Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 62 of 135
Found at i:18143047 original size:13 final size:12
Alignment explanation
Indices: 18143028--18143090 Score: 69
Period size: 11 Copynumber: 5.3 Consensus size: 12
18143018 CCCTTTTATT
*
18143028 TTTTATTATTTG
1 TTTTATTATTTA
18143040 TATTTATTCATTTA
1 T-TTTATT-ATTTA
18143054 TTTTATTATTTA
1 TTTTATTATTTA
*
18143066 ATTT-TTATTTA
1 TTTTATTATTTA
18143077 -TTTATT-TTTA
1 TTTTATTATTTA
18143087 TTTT
1 TTTT
18143091 TATGGTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
10 7 0.16
11 12 0.27
12 9 0.20
13 12 0.27
14 5 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:18143056 original size:4 final size:4
Alignment explanation
Indices: 18143022--18143083 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
18143012 TTTAGCCCCT
* *
18143022 TTTA TTT- TTTA -TTA TTTGTA TTTA TTCA TTTA TTT- TATTA TTTA ATT-
1 TTTA TTTA TTTA TTTA -TT-TA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
18143069 TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
18143084 TTATTTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
3 9 0.19
4 32 0.68
5 4 0.09
6 2 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18143072 original size:27 final size:28
Alignment explanation
Indices: 18143022--18143092 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
18143012 TTTAGCCCCT
*
18143022 TTTATTTTTTATTATTT-GTATTTATTCA
1 TTTA-TTTTTATTATTTAATATTTATTCA
* *
18143050 TTTA-TTTTATTATTTAATTTTTATTTA
1 TTTATTTTTATTATTTAATATTTATTCA
18143077 TTTATTTTTATT-TTTA
1 TTTATTTTTATTATTTA
18143093 TGGTTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 11 0.29
27 16 0.42
28 11 0.29
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (28 bp):
TTTATTTTTATTATTTAATATTTATTCA
Found at i:18143074 original size:19 final size:21
Alignment explanation
Indices: 18143050--18143093 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
18143040 TATTTATTCA
18143050 TTTATTTTA-TTA-TTTAATT
1 TTTATTTTATTTATTTTAATT
*
18143069 TTTA-TTTATTTATTTTTATT
1 TTTATTTTATTTATTTTAATT
18143089 TTTAT
1 TTTAT
18143094 GGTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTATTTTATTTATTTTAATT
Found at i:18143155 original size:2 final size:2
Alignment explanation
Indices: 18143148--18143172 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18143138 TGATTGTGTT
18143148 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18143173 TTATTATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18143257 original size:22 final size:24
Alignment explanation
Indices: 18143214--18143260 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
18143204 ATTGCCATTA
18143214 TTACTAATTATATTGTTATTTTAT
1 TTACTAATTATATTGTTATTTTAT
*
18143238 TTACT-ATTAT-TTTTTATTTTAT
1 TTACTAATTATATTGTTATTTTAT
18143260 T
1 T
18143261 GTGTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 5 0.23
24 5 0.23
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (24 bp):
TTACTAATTATATTGTTATTTTAT
Found at i:18148831 original size:22 final size:22
Alignment explanation
Indices: 18148803--18148848 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
18148793 GATGGTAAGT
18148803 TAATTCAATATTTAAAGAATGA
1 TAATTCAATATTTAAAGAATGA
18148825 TAATTCAATATTTAAAGAATGA
1 TAATTCAATATTTAAAGAATGA
18148847 TA
1 TA
18148849 TTACTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (22 bp):
TAATTCAATATTTAAAGAATGA
Found at i:18158806 original size:21 final size:21
Alignment explanation
Indices: 18158780--18158821 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18158770 CAAACAATGA
18158780 CAAAAAGTACCGATACCTTTT
1 CAAAAAGTACCGATACCTTTT
* *
18158801 CAAAAAGTATCGATAGCTTTT
1 CAAAAAGTACCGATACCTTTT
18158822 ATCAGGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (21 bp):
CAAAAAGTACCGATACCTTTT
Found at i:18159608 original size:16 final size:16
Alignment explanation
Indices: 18159587--18159618 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18159577 CTTAGATTCT
18159587 ATGTTAGCAAGCCGAA
1 ATGTTAGCAAGCCGAA
*
18159603 ATGTTAGCAATCCGAA
1 ATGTTAGCAAGCCGAA
18159619 TTCGAATATT
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:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (16 bp):
ATGTTAGCAAGCCGAA
Found at i:18167318 original size:57 final size:56
Alignment explanation
Indices: 18167225--18167347 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 56
18167215 AGGTCTTTTT
*
18167225 CATTTTCATTTTAATTTTGGAGAAAACCTCATTCATTTCCATAT-TATTCAATTTCTC
1 CATTTTCATTTTAATTTTGGAGAAAA-CTCATTCATTTCCAAATCTATTC-ATTTCTC
* * *
18167282 CATTTTCATTTTCATTTTGGAGAAAA-TCATAATCATTTTCAAATGCTTTTCATTTCTC
1 CATTTTCATTTTAATTTTGGAGAAAACTCAT--TCATTTCCAAAT-CTATTCATTTCTC
18167340 CATTTTCA
1 CATTTTCA
18167348 CCATTTCTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
55 4 0.07
57 35 0.60
58 15 0.26
59 4 0.07
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (56 bp):
CATTTTCATTTTAATTTTGGAGAAAACTCATTCATTTCCAAATCTATTCATTTCTC
Found at i:18173344 original size:29 final size:30
Alignment explanation
Indices: 18173305--18173390 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
18173295 TGAAATTTGG
18173305 AAAGTTTA-GGGTTAAAATGTAATTTTCAA
1 AAAGTTTAGGGGTTAAAATGTAATTTTCAA
*
18173334 AAAGTTTAGGGGTTAAAATGCAATTTTCAA
1 AAAGTTTAGGGGTTAAAATGTAATTTTCAA
* *
18173364 AAAGTTTATGGGTCAAAATGTAATTTT
1 AAAGTTTAGGGGTTAAAATGTAATTTT
18173391 TTGAAAGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 8 0.15
30 44 0.85
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (30 bp):
AAAGTTTAGGGGTTAAAATGTAATTTTCAA
Found at i:18173398 original size:30 final size:29
Alignment explanation
Indices: 18173283--18173432 Score: 126
Period size: 30 Copynumber: 5.1 Consensus size: 29
18173273 ATAAGGAAAA
* *
18173283 TAGGGTCAAAAT-TGAAATTT-GGAAAGTT
1 TAGGGTCAAAATGT-AATTTTCAGAAAGTT
* *
18173311 TAGGGTTAAAATGTAATTTTCAAAAAGTT
1 TAGGGTCAAAATGTAATTTTCAGAAAGTT
* * *
18173340 TAGGGGTTAAAATGCAATTTTCAAAAAGTT
1 TA-GGGTCAAAATGTAATTTTCAGAAAGTT
**
18173370 TATGGGTCAAAATGTAATTTTTTGAAAGTT
1 TA-GGGTCAAAATGTAATTTTCAGAAAGTT
* **
18173400 TAAGAGTCAAAAT-TGAATTTTTTGAAAGTT
1 T-AGGGTCAAAATGT-AATTTTCAGAAAGTT
18173430 TAG
1 TAG
18173433 AGCTTAAAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.15
29 12 0.11
30 76 0.72
31 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (29 bp):
TAGGGTCAAAATGTAATTTTCAGAAAGTT
Found at i:18173442 original size:30 final size:29
Alignment explanation
Indices: 18173290--18173489 Score: 115
Period size: 30 Copynumber: 6.8 Consensus size: 29
18173280 AAATAGGGTC
* * *
18173290 AAAATTGAA-ATTTGGAAAGTTTAGGGTT
1 AAAATTGAATTTTTTGAAAGTTTAGAGTT
*** *
18173318 AAAA-TGTAATTTTCAAAAAGTTTAGGGGTT
1 AAAATTG-AATTTTTTGAAAGTTTA-GAGTT
*** * *
18173348 AAAA-TGCAATTTTCAAAAAGTTTATGGGTC
1 AAAATTG-AATTTTTTGAAAGTTTA-GAGTT
*
18173378 AAAA-TGTAATTTTTTGAAAGTTTAAGAGTC
1 AAAATTG-AATTTTTTGAAAGTTT-AGAGTT
18173408 AAAATTGAATTTTTTGAAAGTTTAGAGCTT
1 AAAATTGAATTTTTTGAAAGTTTAGAG-TT
* * *
18173438 AAAATCG-ATTTTTTGGAAAGTTCGAGGGTT
1 AAAATTGAATTTTTT-GAAAGTT-TAGAGTT
*
18173468 AAAACTGAA-TTTTTGAGAAGTT
1 AAAATTGAATTTTTTGA-AAGTT
18173490 CGAGGGTCGA
Statistics
Matches: 144, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.01
28 6 0.04
29 23 0.16
30 106 0.74
31 7 0.05
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (29 bp):
AAAATTGAATTTTTTGAAAGTTTAGAGTT
Found at i:18173442 original size:60 final size:59
Alignment explanation
Indices: 18173287--18173486 Score: 156
Period size: 60 Copynumber: 3.4 Consensus size: 59
18173277 GGAAAATAGG
* * *** * *
18173287 GTCAAAATTGAA-ATTTGGAAAGTTTAGGGTTAAAATGTAATTTTCAAAAAGTTTAGGG
1 GTCAAAATTGAATTTTTAGAAAGTTTAGGGTTAAAATGTAATTTTTTGAAAGTTTAAGA
* * * *
18173345 GTTAAAA-TGCAATTTTCAAAAAGTTTATGGGTCAAAATGTAATTTTTTGAAAGTTTAAGA
1 GTCAAAATTG-AATTTTTAGAAAGTTTA-GGGTTAAAATGTAATTTTTTGAAAGTTTAAGA
* * ** *
18173405 GTCAAAATTGAATTTTTTGAAAGTTTAGAGCTTAAAATCG--ATTTTTTGGAAAGTTCGAGG
1 GTCAAAATTGAATTTTTAGAAAGTTTAG-GGTTAAAAT-GTAATTTTTT-GAAAGTTTAAGA
* *
18173465 GTTAAAACTGAATTTTTGAGAA
1 GTCAAAATTGAATTTTT-AGAA
18173487 GTTCGAGGGT
Statistics
Matches: 111, Mismatches: 23, Indels: 13
0.76 0.16 0.09
Matches are distributed among these distances:
57 2 0.02
58 8 0.07
59 18 0.16
60 77 0.69
61 6 0.05
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (59 bp):
GTCAAAATTGAATTTTTAGAAAGTTTAGGGTTAAAATGTAATTTTTTGAAAGTTTAAGA
Found at i:18175319 original size:38 final size:38
Alignment explanation
Indices: 18175261--18176040 Score: 583
Period size: 38 Copynumber: 19.9 Consensus size: 38
18175251 TTGGATGGTG
* * *
18175261 GCTTCAATTTGTCCCATGATCAGGGTACGAGATTGGAT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
* * * *
18175299 GCTTCAATTTGCCCCGTGATCGGGGTAAGAGATTGGACG
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGA-T
* *
18175338 GCTGCAATCAGCCCCATGATCAGGGTAAGAGATTGGATGAT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATT-G--GAT
* ** * *
18175379 GTCTTCAATCTACCCCATGATTGGGGTAAAAGATCGGAT
1 G-CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
* * *
18175418 GCTTCGATCTGCCTCATGATCGGGGTAAGAGATT-GAT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
* * *
18175455 GTATCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTAGAT
1 G---CTTCAATCTGCCC-CATGATCAGGGTAAGAGATTGGAT
**
18175496 GCTTCAATCTGCCCCATGATC-GAGGTAAGAGATTGGGCG
1 GCTTCAATCTGCCCCATGATCAG-GGTAAGAGATT-GGAT
* * * *
18175535 GCTGCAATCTACCTCATGAT-AGGGGTAAGGGATTGGATGAT
1 GCTTCAATCTGCCCCATGATCA-GGGTAAGAGATT-G--GAT
* ** * *
18175576 GTCTTCAATCTGCTCCATGATTGGGGTAAAAGATCGGAT
1 G-CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
* *
18175615 GCTTCTATCTGCCCCATGAT-TGGGATAAGAGATTGGATGAT
1 GCTTCAATCTGCCCCATGATCAGGG-TAAGAGATT-G--GAT
* ** ** *
18175656 GTCTTCAATCTACCTTATGATTGGGGTAAGAGATCGGAT
1 G-CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
* * * *
18175695 GTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGG-AT
* * * *
18175734 GTTTTCAATCTGCCCTC-TGATTAGGGTAAAAGATCGGAT
1 G-CTTCAATCTGCCC-CATGATCAGGGTAAGAGATTGGAT
*
18175773 GCTTCAATCTGCCCCATGATC-GGAGTAAGAGATTGGTGT
1 GCTTCAATCTGCCCCATGATCAGG-GTAAGAGATTGG-AT
* * * *
18175812 GTCTTCAATCTGCCCTC-TAATTAGGGTAAAAGATCGGAT
1 G-CTTCAATCTGCCC-CATGATCAGGGTAAGAGATTGGAT
* *
18175851 ACTTCAATCTGCCCCATGATC-GGAGTAAGAGATTGGTGT
1 GCTTCAATCTGCCCCATGATCAGG-GTAAGAGATTGG-AT
* * *
18175890 GTCTTCAATCTGCCCTC-TAATTAGGGTAAAAGATTGGAT
1 G-CTTCAATCTGCCC-CATGATCAGGGTAAGAGATTGGAT
* * *
18175929 GCTTCAATCTGCCCCATGATCGGGGTATGAGATTGGGGT
1 GCTTCAATCTGCCCCATGATCAGGGTAAGAGATT-GGAT
** * *
18175968 GTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTGGAT
1 G-CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
*
18176007 GCTTCAATCTGCCGCATGATC-GGCGTAAGAGATT
1 GCTTCAATCTGCCCCATGATCAGG-GTAAGAGATT
18176041 ATTGTGTAGC
Statistics
Matches: 588, Mismatches: 110, Indels: 88
0.75 0.14 0.11
Matches are distributed among these distances:
37 18 0.03
38 244 0.41
39 90 0.15
40 136 0.23
41 22 0.04
42 75 0.13
43 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (38 bp):
GCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT
Found at i:18175597 original size:197 final size:199
Alignment explanation
Indices: 18175276--18176040 Score: 665
Period size: 197 Copynumber: 3.9 Consensus size: 199
18175266 AATTTGTCCC
* ** * *
18175276 ATGATCAGGGTACGAGATTGGATGCTTCAATTTGCCCCGTGATCGGGGTAAGAGATTGGACGGCT
1 ATGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGACGGCT
18175341 GCAATCAGCCCCATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATTGGGGT
66 GCAATCAGCCCCATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATTGGGGT
* * *
18175406 AAAAGATCGGATGCTTCGATCTGCCTCATGATCGGGGTAAGAGATT-GATG-TATCTTCAATCTG
131 AAAAGATCGGATGCTTCGATCTGCCCCATGATCGGGATAAGAGATTGGATGATATCTTCAATCTA
18175469 CCCT
196 CCCT
* * * *
18175473 CTGATTAGGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATCGAGGTAAGAGATTGGGCGGCT
1 ATGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGACGGCT
* * * *
18175538 GCAATCTA-CCTCATGAT-AGGGGTAAGGGATTGGATGATGTCTTCAATCTGCTCCATGATTGGG
66 GCAATC-AGCCCCATGATCA-GGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATTGGG
