Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 52 of 185
Found at i:14802399 original size:19 final size:20
Alignment explanation
Indices: 14802377--14802417 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
14802367 TTCTATTCTG
*
14802377 TTTCTTTTCTTTCTTTT-TT
1 TTTCTATTCTTTCTTTTGTT
14802396 TTTCTATTCTTTCTTTTGTT
1 TTTCTATTCTTTCTTTTGTT
14802416 TT
1 TT
14802418 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTCTATTCTTTCTTTTGTT
Found at i:14802405 original size:15 final size:15
Alignment explanation
Indices: 14802367--14802412 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
14802357 GTTTCGTCTC
*
14802367 TTCTATTCTGTTTCTT
1 TTCTATTCT-TTTTTT
14802383 TTCT-TTCTTTTTTT
1 TTCTATTCTTTTTTT
14802397 TTCTATTCTTTCTTTT
1 TTCTATTCTTT-TTTT
14802413 GTTTTATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
16 8 0.30
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTATTCTTTTTTT
Found at i:14802434 original size:5 final size:5
Alignment explanation
Indices: 14802421--14802493 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
14802411 TTGTTTTATG
14802421 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
14802469 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
14802494 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:14802446 original size:19 final size:19
Alignment explanation
Indices: 14802422--14802464 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14802412 TGTTTTATGT
14802422 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
14802441 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
14802460 ATATA
1 ATATA
14802465 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:14802474 original size:24 final size:25
Alignment explanation
Indices: 14802428--14802492 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
14802418 ATGTATATAT
* *
14802428 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
14802452 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
14802477 TTACTATAATATAATA
1 ATAATATAATATAATA
14802493 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:14813837 original size:110 final size:110
Alignment explanation
Indices: 14813720--14813930 Score: 422
Period size: 110 Copynumber: 1.9 Consensus size: 110
14813710 AAAAAAATCT
14813720 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
1 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
14813785 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAA
66 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAA
14813830 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
1 TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
14813895 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
66 CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
14813931 TCGATTATTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (110 bp):
TTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAATTCCCGACAA
CAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTCAAAAAAAAA
Found at i:14814143 original size:13 final size:14
Alignment explanation
Indices: 14814124--14814163 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
14814114 CAATGATATA
14814124 GAAATAATATAAAC
1 GAAATAATATAAAC
14814138 -AAATAA-ATAAAC
1 GAAATAATATAAAC
14814150 GAAATTAATATAAA
1 GAAA-TAATATAAA
14814164 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 9 0.39
14 3 0.13
15 5 0.22
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:14814419 original size:20 final size:20
Alignment explanation
Indices: 14814373--14814422 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14814363 AAAATAAAGA
* *
14814373 AATATATATATAGAAATTTT
1 AATATATATATAGAAAGTAT
* *
14814393 AAAATATGTATAGAAAGTAT
1 AATATATATATAGAAAGTAT
14814413 AATATATATA
1 AATATATATA
14814423 CTTACATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
AATATATATATAGAAAGTAT
Found at i:14816150 original size:41 final size:41
Alignment explanation
Indices: 14816100--14816179 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
14816090 GTTTTAGTGG
**
14816100 CGTTGTTGAAAAAGCGCCGCTAATGTTCAGGGCTTTAGCAA
1 CGTTGTTGAAAAAGCGCCGCTAATCCTCAGGGCTTTAGCAA
* * *
14816141 CGTTTTTGAAAAAGCGCTGCTAATCCTCGGGGCTTTAGC
1 CGTTGTTGAAAAAGCGCCGCTAATCCTCAGGGCTTTAGC
14816180 GGCGCATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (41 bp):
CGTTGTTGAAAAAGCGCCGCTAATCCTCAGGGCTTTAGCAA
Found at i:14819228 original size:55 final size:55
Alignment explanation
Indices: 14819164--14819272 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
14819154 GTAATTTTGA
14819164 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGTC
1 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGTC
14819219 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGT
1 AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGT
14819273 AATATTTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (55 bp):
AGACTGTATCTTTTAAAGAAATTATCTTTTTATGTATGATCTCATAAATCTGGTC
Found at i:14819671 original size:23 final size:23
Alignment explanation
Indices: 14819642--14819916 Score: 226
Period size: 23 Copynumber: 12.0 Consensus size: 23
14819632 ATGGTGGATT
* *
14819642 TGTAAATTTAAGTGTTTAAGTGT
1 TGTAAATTGAAGTGTTTAAGTGC
* *
14819665 TGCAAATTGAAGTATTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* * *
14819688 TGGAAATTGAAATGTTTTA-TCGC
1 TGTAAATTGAAGTGTTTAAGT-GC
* * * *
14819711 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAAGTGTTTAAGTGC
*
14819733 TGTTAATTGATA-TGTTTAAGTGC
1 TGTAAATTGA-AGTGTTTAAGTGC
* *
14819756 TGTAAATTTAAGTGTTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
14819779 TGTAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
14819802 TGCAAATTGAAGTGTTT-AGTTGC
1 TGTAAATTGAAGTGTTTAAG-TGC
* *
14819825 TGGAAATTG-AGATGTTTTA-TCGC
1 TGTAAATTGAAG-TGTTTAAGT-GC
* *
14819848 TGT-AATTGATA-TGTTAAAGTGT
1 TGTAAATTGA-AGTGTTTAAGTGC
* *
14819870 TGCAAATTGAAGTGTTTAAATGC
1 TGTAAATTGAAGTGTTTAAGTGC
*
14819893 TGTAAATTGAAGTGTTAAAGTGC
1 TGTAAATTGAAGTGTTTAAGTGC
14819916 T
1 T
14819917 ACTTTCCATT
Statistics
Matches: 201, Mismatches: 35, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
22 38 0.19
23 160 0.80
24 3 0.01
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (23 bp):
TGTAAATTGAAGTGTTTAAGTGC
Found at i:14819787 original size:114 final size:114
Alignment explanation
Indices: 14819642--14819916 Score: 324
Period size: 114 Copynumber: 2.4 Consensus size: 114
14819632 ATGGTGGATT
* * * *
14819642 TGTAAATTTAAGTGTTTAAGTGTTGCAAATTGAAGTATTT-AGTTGCTGGAAATTGAAATGTTTT
1 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAG-TGCTGCAAATTGAAATG-TTT
* * * *
14819706 A-TCGCT-GTAATTGAGGTGTATAAAT-GTTGTTAATTGATATGTTTAAGTGC
64 AGTCGCTGGAAATTGAGATGT-TAAATCGCTG-TAATTGATATGTTAAAGTGC
* *
14819756 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAG
1 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAGTGCTGCAAATTGAAATGTTTAG
* ** *
14819821 TTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGATATGTTAAAGTGT
66 TCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGATATGTTAAAGTGC
* * * *
14819870 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
1 TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAGTGCT
14819917 ACTTTCCATT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
113 4 0.03
114 120 0.86
115 16 0.11
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (114 bp):
TGTAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTATTTAAGTGCTGCAAATTGAAATGTTTAG
TCGCTGGAAATTGAGATGTTAAATCGCTGTAATTGATATGTTAAAGTGC
Found at i:14819888 original size:137 final size:137
Alignment explanation
Indices: 14819642--14819916 Score: 412
Period size: 137 Copynumber: 2.0 Consensus size: 137
14819632 ATGGTGGATT
* *
14819642 TGTAAATTTAAGTGTTTAAGTGTTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
1 TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
* ** * *
14819707 TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGTAAATTTAAGTGTT
66 TCGCTGTAATTGAGATGTATAAATGTTGCAAATTGATATGTTTAAATGCTGTAAATTGAAGTG-T
14819772 TAAA-TGC
130 TAAAGTGC
* *
14819779 TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTA
1 TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
*
14819844 TCGCTGTAATTGATATGT-TAAAGTGTTGCAAATTGA-AGTGTTTAAATGCTGTAAATTGAAGTG
66 TCGCTGTAATTGAGATGTATAAA-TGTTGCAAATTGATA-TGTTTAAATGCTGTAAATTGAAGTG
14819907 TTAAAGTGC
129 TTAAAGTGC
14819916 T
1 T
14819917 ACTTTCCATT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
136 10 0.08
137 115 0.92
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (137 bp):
TGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAAATGTTTTA
TCGCTGTAATTGAGATGTATAAATGTTGCAAATTGATATGTTTAAATGCTGTAAATTGAAGTGTT
AAAGTGC
Found at i:14820877 original size:43 final size:43
Alignment explanation
Indices: 14820773--14820934 Score: 204
