:39 final size:40
Alignment explanation
Indices: 32067002--32067186 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
32066992 TCGAATGATG
* * *
32067002 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
32067041 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
32067082 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
32067121 TCTGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
32067160 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32067187 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:32067208 original size:79 final size:79
Alignment explanation
Indices: 32067057--32067219 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
32067047 ACTAAGATCT
* **
32067057 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
* *
32067122 CTGGGTTAAGTCCC
66 CTCGGTTAAATCCC
* * *
32067136 GAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* *
32067199 TATC-CGGTTAAATTCC
63 AATCTCGGTTAAATCCC
32067215 GAAGG
1 GAAGG
32067220 TACGTGATTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CTCGGTTAAATCCC
Found at i:32068591 original size:14 final size:14
Alignment explanation
Indices: 32068572--32068601 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32068562 GGGGTGTTAC
32068572 ACCTTGGCTGCAGT
1 ACCTTGGCTGCAGT
32068586 ACCTTGGCTGCAGT
1 ACCTTGGCTGCAGT
32068600 AC
1 AC
32068602 GTGTACCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (14 bp):
ACCTTGGCTGCAGT
Found at i:32069192 original size:9 final size:9
Alignment explanation
Indices: 32069169--32069232 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
32069159 AGTTAAACCG
*
32069169 AATCGAGTT
1 AATCGAATT
*
32069178 ATTCGAATT
1 AATCGAATT
*
32069187 AATCGAGTT
1 AATCGAATT
*
32069196 ATTCGAATT
1 AATCGAATT
*
32069205 AATCGAGTT
1 AATCGAATT
* *
32069214 ATTCGAATC
1 AATCGAATT
32069223 AACTCGAATT
1 AA-TCGAATT
32069233 TTTTTTCGAA
Statistics
Matches: 41, Mismatches: 13, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
9 35 0.85
10 6 0.15
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (9 bp):
AATCGAATT
Found at i:32069192 original size:18 final size:18
Alignment explanation
Indices: 32069169--32069221 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
32069159 AGTTAAACCG
32069169 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
32069187 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
32069205 AATCGAGTTATTCGAAT
1 AATCGAGTTATTCGAAT
32069222 CAACTCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:32069293 original size:18 final size:18
Alignment explanation
Indices: 32069272--32069308 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32069262 TGAGTTTTCG
32069272 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
32069290 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
32069308 A
1 A
32069309 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:32069557 original size:30 final size:31
Alignment explanation
Indices: 32069523--32069582 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
32069513 AAACCTTTTA
*
32069523 TTTTCCCCTAAAATTTTTACTCTC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCTCTTCCCAC
* *
32069553 TTTTCCCCTAGAACTTTTATTCTCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCTCTTCCCA
32069583 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCTCTTCCCAC
Found at i:32070365 original size:15 final size:15
Alignment explanation
Indices: 32070342--32070373 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32070332 ACTCAAAAAA
*
32070342 ATTTTATTCGATTCG
1 ATTTGATTCGATTCG
32070357 ATTTGATTCGATTCG
1 ATTTGATTCGATTCG
32070372 AT
1 AT
32070374 CGAATGCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (15 bp):
ATTTGATTCGATTCG
Found at i:32074767 original size:18 final size:20
Alignment explanation
Indices: 32074746--32074782 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
32074736 GGAATGGAAA
32074746 AGAAGAG-AGAAA-ATGGAG
1 AGAAGAGAAGAAAGATGGAG
32074764 AGAAGAGAAGAAAGATGGA
1 AGAAGAGAAGAAAGATGGA
32074783 AATGCTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (20 bp):
AGAAGAGAAGAAAGATGGAG
Found at i:32081075 original size:23 final size:23
Alignment explanation
Indices: 32081040--32081083 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32081030 AACTCACCAC
32081040 AGCTCGTATGAGCTTACTGTTTT
1 AGCTCGTATGAGCTTACTGTTTT
*
32081063 AGCTCG-ATAGAGCTTATTGTT
1 AGCTCGTAT-GAGCTTACTGTT
32081084 CTTCATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACTGTTTT
Found at i:32082710 original size:18 final size:16
Alignment explanation
Indices: 32082669--32082713 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
32082659 TGTTTGATAT
32082669 TGAAATGGTAAAGGAGG
1 TGAAATGG-AAAGGAGG
*
32082686 AGAAATGGAAAGGAGATG
1 TGAAATGGAAAGGAG--G
32082704 TGAAATGGAA
