Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 85 of 143
Found at i:26868141 original size:16 final size:16
Alignment explanation
Indices: 26868083--26868178 Score: 57
Period size: 16 Copynumber: 5.4 Consensus size: 16
26868073 GTTTTCAGGT
*
26868083 TTTGTGCCTCGTAGGC
1 TTTGTGCCTAGTAGGC
*
26868099 TTTGTGCCAATGTTTTCAGGC
1 TTTGTGCCTA-G---T-AGGC
*
26868120 TGTGTGCCTAGTAGGC
1 TTTGTGCCTAGTAGGC
*
26868136 TTTGTGCCATTATTTTCAGGC
1 TTTGTGCC--TA--GT-AGGC
*
26868157 TGTGTGCCTAGTAGGC
1 TTTGTGCCTAGTAGGC
26868173 TTTGTG
1 TTTGTG
26868179 TCGGTGTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
16 28 0.46
17 3 0.05
18 2 0.03
19 2 0.03
20 3 0.05
21 23 0.38
ACGTcount: A:0.11, C:0.19, G:0.29, T:0.41
Consensus pattern (16 bp):
TTTGTGCCTAGTAGGC
Found at i:26877746 original size:21 final size:21
Alignment explanation
Indices: 26877717--26877798 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
26877707 GGAGTTTTTA
26877717 GTATCGGTAGAAG-CATGACAT
1 GTATCGGTAGAAGTCAT-ACAT
* *
26877738 GTTTCGGTAGAAGTCATACTT
1 GTATCGGTAGAAGTCATACAT
* *
26877759 GTATCGGTAGTATTGTC-T-CAA
1 GTATCGGTAG-A-AGTCATACAT
26877780 GTATCGGTAGAAGTC-TACA
1 GTATCGGTAGAAGTCATACA
26877799 CTGTTCTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
19 4 0.08
20 3 0.06
21 35 0.70
22 5 0.10
23 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACAT
Found at i:26884070 original size:3 final size:3
Alignment explanation
Indices: 26884062--26884097 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
26884052 TCTGACACGA
26884062 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
26884098 AAAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:26884299 original size:27 final size:27
Alignment explanation
Indices: 26884222--26884308 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
26884212 AACACATGGG
* *
26884222 ATGTGCCCTTTTGAA-GGGCGGCACTGA
1 ATGTGCCCTTCT-AATGGGCGGCACCGA
* **
26884249 AAGTGCCCTTCTAATGGGTAGCACCGA
1 ATGTGCCCTTCTAATGGGCGGCACCGA
26884276 ATGTGCCCTTCTAATGGGCGGCACC-A
1 ATGTGCCCTTCTAATGGGCGGCACCGA
*
26884302 CTGTGCC
1 ATGTGCC
26884309 AAAATGTCGA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.24
Consensus pattern (27 bp):
ATGTGCCCTTCTAATGGGCGGCACCGA
Found at i:26900156 original size:7 final size:7
Alignment explanation
Indices: 26900118--26900285 Score: 104
Period size: 7 Copynumber: 24.0 Consensus size: 7
26900108 GGGTTCGGTA
26900118 TTAAACCC
1 TTAAA-CC
*
26900126 TT-AATC
1 TTAAACC
*
26900132 TTAAACT
1 TTAAACC
* *
26900139 TTAGACT
1 TTAAACC
26900146 TTAAACC
1 TTAAACC
26900153 TTAAACC
1 TTAAACC
*
26900160 ATAAACC
1 TTAAACC
* *
26900167 ATAATCC
1 TTAAACC
* *
26900174 CTAATCC
1 TTAAACC
26900181 TTAAACC
1 TTAAACC
*
26900188 TTAAATC
1 TTAAACC
***
26900195 TTAATTT
1 TTAAACC
26900202 TTAAACC
1 TTAAACC
*
26900209 TTAAACA
1 TTAAACC
*
26900216 TGAAACC
1 TTAAACC
26900223 TTAAACC
1 TTAAACC
*
26900230 TAAAACC
1 TTAAACC
* *
26900237 CTAAATC
1 TTAAACC
*
26900244 TAAAACC
1 TTAAACC
*
26900251 ATAAACC
1 TTAAACC
* *
26900258 ATAAACA
1 TTAAACC
*
26900265 TTAAAAC
1 TTAAACC
26900272 TTAAACC
1 TTAAACC
*
26900279 CTAAACC
1 TTAAACC
26900286 ATAAGTGAAA
Statistics
Matches: 123, Mismatches: 36, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
6 3 0.02
7 118 0.96
8 2 0.02
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (7 bp):
TTAAACC
Found at i:26901162 original size:43 final size:43
Alignment explanation
Indices: 26901114--26901213 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 43
26901104 AACTGCACAA
*
26901114 TTAATAACATGTCACAATATTAACAAGAGTCAAGTAATATAAT
1 TTAATAACATGTCACAATATTAACAAGAGACAAGTAATATAAT
* * *
26901157 TTAATAACATGCCACAATATTAACACGGGACAAGTAATATAAT
1 TTAATAACATGTCACAATATTAACAAGAGACAAGTAATATAAT
26901200 TTAATAACATGTCA
1 TTAATAACATGTCA
26901214 AGGAATAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (43 bp):
TTAATAACATGTCACAATATTAACAAGAGACAAGTAATATAAT
Found at i:26902163 original size:19 final size:19
Alignment explanation
Indices: 26902136--26902175 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
26902126 TAGTTAATAT
*
26902136 AACCTAATTTAATTTCGTA
1 AACCAAATTTAATTTCGTA
26902155 AACCAAATTTAATTTCGTA
1 AACCAAATTTAATTTCGTA
26902174 AA
1 AA
26902176 TAACATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
AACCAAATTTAATTTCGTA
Found at i:26927201 original size:24 final size:24
Alignment explanation
Indices: 26927168--26927218 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
26927158 GAAAACAATC
*
26927168 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
26927192 TTTCAATTAAATTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
26927216 TTT
1 TTT
26927219 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:26928411 original size:118 final size:118
Alignment explanation
Indices: 26928218--26928482 Score: 277
Period size: 118 Copynumber: 2.3 Consensus size: 118
26928208 AAAATGGTAA
* * ** * * *
26928218 TTTTAGAC-TCTCGAGGGCAAAATGATAATTTT--GAAAAAAATGGGGTTAGAAATGATATTTTA
1 TTTTAGACATC-CGAGGGTAAAATGGTAATTTTGGGAAAAATTTAGGGTTAAAAATGACATTTTA
** * * * * * *
26928280 AATGATCGGGGGTAAAACGGTAACTTTTGGAAGAATCGGGATC-AAAATGGGACT
65 AACAATCGAGGGTAAAACGATAACTTTTAGAAAAATCGAGATCAAAAATGAGA-T
* ** * * *
26928334 TTTTGGATGTCTGATGGTAAAATGGTAATTTTGGGAAAAATTTAGGGTTAAAAATGACATTTTAG
1 TTTTAGACATCCGAGGGTAAAATGGTAATTTTGGGAAAAATTTAGGGTTAAAAATGACATTTTAA
* *
26928399 ACAATCGAGGGTAAAGCGATAATTTTTAGAAAAATCGAGATCAAAAATGAGAT
66 ACAATCGAGGGTAAAACGATAACTTTTAGAAAAATCGAGATCAAAAATGAGAT
26928452 TTTTAGACATCCGAGGGTAAAATGGTAATTT
1 TTTTAGACATCCGAGGGTAAAATGGTAATTT
26928483 CGAGAGTTTC
Statistics
Matches: 118, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
116 23 0.19
117 2 0.02
118 85 0.72
119 8 0.07
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (118 bp):