Period size: 43 Copynumber: 3.8 Consensus size: 43
14820763 TTTTCGTGAC
** * *
14820773 CTTTAGCGATGTTTTTAGAGAAAGCG-CTGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGAGAAAGCGTC-GCTAAAGGTCTTGTT
14820816 -TTTAGCGGCGTTTTTGGAGAAAGCGTCGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTTTGGAGAAAGCGTCGCTAAAGGTCTTGTT
* **
14820858 CTTTAGTGGCGTTTTTGGAGAAAGCGTCATTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTTTGGAGAAAGCGTCGCTAAAGGTCTTGTT
* *
14820901 CTTTAGCGACGTTTTT-GAGAAAAGTGTCGCTAAA
1 CTTTAGCGGCGTTTTTGGAG-AAAGCGTCGCTAAA
14820935 ACGTCGCTAA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 39 0.38
43 65 0.62
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGAGAAAGCGTCGCTAAAGGTCTTGTT
Found at i:14821245 original size:50 final size:50
Alignment explanation
Indices: 14821121--14821453 Score: 395
Period size: 50 Copynumber: 6.7 Consensus size: 50
14821111 GAATATAACA
* * * ** * * *
14821121 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
14821170 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
14821220 TGCCCATGCCATGTCCCAAACATGGTCTT--ATGGGAGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GG-GACCTCTCATCTCGG
*
14821270 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
14821320 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
14821370 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
14821420 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
14821454 AGATCTCATC
Statistics
Matches: 245, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.01
49 37 0.15
50 202 0.82
51 2 0.01
52 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14821393 original size:150 final size:148
Alignment explanation
Indices: 14821121--14821453 Score: 436
Period size: 150 Copynumber: 2.2 Consensus size: 148
14821111 GAATATAACA
* * ** * * *
14821121 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCC
1 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTACTGCCAATGCCATATCC
* * * *
14821186 CAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAAACATGGTCTT-A
66 CAGACATGGTCTTACATGAGACTTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTAA
*
14821250 TGGGAGACCTCTCATCTTGG
131 T-GG-GACCTCTCATCTCGG
* *
14821270 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCT-CGGTGTCAATGCCATGT
1 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTAC--TGCCAATGCCATAT
* * * *
14821334 CCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
64 CCCAGACATGGTCTTACATGAGACTTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTT
14821399 ACATGGGACCTCTCATCTCGG
129 A-ATGGGACCTCTCATCTCGG
*
14821420 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATAGTCTTACATG
14821454 AGATCTCATC
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
148 1 0.01
149 40 0.25
150 116 0.72
151 2 0.01
152 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (148 bp):
TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTACTGCCAATGCCATATCC
CAGACATGGTCTTACATGAGACTTCTCATATAGGTGCCAACGCCATGTCCCAAACATGGTCTTAA
TGGGACCTCTCATCTCGG
Found at i:14824944 original size:32 final size:31
Alignment explanation
Indices: 14824894--14824958 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 31
14824884 AAAACTTTAA
* *
14824894 AATTTGATAAGTACAAGGACTAAATTTAATC
1 AATTTGAAAAGTACAAGGACTAAAATTAATC
* * *
14824925 AATTTGAAAAAGTATAAGGATTAAAATTAGTC
1 AATTTG-AAAAGTACAAGGACTAAAATTAATC
14824957 AA
1 AA
14824959 ATTAAAGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (31 bp):
AATTTGAAAAGTACAAGGACTAAAATTAATC
Found at i:14828328 original size:35 final size:35
Alignment explanation
Indices: 14828289--14828358 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
14828279 GCTCCATATA
*
14828289 TATAAATTTAACAACCGCATATCACC-ATGTACATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTACATT
*
14828324 TATAAATTCAATAACCGCATATACCTAATGTACAT
1 TATAAATTCAACAACCGCATATACC-AATGTACAT
14828359 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTACATT
Found at i:14828695 original size:41 final size:41
Alignment explanation
Indices: 14828617--14828696 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
14828607 GTCCGAAATG
* ** *
14828617 TTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
14828658 TTTCACCAGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAAT
14828697 AACTGAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:14829334 original size:21 final size:21
Alignment explanation
Indices: 14829308--14829351 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14829298 TAAAATCAAC
*
14829308 TTCAGCTTGTAGAACATAAAA
1 TTCAGCTTATAGAACATAAAA
14829329 TTCAGCTTATAGAACATAAAA
1 TTCAGCTTATAGAACATAAAA
14829350 TT
1 TT
14829352 TGCTATTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (21 bp):
TTCAGCTTATAGAACATAAAA
Found at i:14832077 original size:414 final size:414
Alignment explanation
Indices: 14831301--14832131 Score: 1608
Period size: 414 Copynumber: 2.0 Consensus size: 414
14831291 TGAAATAATA
*
14831301 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATGTACAATTCAGCAAGTTTATCAAGTGA
1 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATGTACAATTCAACAAGTTTATCAAGTGA
14831366 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
66 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
14831431 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
131 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
14831496 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
196 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
*
14831561 ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGTT
261 ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
14831626 GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
326 GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
14831691 TTCAAAATCACCTGTATTAACTTT
391 TTCAAAATCACCTGTATTAACTTT
14831715 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATGTACAATTCAACAAGTTTATCAAGTGA
1 GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATGTACAATTCAACAAGTTTATCAAGTGA
14831780 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
66 ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
*
14831845 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCTATTTC
131 CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
*
14831910 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGGCTTTAACTTGCTG
196 CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
*
14831975 ACAAATTAAACATTTCGAAACAAATTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
261 ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
*
14832040 GTTTCAGATCGTTATACATTTTCGTACTTCTCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
326 GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
14832105 TTCAAAATCACCTGTATTAACTTT
391 TTCAAAATCACCTGTATTAACTTT
14832129 GAA
1 GAA
14832132 TTTCTCGGAA
Statistics
Matches: 411, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
414 411 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (414 bp):
GAAATAGGCACTCCGTGCAATCTCACAATCTGAGAAATGTACAATTCAACAAGTTTATCAAGTGA
ATAATCAATACGAACCGGAACAAAGTGAGCCGATTTTGTCAATCTATCAACAACAACCCAAATTG
CATCTTTCTTGCTGGGTGTCAATGGTAAACCGGATACAAAATCCATCGTAACTCTGTCCCATTTC
CACTCAGGTATCATGATCGGCTGAAGCAACCCAGATGGTACCTGATGCTCGACTTTAACTTGCTG
ACAAATTAAACATTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCATGCCACCAATAGTGCT
GTTTCAGATCGTTATACATTTTCGTACTTCCCGGATGAACCGAAAATCGGCTATTATGAGCTTCA
TTCAAAATCACCTGTATTAACTTT
Found at i:14836331 original size:35 final size:35
Alignment explanation
Indices: 14836292--14836361 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
14836282 GCTCCATATA
*
14836292 TATAAATTTAACAACCGCATATCACC-ATGTACATT
1 TATAAATTCAACAACCGCATAT-ACCAATGTACATT
*
14836327 TATAAATTCAATAACCGCATATACCTAATGTACAT
1 TATAAATTCAACAACCGCATATACC-AATGTACAT
14836362 ATGCCTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.10
35 20 0.65
36 8 0.26
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (35 bp):
TATAAATTCAACAACCGCATATACCAATGTACATT
Found at i:14836645 original size:41 final size:41
Alignment explanation
Indices: 14836600--14836685 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
14836590 TTTTAGTCTA
* * *
14836600 CTAGACCTATAGTCCGAAATGTTTCACCGGCATTAAGCCTG
1 CTAGACCTAAAGTCCGAAATATTTCACCAGCATTAAGCCTG
* * *
14836641 CTAGACGTAAAGTCTGAATTATTTCACCAGCATTAAGCCTG
1 CTAGACCTAAAGTCCGAAATATTTCACCAGCATTAAGCCTG
14836682 CTAG
1 CTAG
14836686 GCACATAGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
CTAGACCTAAAGTCCGAAATATTTCACCAGCATTAAGCCTG
Found at i:14836699 original size:41 final size:41
Alignment explanation
Indices: 14836621--14836700 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
14836611 GTCCGAAATG
* ** *
14836621 TTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTA
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