* * *
18175601 GTAAAAGATCGGATGCTTCTATCTGCCCCATGATTGGGATAAGAGATTGGATGATGTCTTCAATC
129 GTAAAAGATCGGATGCTTCGATCTGCCCCATGATCGGGATAAGAGATTGGATGATATCTTCAATC
*
18175666 TACCTT
194 TACCCT
* * * * * *
18175672 ATGATTGGGGTAAGAGATCGGATGTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGG-TGTGT
1 ATGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGACG-G-
* * * * * * * *
18175736 TTTCAATCTGCCCTC-TGATTAGGGTAAAAGA-TCG--GATG-CTTCAATCTGCCCCATGATCGG
64 CTGCAATCAGCCC-CATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATTGG
* * * * * * * * *
18175796 AGTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TAATTAGGG-TAAAAGA-TCG--GATA-CTT
128 GGTAAAAGATCGG-ATG-CTTCGATCTGCCC-CATGA-TCGGGATAAGAGATTGGATGATATCTT
* *
18175855 CAATCTGCCCC
189 CAATCTACCCT
* * * * ** *
18175866 ATGA-TCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TAATTAGGGTAAAAGATTGGA-
1 ATGATTAGG-GTAAAAGATTGG-ATG-CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGAC
* * * * * * * ** *
18175928 TGCTTCAATCTGCCCCATGATCGGGGTATGAGATTGG--GGTGTCTTCAATCTGCCCTTTGATTA
62 GGCTGCAATCAGCCCCATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATTG
* * *
18175991 GGGTAAAAGATTGGATGCTTCAATCTGCCGCATGATCGGCG-TAAGAGATT
127 GGGTAAAAGATCGGATGCTTCGATCTGCCCCATGATCGG-GATAAGAGATT
18176041 ATTGTGTAGC
Statistics
Matches: 465, Mismatches: 79, Indels: 50
0.78 0.13 0.08
Matches are distributed among these distances:
193 8 0.02
194 71 0.15
195 14 0.03
196 87 0.19
197 164 0.35
198 26 0.06
199 73 0.16
200 20 0.04
201 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (199 bp):
ATGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGACGGCT
GCAATCAGCCCCATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTACCCCATGATTGGGGT
AAAAGATCGGATGCTTCGATCTGCCCCATGATCGGGATAAGAGATTGGATGATATCTTCAATCTA
CCCT
Found at i:18175779 original size:78 final size:78
Alignment explanation
Indices: 18175241--18176040 Score: 710
Period size: 78 Copynumber: 10.2 Consensus size: 78
18175231 CAATCTGTAA
* * * * * ** *
18175241 GGGTAAAAGATTGGATGGTGGCTTCAATTTGTCCC-ATGATCAGGGTACGAGATTGGATGCTTCA
1 GGGTAAGAGATTGG-T-GTGTCTTCAATCTG-CCCTCTGATTAGGGTAAAAGATCGGATGCTTCA
* *
18175305 ATTTGCCCCGTGATCG
63 ATCTGCCCCATGATCG
* * * * * *
18175321 GGGTAAGAGATTGGACG-G-CTGCAATCAGCCC-CATGATCAGGGTAAGAGATTGGATGATGTCT
1 GGGTAAGAGATTGG-TGTGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGA-TCG--GATG-CT
* *
18175383 TCAATCTACCCCATGATTG
60 TCAATCTGCCCCATGATCG
* * * * ** * *
18175402 GGGTAAAAGATCGG-ATG-CTTCGATCTG-CCTCATGATCGGGGTAAGAGAT-TGATGTATCTTC
1 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATCGGATG---CTTC
**
18175463 AATCTGCCCTC-TGATTA
62 AATCTGCCC-CATGATCG
* * * * * * ** *
18175480 GGGTAAAAGATTAG-ATG-CTTCAATCTGCCC-CATGA-TCGAGGTAAGAGATTGGGCGGCTGCA
1 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TGATTAG-GGTAAAAGA-TCGGATGCTTCA
* * *
18175541 ATCTACCTCATGATAG
63 ATCTGCCCCATGATCG
* * * *
18175557 GGGTAAGGGATTGGATGATGTCTTCAATCTGCTCC-ATGATTGGGGTAAAAGATCGGATGCTTCT
1 GGGTAAGAGATTGG-TG-TGTCTTCAATCTGC-CCTCTGATTAGGGTAAAAGATCGGATGCTTCA
*
18175621 ATCTGCCCCATGATTG
63 ATCTGCCCCATGATCG
* * * * * * *
18175637 GGATAAGAGATTGGATGATGTCTTCAATCTACCTTATGATTGGGGTAAGAGATCGGATGTTTCAA
1 GGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAA
*
18175702 TCTGCCTCATGATCG
64 TCTGCCCCATGATCG
*
18175717 GGGTAAGAGATTGGTGTGTTTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAATC
1 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAATC
18175782 TGCCCCATGATCG
66 TGCCCCATGATCG
* * *
18175795 GAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTAATTAGGGTAAAAGATCGGATACTTCAATC
1 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAATC
18175860 TGCCCCATGATCG
66 TGCCCCATGATCG
* * *
18175873 GAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATC
1 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAATC
18175938 TGCCCCATGATCG
66 TGCCCCATGATCG
* * * *
18175951 GGGTATGAGATTGGGGTGTCTTCAATCTGCCCTTTGATTAGGGTAAAAGATTGGATGCTTCAATC
1 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAATC
*
18176016 TGCCGCATGATCG
66 TGCCCCATGATCG
*
18176029 GCGTAAGAGATT
1 GGGTAAGAGATT
18176041 ATTGTGTAGC
Statistics
Matches: 616, Mismatches: 82, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
76 8 0.01
77 48 0.08
78 345 0.56
79 11 0.02
80 149 0.24
81 51 0.08
82 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (78 bp):
GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATCGGATGCTTCAATC
TGCCCCATGATCG
Found at i:18176403 original size:49 final size:49
Alignment explanation
Indices: 18176232--18176716 Score: 264
Period size: 49 Copynumber: 9.9 Consensus size: 49
18176222 AGGCATGAGA
* * * * * * * * *
18176232 TTCGCCTTTGCGGCCTCAATCTTTCCCTTCATATCTCTATGGTATACGG
1 TTCGCCGTTGCAGCTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
** * * * * * * *
18176281 TTCATCATTGCGGCTTCAACCTTTCCC-TCCACATTTCCATGGTACACGA
1 TTCGCCGTTGCAGCTTCAACCTTTCCCAT-CACATCTCTAAGGTACAAGG
* * * * *
18176330 TTCGCCATTAC-GACTGCAATCTTTCCCATCACATCTTTAAGGTACAAGG
1 TTCGCCGTTGCAG-CTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
* * * * * *
18176379 TTCGCCATTGCAGTTTCAACCTTTCAC-T-ACATATCTTCATGGTACAAGA
1 TTCGCCGTTGCAGCTTCAACCTTTCCCATCACATCTC-T-AAGGTACAAGG
* * * * * *
18176428 TTCGCCGTTGCGGTTTCAATCTTTCCTATCACGTCTCTAAGGTATAAGG
1 TTCGCCGTTGCAGCTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
* * * * * *
18176477 TTCGTCGTTGCAGCTTCAACCTTT-CCTTCCATATCTCCATGGTACAAGA
1 TTCGCCGTTGCAGCTTCAACCTTTCCCAT-CACATCTCTAAGGTACAAGG
* * * *
18176526 TTCGCTGTTGC-GACTTCAATCTTTCCCATCACGTCTCTAAGGTCCAAGG
1 TTCGCCGTTGCAG-CTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
** * * * * *
18176575 TTCGCCGTTGTGGCTTCAACCTTTCCCTTCATATCTCCATGGTACAAGA
1 TTCGCCGTTGCAGCTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
* ** * * * **
18176624 TTTGTTGTCGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGG
1 TTCGCCGTTGCAGCTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
* * * * * *
18176673 TTCACTGTTACGGCTTCAACCTTTCCC-TCCATATCTCTAGGGTA
1 TTCGCCGTTGCAGCTTCAACCTTTCCCAT-CACATCTCTAAGGTA
18176717 TTAGATTTGC
Statistics
Matches: 332, Mismatches: 91, Indels: 26
0.74 0.20 0.06
Matches are distributed among these distances:
47 5 0.02
48 8 0.02
49 306 0.92
50 8 0.02
51 5 0.02
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (49 bp):
TTCGCCGTTGCAGCTTCAACCTTTCCCATCACATCTCTAAGGTACAAGG
Found at i:18176549 original size:196 final size:195
Alignment explanation
Indices: 18176229--18176709 Score: 604
Period size: 196 Copynumber: 2.5 Consensus size: 195
18176219 TCAAGGCATG
* * * * * *
18176229 AGATTCGCCTTTGCGGCCTCAATCTTTCCCT-TCATATCTCTATGGTATACGGTTCATCATTGCG
1 AGATTCGCCGTTGCGGCTTCAATCTTT-CCTATCATGTCTCTAAGGTATAAGGTTC-TCGTTGCG
* * *
18176293 GCTTCAACCTTTCCCTCCACATTTCCATGGTACACGATTCGCCATTACGACTGCAATCTTTCCCA
64 GCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCATTACGACTGCAATCTTTCCCA
* * *
18176358 TCACATCTTTAAGGTACAAGGTTCGCCATTGCAGTTTCAACCTTTCACTACATATCTTCATGGTA
129 TCACATCTCTAAGGTACAAGGTTCGCCATTGCAGCTTCAACCTTTCACTACATATCTCCATGGTA
18176423 CA
194 CA
* * *
18176425 AGATTCGCCGTTGCGGTTTCAATCTTTCCTATCACGTCTCTAAGGTATAAGGTTCGTCGTTGCAG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCTATCATGTCTCTAAGGTATAAGGTTC-TCGTTGCGG
* ** * *
18176490 CTTCAACCTTTCCTTCCATATCTCCATGGTACAAGATTCGCTGTTGCGACTTCAATCTTTCCCAT
65 CTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCATTACGACTGCAATCTTTCCCAT
* * * ** * *
18176555 CACGTCTCTAAGGTCCAAGGTTCGCCGTTGTGGCTTCAACCTTTCCCTTCATATCTCCATGGTAC
130 CACATCTCTAAGGTACAAGGTTCGCCATTGCAGCTTCAACCTTTCACTACATATCTCCATGGTAC
18176620 A
195 A
* ** * * * * *
18176621 AGATTTGTTGTCGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCACTGTTACGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCTATCATGTCTCTAAGGTATAAGGTTCTC-GTTGCGG
18176686 CTTCAACCTTTCCCTCCATATCTC
65 CTTCAACCTTTCCCTCCATATCTC
18176710 TAGGGTATTA
Statistics
Matches: 243, Mismatches: 40, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
195 4 0.02
196 239 0.98
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.35
Consensus pattern (195 bp):
AGATTCGCCGTTGCGGCTTCAATCTTTCCTATCATGTCTCTAAGGTATAAGGTTCTCGTTGCGGC
TTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCATTACGACTGCAATCTTTCCCATC
ACATCTCTAAGGTACAAGGTTCGCCATTGCAGCTTCAACCTTTCACTACATATCTCCATGGTACA
Found at i:18176747 original size:98 final size:98
Alignment explanation
Indices: 18176229--18176744 Score: 548
Period size: 98 Copynumber: 5.3 Consensus size: 98
18176219 TCAAGGCATG
* * * ** * * * ** * *
18176229 AGATTCGCCTTTGCGGCCTCAATCTTTCCCTTCATATCTCTATGGTATACGGTTCATCATTGCGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGCAG
* *
18176294 CTTCAACCTTTCCCTCCACATTTCCATGGTACA
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* * * * * * * *
18176327 CGATTCGCCATTACGACTGCAATCTTTCCCATCACATCTTTAAGGTACAAGGTTCGCCATTGCAG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGCAG
* * * *
18176392 TTTCAACCTTTCACTACATATCTTCATGGTACA
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* * * *
18176425 AGATTCGCCGTTGCGGTTTCAATCTTTCCTATCACGTCTCTAAGGTATAAGGTTCGTCGTTGCAG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGCAG
*
18176490 CTTCAACCTTTCCTTCCATATCTCCATGGTACA
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* * * **
18176523 AGATTCGCTGTTGCGACTTCAATCTTTCCCATCACGTCTCTAAGGTCCAAGGTTCGCCGTTGTGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGCAG
*
18176588 CTTCAACCTTTCCCTTCATATCTCCATGGTACA
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* ** * * * * * *
18176621 AGATTTGTTGTCGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCACTGTTACGG
1 AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGCAG
* * **
18176686 CTTCAACCTTTCCCTCCATATCTCTAGGGTATT
66 CTTCAACCTTTCCCTCCATATCTCCATGGTACA
* * *
18176719 AGATTTGCCATTG-GGCATCAATCTTT
1 AGATTCGCCGTTGCGGCTTCAATCTTT
18176745 TCCTTCAAAC
Statistics
Matches: 349, Mismatches: 69, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
97 12 0.03
98 337 0.97
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (98 bp):
AGATTCGCCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCGTTGCAG
CTTCAACCTTTCCCTCCATATCTCCATGGTACA
Found at i:18178676 original size:65 final size:68
Alignment explanation
Indices: 18178563--18178693 Score: 189
Period size: 65 Copynumber: 2.0 Consensus size: 68
18178553 ATAGATTTTC
* *
18178563 AAGATGCCCTTTGCGGGTTTTCATCTTGACTTTCTTTTTTCTTCC-TTT-TTCTT-TTCTTTTTT
1 AAGATGCCCTTTACGGGTTTTCATCTTGACTTTCTTCTTTCTTCCTTTTCTTCTTCTTCTTTTTT
18178625 TAA
66 TAA
* *
18178628 AAGATGCCCTTTATGGGTTTTCATCTTGACTTT-TTCTTTCTTTTCTTTTCTTCTTCTTCTTTTT
1 AAGATGCCCTTTACGGGTTTTCATCTTGACTTTCTTCTTTC-TTCCTTTTCTTCTTCTTCTTTTT
18178692 TT
65 TT
18178694 TTTGATCTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
64 6 0.10
65 34 0.59
66 3 0.05
67 5 0.09
68 10 0.17
ACGTcount: A:0.10, C:0.20, G:0.10, T:0.60
Consensus pattern (68 bp):
AAGATGCCCTTTACGGGTTTTCATCTTGACTTTCTTCTTTCTTCCTTTTCTTCTTCTTCTTTTTT
TAA
Found at i:18183026 original size:30 final size:30
Alignment explanation
Indices: 18182897--18183050 Score: 125
Period size: 30 Copynumber: 5.1 Consensus size: 30
18182887 AGGGAAAATG
*
18182897 GGGTTAAAATTGAAA-TTTTAGAAAGTTTAG
1 GGGTTAAAA-TGAAATTTTTAGAAAGTTTAA
*
18182927 GGGTTAAAATGTAATTTTTAGAAAGTTTAA
1 GGGTTAAAATGAAATTTTTAGAAAGTTTAA
** * * * * ***
18182957 AAGTCAAAATAAAATTTTTGGAACGTTCGG
1 GGGTTAAAATGAAATTTTTAGAAAGTTTAA
* * * *
18182987 GGGTCAAAATCAAATTTTTGGAAAGTTCAA
1 GGGTTAAAATGAAATTTTTAGAAAGTTTAA
18183017 GGGTTAAAATTG-AATTTTT-GAGAAGTTTAA
1 GGGTTAAAA-TGAAATTTTTAGA-AAGTTTAA
18183047 GGGT
1 GGGT
18183051 CGAATTTGAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
29 6 0.06
30 93 0.93
31 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (30 bp):
GGGTTAAAATGAAATTTTTAGAAAGTTTAA
Found at i:18183442 original size:16 final size:16
Alignment explanation
Indices: 18183421--18183460 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
18183411 ATAAGAAATA
18183421 TGTATATACACATATG
1 TGTATATACACATATG
18183437 TGTATATACACATATG
1 TGTATATACACATATG
*
18183453 TATATATA