TTTTAGACATCCGAGGGTAAAATGGTAATTTTGGGAAAAATTTAGGGTTAAAAATGACATTTTAA
ACAATCGAGGGTAAAACGATAACTTTTAGAAAAATCGAGATCAAAAATGAGAT
Found at i:26928412 original size:59 final size:59
Alignment explanation
Indices: 26928289--26928487 Score: 147
Period size: 59 Copynumber: 3.4 Consensus size: 59
26928279 AAATGATCGG
* * * * ** *
26928289 GGGTAAAACGGTAACTTTTG-GAAGAATCGGGATC-AAAATGGGAC-TTTTTGGATGTCTGA
1 GGGTAAAATGGTAA-TTTTGAGAAAAATCGAGATCAAAAAT--GACATTTTTAGACATCCGA
* * ** * *
26928348 TGGTAAAATGGTAATTTTGGGAAAAATTTAGGGTTAAAAATGACA-TTTTAGACAAT-CGA
1 GGGTAAAATGGTAATTTTGAGAAAAATCGA-GATCAAAAATGACATTTTTAGAC-ATCCGA
** * * *
26928407 GGGTAAAGCGATAATTTTTAGAAAAATCGAGATCAAAAATGAGATTTTTAGACATCCGA
1 GGGTAAAATGGTAATTTTGAGAAAAATCGAGATCAAAAATGACATTTTTAGACATCCGA
*
26928466 GGGTAAAATGGTAATTTCGAGA
1 GGGTAAAATGGTAATTTTGAGA
26928488 GTTTCGAGGT
Statistics
Matches: 105, Mismatches: 28, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
58 18 0.17
59 79 0.75
60 3 0.03
61 5 0.05
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTGAGAAAAATCGAGATCAAAAATGACATTTTTAGACATCCGA
Found at i:26928502 original size:29 final size:30
Alignment explanation
Indices: 26928470--26928580 Score: 106
Period size: 29 Copynumber: 3.8 Consensus size: 30
26928460 ATCCGAGGGT
*
26928470 AAAATGGTAA--TTTCGAGAGTTTCGAGGTC
1 AAAATGGTAATTTTTGGA-AGTTTCGAGGTC
* * *
26928499 AAAAAGGGAATTTTTGGAAG-TTCGGGGTC
1 AAAATGGTAATTTTTGGAAGTTTCGAGGTC
*
26928528 AAAAATGG-AATTTTTGGAAGTTTCGAGGTT
1 -AAAATGGTAATTTTTGGAAGTTTCGAGGTC
*
26928558 AAAAT-GTAATTTTTTTGAAGTTT
1 AAAATGGTAA-TTTTTGGAAGTTT
26928581 TAGGGTTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.01
29 35 0.51
30 27 0.40
31 5 0.07
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTTCGAGGTC
Found at i:26928578 original size:30 final size:29
Alignment explanation
Indices: 26928487--26928630 Score: 112
Period size: 29 Copynumber: 4.9 Consensus size: 29
26928477 TAATTTCGAG
* * * *
26928487 AGTTTCGAGGTCAAAAAGGGAATTTTTGGA
1 AGTTTCGAGGT-TAAAATGTAATTTTTTGA
* * * *
26928517 AG-TTCGGGGTCAAAAATGGAATTTTTGGA
1 AGTTTCGAGGT-TAAAATGTAATTTTTTGA
26928546 AGTTTCGAGGTTAAAATGTAATTTTTTTGA
1 AGTTTCGAGGTTAAAATGTAA-TTTTTTGA
* *
26928576 AGTTT-TAGGGTTAAAAATGTAATTTTTTAA
1 AGTTTCGA-GGTT-AAAATGTAATTTTTTGA
* **
26928606 AGTTTCGGGGTTAGCATGTAATTTT
1 AGTTTCGAGGTTAAAATGTAATTTT
26928631 GGAGAAGTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
29 47 0.48
30 41 0.42
31 9 0.09
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.40
Consensus pattern (29 bp):
AGTTTCGAGGTTAAAATGTAATTTTTTGA
Found at i:26928624 original size:29 final size:29
Alignment explanation
Indices: 26928507--26928630 Score: 124
Period size: 30 Copynumber: 4.2 Consensus size: 29
26928497 TCAAAAAGGG
* * *
26928507 AATTTTTGGAAG-TTCGGGGTCAAAAATGG
1 AATTTTTTGAAGTTTCGGGGT-TAAAATGT
* *
26928536 AATTTTTGGAAGTTTCGAGGTTAAAATGT
1 AATTTTTTGAAGTTTCGGGGTTAAAATGT
**
26928565 AATTTTTTTGAAGTTTTAGGGTTAAAAATGT
1 AA-TTTTTTGAAGTTTCGGGGTT-AAAATGT
* **
26928596 AATTTTTTAAAGTTTCGGGGTTAGCATGT
1 AATTTTTTGAAGTTTCGGGGTTAAAATGT
26928625 AATTTT
1 AATTTT
26928631 GGAGAAGTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
29 31 0.39
30 40 0.50
31 9 0.11
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.43
Consensus pattern (29 bp):
AATTTTTTGAAGTTTCGGGGTTAAAATGT
Found at i:26928638 original size:60 final size:60
Alignment explanation
Indices: 26928523--26928651 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
26928513 TGGAAGTTCG
* ***
26928523 GGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGTTAAAATGTAATTTTTTTGAAGTTTTA
1 GGGTCAAAAATGGAATTTTTGAAAGTTTCGAGGTTAAAATGTAATTTTGGAGAAGTTTTA
* * * * ** **
26928583 GGGTTAAAAATGTAATTTTTTAAAGTTTCGGGGTTAGCATGTAATTTTGGAGAAGTTTGG
1 GGGTCAAAAATGGAATTTTTGAAAGTTTCGAGGTTAAAATGTAATTTTGGAGAAGTTTTA
26928643 GGGTCAAAA
1 GGGTCAAAA
26928652 TACAATTTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (60 bp):
GGGTCAAAAATGGAATTTTTGAAAGTTTCGAGGTTAAAATGTAATTTTGGAGAAGTTTTA
Found at i:26928670 original size:60 final size:60
Alignment explanation
Indices: 26928522--26928670 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 60
26928512 TTGGAAGTTC
* ***
26928522 GGGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGTTAAAATGTAATTTTTTTGAAGTTTTA
1 GGGGTC-AAAATGCAATTTTTGGAAGTTTCGAGGTTAAAATGTAATTTTGGAGAAGTTTTA
* * * ** * ** *
26928583 GGGTTAAAAATGTAATTTTTTAAAGTTTCGGGGTTAGCATGTAATTTTGGAGAAG-TTTG
1 GGGGTCAAAATGCAATTTTTGGAAGTTTCGAGGTTAAAATGTAATTTTGGAGAAGTTTTA
*
26928642 GGGGTCAAAATACAATTTTTGGACAGTTT
1 GGGGTCAAAATGCAATTTTTGGA-AGTTT
26928671 AGGGACCCCC
Statistics
Matches: 69, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
59 20 0.29
60 45 0.65
61 4 0.06
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.40
Consensus pattern (60 bp):
GGGGTCAAAATGCAATTTTTGGAAGTTTCGAGGTTAAAATGTAATTTTGGAGAAGTTTTA
Found at i:26930783 original size:6 final size:6
Alignment explanation
Indices: 26930736--26930876 Score: 87
Period size: 6 Copynumber: 24.2 Consensus size: 6
26930726 TTTTGGGCTT
* * * *
26930736 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
26930782 TTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * * *
26930829 -GTAAA TTTAAT TTTAGAA -ATAAA TTTAAA ATTCAT TTTAAA CTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
26930876 T
1 T
26930877 AAAAATTGAC
Statistics
Matches: 100, Mismatches: 27, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
4 3 0.03
5 14 0.14
6 78 0.78
7 5 0.05
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:26930817 original size:41 final size:41
Alignment explanation
Indices: 26930772--26930857 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
26930762 AAATTTAAAC
*
26930772 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* * *