* *
14836662 TTTCACCAGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAAT
14836701 AACTGAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TTTCACCAGCATTAAGCCTGCTAGACACAAAGCCTGAATTA
Found at i:14837343 original size:21 final size:21
Alignment explanation
Indices: 14837310--14837353 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14837300 TAAAATCAAC
*
14837310 TTCAACTTGTAGAACATAAAA
1 TTCAACTTATAGAACATAAAA
*
14837331 TTCAGCTTATAGAACATAAAA
1 TTCAACTTATAGAACATAAAA
14837352 TT
1 TT
14837354 TGCTATTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAACTTATAGAACATAAAA
Found at i:14841432 original size:16 final size:16
Alignment explanation
Indices: 14841411--14841444 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14841401 AATATACTAG
14841411 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
14841427 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
14841443 TT
1 TT
14841445 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:14841678 original size:16 final size:16
Alignment explanation
Indices: 14841657--14841698 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
14841647 AATAATTTGA
*
14841657 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
14841673 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
14841689 TAGTTTTAAT
1 TAATTTTAAT
14841699 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:14843398 original size:5 final size:5
Alignment explanation
Indices: 14843351--14843380 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
14843341 TATTAAATAA
14843351 TAATT TAATT TAATT TAATT TATATT TAAT
1 TAATT TAATT TAATT TAATT TA-ATT TAAT
14843381 ATTTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:14845541 original size:3 final size:3
Alignment explanation
Indices: 14845533--14845571 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
14845523 TTTGTTATGC
14845533 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14845572 CAAAAAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14851121 original size:21 final size:21
Alignment explanation
Indices: 14851091--14851137 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14851081 TGTTCATTAT
* *
14851091 TTGACTCCATTGTTCAT-GGA
1 TTGACCCCATTATTCATAGGA
14851111 CTTGACCCCATTATTCATAGGA
1 -TTGACCCCATTATTCATAGGA
14851133 TTGAC
1 TTGAC
14851138 ATTTTGAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
TTGACCCCATTATTCATAGGA
Found at i:14853650 original size:21 final size:21
Alignment explanation
Indices: 14853626--14853676 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
14853616 CATTGTTTCT
* *
14853626 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
14853647 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
14853668 AATCTCACC
1 AATCTCACC
14853677 ACCACCGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:14855344 original size:16 final size:16
Alignment explanation
Indices: 14855323--14855354 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14855313 TTATTTTCTC
*
14855323 TTTATGTATGTATGTA
1 TTTATGAATGTATGTA
14855339 TTTATGAATGTATGTA
1 TTTATGAATGTATGTA
14855355 GGTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTATGAATGTATGTA
Found at i:14855351 original size:20 final size:20
Alignment explanation
Indices: 14855326--14855363 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14855316 TTTTCTCTTT
*
14855326 ATGTATGTATGTATTTATGA
1 ATGTATGTAGGTATTTATGA
14855346 ATGTATGTAGGTATTTAT
1 ATGTATGTAGGTATTTAT
14855364 TCTTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
ATGTATGTAGGTATTTATGA
Found at i:14857947 original size:45 final size:45
Alignment explanation
Indices: 14857898--14857994 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
14857888 TACGGGCCTT
* *
14857898 GAGCAGGAGCGGGCTTT-ATCTGCTGGACCTGGAGCTGCAGGATTG
1 GAGCAGGAGCAGGCTTTAAT-TGCTGGACCTGGAGATGCAGGATTG
* * * * *
14857943 GAGCAGGGGCAGGCTTTAATTGCTGGACTTGTAGATGCGGGTTTG
1 GAGCAGGAGCAGGCTTTAATTGCTGGACCTGGAGATGCAGGATTG
14857988 GAGCAGG
1 GAGCAGG
14857995 CTTGGTCGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.41, T:0.24
Consensus pattern (45 bp):
GAGCAGGAGCAGGCTTTAATTGCTGGACCTGGAGATGCAGGATTG
Found at i:14863064 original size:3 final size:3
Alignment explanation
Indices: 14863058--14863083 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14863048 TGCATTAACT
14863058 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
14863084 GTGAACCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14864320 original size:26 final size:26
Alignment explanation
Indices: 14864291--14864343 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14864281 CAAGTTAGTA
14864291 ACCATCTCTAGAATCTGAACTATGTG
1 ACCATCTCTAGAATCTGAACTATGTG
14864317 ACCATCTCTAGAATCTGAACTATGTG
1 ACCATCTCTAGAATCTGAACTATGTG
14864343 A
1 A
14864344 TTGACAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (26 bp):
ACCATCTCTAGAATCTGAACTATGTG
Found at i:14868163 original size:6 final size:6
Alignment explanation
Indices: 14868152--14868182 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14868142 TATGCGGCTC
*
14868152 CCTAAT CCTAAT CCTAAT CCTAAT CCGAAT C
1 CCTAAT CCTAAT CCTAAT CCTAAT CCTAAT C
14868183 TCACCTCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.35, G:0.03, T:0.29
Consensus pattern (6 bp):
CCTAAT
Found at i:14869400 original size:23 final size:23
Alignment explanation
Indices: 14869355--14869414 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
14869345 TTTAGATTAT
*
14869355 TTATTTTAATTTTTAAAATTTAA
1 TTATTTTAATTTTAAAAATTTAA
*
14869378 TTATTTTGA-TTTAAAAATGTTAAA
1 TTATTTTAATTTTAAAAAT-TT-AA
*
14869402 TT-TTTTTATTTTA
1 TTATTTTAATTTTA
14869415 TATAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 15 0.48
24 8 0.26
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (23 bp):
TTATTTTAATTTTAAAAATTTAA
Found at i:14872801 original size:98 final size:98
Alignment explanation
Indices: 14872632--14872828 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
14872622 GTGCAATAAA
**
14872632 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
14872697 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
14872730 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
*
14872795 CCTCTAAAATCCCAAATTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
14872828 A
1 A
14872829 TTATTTTTAG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGAACACGATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:14873374 original size:107 final size:108
Alignment explanation
Indices: 14873254--14873468 Score: 396
Period size: 107 Copynumber: 2.0 Consensus size: 108
14873244 AAATGTATAC
*
14873254 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAATATGTGTCTA
1 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
*
14873319 TAAATATATGAAAAATATTAG-TTTTTAAGGTATAAATACCTA
66 TAAATATACGAAAAATATTAGTTTTTTAAGGTATAAATACCTA
*
14873361 ATGTACCCATAAAAATATGTAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
1 ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
14873426 TAAATATACGAAAAATATTAGTTTTTTAAGGTATAAATACCTA
66 TAAATATACGAAAAATATTAGTTTTTTAAGGTATAAATACCTA
14873469 CAAAAGAAAC
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 83 0.80
108 21 0.20
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (108 bp):
ATGTACCCATAAAAATATATAAATTTAAAATAATATCAAAATTAATTAAATAAAACATGTGTCTA
TAAATATACGAAAAATATTAGTTTTTTAAGGTATAAATACCTA
Found at i:14875109 original size:132 final size:132
Alignment explanation
Indices: 14874941--14875461 Score: 871
Period size: 132 Copynumber: 3.9 Consensus size: 132
14874931 AGACTTGTAG
* * *
14874941 CTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTTAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * * *
14875006 CTTGGAAAGATAAGATTCACCGTATTTGATCTGCTCCACTGCAACTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
14875071 AT
131 AT
* * *
14875073 CTTCAACCTTCTCCGCTGCTTCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
**
14875138 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
14875203 AT
131 AT
* *
14875205 CTTCAACCTTTTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
**
14875270 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
14875335 AT
131 AT
14875337 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
14875402 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTTAGGGAGATAAGA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAAC-TTAGGGAGATAAGA
14875462 CTACTGGTTA
Statistics
Matches: 367, Mismatches: 21, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
132 353 0.96
133 14 0.04
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTAGGGAGATAAGATCTATA
AT
Found at i:14875340 original size:44 final size:44
Alignment explanation
Indices: 14875160--14875367 Score: 131
Period size: 44 Copynumber: 4.7 Consensus size: 44
14875150 AGATTCGCCG
*