1 TGAAATGGAA
32082714 TATGAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.16
Consensus pattern (16 bp):
TGAAATGGAAAGGAGG
Found at i:32085799 original size:24 final size:24
Alignment explanation
Indices: 32085746--32085799 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
32085736 TTCGTAGGTC
* *
32085746 AAATAAATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATACT
32085770 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATACT
32085794 AAATAT
1 AAATAT
32085800 TTTAGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATACT
Found at i:32086865 original size:13 final size:13
Alignment explanation
Indices: 32086847--32086873 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32086837 GACCCTTCAC
32086847 ATCCTCGAATGAG
1 ATCCTCGAATGAG
32086860 ATCCTCGAATGAG
1 ATCCTCGAATGAG
32086873 A
1 A
32086874 GTTTGCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
ATCCTCGAATGAG
Found at i:32087075 original size:22 final size:22
Alignment explanation
Indices: 32087033--32087075 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32087023 AAAACAGGCT
***
32087033 TTTAGCGGCGCTTTTTTAAGCC
1 TTTAGCGGCGCTTTGAGAAGCC
32087055 TTTAGCGGCGCTTTGAGAAGC
1 TTTAGCGGCGCTTTGAGAAGC
32087076 GCCGCAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (22 bp):
TTTAGCGGCGCTTTGAGAAGCC
Found at i:32087199 original size:43 final size:42
Alignment explanation
Indices: 32087151--32087331 Score: 168
Period size: 43 Copynumber: 4.2 Consensus size: 42
32087141 AAAGACGCTG
*
32087151 ACCTTTAGCGGCGCTTCTCCCACAAACG-TCGCGATAGACTCTA-
1 ACCTTTAGCGGCGCTTCTCCCACAAACGCT-GCGAAAGAC-C-AC
* *
32087194 ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCAC
1 ACCTTTAGCGGCGCTTCTCCCACAAACGCTGCGAAAGACCAC
* * * *
32087236 GACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAAATCAC
1 -ACCTTTAGCGGCGCTTCTCCCACAAACGCTGCGAAAGACCAC
* * ** * * * *
32087279 GACCTTTAACGGCGCTTTTATCACAAACGCCGCTAAAGAACAA
1 -ACCTTTAGCGGCGCTTCTCCCACAAACGCTGCGAAAGACCAC
32087322 ACCTTTAGCG
1 ACCTTTAGCG
32087332 CTTCTAGCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 10 0.08
43 108 0.90
44 1 0.01
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.22
Consensus pattern (42 bp):
ACCTTTAGCGGCGCTTCTCCCACAAACGCTGCGAAAGACCAC
Found at i:32087255 original size:86 final size:84
Alignment explanation
Indices: 32087131--32087331 Score: 233
Period size: 86 Copynumber: 2.3 Consensus size: 84
32087121 GTTTTTGGAA
* * * * * *
32087131 AAACGCCGGTAAAGACGCTGACCTTTAGCGGCGCTTCTCCCACAAACGTCGCGATAGACTCTA-A
1 AAACGCCGCTAAAGA-ACAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCGA-AAAATC-ACA
* *
32087195 CCTTTAGCGGCGCTTTTCCCAC
63 CCTTTAACGGCGCTTTTACCAC
* * *
32087217 AAACGCTGCTAAAGACCACGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAAATCACGAC
1 AAACGCCGCTAAAGAACA-GACCTTTAGCGGCGCTTCTCCCACAAACGCCGCGAAAAATCAC-AC
*
32087282 CTTTAACGGCGCTTTTATCAC
64 CTTTAACGGCGCTTTTACCAC
*
32087303 AAACGCCGCTAAAGAACAAACCTTTAGCG
1 AAACGCCGCTAAAGAACAGACCTTTAGCG
32087332 CTTCTAGCAA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.01
85 15 0.15
86 82 0.84
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (84 bp):
AAACGCCGCTAAAGAACAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCGAAAAATCACACCT
TTAACGGCGCTTTTACCAC
Found at i:32088117 original size:23 final size:23
Alignment explanation
Indices: 32088067--32088118 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
32088057 GTTAGGTGTC
* *
32088067 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGACATG
* * *
32088090 GGTATGAAGGCATGTCTGACATG
1 AGTATGAAGACATGTCAGACATG
32088113 AGTATG
1 AGTATG
32088119 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGACATG
Found at i:32090294 original size:31 final size:31
Alignment explanation
Indices: 32090259--32090320 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
32090249 GAATAAAAGC
* *
32090259 ACCTGGGTTAAAAACAAACACAGACGAGACT
1 ACCTGGGTTAAAAACAAACACAAACAAGACT
32090290 ACCTGGGTTAAAAACAAACACAAACAAGACT
1 ACCTGGGTTAAAAACAAACACAAACAAGACT
32090321 CTATCACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.13
Consensus pattern (31 bp):
ACCTGGGTTAAAAACAAACACAAACAAGACT
Found at i:32092485 original size:15 final size:15
Alignment explanation
Indices: 32092465--32092494 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32092455 ATAATTTAAA
32092465 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
32092480 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
32092495 TAAATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTATCTCCTAAACCC
Found at i:32092667 original size:21 final size:21
Alignment explanation
Indices: 32092643--32092704 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
32092633 CCTTAAATCA
*
32092643 CTAACTCTTAACCCCTAACCC