26930813 TAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
26930854 TAAA
1 TAAA
26930858 ATTCATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (41 bp):
TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:26930838 original size:17 final size:17
Alignment explanation
Indices: 26930742--26930822 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
26930732 GCTTTTTAAT
* *
26930742 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
26930758 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
26930776 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
26930793 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
26930811 TTTAAATTTAAA
1 TTTAAATTTAAA
26930823 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.05
17 34 0.60
18 20 0.35
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:26930843 original size:17 final size:18
Alignment explanation
Indices: 26930813--26930857 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
26930803 AAAATGAATT
*
26930813 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAA
*
26930830 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAGAAA
26930848 TAAATTTAAA
1 TAAATTTAAA
26930858 ATTCATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:26930868 original size:41 final size:41
Alignment explanation
Indices: 26930772--26930869 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
26930762 AAATTTAAAC
* *
26930772 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAAATTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* * * *
26930813 TAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAAATTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* *
26930854 TAAAATTCATTTTAAA
1 TAAAATTAAATTTAAA
26930870 CTTAAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (41 bp):
TAAAATTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:26943106 original size:17 final size:17
Alignment explanation
Indices: 26943086--26943125 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
26943076 TAGATGCAGA
*
26943086 GACAATAAAAATGCAAT
1 GACAATAAAAATGCAAG
* *
26943103 GACATTAACAATGCAAG
1 GACAATAAAAATGCAAG
26943120 GACAAT
1 GACAAT
26943126 TAAACTACAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (17 bp):
GACAATAAAAATGCAAG
Found at i:26947302 original size:21 final size:21
Alignment explanation
Indices: 26947255--26947313 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
26947245 AACAGTGCAG
*
26947255 ACTTCTACCAATACAAGTGAC
1 ACTTCTACCAATACAAGAGAC
* *
26947276 AGTTCTACCGATACAAGAGAC
1 ACTTCTACCAATACAAGAGAC
* * *
26947297 TCTTCTATCAAAACAAG
1 ACTTCTACCAATACAAG
26947314 TTATACATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (21 bp):
ACTTCTACCAATACAAGAGAC
Found at i:26947949 original size:36 final size:36
Alignment explanation
Indices: 26947899--26947977 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
26947889 TTGTTATTCG
* *
26947899 TTTTATTCCTTGTTGACCTTG-AGGTCATGATGCTCA
1 TTTTACTCCCTGTTGA-CTTGAAGGTCATGATGCTCA
* * *
26947935 TTTTACTCCCTGTTGACTTGAAGTTCATGCTGCTCT
1 TTTTACTCCCTGTTGACTTGAAGGTCATGATGCTCA
26947971 TTTTACT
1 TTTTACT
26947978 GTCTATTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 4 0.11
36 33 0.89
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (36 bp):
TTTTACTCCCTGTTGACTTGAAGGTCATGATGCTCA
Found at i:26953737 original size:21 final size:21
Alignment explanation
Indices: 26953690--26953747 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
26953680 AACAGTGCTG
*
26953690 ACTTCTACAGATACAAGTAAC
1 ACTTCTACCGATACAAGTAAC
*
26953711 AGTTCTACCGATACAAG-AGAC
1 ACTTCTACCGATACAAGTA-AC
* *
26953732 TCTTCTACCGAAACAA
1 ACTTCTACCGATACAA
26953748 ATCATACATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTAAC
Found at i:26954481 original size:36 final size:36
Alignment explanation
Indices: 26954434--26954534 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
26954424 TCGTTATTCT
*
26954434 TTTTATTCCCTGTTAACCCTG-AGGTCATGATGCTAA
1 TTTTACTCCCTGTTAACCC-GAAGGTCATGATGCTAA
* *
26954470 TTTTACTCCCTGTTGACCCGAAGGTCATGATGCTCA
1 TTTTACTCCCTGTTAACCCGAAGGTCATGATGCTAA
* *
26954506 TTTTACTCCCTGTTTACCCGAATGTCATG
1 TTTTACTCCCTGTTAACCCGAAGGTCATG
26954535 CTTGTTACCA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 1 0.02
36 58 0.98
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (36 bp):
TTTTACTCCCTGTTAACCCGAAGGTCATGATGCTAA
Found at i:26955505 original size:29 final size:30
Alignment explanation
Indices: 26955430--26955509 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 30
26955420 CAAAAAATAA
* *
26955430 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCATGTATATAATTGAACC
* * * *
26955460 ACAATTAGAGTTTCATGTGTATAATTGCACT
1 A-AATTAAAGTTTCATGTATATAATTGAACC
26955491 AAATTAAAG-TTCATGTATA
1 AAATTAAAGTTTCATGTATA
26955510 ATTTTAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 9 0.22
30 8 0.20
31 24 0.59
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATATAATTGAACC
Found at i:26956175 original size:17 final size:17
Alignment explanation
Indices: 26956153--26956191 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
26956143 AAGTTTTTTC
*
26956153 ATAAATATTTTTAAA-AA
1 ATAAAT-TTTTCAAATAA
26956170 ATAAATTTTTCAAATAA
1 ATAAATTTTTCAAATAA
26956187 ATAAA
1 ATAAA
26956192 AATATCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATTTTTCAAATAA
Found at i:26961790 original size:29 final size:30
Alignment explanation
Indices: 26961756--26961813 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
26961746 AACGAGACTT
*
26961756 TTTGGA-TACTTGGGGGGC-AAAATGGTAAC
1 TTTGGACT-CTTGAGGGGCAAAAATGGTAAC
*
26961785 TTTGGACTTTTGAGGGGCAAAAATGGTAA
1 TTTGGACTCTTGAGGGGCAAAAATGGTAA
26961814 TTTTTGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (30 bp):