1 TGTATATA
18183461 TGTATACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (16 bp):
TGTATATACACATATG
Found at i:18183463 original size:10 final size:10
Alignment explanation
Indices: 18183448--18183520 Score: 60
Period size: 10 Copynumber: 7.3 Consensus size: 10
18183438 GTATATACAC
18183448 ATATGTATAT
1 ATATGTATAT
*
18183458 ATATGTATAC
1 ATATGTATAT
*
18183468 ATA--CATAT
1 ATATGTATAT
* **
18183476 GTATACATAT
1 ATATGTATAT
*
18183486 ATATGTATCTAC
1 ATATGTA--TAT
18183498 ATATGTATAT
1 ATATGTATAT
18183508 ATATGTATAT
1 ATATGTATAT
18183518 ATA
1 ATA
18183521 AATGCTAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 5 0.10
10 36 0.72
12 9 0.18
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (10 bp):
ATATGTATAT
Found at i:18183471 original size:26 final size:25
Alignment explanation
Indices: 18183432--18183519 Score: 108
Period size: 24 Copynumber: 3.6 Consensus size: 25
18183422 GTATATACAC
*
18183432 ATATGTGTATATA-CACATATGTAT
1 ATATATGTATATATCACATATGTAT
*
18183456 ATATATGTATACAT-ACATATGTAT
1 ATATATGTATATATCACATATGTAT
* * *
18183480 ACATATATATGTATCTACATATGTAT
1 ATATATGTATATATC-ACATATGTAT
18183506 ATATATGTATATAT
1 ATATATGTATATAT
18183520 AAATGCTAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 31 0.60
26 21 0.40
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (25 bp):
ATATATGTATATATCACATATGTAT
Found at i:18183520 original size:14 final size:14
Alignment explanation
Indices: 18183418--18183510 Score: 77
Period size: 14 Copynumber: 6.9 Consensus size: 14
18183408 AAGATAAGAA
*
18183418 ATATGTATATACAC
1 ATATGTATATATAC
*
18183432 ATATGTGTATATAC
1 ATATGTATATATAC
* * *
18183446 ACA--TATGTATAT
1 ATATGTATATATAC
*
18183458 ATATGTATACATAC
1 ATATGTATATATAC
* *
18183472 ATATGTATACATAT
1 ATATGTATATATAC
*
18183486 ATATG--TATCTAC
1 ATATGTATATATAC
18183498 ATATGTATATATA
1 ATATGTATATATA
18183511 TGTATATATA
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
12 17 0.28
14 43 0.72
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (14 bp):
ATATGTATATATAC
Found at i:18183531 original size:22 final size:22
Alignment explanation
Indices: 18183432--18183532 Score: 69
Period size: 22 Copynumber: 4.2 Consensus size: 22
18183422 GTATATACAC
*
18183432 ATATGTGTATATACACATATGTAT
1 ATATATGTATATACA-A-ATGTAT
*
18183456 ATATATGTATACATACATATGTATACAT
1 ATATATGTAT--ATACAAATG--T--AT
* *
18183484 ATATATGTATCTACATATGTAT
1 ATATATGTATATACAAATGTAT
*
18183506 ATATATGTATATATAAATGCTA-
1 ATATATGTATATACAAATG-TAT
18183528 ATATA
1 ATATA
18183533 CCTTGCACGA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
22 23 0.36
23 2 0.03
24 13 0.20
26 14 0.22
28 12 0.19
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (22 bp):
ATATATGTATATACAAATGTAT
Found at i:18202727 original size:74 final size:74
Alignment explanation
Indices: 18202595--18202792 Score: 263
Period size: 74 Copynumber: 2.7 Consensus size: 74
18202585 GGTGCAACTT
* * * * * * * *
18202595 TCGTCAGTTTATCTAATTAGTGTTGGGCATATATTCGTTGGTGTATTCAACTAAAGCTGAGTTCA
1 TCGTCAGTTTATCTGACTAGTGCTGGACACATATTCGTTGGTTTATCCAACTAAAGCTGAGCTCA
18202660 TTAATAATA
66 TTAATAATA
*
18202669 TCGTCAGTTTATCTGACTAGTGCTGGACACATATTCGTTGGTTTATCCAAC-AAGAGCTGGGCTC
1 TCGTCAGTTTATCTGACTAGTGCTGGACACATATTCGTTGGTTTATCCAACTAA-AGCTGAGCTC
18202733 ATTAATAATA
65 ATTAATAATA
* * * *
18202743 TCATCAGTTTATCTGACTAGTGCTGGACACACATTCGTCGGTTTACCCAA
1 TCGTCAGTTTATCTGACTAGTGCTGGACACATATTCGTTGGTTTATCCAA
18202793 TTAGCGCTGG
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 2 0.02
74 108 0.98
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (74 bp):
TCGTCAGTTTATCTGACTAGTGCTGGACACATATTCGTTGGTTTATCCAACTAAAGCTGAGCTCA
TTAATAATA
Found at i:18202768 original size:40 final size:39
Alignment explanation
Indices: 18202657--18202768 Score: 99
Period size: 40 Copynumber: 3.0 Consensus size: 39
18202647 AAAGCTGAGT
18202657 TCATTAATAATATCGTCAGTTTATCTGACTAGTGCT-GG
1 TCATTAATAATATCGTCAGTTTATCTGACTAGTGCTGGG
* * ** ** * *
18202695 ACA--CAT-AT-TCGTTGGTTTATCCAACAAGAGCTGGG
1 TCATTAATAATATCGTCAGTTTATCTGACTAGTGCTGGG
*
18202730 CTCATTAATAATATCATCAGTTTATCTGACTAGTGCTGG
1 -TCATTAATAATATCGTCAGTTTATCTGACTAGTGCTGG
18202769 ACACACATTC
Statistics
Matches: 51, Mismatches: 17, Indels: 10
0.65 0.22 0.13
Matches are distributed among these distances:
34 18 0.35
35 4 0.08
36 4 0.08
38 4 0.08
39 2 0.04
40 19 0.37
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (39 bp):
TCATTAATAATATCGTCAGTTTATCTGACTAGTGCTGGG
Found at i:18202821 original size:35 final size:34
Alignment explanation
Indices: 18202758--18202839 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 34
18202748 AGTTTATCTG
* * *
18202758 ACTAGTGCTGGACACACATTCGTCGGTTTACCCA
1 ACTAGAGCTGGGCACAAATTCGTCGGTTTACCCA
* * * *
18202792 ATTAGCGCTGGGCACAAATATCGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAAT-TCGTCGGTTTACCCA
18202827 ACTAGAGCTGGGC
1 ACTAGAGCTGGGC
18202840 TCACAATTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 15 0.38
35 24 0.62
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (34 bp):
ACTAGAGCTGGGCACAAATTCGTCGGTTTACCCA
Found at i:18205928 original size:101 final size:100
Alignment explanation
Indices: 18205712--18206614 Score: 774
Period size: 101 Copynumber: 9.0 Consensus size: 100
18205702 TATAGGATTC
* * * *
18205712 AGCTTCATCTTGC-CTCATTGCAACTTCA-AGGAGAT-AAGTTTTGC-TTCTGCAGCTTCAATCT
1 AGCTTCATCTTGCTCT-ACTGCAACTTTAGA-GAGATAAAGATTTGCTTTC-GTAGCTTCAATC-
* * * * * *
18205773 GACCCGCTGCAACTTTTTAGGGGTATAAGATTTGGTGTGGT
62 GACCCACTGCAAC--TTCAGGGATATAGGATTTGATGTTGT
* * * * *
18205814 AGTTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGAATGGCTTTCGTAGATTCAATCGAAT
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCG-AC
* * *
18205879 CCACTACAACCTCAGGGATATAGGATTTGATGTCGT
65 CCACTGCAACTTCAGGGATATAGGATTTGATGTTGT
* * * * *
18205915 AGCTTCATCTTGCTCCACTGTATCTTCA-AGGAGAT-AAGATTTGC-TTCTGTGGCTTCAATCTG
1 AGCTTCATCTTGCTCTACTGCAACTTTAGA-GAGATAAAGATTTGCTTTC-GTAGCTTCAATC-G
* * *
18205977 ACCTACTGCAACTTTAAGGG-TATAAGATTTGATGTTGT
63 ACCCACTGCAAC-TTCAGGGATATAGGATTTGATGTTGT
* * * *
18206015 AGCTTCATCTTGCTCTGCTGCAACTTAAGAGAGATAAATATTTGCTTTCGTAGCTTCAATCCGAT
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAAT-CGAC
* **
18206080 CCACTGCAACTTCAAGGATATAGGATTTGATGTCAT
65 CCACTGCAACTTCAGGGATATAGGATTTGATGTTGT
* * * * * * * * *
18206116 AGCTTCATCTTGCTCCATTGCATCTTTGGGGAGAT-AAGATTTTCTTTTGTAGC-TCTATTCAAC
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTC-AATCGAC
* * *
18206179 CCACTGTAACTTCAAGGATATAGGATTTGGTGTTGT
65 CCACTGCAACTTCAGGGATATAGGATTTGATGTTGT
* * * * * * * *
18206215 AGCTTCATCTTGCTTTACTACAACTTCAGAAAAATAAAGATTTGCTTTCATAGCTTTAATCCGAT
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAAT-CGAC
* *
18206280 CCACTGCAACTTCAGGGATATAAGATTTGATGTCGT
65 CCACTGCAACTTCAGGGATATAGGATTTGATGTTGT
* * * ** * * *
18206316 AGCTTCATCTTACTCCATTATAACTTTAGGGAGATAAATATTTGCTTTTGTAGCTTCAATCTGAC
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATC-GAC
* *
18206381 CCACTGCAACTTTAAGGG-TATAGGATTTG-TTTTGT
65 CCACTGCAAC-TTCAGGGATATAGGATTTGATGTTGT
* * * * * * *
18206416 AGCTTCATTTTGCTCTACTACAGCTTGAAAAAGATAAAGATTTGCTTTCGTAGCTTCAATATGAC
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAAT-CGAC
* *
18206481 CCATTGCAACTTCAGGGGTATAGGATTTGACT-TTGT
65 CCACTGCAACTTCAGGGATATAGGATTTGA-TGTTGT
** * * * * *
18206517 ATTTTCATCTTACTCTACTGTAAATTTTGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCCGAT
1 AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAAT-CGAC
* *
18206582 CC-CTGTAACTTCTA-GGATATAAGATTTGATGTT
65 CCACTGCAACTTC-AGGGATATAGGATTTGATGTT
18206615 ATACTGATCT
Statistics
Matches: 637, Mismatches: 138, Indels: 54
0.77 0.17 0.07
Matches are distributed among these distances:
99 71 0.11
100 209 0.33
101 287 0.45
102 39 0.06
103 28 0.04
104 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (100 bp):
AGCTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCGACC
CACTGCAACTTCAGGGATATAGGATTTGATGTTGT
Found at i:18205956 original size:50 final size:50
Alignment explanation
Indices: 18205712--18206473 Score: 290
Period size: 50 Copynumber: 15.1 Consensus size: 50
18205702 TATAGGATTC
* * * *
18205712 AGCTTCATCTTGC-CTCATTGCAACTTCAAGGAGATAAGTTTTGCT-TCTGC
1 AGCTTCATCTTGCTC-CACTGCAACTTCAAGGAGATAAGATTTGATGTC-GT
* ** * * *
18205762 AGCTTCAATC-TGAC-CCGCTGCAACTTTTTAGGGGTATAAGATTTGGTGTGGT
1 AGCTTC-ATCTTG-CTCCACTGCAAC-TTCAAGGAG-ATAAGATTTGATGTCGT
* * * * * * *
18205814 AGTTTCATCTTGCTCTACTGCAACTT-TAGAGAGATAAAGAATGGCTTTCGT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGAT-AAGATTTGATGTCGT
* * * * * * *
18205865 AGATTCAATC--GAATCCACTACAACCTCAGGGATATAGGATTTGATGTCGT
1 AGCTTC-ATCTTG-CTCCACTGCAACTTCAAGGAGATAAGATTTGATGTCGT
* * *
18205915 AGCTTCATCTTGCTCCACTGTATCTTCAAGGAGATAAGATTTGCT-TCTGT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATGTC-GT
* * * *
18205965 GGCTTCAATC-TGAC-CTACTGCAACTTTAAGG-GTATAAGATTTGATGTTGT
1 AGCTTC-ATCTTG-CTCCACTGCAACTTCAAGGAG-ATAAGATTTGATGTCGT
** * * *
18206015 AGCTTCATCTTGCTCTGCTGCAACTT-AAGAGAGATAAATATTTGCTTTCGT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGAT-AAGATTTGATGTCGT
* * * * *
18206066 AGCTTCAATC-CGATCCACTGCAACTTCAAGGATATAGGATTTGATGTCAT
1 AGCTTC-ATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATGTCGT
* * *** ** * *
18206116 AGCTTCATCTTGCTCCATTGCATCTTTGGGGAGATAAGATTTTCTTTTGT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATGTCGT
* * * * * * *
18206166 AGC-TC-TATT-CAACCCACTGTAACTTCAAGGATATAGGATTTGGTGTTGT
1 AGCTTCATCTTGC--TCCACTGCAACTTCAAGGAGATAAGATTTGATGTCGT
** * * * * * *
18206215 AGCTTCATCTTGCTTTACTACAACTTC-AGAAAAATAAAGATTTGCTTTCAT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGAT-AAGATTTGATGTCGT
* * * * *
18206266 AGCTTTAATC-CGATCCACTGCAACTTCAGGGATATAAGATTTGATGTCGT
1 AGC-TTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATGTCGT
* * ** * * * * * *
18206316 AGCTTCATCTTACTCCATTATAACTTTAGGGAGATAAATATTTGCTTTTGT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGAT-AAGATTTGATGTCGT
* * * *
18206367 AGCTTCAATC-TGAC-CCACTGCAACTTTAAGG-GTATAGGATTTG-TTTTGT
1 AGCTTC-ATCTTG-CTCCACTGCAACTTCAAGGAG-ATAAGATTTGATGTCGT
* * * * * ** * *
18206416 AGCTTCATTTTGCTCTACTACAGCTTGAAAAAGATAAAGATTTGCTTTCGT
1 AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGAT-AAGATTTGATGTCGT
18206467 AGCTTCA
1 AGCTTCA
18206474 ATATGACCCA
Statistics
Matches: 521, Mismatches: 145, Indels: 91
0.69 0.19 0.12
Matches are distributed among these distances:
47 1 0.00
48 6 0.01
49 80 0.15
50 222 0.43
51 164 0.31
52 47 0.09
53 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (50 bp):
AGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGATGTCGT
Found at i:18206075 original size:201 final size:201
Alignment explanation
Indices: 18205712--18206510 Score: 953
Period size: 201 Copynumber: 4.0 Consensus size: 201
18205702 TATAGGATTC
* *
18205712 AGCTTCATCTTGC-CTCATTGCAACTTCAAGGAGATAAGTTTTGCTTCTGCAGCTTCAATCTGAC
1 AGCTTCATCTTGCTC-CATTGCAACTTCAAGGAGATAAGATTTGCTTCTGTAGCTTCAATCTGAC
* * * * * *
18205776 CCGCTGCAACTTTTTAGGGGTATAAGATTTGGTGTGGTAGTTTCATCTTGCTCTACTGCAACTTT
65 CCACTGCAAC--TTTAAGGGTATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTA
* * * * * *
18205841 AGAGAGATAAAGAATGGCTTTCGTAGATTCAAT-CGAATCCACTACAACCTCAGGGATATAGGAT
128 AGAAAGATAAAGATTTGCTTTCGTAGCTTCAATCCG-ATCCACTGCAACTTCAGGGATATAGGAT
18205905 TTGATGTCGT
192 TTGATGTCGT
* * * *
18205915 AGCTTCATCTTGCTCCACTGTATCTTCAAGGAGATAAGATTTGCTTCTGTGGCTTCAATCTGACC
1 AGCTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTTCTGTAGCTTCAATCTGACC
* * * *
18205980 TACTGCAACTTTAAGGGTATAAGATTTGATGTTGTAGCTTCATCTTGCTCTGCTGCAACTTAAGA
66 CACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTAAGA
* * *
18206045 GAGATAAATATTTGCTTTCGTAGCTTCAATCCGATCCACTGCAACTTCAAGGATATAGGATTTGA
131 AAGATAAAGATTTGCTTTCGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATTTGA
*
18206110 TGTCAT
196 TGTCGT
* *** * * * *
18206116 AGCTTCATCTTGCTCCATTGCATCTTTGGGGAGATAAGATTTTCTTTTGTAGC-TCTAT-TCAAC
1 AGCTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTTCTGTAGCTTCAATCT-GAC
* * * * * *
18206179 CCACTGTAACTTCAAGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTTTACTACAACTTCAG
65 CCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTAAG
* * * *
18206244 AAAAATAAAGATTTGCTTTCATAGCTTTAATCCGATCCACTGCAACTTCAGGGATATAAGATTTG
130 AAAGATAAAGATTTGCTTTCGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATTTG
18206309 ATGTCGT
195 ATGTCGT
* ** * * * *
18206316 AGCTTCATCTTACTCCATTATAACTTTAGGGAGATAAATATTTGCTTTTGTAGCTTCAATCTGAC
1 AGCTTCATCTTGCTCCATTGCAACTTCAAGGAGAT-AAGATTTGCTTCTGTAGCTTCAATCTGAC
* * * *
18206381 CCACTGCAACTTTAAGGGTATAGGATTT-GTTTTGTAGCTTCATTTTGCTCTACTACAGCTTGAA
65 CCACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTT-AA
** * * *
18206445 -AAAGATAAAGATTTGCTTTCGTAGCTTCAATATGACCCATTGCAACTTCAGGGGTATAGGATTT
129 GAAAGATAAAGATTTGCTTTCGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATTT
18206509 GA
194 GA
18206511 CTTTGTATTT
Statistics
Matches: 513, Mismatches: 76, Indels: 16
0.85 0.13 0.03
Matches are distributed among these distances:
199 1 0.00
200 155 0.30
201 257 0.50
202 34 0.07
203 65 0.13
204 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (201 bp):
AGCTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGCTTCTGTAGCTTCAATCTGACC
CACTGCAACTTTAAGGGTATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTAAGA
AAGATAAAGATTTGCTTTCGTAGCTTCAATCCGATCCACTGCAACTTCAGGGATATAGGATTTGA
TGTCGT
Found at i:18206526 original size:201 final size:201
Alignment explanation
Indices: 18205741--18206614 Score: 926
Period size: 201 Copynumber: 4.3 Consensus size: 201
18205731 GCAACTTCAA
* * * * *
18205741 GGAGATAAGT-TTTGCTTCTGCAGCTTCAATCTGACCCGCTGCAACTTTTTAGGGGTATAAGATT
1 GGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAAC--TTTAAGGGTATAAGATT
* * * * * * * *
18205805 TGGTGTGGTAGTTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGAATGGCTTTCGTAGATT
64 TGGTGTTGTAGCTTCATCTTGCTCTACTACAAC-TTAAAAAGATAAAGATTTGCTTTCGTAGCTT
* * *
18205870 CAAT-CGAATCCACTACAACCTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCACT
128 CAATCCG-ATCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTACTCCACT
* * *
18205934 GTATCTTCAA
192 GTAACTTTAG
* * * *
18205944 GGAGAT-AAGATTTGCTTCTGTGGCTTCAATCTGACCTACTGCAACTTTAAGGGTATAAGATTTG
1 GGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAACTTTAAGGGTATAAGATTTG
* * * * *
18206008 ATGTTGTAGCTTCATCTTGCTCTGCTGCAACTTAAGAGAGATAAATATTTGCTTTCGTAGCTTCA
66 GTGTTGTAGCTTCATCTTGCTCTACTACAACTTAA-AAAGATAAAGATTTGCTTTCGTAGCTTCA
* * * * *
18206073 ATCCGATCCACTGCAACTTCAAGGATATAGGATTTGATGTCATAGCTTCATCTTGCTCCATTGCA
130 ATCCGATCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTACTCCACTGTA
* *
18206138 TCTTTGG
195 ACTTTAG
* * * * * *
18206145 GGAGATAAGAT-TTT-CTTTTGTAGC-TCTAT-TCAACCCACTGTAACTTCAAGGATATAGGATT
1 GGAGATAA-ATATTTGCTTTTGTAGCTTCAATCT-GACCCACTGCAACTTTAAGGGTATAAGATT
* *
18206206 TGGTGTTGTAGCTTCATCTTGCTTTACTACAACTTCAGAAAA-ATAAAGATTTGCTTTCATAGCT
64 TGGTGTTGTAGCTTCATCTTGCTCTACTACAACTT-A-AAAAGATAAAGATTTGCTTTCGTAGCT
* * *
18206270 TTAATCCGATCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTTACTCCATT
127 TCAATCCGATCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTACTCCACT
*
18206335 ATAACTTTAG
192 GTAACTTTAG
*
18206345 GGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAACTTTAAGGGTATAGGATTT-
1 GGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAACTTTAAGGGTATAAGATTTG
* * *
18206409 GTTTTGTAGCTTCATTTTGCTCTACTACAGCTTGAAAAAGATAAAGATTTGCTTTCGTAGCTTCA
66 GTGTTGTAGCTTCATCTTGCTCTACTACAACTT-AAAAAGATAAAGATTTGCTTTCGTAGCTTCA
** * * * * ** *
18206474 ATATGACCCATTGCAACTTCAGGGGTATAGGATTTGACT-TTGTATTTTCATCTTACTCTACTGT
130 ATCCGATCCACTGCAACTTCAGGGATATAGGATTTGA-TGTCGTAGCTTCATCTTACTCCACTGT
* *
18206538 AAATTTTG
194 AACTTTAG
* * * * * * *
18206546 AGAGATAAAGATTTGCTTTCGTAGCTTCAATCCGATCC-CTGTAACTTCT-AGGATATAAGATTT
1 GGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAACTT-TAAGGGTATAAGATTT
*
18206609 GATGTT
65 GGTGTT
18206615 ATACTGATCT
Statistics
Matches: 568, Mismatches: 87, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
199 3 0.01
200 183 0.32
201 303 0.53
202 40 0.07
203 39 0.07
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (201 bp):
GGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAACTTTAAGGGTATAAGATTTG
GTGTTGTAGCTTCATCTTGCTCTACTACAACTTAAAAAGATAAAGATTTGCTTTCGTAGCTTCAA
TCCGATCCACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTACTCCACTGTAA
CTTTAG
Found at i:18206553 original size:401 final size:402
Alignment explanation
Indices: 18205796--18206614 Score: 1011
Period size: 401 Copynumber: 2.0 Consensus size: 402
18205786 TTTTTAGGGG
* * * * * *
18205796 TATAAGATTTGGTGTGGTAGTTTCATCTTGCTCTACTGCAACTTTAGAGAGATAAAGAATGGCTT
1 TATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTCAGAAAAATAAAGAATGGCTT
* *
18205861 TCGTAGATTCAATCGAATCCACTACAACCTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTT
66 TCATAGATTCAATCGAATCCACTACAACCTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTT
* * * * *
18205926 GCTCCACTGTATCTTCAAGGAGATAAGATTTGCTTCTGTGGCTTCAATCTGACCTACTGCAACTT
131 ACTCCACTATAACTTCAAGGAGATAAGATTTGCTTCTGTAGCTTCAATCTGACCCACTGCAACTT
* * * *
18205991 TAAGGGTATAAGATTTGATGTTGTAGCTTCATCTTGCTCTGCTGCAACTTAAGAGAGATAAATAT
196 TAAGGGTATAAGATTTGATGTTGTAGCTTCATCTTGCTCTACTACAACTTAAGAAAGATAAAGAT
* *
18206056 TTGCTTTCGTAGCTTCAATCCGATCCACTGCAACTTCAAGGATATAGGATTTGATGTCATAGCTT
261 TTGCTTTCGTAGCTTCAATACGACCCACTGCAACTTCAAGGATATAGGATTTGATGTCATAGCTT
* * ** * * * * *
18206121 CATCTTGCTCCATTGCATCTTTGGGGAGAT-AAGATTTTCTTTTGTAGC-TCTATTCAACCCACT
326 CATCTTACTCCACTGCAAATTTGGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCCAACCC-CT
18206184 GTAACTTCAAGGA
390 GTAACTTCAAGGA
* * * *
18206197 TATAGGATTTGGTGTTGTAGCTTCATCTTGCTTTACTACAACTTCAGAAAAATAAAGATTTGCTT
1 TATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTCAGAAAAATAAAGAATGGCTT
* * * *
18206262 TCATAGCTTTAATCCG-ATCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAGCTTCATCT
66 TCATAGATTCAAT-CGAATCCACTACAACCTCAGGGATATAAGATTTGATGTCGTAGCTTCATCT
* * * * *
18206326 TACTCCATTATAACTTTAGGGAGATAAATATTTGCTTTTGTAGCTTCAATCTGACCCACTGCAAC
130 TACTCCACTATAACTTCAAGGAGAT-AAGATTTGCTTCTGTAGCTTCAATCTGACCCACTGCAAC
* * * *
18206391 TTTAAGGGTATAGGATTTG-TTTTGTAGCTTCATTTTGCTCTACTACAGCTTGAA-AAAGATAAA
194 TTTAAGGGTATAAGATTTGATGTTGTAGCTTCATCTTGCTCTACTACAACTT-AAGAAAGATAAA
* * * * **
18206454 GATTTGCTTTCGTAGCTTCAATATGACCCATTGCAACTTCAGGGGTATAGGATTTGACT-TTGTA
258 GATTTGCTTTCGTAGCTTCAATACGACCCACTGCAACTTCAAGGATATAGGATTTGA-TGTCATA
** * * * * *
18206518 TTTTCATCTTACTCTACTGTAAATTTTGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCCGATC
322 GCTTCATCTTACTCCACTGCAAATTTGGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCCAACC
*
18206583 CCTGTAACTTCTAGGA
387 CCTGTAACTTCAAGGA
*
18206599 TATAAGATTTGATGTT
1 TATAAGATTTGGTGTT
18206615 ATACTGATCT
Statistics
Matches: 351, Mismatches: 61, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
401 241 0.69
402 102 0.29
403 8 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (402 bp):
TATAAGATTTGGTGTTGTAGCTTCATCTTGCTCTACTACAACTTCAGAAAAATAAAGAATGGCTT
TCATAGATTCAATCGAATCCACTACAACCTCAGGGATATAAGATTTGATGTCGTAGCTTCATCTT
ACTCCACTATAACTTCAAGGAGATAAGATTTGCTTCTGTAGCTTCAATCTGACCCACTGCAACTT
TAAGGGTATAAGATTTGATGTTGTAGCTTCATCTTGCTCTACTACAACTTAAGAAAGATAAAGAT
TTGCTTTCGTAGCTTCAATACGACCCACTGCAACTTCAAGGATATAGGATTTGATGTCATAGCTT
CATCTTACTCCACTGCAAATTTGGAGAGATAAAGATTTGCTTTCGTAGCTTCAATCCAACCCCTG
TAACTTCAAGGA
Found at i:18208488 original size:44 final size:44
Alignment explanation
Indices: 18208415--18208585 Score: 209
Period size: 44 Copynumber: 3.9 Consensus size: 44
18208405 GACTTGGTGG
* * *
18208415 TTATTAAATGGAAAACTTATGTCTTGGGTAGAGCATAAGATTGT
1 TTATGAAATGGAAGACTTATGTCTCGGGTAGAGCATAAGATTGT
*
18208459 TTATGAAATGGAAGACTTATGTCTCGGGTAAAGCATAAGATTGT
1 TTATGAAATGGAAGACTTATGTCTCGGGTAGAGCATAAGATTGT
*** ***
18208503 TTATGAAATGGAAGACTTATGTCTCAACTAGAGCATAAGATAAA
1 TTATGAAATGGAAGACTTATGTCTCGGGTAGAGCATAAGATTGT
* * *
18208547 TTGT-AAATGGAAGAACTTATGACTCGGTTAGAGCATAAG
1 TTATGAAATGGAAG-ACTTATGTCTCGGGTAGAGCATAAG
18208586 GTTAAACGCG
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 9 0.08
44 101 0.92
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (44 bp):
TTATGAAATGGAAGACTTATGTCTCGGGTAGAGCATAAGATTGT
Found at i:18209080 original size:13 final size:14
Alignment explanation
Indices: 18209062--18209092 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18209052 TGTCACTGCA
18209062 GTCAGA-GTTAAAT
1 GTCAGAGGTTAAAT
18209075 GTCAGAGGTTAAAT
1 GTCAGAGGTTAAAT
18209089 GTCA
1 GTCA
18209093 ATGTACTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (14 bp):
GTCAGAGGTTAAAT
Found at i:18228277 original size:2 final size:2
Alignment explanation
Indices: 18228270--18228305 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18228260 TTACTAACTA
18228270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18228306 AAAGAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18235552 original size:2 final size:2
Alignment explanation
Indices: 18235545--18235586 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
18235535 TTACTAACTA
18235545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18235586 A
1 A
18235587 AAAGAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18236513 original size:37 final size:38
Alignment explanation
Indices: 18236418--18236522 Score: 95
Period size: 37 Copynumber: 2.7 Consensus size: 38
18236408 TTCGACCTTC
** *
18236418 AGTCGATGAGACACTGGGTTCATTATTTTACTTCGGATAG
1 AGTCGATGAGACACTGGG-T-ACCACTTTACTTCGGATAG
* ** *
18236458 ATTCGATGAGGTACTGGGTACCACTTTACTTCGGCTAG
1 AGTCGATGAGACACTGGGTACCACTTTACTTCGGATAG
* **
18236496 -GTCGATGAGACATTGGGTGTCACTTTA
1 AGTCGATGAGACACTGGGTACCACTTTA
18236523 ATTCTTCGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
37 21 0.40
38 15 0.29
39 1 0.02
40 15 0.29
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (38 bp):
AGTCGATGAGACACTGGGTACCACTTTACTTCGGATAG
Found at i:18241584 original size:44 final size:43
Alignment explanation
Indices: 18241526--18241640 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 43
18241516 AGGCTTGGTG
* *
18241526 ATTATTAAATGGAAGACTTTTGTCTCGGGTACAGCACAAGATTA
1 ATTA-TAAATGGAAGACTTATGTCTCGGGTACAGCACAAGATAA
* * * *
18241570 TTTATGAAATGGAAGACTTATGTCTCGGTTAGAGCATAAGATAA
1 ATTAT-AAATGGAAGACTTATGTCTCGGGTACAGCACAAGATAA
* *
18241614 ATTGTAAATGGAAGAACTTATGACTCG
1 ATTATAAATGGAAG-ACTTATGTCTCG
18241641 ATAAGAGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 10 0.17
44 50 0.83
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (43 bp):
ATTATAAATGGAAGACTTATGTCTCGGGTACAGCACAAGATAA
Found at i:18242809 original size:7 final size:7
Alignment explanation
Indices: 18242797--18242872 Score: 77
Period size: 7 Copynumber: 11.1 Consensus size: 7
18242787 TCTCGACCTC
18242797 TCTTTTT
1 TCTTTTT
18242804 TCTTTTT
1 TCTTTTT
18242811 TC-TTTT
1 TCTTTTT
* *
18242817 CCTTTTC
1 TCTTTTT
18242824 TCTTTTT
1 TCTTTTT
*
18242831 AT-TTTCT
1 -TCTTTTT
*
18242838 TCTTTTC
1 TCTTTTT
18242845 TC-TTTT
1 TCTTTTT
18242851 TCTTTTT
1 TCTTTTT
*
18242858 TCTTATT
1 TCTTTTT
18242865 TCTTTTT
1 TCTTTTT
18242872 T
1 T
18242873 TGTGTGAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
6 11 0.20
7 43 0.78
8 1 0.02
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:18242825 original size:27 final size:28
Alignment explanation
Indices: 18242795--18242870 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
18242785 CATCTCGACC
18242795 TCTCTTTTTTCTTTTTTCTTTTC-CTTT
1 TCTCTTTTTTCTTTTTTCTTTTCTCTTT
*
18242822 TCTCTTTTTAT-TTTCTTCTTTTCTCTTT
1 TCTCTTTTT-TCTTTTTTCTTTTCTCTTT
*
18242850 T-TCTTTTTTCTTATTTCTTTT
1 TCTCTTTTTTCTTTTTTCTTTT
18242871 TTTGTGTGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
26 1 0.02
27 36 0.84
28 6 0.14
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (28 bp):
TCTCTTTTTTCTTTTTTCTTTTCTCTTT
Found at i:18249167 original size:18 final size:18
Alignment explanation
Indices: 18249146--18249184 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18249136 TATCTTCAAT
*