14875160 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
* ** * * * * **
14875204 TCTTCAACCTTTTCCGCTACTGCTCAGGGAGACAAG-GCT-TGG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
* * ****
14875246 TGGCTTAAATCTGCTTCTCACTA-T-CTT-GGAAAGATAAGAT-TCGCCG
1 T--CTTCAATCTGC-TC-CACTACTGCTTAGG-GAGATAAGATCT-ATAA
*
14875292 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
* * * *
14875336 TCTTCAACCTTCTCCGCTACTGCTCAGGGAGA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGA
14875368 CAAGGCTTGG
Statistics
Matches: 119, Mismatches: 33, Indels: 24
0.68 0.19 0.14
Matches are distributed among these distances:
42 7 0.06
43 7 0.06
44 93 0.78
45 6 0.05
46 6 0.05
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
Found at i:14891862 original size:15 final size:16
Alignment explanation
Indices: 14891842--14891873 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14891832 ATTGGGCTTT
14891842 TGTGTTTTAAA-AAAA
1 TGTGTTTTAAATAAAA
14891857 TGTGTTTTAAATAAAA
1 TGTGTTTTAAATAAAA
14891873 T
1 T
14891874 AATTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TGTGTTTTAAATAAAA
Found at i:14896337 original size:13 final size:13
Alignment explanation
Indices: 14896319--14896345 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14896309 TCAGCTTCTT
14896319 ACTTCCAAACTGA
1 ACTTCCAAACTGA
14896332 ACTTCCAAACTGA
1 ACTTCCAAACTGA
14896345 A
1 A
14896346 TTACCTAGTC
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:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (13 bp):
ACTTCCAAACTGA
Found at i:14899353 original size:41 final size:41
Alignment explanation
Indices: 14899298--14899466 Score: 266
Period size: 41 Copynumber: 4.1 Consensus size: 41
14899288 ATTGGTGAAT
*
14899298 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
* * * *
14899339 TTAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATA
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14899380 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14899421 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
14899462 CGAAT
1 TGAAT
14899467 ATGATGAATT
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
Found at i:14899435 original size:82 final size:82
Alignment explanation
Indices: 14899298--14899460 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
14899288 ATTGGTGAAT
*
14899298 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTTAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
14899363 GCTAAGTGCCAGTGATA
66 GCTAAGTGCCAGTGATA
14899380 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
*
14899445 GCTAAGTGCCGGTGAT
66 GCTAAGTGCCAGTGAT
14899461 CCGAATATGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (82 bp):
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
GCTAAGTGCCAGTGATA
Found at i:14899698 original size:31 final size:34
Alignment explanation
Indices: 14899655--14899752 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 34
14899645 TTATGTGTGC
*
14899655 ATATGTAGGCATTCGGCATAGGTGGATATA-TA-
1 ATATGTATGCATTCGGCATAGGTGGATATAGTAT
* *
14899687 AT-TGTATGCATTTGGCATAGGTAGATATAAGTGTAT
1 ATATGTATGCATTCGGCATAGGTGGATAT-A--GTAT
*
14899723 ATATGTATGCATTCGGCATAGGTGGGTATA
1 ATATGTATGCATTCGGCATAGGTGGATATA
14899753 AGTGAAAATG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
31 23 0.43
32 3 0.06
35 2 0.04
36 3 0.06
37 23 0.43
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.35
Consensus pattern (34 bp):
ATATGTATGCATTCGGCATAGGTGGATATAGTAT
Found at i:14899741 original size:37 final size:36
Alignment explanation
Indices: 14899655--14899772 Score: 126
Period size: 37 Copynumber: 3.5 Consensus size: 36
14899645 TTATGTGTGC
*
14899655 ATATGTAGGCATTCGGCATAGGTGGATAT-A---TA
1 ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
* *
14899687 AT-TGTATGCATTTGGCATAGGTAGATATAAGTGTA
1 ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
*
14899722 TATATGTATGCATTCGGCATAGGTGGGTATAAGTG-A
1 -ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
*
14899758 AAATG--TGCATTCGGC
1 ATATGTATGCATTCGGC
14899773 CTTTATAGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
31 23 0.32
32 3 0.04
33 10 0.14
35 6 0.08
36 3 0.04
37 28 0.38
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (36 bp):
ATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
Found at i:14907394 original size:63 final size:63
Alignment explanation
Indices: 14907311--14907434 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
14907301 TTAACACACG
* * *
14907311 GGCATGTGTCCAGGCTGTGTAACTCACTGACTTCGGATTTAGGTCATACGGGCAAGCCACAAA
1 GGCATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTAGGTAATACGGGCAAGCCACAAA
* * * *
14907374 GGCATGTGTCCTGGCCGTGTAACTCATTGACTTCAGATTTGGGTAATACGGGCAAGTCACA
1 GGCATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTAGGTAATACGGGCAAGCCACA
14907435 CGGCCGTGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (63 bp):
GGCATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTAGGTAATACGGGCAAGCCACAAA
Found at i:14909750 original size:14 final size:15
Alignment explanation
Indices: 14909728--14909804 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
14909718 CAATCAAACA
14909728 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
14909742 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
14909757 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
14909777 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
14909791 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
14909805 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:14909769 original size:20 final size:20
Alignment explanation
Indices: 14909744--14909783 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14909734 AATATTTTCC
*
14909744 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
14909764 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
14909784 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:14909789 original size:34 final size:35
Alignment explanation
Indices: 14909732--14909798 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14909722 CAAACACCAG
*
14909732 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
14909767 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
14909799 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14911925 original size:62 final size:61
Alignment explanation
Indices: 14911859--14911978 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
14911849 AAAATTCAAC
** * * * *
14911859 AAATTTAGCCCTCAATGTTTACAAAAT-TTTCCATTTTAGTTCTAATTCTAAAAAATAATAAT
1 AAATTTAGCCCTCAACATTTA-AAAATCTGT-CAATTTAGTCCTAACTCTAAAAAATAATAAT
* *
14911921 AAATTTGGCTCTCAACATTTAAAAATCTGTCAATTTAGTCCTAACTCTAAAAAATAAT
1 AAATTTAGCCCTCAACATTTAAAAATCTGTCAATTTAGTCCTAACTCTAAAAAATAAT
14911979 TTTAAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
61 30 0.61
62 19 0.39
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (61 bp):
AAATTTAGCCCTCAACATTTAAAAATCTGTCAATTTAGTCCTAACTCTAAAAAATAATAAT
Found at i:14914275 original size:21 final size:20
Alignment explanation
Indices: 14914251--14914291 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14914241 TTTTTACAAG
*
14914251 TTTTAAAAAAATTTATAATTT
1 TTTTAAAAAAA-CTATAATTT
14914272 TTTTAAAAAAACTATAATTT
1 TTTTAAAAAAACTATAATTT
14914292 AAAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTAAAAAAACTATAATTT
Found at i:14914279 original size:20 final size:20
Alignment explanation
Indices: 14914251--14914291 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14914241 TTTTTACAAG
**
14914251 TTTTAAAAAAATTTATAATT
1 TTTTAAAAAAAACTATAATT
*
14914271 TTTTTAAAAAAACTATAATT
1 TTTTAAAAAAAACTATAATT
14914291 T
1 T
14914292 AAAATATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTAAAAAAAACTATAATT
Found at i:14915790 original size:21 final size:21
Alignment explanation
Indices: 14915751--14915790 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14915741 ATATATAATT
* * *
14915751 ATTTCAAAGATCCACATTGTA
1 ATTTAAAAGATACAAATTGTA
14915772 ATTTAAAAGATACAAATTG
1 ATTTAAAAGATACAAATTG
14915791 ACATGTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTTAAAAGATACAAATTGTA
Found at i:14949793 original size:31 final size:34
Alignment explanation
Indices: 14949719--14949795 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 34
14949709 ATAACTTTAA
**
14949719 TATTAAATTAATGTAATACTTATCAAGATAAATAG
1 TATTAAATTAATCAAATACTTATCAAGAT-AATAG
*
14949754 AATTAAATTAATCAAATA-TTATCAAGAT-A-AG
1 TATTAAATTAATCAAATACTTATCAAGATAATAG
14949785 TATTAAATTAA
1 TATTAAATTAA
14949796 ATATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 12 0.32
32 1 0.03
34 10 0.26
35 15 0.39
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.36
Consensus pattern (34 bp):
TATTAAATTAATCAAATACTTATCAAGATAATAG
Found at i:14953005 original size:15 final size:15
Alignment explanation