1 CTAACTCTTAACCCCAAACCC
* *
32092664 CTAACCCTAAACCCCAAACCC
1 CTAACTCTTAACCCCAAACCC
* *
32092685 TTAACTAC-TAACCCTAAACC
1 CTAACT-CTTAACCCCAAACC
32092705 TTATTTAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAACTCTTAACCCCAAACCC
Found at i:32093278 original size:41 final size:40
Alignment explanation
Indices: 32093216--32093452 Score: 264
Period size: 41 Copynumber: 5.8 Consensus size: 40
32093206 AAATGTTTTT
** *
32093216 GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTA
1 GCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTA
** *
32093256 GCGGCGCTTATTGGAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTT-TTTAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
32093297 GCGGCGCTTTTTCAAAAGCGCCGCTAAAAG-CCTAAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCGCT-AAAGCCCTGAGCATTA
32093338 GCGGCGCTTTTCTAAAAACGCCGCTAAAAG-CCTGAGCATTA
1 GCGGCGCTTTT-TAAAAACGCCGCT-AAAGCCCTGAGCATTA
* *
32093379 GCGGAGCTTTTTCAAAAACGCCGCTAAAGCTCC-GACCATTA
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAGC-CCTGAGCATTA
* *
32093420 GCGGCGCTTTCTCAAAAACACCGCTAAAAGCCC
1 GCGGCGCTTT-TTAAAAACGCCGCT-AAAGCCC
32093453 CGAAAGGTCG
Statistics
Matches: 171, Mismatches: 17, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
40 16 0.09
41 142 0.83
42 13 0.08
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:32093356 original size:82 final size:82
Alignment explanation
Indices: 32093216--32093455 Score: 310
Period size: 82 Copynumber: 2.9 Consensus size: 82
32093206 AAATGTTTTT
* **
32093216 GCGGCGC-TTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTATT-GGAAAACGCCG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCTAAGCATTAGCGGCGCTT-TTCTAAAAACGCCG
32093279 CT-AAAGCCCCGAGCATTA
64 CTAAAAGCCCCGAGCATTA
*
32093297 GCGGCGCTTTTTCAAAAGCGCCGCTAAAAGCCTAAGCATTAGCGGCGCTTTTCTAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCT-AAAGCCTAAGCATTAGCGGCGCTTTTCTAAAAACGCCGC
*
32093362 TAAAAG-CCTGAGCATTA
65 TAAAAGCCCCGAGCATTA
* ** * *
32093379 GCGGAGCTTTTTCAAAAACGCCGCTAAAGCTCCGACCATTAGCGGCGC-TTTCTCAAAAACACCG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGC-CTAAGCATTAGCGGCGCTTTTCT-AAAAACGCCG
32093443 CTAAAAGCCCCGA
64 CTAAAAGCCCCGA
32093456 AAGGTCGAAA
Statistics
Matches: 140, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
81 19 0.14
82 109 0.78
83 12 0.09
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (82 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTAAGCATTAGCGGCGCTTTTCTAAAAACGCCGCT
AAAAGCCCCGAGCATTA
Found at i:32093447 original size:123 final size:122
Alignment explanation
Indices: 32093216--32093451 Score: 348
Period size: 123 Copynumber: 1.9 Consensus size: 122
32093206 AAATGTTTTT
* **
32093216 GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTATTGGAAAACGCCGCT
1 GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGAGCTTATTCAAAAACGCCGCT
* * * *
32093281 AAAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAGCGCCGCTAAAAGCCTAAGCATTA
66 AAAGCCCCGACCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAAGCCTAAGCATTA
* * *
32093338 GCGGCGCTTTTCTAAAAACGCCGCTAAAAG-CCTGAGCATTAGCGGAGCTTTTTCAAAAACGCCG
1 GCGGCGC-TTTCCAAAAACGCCGCT-AAAGCCCTAAGCATTAGCGGAGCTTATTCAAAAACGCCG
*
32093402 CTAAAGCTCCGACCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAAGCC
64 CTAAAGCCCCGACCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAAGCC
32093452 CCGAAAGGTC
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
122 7 0.07
123 90 0.89
124 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (122 bp):
GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGAGCTTATTCAAAAACGCCGCT
AAAGCCCCGACCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAAGCCTAAGCATTA
Found at i:32093536 original size:40 final size:39
Alignment explanation
Indices: 32093486--32093561 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
32093476 TGGGCTTAGC
** *
32093486 TTTTTAGCGGCATTTTTCGAGAAAACGCCGCTAATGCCCA
1 TTTTTAGCGGC-GCTTTCAAGAAAACGCCGCTAATGCCCA
* *
32093526 TTTTTTGCGGCGCTTTCAAGAAAGCGCCGCTAATGC
1 TTTTTAGCGGCGCTTTCAAGAAAACGCCGCTAATGC
32093562 TTGATCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 21 0.68
40 10 0.32
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTCAAGAAAACGCCGCTAATGCCCA
Found at i:32093597 original size:40 final size:40
Alignment explanation
Indices: 32093546--32093621 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
32093536 CGCTTTCAAG
*
32093546 AAAGCGCCGCTAATGCTTGATCTTTAACGGCATTTTATGT
1 AAAGCGCCGCTAATACTTGATCTTTAACGGCATTTTATGT
* * *
32093586 AAAGCGCCGCTAATACTTGATTTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATACTTGATCTTTAACGGCATTTT
32093622 TTGTCCAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (40 bp):
AAAGCGCCGCTAATACTTGATCTTTAACGGCATTTTATGT
Done.