18249146 TTCCACAGGATCTTCTTC
1 TTCCACAGGATCCTCTTC
**
18249164 TTCCTTAGGATCCTCTTC
1 TTCCACAGGATCCTCTTC
18249182 TTC
1 TTC
18249185 TTCTTCTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.33, G:0.10, T:0.44
Consensus pattern (18 bp):
TTCCACAGGATCCTCTTC
Found at i:18250093 original size:26 final size:27
Alignment explanation
Indices: 18250063--18250120 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
18250053 CTAAAATTTA
* *
18250063 ATTAACAATTTAAA-ATAAATTA-AAG
1 ATTAACAAATTAAATAAAAATTAGAAG
*
18250088 AGTTAATAAATTAAATAAAAATTAGAAG
1 A-TTAACAAATTAAATAAAAATTAGAAG
18250116 ATTAA
1 ATTAA
18250121 TTTTTACCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 11 0.41
27 11 0.41
28 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (27 bp):
ATTAACAAATTAAATAAAAATTAGAAG
Found at i:18251102 original size:17 final size:18
Alignment explanation
Indices: 18251080--18251113 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18251070 CTATAACAAC
*
18251080 ATAAACATG-AATTAAAT
1 ATAAACAAGCAATTAAAT
18251097 ATAAACAAGCAATTAAA
1 ATAAACAAGCAATTAAA
18251114 CACAATCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.24
Consensus pattern (18 bp):
ATAAACAAGCAATTAAAT
Found at i:18251421 original size:12 final size:13
Alignment explanation
Indices: 18251398--18251426 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18251388 AAATGGAATG
18251398 GAAAAGCTAGAGA
1 GAAAAGCTAGAGA
18251411 GAAAA-CTAGAGA
1 GAAAAGCTAGAGA
18251423 GAAA
1 GAAA
18251427 GAAGAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.59, C:0.07, G:0.28, T:0.07
Consensus pattern (13 bp):
GAAAAGCTAGAGA
Found at i:18256279 original size:25 final size:26
Alignment explanation
Indices: 18256251--18256302 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
18256241 ATAACAAAAC
*
18256251 AAATAAAATAGTCA-TATAA-AAAATA
1 AAATAAAATA-ACATTATAATAAAATA
*
18256276 AAATTAAATAACATTATAATAAAATA
1 AAATAAAATAACATTATAATAAAATA
18256302 A
1 A
18256303 CAATGCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (26 bp):
AAATAAAATAACATTATAATAAAATA
Found at i:18256607 original size:27 final size:29
Alignment explanation
Indices: 18256572--18256643 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 29
18256562 AAAAGTAAAT
* *
18256572 AAATAATAAAATGAATGTAAAAATA-ATA
1 AAATAATAAAATAAATATAAAAATATATA
18256600 AAAT-ATAAAATAAATATAAAAATATATA
1 AAATAATAAAATAAATATAAAAATATATA
18256628 AACATAA-ATAAATAAA
1 AA-ATAATA-AAATAAA
18256644 AAAAGGTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 18 0.47
28 9 0.24
29 3 0.08
30 8 0.21
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (29 bp):
AAATAATAAAATAAATATAAAAATATATA
Found at i:18257803 original size:19 final size:21
Alignment explanation
Indices: 18257768--18257806 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
18257758 ATTACATTTC
18257768 TTTTCTGTATATTTTCTTTTG
1 TTTTCTGTATATTTTCTTTTG
18257789 TTTTCTGT-T-TTTTCTTTT
1 TTTTCTGTATATTTTCTTTT
18257807 CTATTTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (21 bp):
TTTTCTGTATATTTTCTTTTG
Found at i:18258096 original size:14 final size:15
Alignment explanation
Indices: 18258061--18258099 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
18258051 GTTTGGGCTA
*
18258061 GGATAGTTGGGTCTT
1 GGATAATTGGGTCTT
*
18258076 GGGTAATTGGGT-TT
1 GGATAATTGGGTCTT
18258090 GGATAATTGG
1 GGATAATTGG
18258100 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.18, C:0.03, G:0.41, T:0.38
Consensus pattern (15 bp):
GGATAATTGGGTCTT
Found at i:18263425 original size:21 final size:22
Alignment explanation
Indices: 18263401--18263444 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18263391 TTGGTCCAAG
18263401 TAAGGTTG-AAAATACAATTCA
1 TAAGGTTGAAAAATACAATTCA
*
18263422 TAAGGTTGAAAAATACGATTCA
1 TAAGGTTGAAAAATACAATTCA
18263444 T
1 T
18263445 TAAATCCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (22 bp):
TAAGGTTGAAAAATACAATTCA
Found at i:18264097 original size:213 final size:213
Alignment explanation
Indices: 18263728--18264148 Score: 671
Period size: 213 Copynumber: 2.0 Consensus size: 213
18263718 CTTTTTAACG
* * * * * *
18263728 AATAACACTGGGGCTCCCCATGGTGATATACTAGGATGGATAAAATCACGGTCTAACAAATCTTG
1 AATAACACCGGGGCTCCCCATGGTAATATACTAGGACGGATAAAACCACGGTCCAACAAATCTTA
* *
18263793 CAACTAAACTTTCGGTTCCTTTAACTCCGTCGAAGCCATACGATAAGGAGATATGGACACCAGGG
66 CAACTAAACTTTCAGTTCCTTTAACTCCGTCGAAGCCATACGATAAGGAGATATAGACACCAGGG
* *
18263858 CAAAACTAGATAACACCTCCATTGCAAACTCCACTTCCCGATCTAGAGGTAATCCAGGTAACTCC
131 CAAAACTAGATAACACCTCAATTGCAAACTCCAATTCCCGATCTAGAGGTAATCCAGGTAACTCC
*
18263923 TTGAGAAACACGTCAAGA
196 TCGAGAAACACGTCAAGA
* **
18263941 AATAACACCGGGGCTCTCCATGGTAATATACTATTACGGATAAAACCACGGTCCAACAAATCTTA
1 AATAACACCGGGGCTCCCCATGGTAATATACTAGGACGGATAAAACCACGGTCCAACAAATCTTA
* *
18264006 CAACTGAACTTTCAGTTCCTTTAACTCCGTCGGAGCCATACGATAAGGAGATATAGACACCAGGG
66 CAACTAAACTTTCAGTTCCTTTAACTCCGTCGAAGCCATACGATAAGGAGATATAGACACCAGGG
* *
18264071 CAAAACTAGATAACACCTCAATTGCAAACTTCAATTCCCGATCTAGAGGTAATCCCGGTAACTCC
131 CAAAACTAGATAACACCTCAATTGCAAACTCCAATTCCCGATCTAGAGGTAATCCAGGTAACTCC
*
18264136 TCGGGAAACACGT
196 TCGAGAAACACGT
18264149 TAGAAAATTC
Statistics
Matches: 189, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
213 189 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (213 bp):
AATAACACCGGGGCTCCCCATGGTAATATACTAGGACGGATAAAACCACGGTCCAACAAATCTTA
CAACTAAACTTTCAGTTCCTTTAACTCCGTCGAAGCCATACGATAAGGAGATATAGACACCAGGG
CAAAACTAGATAACACCTCAATTGCAAACTCCAATTCCCGATCTAGAGGTAATCCAGGTAACTCC
TCGAGAAACACGTCAAGA
Found at i:18275327 original size:27 final size:29
Alignment explanation
Indices: 18275296--18275353 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 29
18275286 AGACATTTTC
*
18275296 TCTTTTCTTAA-TTTAGG-TTTAGTTATT
1 TCTTTTCTTAAGTTTAGGCTTTAGTCATT
18275323 TCTTTTCTTAAGTTTTAGGCTTTAGTCATT
1 TCTTTTCTTAAG-TTTAGGCTTTAGTCATT
18275353 T
1 T
18275354 TGTTCTTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 11 0.41
29 6 0.22
30 10 0.37
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.60
Consensus pattern (29 bp):
TCTTTTCTTAAGTTTAGGCTTTAGTCATT
Found at i:18275359 original size:29 final size:27
Alignment explanation
Indices: 18275300--18275360 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
18275290 ATTTTCTCTT
* *
18275300 TTCTTAATTTAGGTTTAGTTATTTCTT
1 TTCTTAATTTAGGTTTAGTCATTTCTG
18275327 TTCTTAAGTTTTAGGCTTTAGTCATTT-TG
1 TTCTTAA--TTTAGG-TTTAGTCATTTCTG
18275356 TTCTT
1 TTCTT
18275361 CCATTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.24
29 12 0.41
30 10 0.34
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (27 bp):
TTCTTAATTTAGGTTTAGTCATTTCTG
Found at i:18283073 original size:19 final size:19
Alignment explanation
Indices: 18283036--18283073 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18283026 ATACAATGAT
*
18283036 GTTGATAAATATAATAATA
1 GTTGATAAATATAAAAATA
18283055 GTTGAATAAATA-AAAAATA
1 GTTG-ATAAATATAAAAATA
18283074 ACCTCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
GTTGATAAATATAAAAATA
Found at i:18285522 original size:29 final size:29
Alignment explanation
Indices: 18285480--18285536 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
18285470 TCATTCTCAC
* *
18285480 AAATTGATTGTTTTATTTCGTATTATATA
1 AAATTGATTGTTTTAATTAGTATTATATA
* *
18285509 AAATTTATTTTTTTAATTAGTATTATAT
1 AAATTGATTGTTTTAATTAGTATTATAT
18285537 CTAACTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (29 bp):
AAATTGATTGTTTTAATTAGTATTATATA
Found at i:18285689 original size:9 final size:9
Alignment explanation
Indices: 18285660--18285793 Score: 96
Period size: 9 Copynumber: 14.3 Consensus size: 9
18285650 TTACTATTTG
18285660 TGTATG-TA
1 TGTATGTTA
*
18285668 TGTATAATTA
1 TGTAT-GTTA
18285678 TGTATGTTA
1 TGTATGTTA
18285687 TGTACTGTTA
1 TGTA-TGTTA
*
18285697 CGTATGTTA
1 TGTATGTTA
*
18285706 TGTATATTA
1 TGTATGTTA
*
18285715 TGTATGTTC
1 TGTATGTTA
18285724 TGTTTACTGTTA
1 TG--TA-TGTTA
* *
18285736 CGTTTGTATA
1 TGTATGT-TA
18285746 T-T-TG-TA
1 TGTATGTTA
18285752 TGTATGTTA
1 TGTATGTTA
18285761 TGTTTATTGTTA
1 TG--TA-TGTTA
*
18285773 TGTATATTA
1 TGTATGTTA
18285782 TGTATGTTA
1 TGTATGTTA
18285791 TGT
1 TGT
18285794 TTACTGTTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 25
0.72 0.09 0.18
Matches are distributed among these distances:
6 3 0.03
7 1 0.01
8 9 0.09
9 51 0.51
10 20 0.20
11 4 0.04
12 12 0.12
ACGTcount: A:0.22, C:0.04, G:0.19, T:0.55
Consensus pattern (9 bp):
TGTATGTTA
Found at i:18285702 original size:37 final size:37
Alignment explanation
Indices: 18285661--18285812 Score: 146
Period size: 37 Copynumber: 4.2 Consensus size: 37
18285651 TACTATTTGT
18285661 GTATGTATGTATAATTATGTATGTTATG-TACTGTTAC
1 GTATGTATGTAT-ATTATGTATGTTATGTTACTGTTAC
*
18285698 GTATGTTATGTATATTATGTATGTTCTGTTTACTGTTAC
1 GTATG-TATGTATATTATGTATGTTATG-TTACTGTTAC
18285737 G--T-T-TGTATATT-TGTATG-TATGTTA-TGTT--
1 GTATGTATGTATATTATGTATGTTATGTTACTGTTAC
*
18285765 -TATTGTTATGTATATTATGTATGTTATGTTTACTGTTAT
1 GTA-TG-TATGTATATTATGTATGTTATG-TTACTGTTAC
*
18285804 GTTTGTATG
1 GTATGTATG
18285813 ACTATTTATT
Statistics
Matches: 96, Mismatches: 3, Indels: 31
0.74 0.02 0.24
Matches are distributed among these distances:
30 5 0.05
31 3 0.03
32 4 0.04
33 14 0.15
34 14 0.15
35 5 0.05
36 3 0.03
37 24 0.25
38 11 0.11
39 12 0.12
40 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.19, T:0.55
Consensus pattern (37 bp):
GTATGTATGTATATTATGTATGTTATGTTACTGTTAC
Found at i:18285771 original size:12 final size:11
Alignment explanation
Indices: 18285754--18285807 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
18285744 TATTTGTATG
18285754 TATGTTATGTT
1 TATGTTATGTT
18285765 TATTGTTATG--
1 TA-TGTTATGTT
*
18285775 TATATTATG--
1 TATGTTATGTT
18285784 TATGTTATGTT
1 TATGTTATGTT
18285795 TACTGTTATGTT
1 TA-TGTTATGTT
18285807 T
1 T
18285808 GTATGACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
9 14 0.38
10 2 0.05
11 4 0.11
12 17 0.46
ACGTcount: A:0.20, C:0.02, G:0.17, T:0.61
Consensus pattern (11 bp):
TATGTTATGTT
Found at i:18285803 original size:21 final size:20
Alignment explanation
Indices: 18285675--18285807 Score: 79
Period size: 21 Copynumber: 6.8 Consensus size: 20
18285665 GTATGTATAA
18285675 TTATGTATGTTATG--TACTG
1 TTATGTATGTTATGTTTA-TG
* *
18285694 TTACGTATGTTATG--TATA
1 TTATGTATGTTATGTTTATG
*
18285712 TTATGTATGTTCTGTTTACTG
1 TTATGTATGTTATGTTTA-TG
* * *
18285733 TTACGTTTG-TAT-ATT-TG
1 TTATGTATGTTATGTTTATG
18285750 -TATGTATGTTATGTTTATTG
1 TTATGTATGTTATGTTTA-TG
*
18285770 TTATGTATATTATG--TATG
1 TTATGTATGTTATGTTTATG
18285788 TTATGTTTACTGTTATGTTT
1 TTATG--TA-TGTTATGTTT
18285808 GTATGACTAT
Statistics
Matches: 87, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
16 6 0.07
17 5 0.06
18 22 0.25
19 19 0.22
20 8 0.09
21 26 0.30
23 1 0.01
ACGTcount: A:0.20, C:0.05, G:0.18, T:0.57
Consensus pattern (20 bp):
TTATGTATGTTATGTTTATG
Found at i:18291112 original size:21 final size:21
Alignment explanation
Indices: 18291085--18291133 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
18291075 GTTTTTCCTT
18291085 CTTCTTCCCTTTTTCCTTGTC
1 CTTCTTCCCTTTTTCCTTGTC
* *
18291106 TTTCTTCCCTTTTTCTTTGTC
1 CTTCTTCCCTTTTTCCTTGTC
18291127 CTTCTTC
1 CTTCTTC
18291134 TTGGTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.35, G:0.04, T:0.61
Consensus pattern (21 bp):
CTTCTTCCCTTTTTCCTTGTC
Found at i:18299183 original size:22 final size:22
Alignment explanation
Indices: 18299157--18299198 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
18299147 TTAACATGCG
18299157 ATGGATGGT-TTTATTTAGATCA
1 ATGGATGGTGTTT-TTTAGATCA
18299179 ATGGATGGTGTTTTTTAGAT
1 ATGGATGGTGTTTTTTAGAT
18299199 AAGATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (22 bp):
ATGGATGGTGTTTTTTAGATCA
Found at i:18301571 original size:15 final size:15
Alignment explanation
Indices: 18301551--18301600 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
18301541 GTAATACGAA
18301551 AATTTAAATTTTATT
1 AATTTAAATTTTATT
*
18301566 AATTTAAATATTATT
1 AATTTAAATTTTATT
*
18301581 AAATTT-ATTTTTATT
1 -AATTTAAATTTTATT
18301596 AATTT
1 AATTT