TTTGGACTCTTGAGGGGCAAAAATGGTAAC
Found at i:26961955 original size:59 final size:59
Alignment explanation
Indices: 26961804--26962028 Score: 185
Period size: 59 Copynumber: 3.8 Consensus size: 59
26961794 TTGAGGGGCA
* * * * *
26961804 AAAATGGTAATTTTTGGAAAATTT-GAGGCTAAAAAT-G-ATATTTTGAACATCCGGGGCT
1 AAAACGGTAATTTTTAGAAAGTTTCGAGGCTAAAAATGGAAT-TTTTGAA-ATTCGGGGGT
** * * * *
26961862 AAAACGGTAATTTTTAGAAA-AATC-AAGATAAAAAATGGAGTTTTTCGATATTCGGGGGT
1 AAAACGGTAATTTTTAGAAAGTTTCGAGGCT-AAAAATGGAATTTTT-GAAATTCGGGGGT
* *
26961921 AAAACGGTAATTTTT-GAAAGTTTCGAGGCTAAAAATGGAATTTTTGGAAATTCGAGAGT
1 AAAACGGTAATTTTTAGAAAGTTTCGAGGCTAAAAATGGAATTTTT-GAAATTCGGGGGT
** * * * *
26961980 AAAAATGTCATTTTT-GGAAGTTTTGAGGTTAAAAATGGAATTTTTGAAA
1 AAAACGGTAATTTTTAGAAAGTTTCGAGGCTAAAAATGGAATTTTTGAAA
26962029 GTTTTGGGGT
Statistics
Matches: 135, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
57 4 0.03
58 32 0.24
59 93 0.69
60 6 0.04
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (59 bp):
AAAACGGTAATTTTTAGAAAGTTTCGAGGCTAAAAATGGAATTTTTGAAATTCGGGGGT
Found at i:26962089 original size:58 final size:58
Alignment explanation
Indices: 26961950--26962153 Score: 200
Period size: 58 Copynumber: 3.5 Consensus size: 58
26961940 GTTTCGAGGC
* * ** * * * * *
26961950 TAAAAATGGAATTTTTGGAAATTCGAGAGTAAAAATGTCA-TTTTTGGAAGTTTTGAGGT
1 TAAAAATGTAATTTTTGGAAGTTTTAGGGTAAAAATG-GAGTTTTTAGAAGTTTAG-GGG
* * * *
26962009 TAAAAATGGAATTTTTGAAAGTTTTGGGGTTAAAAATGGAGTTTTTAGAAG-TTCGGGTG
1 TAAAAATGTAATTTTTGGAAGTTTTAGGG-TAAAAATGGAGTTTTTAGAAGTTTAGGG-G
* *
26962068 T-AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATGGATTTTTTAGAAGTTTAGGGG
1 TAAAAATGTAATTTTTGGAAGTTTTAGGGTAAAAATGGAGTTTTTAGAAGTTTAGGGG
26962125 TAAAAATGTAATTTTTGGATAG-TTTAGGG
1 TAAAAATGTAATTTTTGGA-AGTTTTAGGG
26962154 ACCTTTGATG
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
57 21 0.17
58 55 0.45
59 30 0.24
60 17 0.14
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (58 bp):
TAAAAATGTAATTTTTGGAAGTTTTAGGGTAAAAATGGAGTTTTTAGAAGTTTAGGGG
Found at i:26962149 original size:30 final size:29
Alignment explanation
Indices: 26961916--26962153 Score: 180
Period size: 30 Copynumber: 8.1 Consensus size: 29
26961906 TCGATATTCG
* * *
26961916 GGGGT-AAAACGGTAATTTTTGAAAGTTTC
1 GGGGTAAAAATGG-AATTTTTGGAAGTTTA
* * *
26961945 GAGGCTAAAAATGGAATTTTTGGAA-ATTC
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTA
* ** *
26961974 GAGAGTAAAAATGTCATTTTTGGAAGTTTT
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTA
* * *
26962004 GAGGTTAAAAATGGAATTTTTGAAAGTTTT
1 G-GGGTAAAAATGGAATTTTTGGAAGTTTA
* * *
26962034 GGGGTTAAAAATGGAGTTTTTAGAAG-TTC
1 GGGG-TAAAAATGGAATTTTTGGAAGTTTA
*
26962063 GGGTGT-AAAATGTAATTTTTGGAAGTTTTA
1 GGG-GTAAAAATGGAATTTTTGGAAG-TTTA
* * *
26962093 -GGGTCAAAATGGATTTTTTAGAAGTTTA
1 GGGGTAAAAATGGAATTTTTGGAAGTTTA
*
26962121 GGGGTAAAAATGTAATTTTTGGATAGTTTA
1 GGGGTAAAAATGGAATTTTTGGA-AGTTTA
26962151 GGG
1 GGG
26962154 ACCTTTGATG
Statistics
Matches: 168, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
28 22 0.13
29 69 0.41
30 71 0.42
31 6 0.04
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTA
Found at i:26963010 original size:45 final size:47
Alignment explanation
Indices: 26962926--26963021 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 47
26962916 AGATCTGGGA
** **
26962926 GTTTAAAACACTTTTCTTTTTTTCTTTTAAAAGTCCCTTTT-TTTT-
1 GTTTAAAACACTTTGATTTTTTTCTTTTAAAAAACCCTTTTATTTTC
26962971 GTTTAAAACA-TTTGATTTTTCTT-TTTTAAAAAACTCCTTTTATTTTC
1 GTTTAAAACACTTTGATTTTT-TTCTTTTAAAAAAC-CCTTTTATTTTC
26963018 GTTT
1 GTTT
26963022 GTTTGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
44 17 0.40
45 18 0.42
46 4 0.09
47 4 0.09
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (47 bp):
GTTTAAAACACTTTGATTTTTTTCTTTTAAAAAACCCTTTTATTTTC
Found at i:26963230 original size:3 final size:3
Alignment explanation
Indices: 26963224--26963252 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26963214 ACTATTATTA
26963224 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
26963253 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:26963257 original size:3 final size:3
Alignment explanation
Indices: 26963251--26963310 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
26963241 GTTGTTGTTG
26963251 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26963299 TTA TTA TTA TTA
1 TTA TTA TTA TTA
26963311 GAGATGCTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26963970 original size:18 final size:18
Alignment explanation
Indices: 26963944--26963993 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
26963934 TTTTAAAATT
**
26963944 ATTTCAAATTTAAAACTAA
1 ATTT-AAATTTAAAAAGAA
*
26963963 ATTTAAATTTAAAAAGGA
1 ATTTAAATTTAAAAAGAA
26963981 ATTTAAATTTAAA
1 ATTTAAATTTAAA
26963994 CTTAAAGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (18 bp):
ATTTAAATTTAAAAAGAA
Found at i:26964006 original size:17 final size:18
Alignment explanation
Indices: 26963984--26964028 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
26963974 AAAAGGAATT
*
26963984 TAAATTTAAACTTA-AAG
1 TAAATTTAAACTTAGAAA
**
26964001 TAAATTTAATTTTAGAAA
1 TAAATTTAAACTTAGAAA
26964019 TAAATTTAAA
1 TAAATTTAAA
26964029 ACCCGACTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
TAAATTTAAACTTAGAAA
Found at i:26964882 original size:201 final size:200
Alignment explanation
Indices: 26964398--26965318 Score: 1243
Period size: 201 Copynumber: 4.6 Consensus size: 200
26964388 TTCTTATTAG
* * * * ** * * * *
26964398 TATCTTATCAGGAAGACGACCGCGTCACTTGTTTTGATCCACTTCTCTGTGT-TCTAACAGGAAG
1 TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTC-ATCAGGAAG
* * * * * * *
26964462 ACGGATTTGGTTCACTTCTCCGTATCTCATCAGAAAGCAAACCACTTTATTGCTTCGACCTGTTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * * *
26964527 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCAAGCGTGAGTTTGATTTGA
130 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAG-TTGGTAT-A
*
26964592 TCTTGTTCTCA
193 -CTT-CTCT-A
* * * *
26964603 GTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
1 -TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAG
* *
26964668 ACGAATTTGGTCCACTTCTCAGTATCCCATCAGGAAGCTAACCATTTTATTGCTTCAACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
*
26964733 CTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGCTGAGTTGGTATAC
130 CTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCG-TGAGTTGGTATAC
26964798 TTCTCTA
194 TTCTCTA
*
26964805 TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTATATCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
* * * *
26964870 CGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAATCATTTAATTACTTCGACCTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * *
26964935 TCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAATGC-TGAGTTAGTATAC
131 TCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCG-A-GCGTGAGTTGGTATAC
* *
26964999 TTCTTTG
194 TTCTCTA
* * *
26965006 TATCTAATCAGGAAGATGACCACCTCACTTTTTTCAATTCGCTTCTCTGTATCTCATTAGGAAGA
1 TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
* ** *
26965071 CAAATTTGGTTAACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * ** * * *
26965136 TCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTGGCATTGAGTGTCGAGTTGGCATACT
131 TCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGT-GAGTTGGTATACT
26965201 TCTCTA
195 TCTCTA
26965207 TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
1 TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
*
26965272 CAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTT
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTT
26965319 CAAGACAAGT
Statistics
Matches: 641, Mismatches: 68, Indels: 17
0.88 0.09 0.02
Matches are distributed among these distances:
199 1 0.00
200 2 0.00
201 460 0.72
202 2 0.00
203 5 0.01
204 3 0.00
205 1 0.00
206 161 0.25
207 6 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (200 bp):
TATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
TCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGAGTTGGTATACTT
CTCTA
Found at i:26972488 original size:20 final size:20
Alignment explanation
Indices: 26972463--26972504 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
26972453 TTAGTGGTGG
26972463 CTGAACCTGGGTTGCCACCT
1 CTGAACCTGGGTTGCCACCT
26972483 CTGAACCTGGGTTGCCACCT
1 CTGAACCTGGGTTGCCACCT
26972503 CT
1 CT
26972505 CGTCATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.26
Consensus pattern (20 bp):
CTGAACCTGGGTTGCCACCT
Found at i:26977408 original size:59 final size:58
Alignment explanation
Indices: 26977345--26977770 Score: 242
Period size: 59 Copynumber: 7.4 Consensus size: 58
26977335 TAGACTCTCG
*
26977345 AGGGTAAAAATGGTAATTTTGGGAAAATTTAG-GGTTAAAAAT-GATATTTTGGACATTCA
1 AGGGTAAAAA-GGTAATTTTTGGAAAATTTAGAGGTTAAAAATGGA-ATTTTGGA-ATTCA
* * * * * *
26977404 AGGGTAAAACA-GTAATTTTTAGAAAA-ATCGAGATAAAAAATGGAATTTTTGGATATTCG
1 AGGGTAAAA-AGGTAATTTTTGGAAAATTTAGAGGTTAAAAATGGAA-TTTTGGA-ATTCA
* * * **
26977463 AGGGTAAAATGGTAATTTTTGG-AAGTTTTGAGGTTAAAAATAAAAATTTTGGAAGTT-A
1 AGGGTAAAAAGGTAATTTTTGGAAAATTTAGAGGTTAAAAAT-GGAATTTTGGAA-TTCA
* * **
26977521 GGGGTAAAAAAGTAATTTTTGGAAGTTTTAG-GGTTAAAAATGGAATTTT-G------
1 AGGGTAAAAAGGTAATTTTTGGAAAATTTAGAGGTTAAAAATGGAATTTTGGAATTCA
* * * **
26977571 AGGGTAAAATGGTAATTTTT-GAAAGTTTCA-AGGTCAAAAATGGAATTTTTGGAAGTTTT
1 AGGGTAAAAAGGTAATTTTTGGAAAATTT-AGAGGTTAAAAATGGAA-TTTTGGAA-TTCA
* * * ** * *
26977630 GGGGTTAAAATGTAATTTTTGGAAGTTTTA-AGGTCAAAAATGGAATTTTTGGAAGTTTA
1 AGGGTAAAAAGGTAATTTTTGGAAAATTTAGAGGTTAAAAATGGAA-TTTTGGAA-TTCA
* ** ** **
26977689 GGGGTAAAAATATAATTTTTGGAAGTTTTAG-GGCCAAAAATGGAATTTTTGGAAGTTCGA
1 AGGGTAAAAAGGTAATTTTTGGAAAATTTAGAGGTTAAAAATGGAA-TTTTGGAA-TTC-A
* *
26977749 A-GGTGAAAATGTAATTTTTGGA
1 AGGGTAAAAAGGTAATTTTTGGA
26977771 TAGTTTAGGG
Statistics
Matches: 298, Mismatches: 46, Indels: 46
0.76 0.12 0.12
Matches are distributed among these distances:
49 6 0.02
50 31 0.10
51 4 0.01
52 1 0.00
56 1 0.00
57 8 0.03
58 54 0.18
59 183 0.61
60 10 0.03
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
AGGGTAAAAAGGTAATTTTTGGAAAATTTAGAGGTTAAAAATGGAATTTTGGAATTCA
Found at i:26977423 original size:29 final size:29
Alignment explanation
Indices: 26977342--26977544 Score: 110
Period size: 30 Copynumber: 6.9 Consensus size: 29
26977332 CTTTAGACTC
* *
26977342 TCGAGGGTAAAAATGGTAATTTTGGGAAAAT
1 TCGAGGGTAAAAA-AGTAATTTTTGG-AAAT
* * * *
26977373 T-TAGGGTTAAAAA-TGATATTTTGGACAT
1 TCGAGGGTAAAAAAGTAAT-TTTTGGAAAT
* * * *
26977401 TCAAGGGTAAAACAGTAATTTTTAGAAAAA
1 TCGAGGGTAAAAAAGTAATTTTT-GGAAAT
* * *
26977431 TCGA-GATAAAAAATGGAATTTTTGGATAT
1 TCGAGGGTAAAAAA-GTAATTTTTGGAAAT
** *
26977460 TCGAGGGTAAAATGGTAATTTTTGGAAGTT
1 TCGAGGGTAAAAAAGTAATTTTTGGAA-AT
* * * * *
26977490 TTGAGGTTAAAAATA-AAAATTTTGGAAGT
1 TCGAGGGTAAAAA-AGTAATTTTTGGAAAT
*
26977519 TAG-GGGTAAAAAAGTAATTTTTGGAA
1 TCGAGGGTAAAAAAGTAATTTTTGGAA
26977545 GTTTTAGGGT
Statistics
Matches: 126, Mismatches: 37, Indels: 21
0.68 0.20 0.11
Matches are distributed among these distances:
27 1 0.01
28 25 0.20
29 46 0.37
30 53 0.42
31 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (29 bp):
TCGAGGGTAAAAAAGTAATTTTTGGAAAT
Found at i:26977471 original size:30 final size:29
Alignment explanation
Indices: 26977342--26977770 Score: 102
Period size: 29 Copynumber: 14.9 Consensus size: 29
26977332 CTTTAGACTC
*
26977342 TCGAGGGT-AAAAATGGTAATTTTGGGAAAAT
1 TCGAGGGTAAAAAATGG-AATTTTTGG--AAT
* *
26977373 T-TAGGGTTAAAAAT-G-ATATTTTGGACAT
1 TCGAGGGTAAAAAATGGAAT-TTTTGGA-AT
* * * * *
26977401 TCAAGGGTAAAACA-GTAATTTTTAGAAAAA