Indices: 14952984--14953024 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14952974 AAAGATATTT
*
14952984 ATAAATATTAATTAA
1 ATAAATATAAATTAA
*
14952999 TTAAATATAAATTAA
1 ATAAATATAAATTAA
14953014 ATAAAT-TAAAT
1 ATAAATATAAAT
14953025 GGTGCCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATATAAATTAA
Found at i:14953901 original size:24 final size:25
Alignment explanation
Indices: 14953873--14953919 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14953863 AAAATATTGC
14953873 ATTGAATAAAAGTGAA-TGAAATGA
1 ATTGAATAAAAGTGAAGTGAAATGA
**
14953897 ATTGAATCGAAGTGAAGTGAAAT
1 ATTGAATAAAAGTGAAGTGAAAT
14953920 TATCTGCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (25 bp):
ATTGAATAAAAGTGAAGTGAAATGA
Found at i:14954174 original size:9 final size:9
Alignment explanation
Indices: 14954157--14954193 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14954147 TGACTTTTCG
14954157 AATTCGAAT
1 AATTCGAAT
*
14954166 AACTCGAAT
1 AATTCGAAT
14954175 AATTCGAAT
1 AATTCGAAT
14954184 AATTCGAAT
1 AATTCGAAT
14954193 A
1 A
14954194 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14954441 original size:30 final size:31
Alignment explanation
Indices: 14954407--14954466 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14954397 AAACCTTTTA
*
14954407 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
14954437 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
14954467 TCTCACCTCC
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:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:14957088 original size:21 final size:20
Alignment explanation
Indices: 14957046--14957091 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
14957036 GTAGTGTGAA
14957046 TTTATTTTTTGAAGAATAAAT
1 TTTATTTTTTG-AGAATAAAT
14957067 TTTATTTTTTG-GAATTACAAT
1 TTTATTTTTTGAGAA-TA-AAT
14957088 TTTA
1 TTTA
14957092 CCGGTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.13
20 2 0.09
21 18 0.78
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTATTTTTTGAGAATAAAT
Found at i:14957828 original size:4 final size:4
Alignment explanation
Indices: 14957819--14957843 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14957809 TGCTTTCCCT
14957819 CATC CATC CATC CATC CATC CATC C
1 CATC CATC CATC CATC CATC CATC C
14957844 TCGCTCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CATC
Found at i:14959346 original size:6 final size:6
Alignment explanation
Indices: 14959335--14959359 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14959325 TCGATTCCAT
14959335 TTCTTA TTCTTA TTCTTA TTCTTA T
1 TTCTTA TTCTTA TTCTTA TTCTTA T
14959360 ATTTCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTTA
Found at i:14961701 original size:5 final size:5
Alignment explanation
Indices: 14961691--14961718 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14961681 TGTTGAGTGT
14961691 TTTGC TTTGC TTTGC TTTGC TTTGC TTT
1 TTTGC TTTGC TTTGC TTTGC TTTGC TTT
14961719 TTACAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTGC
Found at i:14968764 original size:161 final size:160
Alignment explanation
Indices: 14968489--14968793 Score: 389
Period size: 161 Copynumber: 1.9 Consensus size: 160
14968479 ATCATCTATC
* * * *
14968489 TAATTGACCAATTAAACTTTTTGGGGGAGAAGCTTTTCTAGTAAGCTTAAAATAAGGATTATTCC
1 TAATTGACCAATTAAACTTTTAGAGGAAGAAGCTTTTCTAGTAAGCTTAAAATAAGAATTATTCC
** *
14968554 TTATATGAATTACTTAATTTAACGAATTTCTAAATCTCAGTCTTTGATTTGGACAACAATTTTTC
66 TTATATGAATTACCCAATTTAACGAATTTCTAAATCTCAGTCCTTGATTTGGACAACAATTTTTC
14968619 AAACTTGATTTCCACCCTAATTACCCTCTG
131 AAACTTGATTTCCACCCTAATTACCCTCTG
* * * * *
14968649 TAATTGATCAATTAAACTTTTAAGAGGAAGAAGCTTTTTTACG-ATGCTTCAAATAAGAATTCTT
1 TAATTGACCAATTAAACTTTT-AGAGGAAGAAGCTTTTCTA-GTAAGCTTAAAATAAGAATTATT
* * * * * * * *
14968713 TCTTATTTGAATTACCCAATTTAATGACTTT-TGTAATCTTAGTCCTTGATTTGGACAGCAGTTT
64 CCTTATATGAATTACCCAATTTAACGAATTTCT-AAATCTCAGTCCTTGATTTGGACAACAATTT
14968777 TTCAAACTTGATTTCCA
128 TTCAAACTTGATTTCCA
14968794 TCCTTATTCG
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
160 21 0.17
161 100 0.82
162 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (160 bp):
TAATTGACCAATTAAACTTTTAGAGGAAGAAGCTTTTCTAGTAAGCTTAAAATAAGAATTATTCC
TTATATGAATTACCCAATTTAACGAATTTCTAAATCTCAGTCCTTGATTTGGACAACAATTTTTC
AAACTTGATTTCCACCCTAATTACCCTCTG
Found at i:14979817 original size:14 final size:14
Alignment explanation
Indices: 14979795--14979824 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14979785 TTTTGATTTT
*
14979795 TATTGGATTAAAAC
1 TATTAGATTAAAAC
14979809 TATTAGATTAAAAC
1 TATTAGATTAAAAC
14979823 TA
1 TA
14979825 CTCTCTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (14 bp):
TATTAGATTAAAAC
Found at i:14980185 original size:85 final size:83
Alignment explanation
Indices: 14980077--14980272 Score: 286
Period size: 85 Copynumber: 2.3 Consensus size: 83
14980067 TTCAATAAAG
* * *
14980077 CATTTC-AAAAAACAAACAAAATATGTTATACTAAAAAAATGATCCTATAGTAGTAAGATGTTAG
1 CATTTCAAAAAAAAAAACAAAATATGTTATACTAAAAAAATGATCCTATAGCAGTAAGATGTTAA
14980141 CCAACCATTGCAACAAAT
66 CCAACCATTGCAACAAAT
* * *
14980159 CATTTCAAAAACAAAAAAACAAAATATGTTATGCTAACAAAATTATCCTATAGCAGTAAGATGTT
1 CATTTC-AAAA-AAAAAAACAAAATATGTTATACTAAAAAAATGATCCTATAGCAGTAAGATGTT
* *
14980224 AACCAACTATTTCAACAAAT
64 AACCAACCATTGCAACAAAT
*
14980244 CATTTCAAAAAAACAAACAAAATATGTTA
1 CATTTCAAAAAAAAAAACAAAATATGTTA
14980273 ACCATCTCAA
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
82 6 0.06
83 18 0.18
84 7 0.07
85 71 0.70
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.26
Consensus pattern (83 bp):
CATTTCAAAAAAAAAAACAAAATATGTTATACTAAAAAAATGATCCTATAGCAGTAAGATGTTAA
CCAACCATTGCAACAAAT
Found at i:14980638 original size:159 final size:157
Alignment explanation
Indices: 14980349--14980809 Score: 523
Period size: 159 Copynumber: 2.9 Consensus size: 157
14980339 TATGCCATCC
* * * * * * *
14980349 TTTTTTGGCTACTAGTTCTCATACTCATACCAGACTGAGAA-AAAAAATTAGAACCCCAAATTAG
1 TTTTTTGGCTTCTAGTT-TTATACTCGTACCAGACTAAGAACAAAAAAATAGGACCCTAAATTAG
* * * * *
14980413 ATTTAAATAATTTGGAATTGACATTAAAAAAGTTTTTACGATATACCGGTGATCCAATTGTGTTA
65 ATTTAAATATTTTGGAATTGACATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTTA
* * *
14980478 GGCTAAATGCATGGTGTTCTGTTATTCT
130 GGTTAAATGCATGGTGTTATGTTATTAT
*
14980506 TTTTTTGGCTTCTAGTTTGTATACTCGTACTAGACTAAGAACAAAAAAATCAGGACCCTAAATTA
1 TTTTTTGGCTTCTAGTTT-TATACTCGTACCAGACTAAGAACAAAAAAAT-AGGACCCTAAATTA
* * * * *
14980571 GATTAAAATATTTTTGAATTGACATTAAAATAGTGTATACGATATACCTATGATCCAGTTGTATT
64 GATTTAAATATTTTGGAATTGACATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTT
* *
14980636 AGGTTAAATGCATAGTGTTATGTTGTTAT
129 AGGTTAAATGCATGGTGTTATGTTATTAT
* * * * *
14980665 TTTTTGGGCTTCTAGTTCCTGTACTCGTACCAGACTAA-AACAAAAAAAAATTGAGAACCTAAAT
1 TTTTTTGGCTTCTAGTT-TTATACTCGTACCAGACTAAGAAC--AAAAAAATAG-GACCCTAAAT
* * * * *
14980729 TAGATTTTAATATTTTGGAATTAACAATGAAAAT-GTGTTTACGATATACCTGTGTTCCCGTTGT
62 TAGATTTAAATATTTTGGAATTGAC-ATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGT
*
14980793 GTTAGGTTGAATGCATG
126 GTTAGGTTAAATGCATG
14980810 ATCTTTTGTT
Statistics
Matches: 255, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
156 1 0.00
157 34 0.13
158 10 0.04
159 125 0.49
160 78 0.31
161 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (157 bp):
TTTTTTGGCTTCTAGTTTTATACTCGTACCAGACTAAGAACAAAAAAATAGGACCCTAAATTAGA
TTTAAATATTTTGGAATTGACATTAAAATAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAG
GTTAAATGCATGGTGTTATGTTATTAT
Found at i:14985934 original size:25 final size:24
Alignment explanation
Indices: 14985903--14985978 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
14985893 TAAGATCTAT
*
14985903 TAACGGGAAGCTCGTGAGAGCCATA
1 TAACGGGAAGCTCATGAGAGCCA-A
* * * *
14985928 TATCGGGTAGCTTAAGAGAGCCAA
1 TAACGGGAAGCTCATGAGAGCCAA
* *
14985952 TAACGGGATGCTCATGAGAGCTAA
1 TAACGGGAAGCTCATGAGAGCCAA
14985976 TAA
1 TAA
14985979 TGCGACACTA
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 22 0.55
25 18 0.45
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (24 bp):
TAACGGGAAGCTCATGAGAGCCAA
Found at i:14985970 original size:24 final size:24
Alignment explanation
Indices: 14985882--14985978 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 24
14985872 ACAACCAAAT
* * * *
14985882 CGGGATGCTCATAAGATCTATTAA
1 CGGGATGCTCATGAGAGCCAATAA
* * *
14985906 CGGGAAGCTCGTGAGAGCCATATAT
1 CGGGATGCTCATGAGAGCCA-ATAA
* *
14985931 CGGG-TAGCTTAAGAGAGCCAATAA
1 CGGGAT-GCTCATGAGAGCCAATAA
*
14985955 CGGGATGCTCATGAGAGCTAATAA
1 CGGGATGCTCATGAGAGCCAATAA
14985979 TGCGACACTA
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
24 37 0.67
25 18 0.33
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (24 bp):
CGGGATGCTCATGAGAGCCAATAA
Found at i:14989741 original size:25 final size:25
Alignment explanation
Indices: 14989684--14989788 Score: 99
Period size: 25 Copynumber: 4.2 Consensus size: 25