18301601 TAATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.16
15 21 0.68
16 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTAAATTTTATT
Found at i:18301595 original size:30 final size:32
Alignment explanation
Indices: 18301550--18301611 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
18301540 GGTAATACGA
18301550 AAATTTAAATTTTATTAATTTAAATAT-TATT
1 AAATTTAAATTTTATTAATTTAAATATATATT
* *
18301581 AAATTT-ATTTTTATTAATTTTAATATATATT
1 AAATTTAAATTTTATTAATTTAAATATATATT
18301612 TTTTGTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
AAATTTAAATTTTATTAATTTAAATATATATT
Found at i:18305316 original size:33 final size:33
Alignment explanation
Indices: 18305279--18305348 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
18305269 AATACTTTTT
18305279 AAAAGTACTTTTAAGTCAAAAAGTATTTTTGAG
1 AAAAGTACTTTTAAGTCAAAAAGTATTTTTGAG
18305312 AAAAGTACTTTTAAGTCAAAAAGTATTTTTGAG
1 AAAAGTACTTTTAAGTCAAAAAGTATTTTTGAG
18305345 AAAA
1 AAAA
18305349 AATTAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (33 bp):
AAAAGTACTTTTAAGTCAAAAAGTATTTTTGAG
Found at i:18305341 original size:18 final size:18
Alignment explanation
Indices: 18305279--18305340 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
18305269 AATACTTTTT
18305279 AAAAGTACTTTTAAGTCA
1 AAAAGTACTTTTAAGTCA
* *
18305297 AAAAGTATTTTTGAG---
1 AAAAGTACTTTTAAGTCA
18305312 AAAAGTACTTTTAAGTCA
1 AAAAGTACTTTTAAGTCA
18305330 AAAAGTA-TTTT
1 AAAAGTACTTTT
18305341 TGAGAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.35
17 4 0.11
18 20 0.54
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (18 bp):
AAAAGTACTTTTAAGTCA
Found at i:18305350 original size:18 final size:16
Alignment explanation
Indices: 18305296--18305349 Score: 65
Period size: 15 Copynumber: 3.3 Consensus size: 16
18305286 CTTTTAAGTC
18305296 AAAAAGTATTTTTGAG
1 AAAAAGTATTTTTGAG
* *
18305312 -AAAAGTACTTTTAAG
1 AAAAAGTATTTTTGAG
18305327 TCAAAAAGTATTTTTGAG
1 --AAAAAGTATTTTTGAG
18305345 AAAAA
1 AAAAA
18305350 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 13 0.42
16 5 0.16
18 13 0.42
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (16 bp):
AAAAAGTATTTTTGAG
Found at i:18306498 original size:41 final size:41
Alignment explanation
Indices: 18306437--18306722 Score: 308
Period size: 41 Copynumber: 7.0 Consensus size: 41
18306427 TTTACATAAA
* * * **
18306437 CGCCGCAAAAAGT-AGAGCAATAGCGACGCTTATAAAAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAG
* * * **
18306477 CGTCGCTTAAGGTCAGAGCAATAGCGGCGTTTATGGGCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAG
* * * *
18306518 TGTCGCGAAATGTCAGAGCAATAGCGGCGCTTATGGGAAAA-
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-GGAAAAG
* *
18306559 CGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGGGAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAG
*
18306600 TGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATAGG-AAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-GGAAAAG
* * * * *
18306641 CACCGTTAAAGGTAAGACCAATAGCAGCGCTTATGGAAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAG
* * *
18306682 CGCCGCTAAAGGTCAAAGCAATAGCGGCGCTTTTGAAAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAG
18306723 AGCTGAGTTT
Statistics
Matches: 202, Mismatches: 39, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
40 16 0.08
41 180 0.89
42 6 0.03
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (41 bp):
CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAG
Found at i:18311937 original size:42 final size:42
Alignment explanation
Indices: 18311856--18312080 Score: 270
Period size: 43 Copynumber: 5.3 Consensus size: 42
18311846 TTTATTAATG
* * *
18311856 TTAGTGGCATTTGTATGAACAGCGCCGCTAAAAACCATGTTCT
1 TTAGCGGCGTTTGTATGAA-AGCGCCGCTAAAGACCATGTTCT
* *
18311899 TTAGCAGCGTTTGTATGAAAGCGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTATGAAAGCGCCGCTAAAGACCATGTTCT
* * *
18311941 TTAGCGGAGTTTGTATGAAAAGCGCCGTTAAAGACCATGTTAT
1 TTAGCGGCGTTTGTATG-AAAGCGCCGCTAAAGACCATGTTCT
* ** *
18311984 TTAGTGGCGTTTGTGGGGAAAGTGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGT-ATGAAAGCGCCGCTAAAGACCATGTTCT
* * *
18312027 TTAGCGGTGTTTATGTGAAAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTATG-AAAGCGCCGCTAAAGACCATGTTCT
*
18312070 ATAGCGGCGTT
1 TTAGCGGCGTT
18312081 ATCTTTAGCG
Statistics
Matches: 155, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 38 0.25
43 116 0.75
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTGTATGAAAGCGCCGCTAAAGACCATGTTCT
Found at i:18315428 original size:26 final size:25
Alignment explanation
Indices: 18315391--18315447 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
18315381 ATTTGAAATA
*
18315391 TTAAAATATTTTAAATTTATATTTTT
1 TTAAAATATTTTAAATTT-TAATTTT
18315417 TTAATAAT-TTTTAAATTTTAATTTT
1 TTAA-AATATTTTAAATTTTAATTTT
*
18315442 TAAAAA
1 TTAAAA
18315448 AAATTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 9 0.32
26 14 0.50
27 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAAAATATTTTAAATTTTAATTTT
Found at i:18320104 original size:58 final size:58
Alignment explanation
Indices: 18319997--18320149 Score: 234
Period size: 58 Copynumber: 2.6 Consensus size: 58
18319987 AAATTGGATC
*
18319997 TTGAATGAATTGAGTAGACAAAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATT
1 TTGAAAGAATTGAGTAGAC-AAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATT
* * * *
18320056 TTTAAAGAATTGAGTAGACAAAGTCAGATTGTATCAATTGTAATTAAGTTGTTCCATT
1 TTGAAAGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATT
* *
18320114 TTGAATGAATTGAGTAGACAAAGTGAGATTTTATCA
1 TTGAAAGAATTGAGTAGACAAAGTCAGATTTTATCA
18320150 GAACATAGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
58 68 0.80
59 17 0.20
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.36
Consensus pattern (58 bp):
TTGAAAGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATT
Found at i:18321485 original size:31 final size:31
Alignment explanation
Indices: 18321450--18321508 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
18321440 TACAATTTTC
* * *
18321450 ATTAAATTGTTCAAAAAATTTTATTTAAGTT
1 ATTAAACTATTCAAAAAAATTTATTTAAGTT
18321481 ATTAAACTATTCAAAAAAATTTATTTAA
1 ATTAAACTATTCAAAAAAATTTATTTAA
18321509 AGTAATTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTAAACTATTCAAAAAAATTTATTTAAGTT
Found at i:18325038 original size:28 final size:28
Alignment explanation
Indices: 18325001--18325105 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 28
18324991 GGAACTTGGC
*
18325001 ATATGCGAGCCT-TTGTGGCTATTATTTG
1 ATATGTGAGCCTCTT-TGGCTATTATTTG
**
18325029 ATATGTGAGCC-CTTTTGGC-AGGAACTTGTG
1 ATATGTGAGCCTC-TTTGGCTA-TTA-TT-TG
* * *
18325059 ATATTTGAGCCTCTTTGGCTGTTCTTTG
1 ATATGTGAGCCTCTTTGGCTATTATTTG
18325087 ATATGTGAG-CTCTTGTGGC
1 ATATGTGAGCCTCTT-TGGC
18325106 GAAACTCATT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
27 6 0.10
28 29 0.48
29 6 0.10
30 18 0.30
31 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (28 bp):
ATATGTGAGCCTCTTTGGCTATTATTTG
Found at i:18325053 original size:58 final size:58
Alignment explanation
Indices: 18324978--18325105 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
18324968 CTAATGTACA
*
18324978 AGCCCTTGTGGTAGGAACTTG-GCATATGCGAGCCT-TTGTGGCTATTATTTGATATGTG
1 AGCCCTTGTGGCAGGAACTTGTG-ATATGCGAGCCTCTT-TGGCTATTATTTGATATGTG
* ** * *
18325036 AGCCCTTTTGGCAGGAACTTGTGATATTTGAGCCTCTTTGGCTGTTCTTTGATATGTG
1 AGCCCTTGTGGCAGGAACTTGTGATATGCGAGCCTCTTTGGCTATTATTTGATATGTG
*
18325094 AGCTCTTGTGGC
1 AGCCCTTGTGGC
18325106 GAAACTCATT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 57 0.95
59 3 0.05
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.38
Consensus pattern (58 bp):
AGCCCTTGTGGCAGGAACTTGTGATATGCGAGCCTCTTTGGCTATTATTTGATATGTG
Found at i:18327418 original size:19 final size:19
Alignment explanation
Indices: 18327389--18327436 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
18327379 ATTTTTCAAT
18327389 TTTCAAAAATTTT-AAATAAA
1 TTTC-AAAATTTTGAAA-AAA
18327409 TTTCAAAATTTTGAAAAAA
1 TTTCAAAATTTTGAAAAAA
*
18327428 GTTCAAAAT
1 TTTCAAAAT
18327437 ATTCTATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTCAAAATTTTGAAAAAA
Found at i:18327817 original size:17 final size:17
Alignment explanation
Indices: 18327796--18327845 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
18327786 TTTTTTACAC
18327796 TTTTTTAATATTATGTTA
1 TTTTTTAATATTAT-TTA
18327814 -TTTTTACA-ATTATTTA
1 TTTTTTA-ATATTATTTA
18327830 TTATTTTAATA-TATTT
1 TT-TTTTAATATTATTT
18327846 TTAAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.11
17 18 0.64
18 7 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTTAATATTATTTA
Found at i:18335217 original size:32 final size:33
Alignment explanation
Indices: 18335166--18335228 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
18335156 TTGCTTGGTA
* *
18335166 AAGTGGAATGAAAATTAGAAAGATGGAAAATTG
1 AAGTGGAATGAAAAATAGAAAGATAGAAAATTG
* *
18335199 AAGTGGTA-GAAAAATAGAAGGATAGAAAAT
1 AAGTGGAATGAAAAATAGAAAGATAGAAAAT
18335229 ATAATTGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.19
Consensus pattern (33 bp):
AAGTGGAATGAAAAATAGAAAGATAGAAAATTG
Found at i:18341971 original size:20 final size:20
Alignment explanation
Indices: 18341946--18341997 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
18341936 AGTCTTCAAG
*
18341946 GTATCGGTAGAACTGAAGTT
1 GTATCGATAGAACTGAAGTT
*
18341966 GTATCGATAGAAGTGAAGTT
1 GTATCGATAGAACTGAAGTT
* *
18341986 CTACCGATAGAA
1 GTATCGATAGAA
18341998 GTCCCAGACC
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:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (20 bp):
GTATCGATAGAACTGAAGTT
Found at i:18342190 original size:278 final size:278
Alignment explanation
Indices: 18341683--18342291 Score: 909
Period size: 278 Copynumber: 2.2 Consensus size: 278
18341673 AGTAAAATGA
* * * *
18341683 AAGTTGTATCGGTAGAAGAGAAGTTCTACCGATAGAAGTCCCAGGCTAAAACTAGCTTGTTTCGA
1 AAGTTGTATCGATAGAAGTGAAGTTCTACCGATAGAAGTCCCAGGCCAAAACTAGCTTGTTCCGA
* *
18341748 TAGAAGTGTACTTGTATCAGTAGACGACATTACAAAATATTACCGTTAGAGTCGTTCTATTGGTA
66 TAGAAGTATACTTGTATCAGTAGACGACATTACAAAATATTACCGTTAGAGTCGTTCTATCGGTA
* * * *
18341813 GATGCTTCATTGTATCGGTAGAACTCTGAGGGTTTCATTTGGTATTGGTAAAACTCGTTAGAGTA
131 GATGCTTCATTGTATCGGTAGAACTCTGAGGGTTTCATTTGGTATCGGTAAAACCCATCAGAGTA
* ** * *
18341878 TCGGTATTAGTGTAAAGGATGCTAAATTTTGGCTACTGACTTGACTTGTTTCGATAGAAGTCTTC
196 TCAGTAGAAGTGTAAAGGATGCTAAATGTTGGCTACTGAATTGACTTGTTTCGATAGAAGTCTTC
18341943 AAGGTATCGGTAGAACTG
261 AAGGTATCGGTAGAACTG
*
18341961 AAGTTGTATCGATAGAAGTGAAGTTCTACCGATAGAAGTCCCAGACCAAAACTAGCTTGTTCCGA
1 AAGTTGTATCGATAGAAGTGAAGTTCTACCGATAGAAGTCCCAGGCCAAAACTAGCTTGTTCCGA
* * * *
18342026 TAGAAGTATACTTGTATC-GATAGATGGCTTTAGAAAATATTACCGTTAGAGTCGTTCTATCGGT
66 TAGAAGTATACTTGTATCAG-TAGACGACATTACAAAATATTACCGTTAGAGTCGTTCTATCGGT
* **
18342090 AGATGCTTCATTGTATCGGTAGAAGTCTGAGGGTTTCATTAT-GTATCGGTGGAACCCATCAGAG
130 AGATGCTTCATTGTATCGGTAGAACTCTGAGGGTTTCATT-TGGTATCGGTAAAACCCATCAGAG
* * *
18342154 TATCAGTAGAAGTGTAGAGGATGCTGAATGTTGGCTATTGAATTGACTTGTTTCGATAGAAGTCT
194 TATCAGTAGAAGTGTAAAGGATGCTAAATGTTGGCTACTGAATTGACTTGTTTCGATAGAAGTCT
18342219 TCAAGGTATCGGTAGAACTG
259 TCAAGGTATCGGTAGAACTG
* * * *
18342239 AAGTTGTATC-CTAAAAGTGAAGTTCTACTGATAGAAGTCCTAGGCCAAAACTA
1 AAGTTGTATCGATAGAAGTGAAGTTCTACCGATAGAAGTCCCAGGCCAAAACTA
18342292 AGTCTGTTTT
Statistics
Matches: 298, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
277 39 0.13
278 258 0.87
279 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (278 bp):
AAGTTGTATCGATAGAAGTGAAGTTCTACCGATAGAAGTCCCAGGCCAAAACTAGCTTGTTCCGA
TAGAAGTATACTTGTATCAGTAGACGACATTACAAAATATTACCGTTAGAGTCGTTCTATCGGTA
GATGCTTCATTGTATCGGTAGAACTCTGAGGGTTTCATTTGGTATCGGTAAAACCCATCAGAGTA
TCAGTAGAAGTGTAAAGGATGCTAAATGTTGGCTACTGAATTGACTTGTTTCGATAGAAGTCTTC
AAGGTATCGGTAGAACTG
Found at i:18366752 original size:18 final size:17
Alignment explanation
Indices: 18366726--18366769 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
18366716 ATGCATTTTA
* *
18366726 TTTAGTTGTCATTGAATT
1 TTTATTTGTCACTGAA-T
*
18366744 TTTATTTGTCACTGCAT
1 TTTATTTGTCACTGAAT
18366761 TTTATTTGT