1 TCGAGGGTAAAAAATGGAATTTTT-G-GAAT
*
26977431 TCGA-GATAAAAAATGGAATTTTTGGATAT
1 TCGAGGGTAAAAAATGGAATTTTTGGA-AT
26977460 TCGAGGGT--AAAATGGTAATTTTTGGAAGTT
1 TCGAGGGTAAAAAATGG-AATTTTTGGAA--T
* * ** *
26977490 TTGA-GGTTAAAAATAAAAATTTTGGAAGT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA-T
* *
26977519 TAG-GGGTAAAAAA-GTAATTTTTGGAAGT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA-T
** *
26977547 TTTAGGGTTAAAAATGGAA---TT----T
1 TCGAGGGTAAAAAATGGAATTTTTGGAAT
** * *
26977569 T-GAGGGT-AAAATGGTAATTTTTGAAAGTT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA--T
* *
26977598 TC-AAGGTCAAAAATGGAATTTTTGGAAGTT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA--T
* * *
26977628 TTG-GGGT-TAAAATGTAATTTTTGGAAGT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA-T
** * *
26977656 TTTAAGGTCAAAAATGGAATTTTTGGAAGT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA-T
*
26977686 T-TAGGGGTAAAAATAT--AATTTTTGGAAGT
1 TCGA-GGGTAAAAA-ATGGAATTTTTGGAA-T
** **
26977715 TTTAGGGCCAAAAATGGAATTTTTGGAAGT
1 TCGAGGGTAAAAAATGGAATTTTTGGAA-T
* * *
26977745 TCGAAGGT-GAAAATGTAATTTTTGGA
1 TCGAGGGTAAAAAATGGAATTTTTGGA
26977771 TAGTTTAGGG
Statistics
Matches: 303, Mismatches: 57, Indels: 78
0.69 0.13 0.18
Matches are distributed among these distances:
20 7 0.02
21 5 0.02
22 2 0.01
23 2 0.01
27 3 0.01
28 32 0.11
29 129 0.43
30 108 0.36
31 15 0.05
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
TCGAGGGTAAAAAATGGAATTTTTGGAAT
Found at i:26977554 original size:29 final size:29
Alignment explanation
Indices: 26977437--26977780 Score: 196
Period size: 30 Copynumber: 12.0 Consensus size: 29
26977427 AAAATCGAGA
* **
26977437 TAAAAAATGGAATTTTTGGATA-TTCGAGGG
1 TAAAAAA-GTAATTTTTGGA-AGTTTTAGGG
** *
26977467 TAAAATGGTAATTTTTGGAAGTTTTGAGGT
1 TAAAAAAGTAATTTTTGGAAGTTTT-AGGG
* *
26977497 TAAAAATA-AAAATTTTGGAAG--TTAGGGG
1 TAAAAA-AGTAATTTTTGGAAGTTTTA-GGG
26977525 TAAAAAAGTAATTTTTGGAAGTTTTAGGG
1 TAAAAAAGTAATTTTTGGAAGTTTTAGGG
* * *
26977554 T--TAAA--AA----TGGAATTTTGAGGG
1 TAAAAAAGTAATTTTTGGAAGTTTTAGGG
** * * *
26977575 TAAAATGGTAATTTTTGAAAGTTTCAAGG
1 TAAAAAAGTAATTTTTGGAAGTTTTAGGG
* * *
26977604 TCAAAAATGGAATTTTTGGAAGTTTTGGGG
1 T-AAAAAAGTAATTTTTGGAAGTTTTAGGG
* * *
26977634 TTAAAATGTAATTTTTGGAAGTTTTAAGG
1 TAAAAAAGTAATTTTTGGAAGTTTTAGGG
* *
26977663 TCAAAAATGGAATTTTTGGAAG-TTTAGGGG
1 T-AAAAAAGTAATTTTTGGAAGTTTTA-GGG
26977693 TAAAAATA-TAATTTTTGGAAGTTTTAGGG
1 TAAAAA-AGTAATTTTTGGAAGTTTTAGGG
* * * ** *
26977722 CCAAAAATGGAATTTTTGGAAGTTCGAAGG
1 -TAAAAAAGTAATTTTTGGAAGTTTTAGGG
* *
26977752 TGAAAATGTAATTTTTGGATAG-TTTAGGG
1 TAAAAAAGTAATTTTTGGA-AGTTTTAGGG
26977781 ACCTTTGATG
Statistics
Matches: 240, Mismatches: 51, Indels: 47
0.71 0.15 0.14
Matches are distributed among these distances:
21 13 0.05
23 1 0.00
25 4 0.02
27 5 0.02
28 22 0.09
29 97 0.40
30 98 0.41
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.37
Consensus pattern (29 bp):
TAAAAAAGTAATTTTTGGAAGTTTTAGGG
Found at i:26977578 original size:20 final size:19
Alignment explanation
Indices: 26977540--26977589 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
26977530 AAGTAATTTT
26977540 TGGAAGTTTTAGGGTTAAAAA
1 TGGAA-TTTTAGGGTT-AAAA
26977561 TGGAATTTTGAGGG-TAAAA
1 TGGAATTTT-AGGGTTAAAA
26977580 TGGTAATTTT
1 TGG-AATTTT
26977590 TGAAAGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.26
20 11 0.41
21 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (19 bp):
TGGAATTTTAGGGTTAAAA
Found at i:26977780 original size:59 final size:58
Alignment explanation
Indices: 26977568--26977776 Score: 269
Period size: 59 Copynumber: 3.5 Consensus size: 58
26977558 AAATGGAATT
* *
26977568 TTGAGGGT-AAAATGGTAATTTTTGAAAGTTTCAAGGTCAAAAATGGAATTTTTGGAAG
1 TTGAGGGTAAAAAT-GTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAG
*
26977626 TTTTG-GGGTTAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAG
1 --TTGAGGGTAAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAG
* * * *
26977685 TTTAGGGGTAAAAATATAATTTTTGGAAGTTTTAGGGCCAAAAATGGAATTTTTGGAAG
1 TTGA-GGGTAAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAG
* *
26977744 TTCGAAGGTGAAAATGTAATTTTTGGATAGTTT
1 TT-GAGGGTAAAAATGTAATTTTTGGA-AGTTT
26977777 AGGGACCTTT
Statistics
Matches: 133, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
57 2 0.02
59 117 0.88
60 14 0.11
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (58 bp):
TTGAGGGTAAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAAATGGAATTTTTGGAAG
Found at i:26979536 original size:18 final size:17
Alignment explanation
Indices: 26979499--26979619 Score: 120
Period size: 17 Copynumber: 7.0 Consensus size: 17
26979489 AATTTTGAAT
*
26979499 TTTAAAAT-TATTTCAAA
1 TTTAAAATAAATTT-AAA
*
26979516 TTTAAAACTAAATTTATA
1 TTTAAAA-TAAATTTAAA
26979534 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
26979551 TTTAAAAAAGAATTTAAA
1 TTTAAAATA-AATTTAAA
***
26979569 TTT-TTTTAAATTTAAA
1 TTTAAAATAAATTTAAA
* *
26979585 TTTAAAGTAAATTTAAT
1 TTTAAAATAAATTTAAA
26979602 TTTAAAAATAAATTTAAA
1 TTT-AAAATAAATTTAAA
26979620 ACCTGACTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
16 11 0.13
17 37 0.44
18 33 0.39
19 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:26979550 original size:6 final size:6
Alignment explanation
Indices: 26979508--26979619 Score: 72
Period size: 6 Copynumber: 19.2 Consensus size: 6
26979498 TTTTAAAATT
** * *
26979508 ATTTCAA ATTTAA AACTAA ATTTAT ATTTAA A-ATAA ATTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
** * *
26979556 A-AAAGA ATTTAA ATTT-- TTTTAA ATTTAA ATTTAA A-GTAA ATTTAA
1 ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* **
26979601 TTTTAA AAATAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
26979620 ACCTGACTTA
Statistics
Matches: 77, Mismatches: 22, Indels: 13