14989674 TTCATATTCA
14989684 GGAATGCTCATGTGAG-CATATAAACG
1 GGAA-GCTCATGTGAGCCATAT-AACG
* * *
14989710 GGTAGCTC-TTTCGAGCCATATAACT
1 GGAAGCTCATGT-GAGCCATATAACG
*
14989735 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATGTGAGCCATATAACG
** *
14989760 GGAAGCTCATAAGAGCCATA-ATCG
1 GGAAGCTCATGTGAGCCATATAACG
14989784 GGAAG
1 GGAAG
14989789 TTTATATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 10 0.15
25 45 0.69
26 10 0.15
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCCATATAACG
Found at i:14989776 original size:50 final size:51
Alignment explanation
Indices: 14989684--14989779 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 51
14989674 TTCATATTCA
* * **
14989684 GGAATGCTCATGTGAGCATATAAACGGGTAGCTCTTTCGAGCCATATAACT
1 GGAATGCTCATGTGAGCATATAAACGGGAAGCTCATAAGAGCCATATAACT
*
14989735 GGAA-GCTCATGTGAGCCATGT-AACGGGAAGCTCATAAGAGCCATA
1 GGAATGCTCATGTGAG-CATATAAACGGGAAGCTCATAAGAGCCATA
14989780 ATCGGGAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 31 0.79
51 8 0.21
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (51 bp):
GGAATGCTCATGTGAGCATATAAACGGGAAGCTCATAAGAGCCATATAACT
Found at i:14989884 original size:25 final size:25
Alignment explanation
Indices: 14989813--14989892 Score: 90
Period size: 25 Copynumber: 3.1 Consensus size: 25
14989803 TATCGGGTAA
*
14989813 CTCTGGAGAGCCATTAATCGAGAAG
1 CTCTGGAGAGCCATTAATCGAAAAG
* *
14989838 CTCATGAAAGAGCCTTTAATCGAAAAG
1 CTC-TG-GAGAGCCATTAATCGAAAAG
*
14989865 CTCTGGAGAGCCAATT-ATCGAAATG
1 CTCTGGAGAGCC-ATTAATCGAAAAG
14989890 CTC
1 CTC
14989893 ATAAGAGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
25 20 0.43
26 6 0.13
27 20 0.43
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
CTCTGGAGAGCCATTAATCGAAAAG
Found at i:14990028 original size:24 final size:25
Alignment explanation
Indices: 14989965--14990046 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 25
14989955 AGCTATTGAC
* *
14989965 GGGA-AGCTCGTGAGAGCCATATATT
1 GGGATAGCTCATGAGAGCCA-ATAAT
*
14989990 GGG-TAGCTCAAGAGAGCCAATAAT
1 GGGATAGCTCATGAGAGCCAATAAT
* * *
14990014 GGGATA-CTGATGAGAGCTAATAAC
1 GGGATAGCTCATGAGAGCCAATAAT
14990038 GGGAT-GCTC
1 GGGATAGCTC
14990047 TTGCGAGCTG
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
24 28 0.61
25 18 0.39
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (25 bp):
GGGATAGCTCATGAGAGCCAATAAT
Found at i:14991839 original size:15 final size:15
Alignment explanation
Indices: 14991819--14991848 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14991809 AAGACAGATA
14991819 ATTTATTTAATTTTC
1 ATTTATTTAATTTTC
14991834 ATTTATTTAATTTTC
1 ATTTATTTAATTTTC
14991849 CCCAAGACAT
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:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATTTAATTTTC
Found at i:14992414 original size:16 final size:13
Alignment explanation
Indices: 14992366--14992404 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
14992356 AGATTTATTT
14992366 AACAACAAAAG-A
1 AACAACAAAAGAA
*
14992378 AA-TACAAAAGAA
1 AACAACAAAAGAA
14992390 AACAACAAAAGAA
1 AACAACAAAAGAA
14992403 AA
1 AA
14992405 TCCCAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.77, C:0.13, G:0.08, T:0.03
Consensus pattern (13 bp):
AACAACAAAAGAA
Found at i:14992654 original size:131 final size:131
Alignment explanation
Indices: 14992491--14992742 Score: 450
Period size: 131 Copynumber: 1.9 Consensus size: 131
14992481 TTCTTCTTTC
* * *
14992491 TGATTTGGAGCATGAACCTTTACCAATCTTCACTATAAAAGAGCCAAGAGAAAAGACGTTATAAA
1 TGATTTGGAGCATGAACCCTCACCAATCTTCACTACAAAAGAGCCAAGAGAAAAGACGTTATAAA
*
14992556 TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATTCCATAACCCAAAAATCCCTTACCAATCT
66 TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATCCCATAACCCAAAAATCCCTTACCAATCT
14992621 G
131 G
*
14992622 TGATTTGGAGCATGAACCCTCACCAATCTTCACTGCAAAAGAGCCAAGAGAAAAGACGTTATAAA
1 TGATTTGGAGCATGAACCCTCACCAATCTTCACTACAAAAGAGCCAAGAGAAAAGACGTTATAAA
*
14992687 TGAACCCTAAACCTGAAATTTCCTAAAATCAACAATCCCATAACCCAAAAATCCCT
66 TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATCCCATAACCCAAAAATCCCT
14992743 AAAAATCCCT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 115 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.22
Consensus pattern (131 bp):
TGATTTGGAGCATGAACCCTCACCAATCTTCACTACAAAAGAGCCAAGAGAAAAGACGTTATAAA
TGAACCCTAAACCTGAAATTCCCTAAAATCAACAATCCCATAACCCAAAAATCCCTTACCAATCT
G
Found at i:14993062 original size:19 final size:19
Alignment explanation
Indices: 14993021--14993067 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
14993011 AAAAATTTTC
14993021 TAAA-TATTTTTTTAATTT
1 TAAATTATTTTTTTAATTT
14993039 T-AATTATTTTTTTAATTT
1 TAAATTATTTTTTTAATTT
14993057 TAAATTCATTT
1 TAAATT-ATTT
14993068 GCTGATGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.62
19 4 0.15
20 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TAAATTATTTTTTTAATTT
Found at i:14994619 original size:25 final size:26
Alignment explanation
Indices: 14994590--14994649 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
14994580 ACGAATTTTT
14994590 TCAAAATTTTATCGGG-GTAAAATTG
1 TCAAAATTTTATCGGGAGTAAAATTG
14994615 TCAAAATTTTATCGGGAGTAAAATTG
1 TCAAAATTTTATCGGGAGTAAAATTG
14994641 TCAAAATTT
1 TCAAAATTT
14994650 CACTGAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 16 0.47
26 18 0.53
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTATCGGGAGTAAAATTG
Found at i:14995689 original size:36 final size:37
Alignment explanation
Indices: 14995641--14995743 Score: 145
Period size: 36 Copynumber: 2.8 Consensus size: 37
14995631 GTCCGGGTTT
*
14995641 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGTCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCC
* * * **
14995678 A-AAAAAAATTTCATCCCGTTTTTTAGGCCTGGGCCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCC
14995714 AGAAAAAAATTTCAGCCCGCTTCTTAGGCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCC
14995744 TGGGCCCATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 30 0.54
37 26 0.46
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (37 bp):
AGAAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGCCC
Found at i:14995720 original size:37 final size:37
Alignment explanation
Indices: 14995641--14995751 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
14995631 GTCCGGGTTT
** *
14995641 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCCAGGTCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
* * *
14995678 A-AAAAAAATTTCATCCCGTTTTTTAGGCCTGGGCCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
14995714 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
1 AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
14995751 A
1 A
14995752 TCCCAAAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 30 0.47
37 34 0.53
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (37 bp):
AGAAAAAAATTTCAGCCCGCTTCTTAGGCCTGGGCCC
Found at i:14996104 original size:21 final size:20
Alignment explanation
Indices: 14996080--14996126 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
14996070 AAATTAAATT
14996080 TTAAAATTTGAAATATAAAAA
1 TTAAAATTTGAAA-ATAAAAA
*
14996101 TTAAAAATTTTAAAATAAAAA
1 TT-AAAATTTGAAAATAAAAA
14996122 -TAAAA
1 TTAAAA
14996127 AAAGGGAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 9 0.38
22 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAATTTGAAAATAAAAA
Found at i:14996127 original size:21 final size:22
Alignment explanation
Indices: 14996082--14996128 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
14996072 ATTAAATTTT
*
14996082 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
*
14996104 AAAATTTTAAA-ATAAAAATAA
1 AAAATTTGAAATATAAAAATAA
14996125 AAAA
1 AAAA
14996129 AGGGAGGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:14999972 original size:13 final size:14
Alignment explanation
Indices: 14999953--14999990 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
14999943 CAATGGCATA
14999953 GAAATAATATAAAC
1 GAAATAATATAAAC
14999967 -AAATAA-ATAAAC
1 GAAATAATATAAAC
14999979 GAAATTAATATA
1 GAAA-TAATATA
14999991 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:15000403 original size:30 final size:30
Alignment explanation
Indices: 15000367--15000423 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15000357 CATGTACATA
*
15000367 TATAAAAAA-ATTATCTACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
*
15000397 TATAAAAAAGATAATTAGATATATATA
1 TATAAAAAAGATAATTACATATATATA
15000424 AAAACAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:15000600 original size:17 final size:17
Alignment explanation
Indices: 15000578--15000612 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15000568 TAGGAAATAA
* *
15000578 AAAATGTATATGTATAT
1 AAAATGTAAATATATAT
15000595 AAAATGTAAATATATAT
1 AAAATGTAAATATATAT
15000612 A
1 A