1 TTTATTTGT
18366770 TAGTTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (17 bp):
TTTATTTGTCACTGAAT
Found at i:18371233 original size:46 final size:46
Alignment explanation
Indices: 18371167--18371256 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 46
18371157 ACTTAATTCC
* *
18371167 GTATTCACCAATCTGTAACAAATGCAAGAAATGAGAAACTAAATTT
1 GTATTCACCAATCTGCAACAAAGGCAAGAAATGAGAAACTAAATTT
* * * ** *
18371213 GTATTCACCAGTTTGCAACAAGGGCAAGAGCTGAGAACCTAAAT
1 GTATTCACCAATCTGCAACAAAGGCAAGAAATGAGAAACTAAAT
18371257 AGTAGCCACT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (46 bp):
GTATTCACCAATCTGCAACAAAGGCAAGAAATGAGAAACTAAATTT
Found at i:18386095 original size:12 final size:12
Alignment explanation
Indices: 18386080--18386115 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18386070 TTAAGACGAG
18386080 GAAGAGAAAGAA
1 GAAGAGAAAGAA
18386092 GAAGAGAAAGAA
1 GAAGAGAAAGAA
18386104 -AA-AG-AAGAA
1 GAAGAGAAAGAA
18386113 GAA
1 GAA
18386116 CCTGCCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 4 0.17
11 2 0.09
12 12 0.52
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
GAAGAGAAAGAA
Found at i:18386678 original size:118 final size:118
Alignment explanation
Indices: 18386470--18386702 Score: 394
Period size: 118 Copynumber: 2.0 Consensus size: 118
18386460 ATTTCTTAAG
* *
18386470 TAATGAATGAATAATATTGGTATTGAATCATGAACTAACTGACCAATGCAGCGACATTTTATTAA
1 TAATGAATGAATAATATTGATATTGAATCATGAACTAACTGACCAATGCAGCGAAATTTTATTAA
18386535 TAGAAGACACTCCATTATGAGTGCATTGTGACTTTTAAGGGAGAACACTCCAT
66 TAGAAGACACTCCATTATGAGTGCATTGTGACTTTTAAGGGAGAACACTCCAT
* * * * *
18386588 TAATGAATGAATAGTGTTGATATTGAATCATGAACTAATTGACCAATGCAGTGAAATTTTATTAG
1 TAATGAATGAATAATATTGATATTGAATCATGAACTAACTGACCAATGCAGCGAAATTTTATTAA
*
18386653 TAGAAGACACTTCATTATGAGTGCATTGTGACTTTTAAGGGAGAACACTC
66 TAGAAGACACTCCATTATGAGTGCATTGTGACTTTTAAGGGAGAACACTC
18386703 TGCTACAGAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 107 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (118 bp):
TAATGAATGAATAATATTGATATTGAATCATGAACTAACTGACCAATGCAGCGAAATTTTATTAA
TAGAAGACACTCCATTATGAGTGCATTGTGACTTTTAAGGGAGAACACTCCAT
Found at i:18391808 original size:14 final size:14
Alignment explanation
Indices: 18391771--18391808 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
18391761 ATTTTTACAT
*
18391771 TTTC-TTTTATTTG
1 TTTCATTTTAGTTG
18391784 TTTCAATTTTAGTTG
1 TTTC-ATTTTAGTTG
18391799 TTTCATTTTA
1 TTTCATTTTA
18391809 AAATTCTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 6 0.27
15 12 0.55
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (14 bp):
TTTCATTTTAGTTG
Found at i:18394789 original size:23 final size:24
Alignment explanation
Indices: 18394741--18394802 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
18394731 TCAGTCACTT
18394741 GAAAAAGGAAAATGAGAAAAAGAAA
1 GAAAAA-GAAAATGAGAAAAAGAAA
18394766 GAAAAAGAAAA-GAG-AAAAGAAAA
1 GAAAAAGAAAATGAGAAAAAG-AAA
*
18394789 GAAGAAAAAAAATG
1 GAA-AAAGAAAATG
18394803 TTTGCTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.15
23 9 0.27
24 12 0.36
25 7 0.21
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (24 bp):
GAAAAAGAAAATGAGAAAAAGAAA
Found at i:18394794 original size:30 final size:29
Alignment explanation
Indices: 18394743--18394800 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
18394733 AGTCACTTGA
18394743 AAAAGGAAAATGAGAAAAAGAAAGAAAAAG
1 AAAAGGAAAATGAGAAAAAGAAA-AAAAAG
18394773 AAAAGAGAAAA-GA-AAAGAAGAAAAAAAA
1 AAAAG-GAAAATGAGAAA-AAGAAAAAAAA
18394801 TGTTTGCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (29 bp):
AAAAGGAAAATGAGAAAAAGAAAAAAAAG
Found at i:18402568 original size:22 final size:23
Alignment explanation
Indices: 18402543--18402655 Score: 104
Period size: 23 Copynumber: 4.9 Consensus size: 23
18402533 TACAGAACAA
* *
18402543 AAACGGAGAGTAC-CAAAGTACT
1 AAACGGAGAGCACACAAAGTTCT
* *
18402565 AAACGAAGAGCACA-AAAGTGCT
1 AAACGGAGAGCACACAAAGTTCT
*
18402587 AGGTAACGGAGAGCACACAAAGTTTT
1 A---AACGGAGAGCACACAAAGTTCT
* *
18402613 AAATGGAGAGTACACAAAGTTCT
1 AAACGGAGAGCACACAAAGTTCT
* *
18402636 AATCGGAGAGCACACGAAGT
1 AAACGGAGAGCACACAAAGT
18402656 GCAAATAACG
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
22 19 0.26
23 35 0.48
25 12 0.16
26 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (23 bp):
AAACGGAGAGCACACAAAGTTCT
Found at i:18405192 original size:16 final size:17
Alignment explanation
Indices: 18405156--18405207 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
18405146 TTATGATGTA
*
18405156 CATATATATATATAT-T
1 CATATATATAAATATAT
18405172 CATATATATAAATATAT
1 CATATATATAAATATAT
*
18405189 -ATATTATCACAAATATAT
1 CATA-TAT-ATAAATATAT
18405207 C
1 C
18405208 TCTATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 17 0.57
17 4 0.13
18 9 0.30
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (17 bp):
CATATATATAAATATAT
Found at i:18408770 original size:24 final size:25
Alignment explanation
Indices: 18408743--18408795 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
18408733 TTCACTTACC
18408743 TCACTATCATAA-TTGCACATTCTT
1 TCACTATCATAATTTGCACATTCTT
*
18408767 TCACTGTCATAATTTGCACATTCTT
1 TCACTATCATAATTTGCACATTCTT
18408792 TCAC
1 TCAC
18408796 CTTTCACAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (25 bp):
TCACTATCATAATTTGCACATTCTT
Found at i:18408932 original size:23 final size:23
Alignment explanation
Indices: 18408866--18408993 Score: 105
Period size: 23 Copynumber: 5.5 Consensus size: 23
18408856 CGGAGAGTAT
* * *
18408866 CGAAGTACTAAATGGAGAGCACA
1 CGAAGTGCTAAACGAAGAGCACA
* *
18408889 -AAAGTGCTAGGTAACGAAGAGCAGA
1 CGAAGTGCTA---AACGAAGAGCACA
* * *
18408914 CTAAGTGCTAAACGGAGAGTACA
1 CGAAGTGCTAAACGAAGAGCACA
* * *
18408937 CAAAGTGCTAATCGAAGAGTACA
1 CGAAGTGCTAAACGAAGAGCACA
* *
18408960 CGAAGTGCTAATCGAAGAGCATA
1 CGAAGTGCTAAACGAAGAGCACA
18408983 CGAAGTGCTAA
1 CGAAGTGCTAA
18408994 TAACGGAGAG
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
22 7 0.08
23 61 0.71
25 10 0.12
26 8 0.09
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (23 bp):
CGAAGTGCTAAACGAAGAGCACA
Found at i:18408966 original size:46 final size:46
Alignment explanation
Indices: 18408866--18408994 Score: 125
Period size: 46 Copynumber: 2.8 Consensus size: 46
18408856 CGGAGAGTAT
* * * *
18408866 CGAAGTACTAAATGGAGAGCACA-AAAGTGCTAGGTAACGAAGAGCAGA
1 CGAAGTGCTAAACGGAGAGCACACAAAGTGCTA---ATCGAAGAGCACA
* * *
18408914 CTAAGTGCTAAACGGAGAGTACACAAAGTGCTAATCGAAGAGTACA
1 CGAAGTGCTAAACGGAGAGCACACAAAGTGCTAATCGAAGAGCACA
* * * *
18408960 CGAAGTGCTAATCGAAGAGCATACGAAGTGCTAAT
1 CGAAGTGCTAAACGGAGAGCACACAAAGTGCTAAT
18408995 AACGGAGAGC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 39 0.58
48 19 0.28
49 9 0.13
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (46 bp):
CGAAGTGCTAAACGGAGAGCACACAAAGTGCTAATCGAAGAGCACA
Found at i:18408994 original size:23 final size:23
Alignment explanation
Indices: 18408903--18408994 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 23
18408893 TGCTAGGTAA
* * *
18408903 CGAAGAGCAGACTAAGTGCTAAA
1 CGAAGAGCACACGAAGTGCTAAT
* * *
18408926 CGGAGAGTACACAAAGTGCTAAT
1 CGAAGAGCACACGAAGTGCTAAT
*
18408949 CGAAGAGTACACGAAGTGCTAAT
1 CGAAGAGCACACGAAGTGCTAAT
*
18408972 CGAAGAGCATACGAAGTGCTAAT
1 CGAAGAGCACACGAAGTGCTAAT
18408995 AACGGAGAGC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.16
Consensus pattern (23 bp):
CGAAGAGCACACGAAGTGCTAAT
Found at i:18409008 original size:23 final size:23
Alignment explanation
Indices: 18408854--18409009 Score: 67
Period size: 23 Copynumber: 6.7 Consensus size: 23
18408844 ACGGAATAAA
* *
18408854 AACGGAGAGTATCGAAGTACT-A-
1 AACGGAGAGCA-CGAAGTGCTAAT
* * *
18408876 AATGGAGAGCACAAAAGTGCTAGGT
1 AACGGAGAGCAC-GAAGTGCTA-AT
* *
18408901 AACGAAGAGCAGACTAAGTGCT-A-
1 AACGGAGAGC--ACGAAGTGCTAAT
*
18408924 AACGGAGAGTACACAAAGTGCTAAT
1 AACGGAGAG--CACGAAGTGCTAAT
*
18408949 --CGAAGAGTACACGAAGTGCTAAT
1 AACGGAGAG--CACGAAGTGCTAAT
*
18408972 --CGAAGAGCATACGAAGTGCTAAT
1 AACGGAGAGC--ACGAAGTGCTAAT
18408995 AACGGAGAGCACGAA
1 AACGGAGAGCACGAA
18409010 ACGTGGTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
21 2 0.02
22 15 0.14
23 63 0.59
24 1 0.01
25 16 0.15
26 7 0.07
27 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.28, T:0.15
Consensus pattern (23 bp):
AACGGAGAGCACGAAGTGCTAAT
Found at i:18419823 original size:52 final size:52
Alignment explanation
Indices: 18419716--18419954 Score: 248
Period size: 52 Copynumber: 4.6 Consensus size: 52
18419706 CTCTTATTTG
** * ** * *
18419716 ATACTCACGATGACACAAAGTCATCGGGCCT-TATAATCCACGAGGGATTCGT
1 ATACTCACGATGACACTTAGTCATCGGACCTCT-TAATCCATAAAGGATTCAT
** ** * * *
18419768 ATACTCACGATGACACAGAGTCATTAGACCTCTTAATTCGTAAAGGATCCAT
1 ATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCATAAAGGATTCAT
*
18419820 ATACTCACGATGACACTTAGTCATCGGACCT-TTAAATCCATAAAGGATTTCGT
1 ATACTCACGATGACACTTAGTCATCGGACCTCTT-AATCCATAAAGGA-TTCAT
* * *
18419873 ATACTCATGATGACACTTAGTCATCGGATCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCATAAAGGATTCAT
* * *
18419925 TTACTCATGATGACACTTAGTTATCGGACC
1 ATACTCACGATGACACTTAGTCATCGGACC
18419955 CCTTTTCATT
Statistics
Matches: 157, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
51 2 0.01
52 108 0.69
53 46 0.29
54 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCATAAAGGATTCAT
Found at i:18419930 original size:105 final size:104
Alignment explanation
Indices: 18419716--18419954 Score: 282
Period size: 105 Copynumber: 2.3 Consensus size: 104
18419706 CTCTTATTTG
** * * *
18419716 ATACTCACGATGACACAAAGTCATCGGGCCTTATAATCCACGAGGGATTCGTATACTCACGATGA
1 ATACTCACGATGACACTTAGTCATCGGACCTTATAATCCACAAAGGATTCGTATACTCACGATGA
* * * *
18419781 CACAGAGTCATTAGACCTCTTAATTCGTAAAGGATCCAT
66 CACAGAGTCATCAGACCTCATAATCCATAAAGGATCCAT
* *
18419820 ATACTCACGATGACACTTAGTCATCGGACCTT-TAAATCCATAAAGGATTTCGTATACTCATGAT
1 ATACTCACGATGACACTTAGTCATCGGACCTTAT-AATCCACAAAGGA-TTCGTATACTCACGAT
** * * *
18419884 GACACTTAGTCATCGGATCTCATAATCCATAAAGGATTCAT
64 GACACAGAGTCATCAGACCTCATAATCCATAAAGGATCCAT
* * *
18419925 TTACTCATGATGACACTTAGTTATCGGACC
1 ATACTCACGATGACACTTAGTCATCGGACC
18419955 CCTTTTCATT
Statistics
Matches: 114, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
103 1 0.01
104 39 0.34
105 74 0.65
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (104 bp):
ATACTCACGATGACACTTAGTCATCGGACCTTATAATCCACAAAGGATTCGTATACTCACGATGA
CACAGAGTCATCAGACCTCATAATCCATAAAGGATCCAT
Found at i:18426907 original size:52 final size:52
Alignment explanation
Indices: 18426829--18427014 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 52
18426819 ATTTCATTTA
* ** * *
18426829 ATACTCACGATGACATATAGTCATCGGACCTTATAATCCACGAGGGATTCGT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAGGATTCAT
* * * *
18426881 ATACTCACGATGACACAGAGTTATCGGACCTCT-TAATCCGTAAAGGATCCAT
1 ATACTCACGATGACACATAGTCATCGGACCT-TATAATCCATAAAGGATTCAT
* * *
18426933 ATACTCATGATGACACTTAGTCATCGGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAGGATTCAT
* *
18426985 TTACTCACGATGACACTTAGTCATCGGACC
1 ATACTCACGATGACACATAGTCATCGGACC
18427015 CTTTTCATTT
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
52 113 0.99
53 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTATAATCCATAAAGGATTCAT
Found at i:18429137 original size:28 final size:28
Alignment explanation
Indices: 18429106--18429204 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
18429096 GAATCTTGCC
18429106 CGGGTAGAGCATTATTCTACTTTTGGCT
1 CGGGTAGAGCATTATTCTACTTTTGGCT
* * * *
18429134 CGGGTAGAGCGTTATACTGAATCTT-GCT
1 CGGGTAGAGCATTATTCT-ACTTTTGGCT
*
18429162 CGGGTAGAGCATTATTCTACTTCTGGCT
1 CGGGTAGAGCATTATTCTACTTTTGGCT
* *
18429190 CGGATAGAGCGTTAT
1 CGGGTAGAGCATTAT
18429205 CTTGATTCTA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
27 3 0.05
28 51 0.88
29 4 0.07
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (28 bp):
CGGGTAGAGCATTATTCTACTTTTGGCT
Found at i:18429166 original size:56 final size:55
Alignment explanation
Indices: 18429093--18429269 Score: 210
Period size: 56 Copynumber: 3.2 Consensus size: 55
18429083 CAGCGACATT
* * *
18429093 TCTGAATCTTGCCCGGGTAGAGCATTATTCTACTTTTGGCTCGGGTAGAGCGTTA