0.69 0.20 0.12
Matches are distributed among these distances:
4 3 0.04
5 9 0.12
6 60 0.78
7 5 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
ATTTAA
Found at i:26979613 original size:29 final size:27
Alignment explanation
Indices: 26979565--26979619 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
26979555 AAAAAGAATT
**
26979565 TAAATTTTTTTAAATTTAAATTTAAAG
1 TAAATTTTTTTAAAAATAAATTTAAAG
26979592 TAAATTTAATTTTAAAAATAAATTTAAA
1 TAAATTT--TTTTAAAAATAAATTTAAA
26979620 ACCTGACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
29 17 0.71
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TAAATTTTTTTAAAAATAAATTTAAAG
Found at i:26987712 original size:21 final size:21
Alignment explanation
Indices: 26987688--26987741 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
26987678 GAAGGATGGA
*
26987688 TTGTATCGGTAGTACCCATAC
1 TTGTATCGGTAGTACCCAAAC
*
26987709 TTGTATCGATAGTACCCAAAC
1 TTGTATCGGTAGTACCCAAAC
26987730 TTGTATCGGTAG
1 TTGTATCGGTAG
26987742 AACTTCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGTATCGGTAGTACCCAAAC
Found at i:26993451 original size:9 final size:9
Alignment explanation
Indices: 26993439--26993470 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
26993429 AAGAGATCAA
26993439 CTCATTTTT
1 CTCATTTTT
26993448 CTCATTTTT
1 CTCATTTTT
26993457 CTCATTTTT
1 CTCATTTTT
26993466 CTCAT
1 CTCAT
26993471 AAGCCTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (9 bp):
CTCATTTTT
Found at i:26993617 original size:12 final size:12
Alignment explanation
Indices: 26993602--26993629 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26993592 GGTTGTGTTA
26993602 GAGGTGGAGGAG
1 GAGGTGGAGGAG
26993614 GAGGTGGAGGAG
1 GAGGTGGAGGAG
26993626 GAGG
1 GAGG
26993630 AAGAGGGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.68, T:0.07
Consensus pattern (12 bp):
GAGGTGGAGGAG
Found at i:27005486 original size:36 final size:36
Alignment explanation
Indices: 27005446--27005579 Score: 86
Period size: 36 Copynumber: 3.9 Consensus size: 36
27005436 GAATCTTCCC
27005446 AAGCTCTTGAACGAGATATCAAGTATTCTCAATCCT
1 AAGCTCTTGAACGAGATATCAAGTATTCTCAATCCT
* * * * * *
27005482 AAGCTCCTAAAC-ATGATGT--TG-AGTCT---TCCC
1 AAGCTCTTGAACGA-GATATCAAGTATTCTCAATCCT
* *
27005512 AAGCTCTTGAACGAGATATCAGGTCTTCTCAAT-CT
1 AAGCTCTTGAACGAGATATCAAGTATTCTCAATCCT
* * * *
27005547 CAAGATCTTGAAAGAGATATCGAGTCTTCTCAA
1 -AAGCTCTTGAACGAGATATCAAGTATTCTCAA
27005580 GCTCCTGAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
30 17 0.24
31 1 0.01
32 1 0.01
33 7 0.10
34 1 0.01
35 2 0.03
36 43 0.60
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (36 bp):
AAGCTCTTGAACGAGATATCAAGTATTCTCAATCCT
Found at i:27005538 original size:30 final size:30
Alignment explanation
Indices: 27005502--27005604 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 30
27005492 ACATGATGTT
*
27005502 GAGTCTTCCCAAGCTCTTGAACGAGATATC
1 GAGTCTTCCCAAGCTCTTGAAAGAGATATC
*
27005532 -AGGTCTTCTCAATCTCAAGATCTTGAAAGAGATATC
1 GA-GTC-T-TC---C-CAAGCTCTTGAAAGAGATATC
* * *
27005568 GAGTCTTCTCAAGCTCCTGAATGAGATATC
1 GAGTCTTCCCAAGCTCTTGAAAGAGATATC
27005598 GAGTCTT
1 GAGTCTT
27005605 ATCAAGTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
29 1 0.02
30 28 0.47
31 1 0.02
32 2 0.03
34 2 0.03
35 2 0.03
36 22 0.37
37 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (30 bp):
GAGTCTTCCCAAGCTCTTGAAAGAGATATC
Found at i:27005545 original size:66 final size:66
Alignment explanation
Indices: 27005431--27005597 Score: 203
Period size: 66 Copynumber: 2.5 Consensus size: 66
27005421 AAAAAATCAA
* *
27005431 ATATTGAATCTTCCCAAGCTCTTGAACGAGATATCAAGTATTCTCAATC-CTAAGCTCCT-AAAC
1 ATATTGAGTCTTCCCAAGCTCTTGAACGAGATATCAAGTATTCTCAATCTC-AAGATCCTGAAAC
27005494 ATG
65 A-G
* * * * *
27005497 ATGTTGAGTCTTCCCAAGCTCTTGAACGAGATATCAGGTCTTCTCAATCTCAAGATCTTGAAAGA
1 ATATTGAGTCTTCCCAAGCTCTTGAACGAGATATCAAGTATTCTCAATCTCAAGATCCTGAAACA
27005562 G
66 G
* * * *
27005563 ATATCGAGTCTTCTCAAGCTCCTGAATGAGATATC
1 ATATTGAGTCTTCCCAAGCTCTTGAACGAGATATC
27005598 GAGTCTTATC
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 82 0.94
67 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (66 bp):
ATATTGAGTCTTCCCAAGCTCTTGAACGAGATATCAAGTATTCTCAATCTCAAGATCCTGAAACA
G
Found at i:27005610 original size:30 final size:30
Alignment explanation
Indices: 27005546--27005618 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
27005536 CTTCTCAATC
* *
27005546 TCAAGATCTTGAAAGAGATATCGAGTCTTC
1 TCAAGATCCTGAAAGAGATATCGAGTCTTA
* *
27005576 TCAAGCTCCTGAATGAGATATCGAGTCTTA
1 TCAAGATCCTGAAAGAGATATCGAGTCTTA
*
27005606 TCAAGTTCCTGAA
1 TCAAGATCCTGAA
27005619 CTCCTCGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (30 bp):
TCAAGATCCTGAAAGAGATATCGAGTCTTA
Found at i:27008000 original size:18 final size:19
Alignment explanation
Indices: 27007960--27008012 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
27007950 CAAAATAATC
27007960 AAAATAATTTTCAAAAGTTG
1 AAAATAATTTT-AAAAGTTG
27007980 AAAATAATTTTAAAA-TTG
1 AAAATAATTTTAAAAGTTG
27007998 AAAAT-ATTTATAAAA
1 AAAATAATTT-TAAAA
27008013 AAAATTCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
19 4 0.12
20 11 0.34
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (19 bp):
AAAATAATTTTAAAAGTTG
Found at i:27011008 original size:9 final size:9
Alignment explanation
Indices: 27010991--27011033 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
27010981 TTGGAGAAGA
*
27010991 TGATAAATG
1 TGATGAATG
27011000 TGATGAATG
1 TGATGAATG
27011009 TGATGAATG
1 TGATGAATG
*
27011018 TGATGAAGG
1 TGATGAATG
27011027 TGATGAA
1 TGATGAA
27011034 GGTTTTTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (9 bp):
TGATGAATG
Found at i:27011017 original size:18 final size:18
Alignment explanation