15000613 TGTATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
AAAATGTAAATATATAT
Found at i:15001102 original size:23 final size:24
Alignment explanation
Indices: 15001072--15001118 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
15001062 AAATTAAATC
15001072 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
15001095 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
15001119 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:15001121 original size:21 final size:21
Alignment explanation
Indices: 15001095--15001151 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
15001085 AATCATATCT
15001095 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
15001116 TCTAAGATTGCATATATTATA
1 TCTAAGATTGCATATATCATA
*
15001137 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
15001152 CCTTGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:15002133 original size:44 final size:44
Alignment explanation
Indices: 15002070--15002191 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
15002060 ATCTGTTATT
* * *
15002070 TTCAATCTACTCCACTGTTGCTCAGGGAGATAGGATTTACAATC
1 TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGACTTACAATC
*
15002114 TTCAACCTATTCCACTGTTGACT-AGGGAGATAGGACTTATAATC
1 TTCAACCTATTCCACTGTTG-CTCAGGGAGATAGGACTTACAATC
*
15002158 TTCAACCTATTCCACTGCTG-TCCAGGGAGATAGG
1 TTCAACCTATTCCACTGTTGCT-CAGGGAGATAGG
15002192 GCTGGGGTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
42 1 0.01
44 67 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGCTCAGGGAGATAGGACTTACAATC
Found at i:15002317 original size:44 final size:43
Alignment explanation
Indices: 15002202--15002323 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 43
15002192 GCTGGGGTCA
15002202 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG---TGCTATTTT
* * * ***
15002248 T-AACCTGCTCCGCTG-C-AACCTAGGAAGGCAAG-GCTATTCTCT
1 TCGATCTGCTTCGCTGTCGGTGC-AGGAAGGCAAGTGCTATT-T-T
15002290 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
15002324 ATCTGCTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
40 6 0.10
41 1 0.02
42 2 0.03
43 12 0.21
44 24 0.41
45 12 0.21
46 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (43 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGTGCTATTTT
Found at i:15002317 original size:88 final size:88
Alignment explanation
Indices: 15002191--15002679 Score: 690
Period size: 88 Copynumber: 5.6 Consensus size: 88
15002181 AGGGAGATAG
* *
15002191 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
15002256 TCCGCTGCAACCTAGGAAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
** * *
15002279 GGCTATTCTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
15002344 TCTGCTACAACCCAAGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * ** * *
15002367 GGTTGGTGTCTTCGATATGCTTCGCTGTCACTGCAGGAAGGTAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
15002432 TCCACTACAACCCAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * * * * *
15002455 GGCTAGTGTCTTCAATCTGCATCGCTGTCGGTGCAGGAAGGCAATATCTGCAATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
15002520 TCCGCTACAACCTAGGGAGGCAA
66 TCCGCTACAACCCAGGGAGGCAA
* * *
15002543 GGCTGGTGTCTTCGATCTGCTTCGTTGTAGGTGCAGGAAGGCAAGGTCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
15002608 TCCGCTGCAACCCAGGGATGTAA
66 TCCGCTACAACCCAGGGAGGCAA
*
15002631 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
15002680 ATTATCTTCA
Statistics
Matches: 346, Mismatches: 55, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 346 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAA
Found at i:15003911 original size:16 final size:16
Alignment explanation
Indices: 15003886--15003926 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
15003876 CTCTCCATTT
15003886 TCTTTCTTTTTTT-CTC
1 TCTTT-TTTTTTTACTC
15003902 TC-TTTTTTTTTACTC
1 TCTTTTTTTTTTACTC
15003917 TCCTTTTTTT
1 T-CTTTTTTT
15003927 AAAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 3 0.14
17 6 0.27
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TCTTTTTTTTTTACTC
Found at i:15003912 original size:15 final size:15
Alignment explanation
Indices: 15003886--15003926 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
15003876 CTCTCCATTT
*
15003886 TCTTTCTTTTTTTCTC
1 TCTTT-TTTTTTACTC
15003902 TCTTTTTTTTTACTC
1 TCTTTTTTTTTACTC
15003917 TCCTTTTTTT
1 T-CTTTTTTT
15003927 AAAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTTTTTTACTC
Found at i:15004883 original size:25 final size:26
Alignment explanation
Indices: 15004832--15004892 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
15004822 AAGAAAATCT
* *
15004832 AAAAGAATGAAAGAATAATTAATTCA
1 AAAAGAATGAAAAAATAATTAACTCA
**
15004858 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAACTCA
15004883 AAAATGAATG
1 AAAA-GAATG
15004893 CAAATATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAACTCA
Found at i:15008606 original size:13 final size:14
Alignment explanation
Indices: 15008587--15008624 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
15008577 CAATGGCATA
15008587 GAAATAATATAAAC
1 GAAATAATATAAAC
15008601 -AAATAA-ATAAAC
1 GAAATAATATAAAC
15008613 GAAATTAATATA
1 GAAA-TAATATA
15008625 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:15008860 original size:20 final size:20
Alignment explanation
Indices: 15008835--15008885 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15008825 AATACAATAA
15008835 AAAAATATAAATATATACA-T
1 AAAAATATAAA-ATATACATT
* *
15008855 ATAAATTATAAAATATGCATT
1 A-AAAATATAAAATATACATT
15008876 AAAAATATAA
1 AAAAATATAA
15008886 GTATGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATATAAAATATACATT
Found at i:15009043 original size:20 final size:22
Alignment explanation
Indices: 15009015--15009055 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
15009005 TTATCTACAT
15009015 ATAAATAGAT-TATA-AAAAAG
1 ATAAATAGATATATATAAAAAG
*
15009035 ATAATTAGATATATATAAAAA
1 ATAAATAGATATATATAAAAA
15009056 CAAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAAATAGATATATATAAAAAG
Found at i:15009752 original size:23 final size:24
Alignment explanation
Indices: 15009722--15009768 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
15009712 AAATTAAATC
15009722 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
15009745 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
15009769 AATATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:15009775 original size:21 final size:21
Alignment explanation
Indices: 15009745--15009801 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
15009735 AATCATATCT
15009745 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
* *
15009766 TCTAATATTGCATATATTATA
1 TCTAAGATTGCATATATCATA
*
15009787 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
15009802 CCTTGAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:15010347 original size:44 final size:44
Alignment explanation
Indices: 15010196--15010356 Score: 127
Period size: 44 Copynumber: 3.8 Consensus size: 44
15010186 GCTTACTTAG
* *
15010196 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT-GC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-ATGGCTTTAA
* * * **
15010237 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAATGGCTTTAA
* *** * * *
15010280 TCCGCTCCACTATGACTTAAGGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTTAA
*
15010324 TCTGCTCCACTGCAACTTCAGGGAGATCAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
15010357 TGCTATCTTC
Statistics
Matches: 88, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
39 1 0.01
40 22 0.25
41 7 0.08
43 7 0.08
44 51 0.58
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAATGGCTTTAA
Found at i:15010795 original size:44 final size:43
Alignment explanation
Indices: 15010732--15010841 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 43
15010722 CAGCCTACTT
*
15010732 CACTGTTGCTCAGGGAGATAGGATTTACAATCTTCAACCTATTC
1 CACTGTTGCT-AGGGAGATAGGACTTACAATCTTCAACCTATTC
*
15010776 CACTGTTGACTAGGGAGATAGGACTTATAATCTTCAACCTATTC
1 CACTGTTG-CTAGGGAGATAGGACTTACAATCTTCAACCTATTC
* *
15010820 CACTGCTGTCCAGGGAGATAGG
1 CACTGTTG-CTAGGGAGATAGG
15010842 GCTGGGGTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
CACTGTTGCTAGGGAGATAGGACTTACAATCTTCAACCTATTC
Found at i:15010969 original size:88 final size:88
Alignment explanation
Indices: 15010841--15011330 Score: 667
Period size: 88 Copynumber: 5.6 Consensus size: 88
15010831 AGGGAGATAG
* * *
15010841 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
15010906 TCCGCTGCAACCTAGGAAGGCAA
66 TCCGCTACAACCCAGGAAGGCAA
** *
15010929 GGCTATTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
15010994 TCTGCTACAACCCAAGG-AGGCAA
66 TCCGCTACAACCC-AGGAAGGCAA
* * * ** * *
15011017 GGTTGGTGTCTTTGATATGCTTCGCTGTCACTGCAGGAAGGTAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