1 TCTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTGGCTCGGATAGAGCGTTA
18429148 TACTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTGGCTCGGATAGAGCGTTA
1 T-CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTGGCTCGGATAGAGCGTTA
* * * ** * * * *
18429204 TCTTGATTCTAGCTCGAGTAGAGCATTAAGCTATTTCTAGCTCGAAAAGAGCGTTA
1 TC-TGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTGGCTCGGATAGAGCGTTA
*
18429260 TTCTGTATCT
1 -TCTGAATCT
18429270 GAGCTTGAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
55 2 0.02
56 101 0.96
57 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (55 bp):
TCTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTGGCTCGGATAGAGCGTTA
Found at i:18429213 original size:28 final size:28
Alignment explanation
Indices: 18429129--18429227 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
18429119 ATTCTACTTT
* *
18429129 TGGCTCGGGTAGAGCGTTATAC-TGAATC
1 TGGCTCGGATAGAGCGTTAT-CTTGATTC
* * *
18429157 TTGCTCGGGTAGAGCATTAT-TCT-ACTTC
1 TGGCTCGGATAGAGCGTTATCT-TGA-TTC
18429185 TGGCTCGGATAGAGCGTTATCTTGATTC
1 TGGCTCGGATAGAGCGTTATCTTGATTC
*
18429213 TAGCTC-GAGTAGAGC
1 TGGCTCGGA-TAGAGC
18429228 ATTAAGCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.05
28 53 0.91
29 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (28 bp):
TGGCTCGGATAGAGCGTTATCTTGATTC
Found at i:18434367 original size:19 final size:19
Alignment explanation
Indices: 18434343--18434381 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18434333 GGATATTAGG
*
18434343 TCGTTTCTATATGAGTTTC
1 TCGTTTCTATATCAGTTTC
* *
18434362 TCGTTTTTGTATCAGTTTC
1 TCGTTTCTATATCAGTTTC
18434381 T
1 T
18434382 TTAAGTACAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.56
Consensus pattern (19 bp):
TCGTTTCTATATCAGTTTC
Found at i:18437535 original size:16 final size:17
Alignment explanation
Indices: 18437502--18437535 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18437492 ATGAGTTAGA
*
18437502 ATAATGTTTAGATATTT
1 ATAATGGTTAGATATTT
18437519 ATAATGGTTAG-TATTT
1 ATAATGGTTAGATATTT
18437535 A
1 A
18437536 GGGTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (17 bp):
ATAATGGTTAGATATTT
Found at i:18442134 original size:18 final size:18
Alignment explanation
Indices: 18442096--18442134 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18442086 GACCTTCAAA
* *
18442096 AATGTCGACGCAATTGCC
1 AATGTCGACGCAACTGAC
18442114 AATGTCGACGCAACTGAC
1 AATGTCGACGCAACTGAC
18442132 AAT
1 AAT
18442135 ATCATGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (18 bp):
AATGTCGACGCAACTGAC
Found at i:18446287 original size:10 final size:10
Alignment explanation
Indices: 18446272--18446297 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18446262 TTCAATCTTC
18446272 AAATTTCCTA
1 AAATTTCCTA
18446282 AAATTTCCTA
1 AAATTTCCTA
18446292 AAATTT
1 AAATTT
18446298 TTAATCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATTTCCTA
Found at i:18447337 original size:41 final size:41
Alignment explanation
Indices: 18447283--18447367 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
18447273 AAACTTAAAG
* * *
18447283 AAATTGAGGAGTTGGCTGACTAAATGAGTCTGCGGCAACTT
1 AAATTGAGCAGTTGGCTGACCAAATGAGTCTACGGCAACTT
* *
18447324 AAATTGAGCAGTTGGCTGACCGAATGAGTCTACGGTAACTT
1 AAATTGAGCAGTTGGCTGACCAAATGAGTCTACGGCAACTT
18447365 AAA
1 AAA
18447368 CTTGTCACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (41 bp):
AAATTGAGCAGTTGGCTGACCAAATGAGTCTACGGCAACTT
Found at i:18447791 original size:21 final size:22
Alignment explanation
Indices: 18447765--18447817 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
18447755 ATCAAGGAGG
18447765 AGAAGAAAGAGAAAGAAGAAGA
1 AGAAGAAAGAGAAAGAAGAAGA
* * *
18447787 A-AAGAAAAAAAAAGAGGAAGA
1 AGAAGAAAGAGAAAGAAGAAGA
18447808 AGAA-AAAGAG
1 AGAAGAAAGAG
18447818 GAAGTTTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AGAAGAAAGAGAAAGAAGAAGA
Found at i:18447813 original size:15 final size:16
Alignment explanation
Indices: 18447765--18447821 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
18447755 ATCAAGGAGG
*
18447765 AGAAGAAAGAGAAAGA
1 AGAAGAAAGAGGAAGA
18447781 AGAAGAAA-A-GAA-A
1 AGAAGAAAGAGGAAGA
18447794 A-AA-AAAGAGGAAGA
1 AGAAGAAAGAGGAAGA
18447808 AGAA-AAAGAGGAAG
1 AGAAGAAAGAGGAAG
18447822 TTTTTGTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
11 3 0.08
12 3 0.08
13 5 0.14
14 4 0.11
15 13 0.36
16 8 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AGAAGAAAGAGGAAGA
Found at i:18471912 original size:3 final size:3
Alignment explanation
Indices: 18471904--18471931 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18471894 CTATAGCCTA
18471904 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18471932 TGAAAATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18479624 original size:11 final size:11
Alignment explanation
Indices: 18479608--18479640 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18479598 CTTTTTTCTT
18479608 TTTTCTTTTTC
1 TTTTCTTTTTC
18479619 TTTTCTTTTTC
1 TTTTCTTTTTC
*
18479630 ATTT-TTTTTC
1 TTTTCTTTTTC
18479640 T
1 T
18479641 AAGCATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:18479624 original size:18 final size:17
Alignment explanation
Indices: 18479599--18479640 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18479589 ACATATGCTC
*
18479599 TTTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCATT
18479616 TTCTTTTC-TTTTTCATT
1 TT-TTTTCTTTTTTCATT
18479633 TTTTTTCT
1 TTTTTTCT
18479641 AAGCATCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 12 0.55
18 5 0.23
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTTTTCATT
Found at i:18480808 original size:12 final size:12
Alignment explanation
Indices: 18480774--18480810 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
18480764 TCAATCTCCA
*
18480774 CAGGATCTTCCT
1 CAGGATCTTCTT
*
18480786 CAGGGTCTTCTT
1 CAGGATCTTCTT
18480798 CAGGATCTTCTT
1 CAGGATCTTCTT
18480810 C
1 C
18480811 TTCTTCAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.38
Consensus pattern (12 bp):
CAGGATCTTCTT
Found at i:18480814 original size:18 final size:18
Alignment explanation
Indices: 18480791--18480851 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
18480781 TTCCTCAGGG
18480791 TCTTCTTCAGGATCTTCT
1 TCTTCTTCAGGATCTTCT
* *
18480809 TCTTCTTCAAGATCCTCT
1 TCTTCTTCAGGATCTTCT
* * *
18480827 TATTCTTCAGAATGTTCT
1 TCTTCTTCAGGATCTTCT
18480845 TCTTCTT
1 TCTTCTT
18480852 TAACAGAATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.15, C:0.26, G:0.08, T:0.51
Consensus pattern (18 bp):
TCTTCTTCAGGATCTTCT
Found at i:18481751 original size:8 final size:7
Alignment explanation
Indices: 18481716--18481781 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
18481706 TTAATTAGTA
18481716 AAAATATT
1 AAAA-ATT
18481724 AAAAATT
1 AAAAATT
*
18481731 TAAAA-T
1 AAAAATT
18481737 --AAATT
1 AAAAATT
18481742 AAAAAGTT
1 AAAAA-TT
18481750 AATAAATT
1 AA-AAATT
18481758 -AAAATT
1 AAAAATT
18481764 AAAAATT
1 AAAAATT
18481771 AGAAAA-T
1 A-AAAATT
18481778 AAAA
1 AAAA
18481782 TTTTTACCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
4 3 0.06
5 1 0.02
6 9 0.18
7 20 0.40
8 14 0.28
9 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:18481762 original size:42 final size:41
Alignment explanation
Indices: 18481698--18481780 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
18481688 CAAACTTTTT
* * * *
18481698 TTAAAAATTTAATTAGTAAAAATATTAAAAATT-TAAAATAAA
1 TTAAAAAGTTAATAAAT-AAAA-ATTAAAAATTAGAAAATAAA
*
18481740 TTAAAAAGTTAATAAATTAAAATTAAAAATTAGAAAATAAA
1 TTAAAAAGTTAATAAATAAAAATTAAAAATTAGAAAATAAA
18481781 ATTTTTACCA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
40 10 0.29
41 11 0.31
42 14 0.40
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (41 bp):
TTAAAAAGTTAATAAATAAAAATTAAAAATTAGAAAATAAA
Found at i:18481777 original size:21 final size:19
Alignment explanation
Indices: 18481721--18481783 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 19
18481711 TAGTAAAAAT
*
18481721 ATTAAAAATTTAAAAT-AA
1 ATTAAAAATTAAAAATAAA
18481739 ATTAAAAAGTTAATAAATTAAA
1 ATTAAAAA-TTAA-AAA-TAAA
18481761 ATTAAAAATTAGAAAATAAA
1 ATTAAAAATTA-AAAATAAA
18481781 ATT
1 ATT
18481784 TTTACCACCT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 8 0.21
19 3 0.08
20 10 0.26
21 7 0.18
22 11 0.28
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
ATTAAAAATTAAAAATAAA
Found at i:18481782 original size:20 final size:20
Alignment explanation
Indices: 18481708--18481783 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 20
18481698 TTAAAAATTT
* *
18481708 AATTAGTAAA-AATATTAAA
1 AATTAGAAAATAAAATTAAA
*
18481727 AATT-TAAAAT-AAATTAAA
1 AATTAGAAAATAAAATTAAA
18481745 AAGTTA-ATAAATTAAAATTAAA
1 AA-TTAGA-AAA-TAAAATTAAA
18481767 AATTAGAAAATAAAATT
1 AATTAGAAAATAAAATT
18481784 TTTACCACCT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
18 12 0.26
19 7 0.15
20 10 0.21
21 7 0.15
22 11 0.23
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
AATTAGAAAATAAAATTAAA
Found at i:18482545 original size:86 final size:87
Alignment explanation
Indices: 18482446--18482604 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 87
18482436 ATTTAAAAGA
* *
18482446 AAAATCTTGATAATAGTTAATATAAATTA-T-AATATTTAATTTATAATTAATATTAAAAATTAT
1 AAAATCTTAATAATAATTAATATAAATTATTGAA-ATTTAATTTATAATTAATATTAAAAATTAT
*
18482509 CAATATTTTAAAAAATGAAGAAC
65 CAAAATTTTAAAAAATGAAGAAC
* *
18482532 AAAATCTTAATAATAATTAATATAAATTATTGAAGTTTAATTTATAATTAATATTAATAATTATC
1 AAAATCTTAATAATAATTAATATAAATTATTGAAATTTAATTTATAATTAATATTAAAAATTATC
18482597 AAAATTTT
66 AAAATTTT
18482605 GAAATAAAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 27 0.41
87 37 0.56
88 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (87 bp):
AAAATCTTAATAATAATTAATATAAATTATTGAAATTTAATTTATAATTAATATTAAAAATTATC
AAAATTTTAAAAAATGAAGAAC
Found at i:18482782 original size:19 final size:19
Alignment explanation
Indices: 18482760--18482801 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18482750 TTGATAATGA
18482760 TTAATATA-AATTATAAAAT
1 TTAATATATAATTA-AAAAT
* *
18482779 TTAATTTATAATTAAAATT
1 TTAATATATAATTAAAAAT
18482798 TTAA
1 TTAA
18482802 AGAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATATATAATTAAAAAT
Found at i:18482817 original size:106 final size:106
Alignment explanation
Indices: 18482541--18482817 Score: 284
Period size: 106 Copynumber: 2.6 Consensus size: 106
18482531 CAAAATCTTA
* * * * ** **
18482541 ATAATAATTAATATAAATTATTGAAGTTTAATTTATAATTAATATTAATAATTATCA-AAATTTT
1 ATAATGATTAATATAAATTA-TAAAATTTAATTTATAATTAA-ATTATTAAAGAAAACAAATTTT
*
18482605 G-AAATAAAAGTTTTAAATGAGAAAATTTAATCTCAAATTTTG
64 GAAAATAAAAGCTTTAAATGAGAAAATTTAATCTCAAATTTTG
* * * *
18482647 ATAATGATTAATATTAATTATAAAATATAATTTATAATT--ATTATT-AAGAATTATCAACACTT
1 ATAATGATTAATATAAATTATAAAATTTAATTTATAATTAAATTATTAAAGAA--AACAA-ATTT
*
18482709 TGAAAAATAAAA-CTTTAAATGA-AAATTCTTAATC-CAAACTTTTG
63 TG-AAAATAAAAGCTTTAAATGAGAAAAT-TTAATCTCAAA-TTTTG
18482753 ATAATGATTAATATAAATTATAAAATTTAATTTATAATTAAAATT-TTAAAGAAAACAAATTTTG
1 ATAATGATTAATATAAATTATAAAATTTAATTTATAATT-AAATTATTAAAGAAAACAAATTTTG
18482817 A
65 A
18482818 TTCAAATTCT
Statistics
Matches: 141, Mismatches: 18, Indels: 25
0.77 0.10 0.14
Matches are distributed among these distances:
101 2 0.01
102 5 0.04
104 2 0.01
105 30 0.21
106 80 0.57
107 12 0.09
108 2 0.01
109 8 0.06
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (106 bp):
ATAATGATTAATATAAATTATAAAATTTAATTTATAATTAAATTATTAAAGAAAACAAATTTTGA
AAATAAAAGCTTTAAATGAGAAAATTTAATCTCAAATTTTG
Found at i:18485259 original size:48 final size:48
Alignment explanation
Indices: 18485188--18485282 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
18485178 AGATGTTGGA
18485188 GGTGGTAGCTTCTCGATAACATCTACTTTGGCTTTGTCGACTTCAATG
1 GGTGGTAGCTTCTCGATAACATCTACTTTGGCTTTGTCGACTTCAATG
18485236 GGTGGTAGCTTCTCGATAACATCTACTTTGGCTTTGTCGACTTCAAT
1 GGTGGTAGCTTCTCGATAACATCTACTTTGGCTTTGTCGACTTCAAT
18485283 TCCTTGTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (48 bp):
GGTGGTAGCTTCTCGATAACATCTACTTTGGCTTTGTCGACTTCAATG
Done.