15011082 TCCACTACAACCCAGGAAGGCAA
66 TCCGCTACAACCCAGGAAGGCAA
* * * * *
15011105 GGCTAGTGTCTTCAATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACATGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
15011170 TCAGCTACAACCTAGGGAGGCAA
66 TCCGCTACAACCCAGGAAGGCAA
* * *
15011193 GGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGGTCTGCTATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
15011258 TCCGCTGCAACCCAGGGATGTAA
66 TCCGCTACAACCCAGGAAGGCAA
*
15011281 GGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
15011331 TTATCTTCAC
Statistics
Matches: 350, Mismatches: 50, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
87 3 0.01
88 344 0.98
89 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTACAACCCAGGAAGGCAA
Found at i:15012560 original size:15 final size:17
Alignment explanation
Indices: 15012535--15012577 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
15012525 CCTCTCCATT
*
15012535 TTCTTTCTTTTTT-CTC
1 TTCTTTTTTTTTTGCTC
15012551 -TCTTTTTTTTTTGCTC
1 TTCTTTTTTTTTTGCTC
15012567 TTCTTTTTTTT
1 TTCTTTTTTTT
15012578 GAAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 11 0.46
16 3 0.12
17 10 0.42
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTTTTTGCTC
Found at i:15013532 original size:25 final size:26
Alignment explanation
Indices: 15013481--15013541 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
15013471 AAGAAAATTT
* *
15013481 AAAAGAATGAAAGAATAATTAATTCA
1 AAAAGAATGAAAAAATAATTAACTCA
**
15013507 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAACTCA
15013532 AAAATGAATG
1 AAAA-GAATG
15013542 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAACTCA
Found at i:15017251 original size:13 final size:14
Alignment explanation
Indices: 15017232--15017269 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
15017222 CAATGGCATA
15017232 GAAATAATATAAAC
1 GAAATAATATAAAC
15017246 -AAATAA-ATAAAC
1 GAAATAATATAAAC
15017258 GAAATTAATATA
1 GAAA-TAATATA
15017270 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:15017690 original size:20 final size:22
Alignment explanation
Indices: 15017662--15017702 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
15017652 TTATCTACAT
15017662 ATAAATAGAT-TATA-AAAAAG
1 ATAAATAGATATATATAAAAAG
*
15017682 ATAATTAGATATATATAAAAA
1 ATAAATAGATATATATAAAAA
15017703 CAAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
ATAAATAGATATATATAAAAAG
Found at i:15017884 original size:17 final size:17
Alignment explanation
Indices: 15017862--15017896 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15017852 TAGGAAATAA
* *
15017862 AAAATGTATATGTATAT
1 AAAATGTAAATATATAT
15017879 AAAATGTAAATATATAT
1 AAAATGTAAATATATAT
15017896 A
1 A
15017897 TGTATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
AAAATGTAAATATATAT
Found at i:15018396 original size:23 final size:24
Alignment explanation
Indices: 15018366--15018412 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
15018356 AAATTAAATC
15018366 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
15018389 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
15018413 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:15018415 original size:21 final size:21
Alignment explanation
Indices: 15018389--15018464 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
15018379 AATCATATCT
15018389 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
15018410 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
15018431 TTTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
*
15018450 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
15018465 CCTTGAAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 17 0.34
21 33 0.66
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:15018424 original size:19 final size:20
Alignment explanation
Indices: 15018366--15018458 Score: 107
Period size: 21 Copynumber: 4.5 Consensus size: 20
15018356 AAATTAAATC
* *
15018366 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
15018386 TCTTCTAAGATTGCATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
15018410 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
*
15018431 TTTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
15018450 TCTAAGATT
1 TCTAAGATT
15018459 ACATATCCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.25
21 31 0.48
23 11 0.17
24 7 0.11
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:15018463 original size:19 final size:19
Alignment explanation
Indices: 15018402--15018465 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
15018392 AAGATTGCAT
*
15018402 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATT--AC
* *
15018423 ATATCATATTTAAGATTGC
1 ATATCATATCTAAGATTAC
15018442 ATATCATATCTAAGATTAC
1 ATATCATATCTAAGATTAC
15018461 ATATC
1 ATATC
15018466 CTTGAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 22 0.58
21 16 0.42
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTAC
Found at i:15018855 original size:17 final size:17
Alignment explanation
Indices: 15018833--15018865 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15018823 TTTTATAAAA
15018833 TAATATT-TATTTAATTT
1 TAATATTATA-TTAATTT
15018850 TAATATTATATTAATT
1 TAATATTATATTAATT
15018866 AACTTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATATTATATTAATTT
Found at i:15035587 original size:21 final size:22
Alignment explanation
Indices: 15035563--15035603 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15035553 CAGCCAATAT
*
15035563 TGTTTCTTGACC-CTGATTTCC
1 TGTTCCTTGACCTCTGATTTCC
15035584 TGTTCCTTGACCTCTGATTT
1 TGTTCCTTGACCTCTGATTT
15035604 GTCTAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.10, C:0.27, G:0.15, T:0.49
Consensus pattern (22 bp):
TGTTCCTTGACCTCTGATTTCC
Found at i:15042599 original size:18 final size:18
Alignment explanation
Indices: 15042576--15042611 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15042566 GTTGAATTAT
15042576 GATGTTTTATGGTAGAAA
1 GATGTTTTATGGTAGAAA
15042594 GATGTTTTATGGTAGAAA
1 GATGTTTTATGGTAGAAA
15042612 ATGAAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (18 bp):
GATGTTTTATGGTAGAAA
Found at i:15049143 original size:68 final size:68
Alignment explanation
Indices: 15049008--15049136 Score: 215
Period size: 68 Copynumber: 1.9 Consensus size: 68
15048998 GCAAATAGAC
*
15049008 CATTAAAAGGAGTTAGTAGATAAGTATGATTAGTCATCAATGGAAAATTAAATAAATAAAAATAT
1 CATTAAAAGGAGTTAGTAGATAAGTATGATTAGTCACCAATGGAAAATTAAATAAATAAAAATAT
15049073 TAA
66 TAA
* *
15049076 CATTAAGAA-GAGTTAGTAGATAAGTATGGTTAGTCACCAATGGAAAATTAAATAAAGAAAA
1 CATTAA-AAGGAGTTAGTAGATAAGTATGATTAGTCACCAATGGAAAATTAAATAAATAAAA
15049137 TGATTAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 55 0.96
69 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.27
Consensus pattern (68 bp):
CATTAAAAGGAGTTAGTAGATAAGTATGATTAGTCACCAATGGAAAATTAAATAAATAAAAATAT
TAA
Found at i:15050267 original size:24 final size:24
Alignment explanation
Indices: 15050205--15050288 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
15050195 GGCTTATTTA
* *
15050205 TGAGCTTCCCGATTAATTGACTCTCT
1 TGAGCTTCCCGA-T-ATTGGCTCGCT
* **
15050231 GGAGCTTTTCGATATTGGCTCGCT
1 TGAGCTTCCCGATATTGGCTCGCT
**
15050255 TGAGCTTCCCGAT-TATGGCTCGGA
1 TGAGCTTCCCGATAT-TGGCTCGCT
15050279 TGAGCTTCCC
1 TGAGCTTCCC
15050289 ATTATAGCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 1 0.02
24 36 0.77
25 1 0.02
26 9 0.19
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (24 bp):
TGAGCTTCCCGATATTGGCTCGCT
Found at i:15050298 original size:23 final size:24
Alignment explanation
Indices: 15050255--15050310 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
15050245 TTGGCTCGCT
* *
15050255 TGAGCTTCCCGATTATGGCTCGGA
1 TGAGCTTCCCGATTATAGCTCGAA
15050279 TGAGCTTCCC-ATTATAGCTCGAA
1 TGAGCTTCCCGATTATAGCTCGAA
*
15050302 AGAGCTTCC
1 TGAGCTTCC
15050311 TATTTACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (24 bp):
TGAGCTTCCCGATTATAGCTCGAA
Found at i:15055297 original size:13 final size:13
Alignment explanation
Indices: 15055279--15055304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15055269 AATAATGCTT
15055279 TTGGTCTTCGAAA
1 TTGGTCTTCGAAA
15055292 TTGGTCTTCGAAA
1 TTGGTCTTCGAAA
15055305 ACAGGTTCGG
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTGGTCTTCGAAA
Found at i:15056626 original size:3 final size:3
Alignment explanation
Indices: 15056610--15056677 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
15056600 TAAATGAGTA
* * * *
15056610 AAT AAT AGT TAT AAT AAT AAT AAT AAT ACAA AACT AAT AGT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT AAT AAT
15056656 -AT AAT AAT -AT AAT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AA
15056678 ATAAATATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
2 5 0.10
3 39 0.76
4 7 0.14
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Done.