Indices: 27010986--27011033 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
27010976 CACGTTTGGA
* *
27010986 GAAGATGATAAATGTGAT
1 GAAGGTGATGAATGTGAT
*
27011004 GAATGTGATGAATGTGAT
1 GAAGGTGATGAATGTGAT
27011022 GAAGGTGATGAA
1 GAAGGTGATGAA
27011034 GGTTTTTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (18 bp):
GAAGGTGATGAATGTGAT
Found at i:27022096 original size:20 final size:20
Alignment explanation
Indices: 27022062--27022115 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
27022052 CTACTATCAA
27022062 GTTAAAAT-TTTTAATAGGT
1 GTTAAAATATTTTAATAGGT
*
27022081 GTTAAAATAATTTAATAGGT
1 GTTAAAATATTTTAATAGGT
*
27022101 G-AAAAATATTTTAAT
1 GTTAAAATATTTTAAT
27022116 GGGTATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (20 bp):
GTTAAAATATTTTAATAGGT
Found at i:27022425 original size:16 final size:18
Alignment explanation
Indices: 27022392--27022426 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
27022382 TTTGTGTGTG
27022392 TGTTTAGTGTTGGAAGTT
1 TGTTTAGTGTTGGAAGTT
27022410 TGTTT-GTGTT-GAAGTT
1 TGTTTAGTGTTGGAAGTT
27022426 T
1 T
27022427 TTGGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.54
Consensus pattern (18 bp):
TGTTTAGTGTTGGAAGTT
Found at i:27022480 original size:2 final size:2
Alignment explanation
Indices: 27022475--27022503 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27022465 TTATTTTTTG
27022475 TA TA 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 TA TA T
27022504 TAGATTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27032174 original size:17 final size:16
Alignment explanation
Indices: 27032148--27032182 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
27032138 TTTATTGATA
*
27032148 TTTTCTTTTAATTTATT
1 TTTTCATTTAA-TTATT
27032165 TTTTCATTTAATTATT
1 TTTTCATTTAATTATT
27032181 TT
1 TT
27032183 ATAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCATTTAATTATT
Found at i:27034813 original size:45 final size:45
Alignment explanation
Indices: 27034763--27034855 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
27034753 TCTGATTTTA
*
27034763 AATAAATAATAATAAATTTATAACTTTAGCCATGACGTTTTCTAC
1 AATAAATAATAATAAATTTATAACTCTAGCCATGACGTTTTCTAC
27034808 AATAAATAATAATAAATTTATAACTCTAGCCATGACGTTTTCTAC
1 AATAAATAATAATAAATTTATAACTCTAGCCATGACGTTTTCTAC
27034853 AAT
1 AAT
27034856 TCAATTGTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (45 bp):
AATAAATAATAATAAATTTATAACTCTAGCCATGACGTTTTCTAC
Found at i:27037615 original size:20 final size:20
Alignment explanation
Indices: 27037552--27037633 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 20
27037542 ATTATATTGT
*
27037552 TGTTTTGGTGTTATTTTTTAC
1 TGTTTTGGT-TTTTTTTTTAC
* *
27037573 TATTTTGGTTTTTTTACTATTTTAGT
1 TGTTTTGG--TTTTT--T-TTTTA-C
27037599 TGTTTTGGTTTTTTTTTTAC
1 TGTTTTGGTTTTTTTTTTAC
27037619 TGTTTTGGTTTTTTT
1 TGTTTTGGTTTTTTT
27037634 ACTGTTGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
20 15 0.30
21 12 0.24
22 4 0.08
23 1 0.02
24 6 0.12
25 5 0.10
26 7 0.14
ACGTcount: A:0.09, C:0.04, G:0.16, T:0.72
Consensus pattern (20 bp):
TGTTTTGGTTTTTTTTTTAC
Found at i:27037637 original size:17 final size:16
Alignment explanation
Indices: 27037565--27037665 Score: 70
Period size: 17 Copynumber: 6.4 Consensus size: 16
27037555 TTTGGTGTTA
*
27037565 TTTTTTACTATTTTGGT
1 TTTTTTACTGTTTT-GT
*
27037582 TTTTTTACTATTTTAG-
1 TTTTTTACTGTTTT-GT
* *
27037598 TTGTTT--TGGTTT-T
1 TTTTTTACTGTTTTGT
27037611 TTTTTTACTGTTTTGGT
1 TTTTTTACTGTTTT-GT
27037628 TTTTTTACTG--TTGT
1 TTTTTTACTGTTTTGT
*
27037642 TTTTGTTGCTGTTTTTGT
1 TTTT-TTACTG-TTTTGT
27037660 TTTTTT
1 TTTTTT
27037666 TGTTGTTGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.07
14 10 0.15
15 12 0.18
16 5 0.07
17 28 0.41
18 8 0.12
ACGTcount: A:0.07, C:0.05, G:0.15, T:0.73
Consensus pattern (16 bp):
TTTTTTACTGTTTTGT
Found at i:27037642 original size:20 final size:20
Alignment explanation
Indices: 27037597--27037644 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
27037587 TACTATTTTA
**
27037597 GTTGTTTTGGTTTTTTTTTT
1 GTTGTTTTGGTTTTTTTACT
**
27037617 ACTGTTTTGGTTTTTTTACT
1 GTTGTTTTGGTTTTTTTACT
27037637 GTTGTTTT
1 GTTGTTTT
27037645 TGTTGCTGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.04, C:0.04, G:0.19, T:0.73
Consensus pattern (20 bp):
GTTGTTTTGGTTTTTTTACT
Found at i:27037654 original size:32 final size:30
Alignment explanation
Indices: 27037580--27037672 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 30
27037570 TACTATTTTG
* * * *
27037580 GTTTTT-TTACTATTTTAGTTGTTTTGGTT
1 GTTTTTGTTACTGTTTTGGTTTTTTTTGTT
*
27037609 -TTTTTTTTACTGTTTTGGTTTTTTTACTGTT
1 GTTTTTGTTACTGTTTTGGTTTTTTT--TGTT
* *
27037640 GTTTTTGTTGCTGTTTTTGTTTTTTTTGTT
1 GTTTTTGTTACTGTTTTGGTTTTTTTTGTT
27037670 GTT
1 GTT
27037673 GCTTTGTAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 5 0.09
29 16 0.30
30 7 0.13
31 3 0.06
32 22 0.42
ACGTcount: A:0.05, C:0.04, G:0.17, T:0.73
Consensus pattern (30 bp):
GTTTTTGTTACTGTTTTGGTTTTTTTTGTT
Found at i:27037660 original size:21 final size:21
Alignment explanation
Indices: 27037636--27037720 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
27037626 GTTTTTTTAC
27037636 TGTTGTTTTTGTTGCTGTTTT
1 TGTTGTTTTTGTTGCTGTTTT
* *
27037657 TGTTTTTTTTGTTGTTGCTTTGT
1 TGTTGTTTTTGTTGCTG-TTT-T
* * * *
27037680 AGTTATTTTTGCTGTTGTTTT
1 TGTTGTTTTTGTTGCTGTTTT
*
27037701 GGTTGTTATTT-TTGCTGTTT
1 TGTTGTT-TTTGTTGCTGTTT
27037721 GGATGCTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 28 0.54
22 9 0.17
23 15 0.29
ACGTcount: A:0.04, C:0.05, G:0.22, T:0.69
Consensus pattern (21 bp):
TGTTGTTTTTGTTGCTGTTTT
Found at i:27037714 original size:24 final size:23
Alignment explanation
Indices: 27037645--27037719 Score: 87
Period size: 24 Copynumber: 3.2 Consensus size: 23
27037635 CTGTTGTTTT
* * *
27037645 TGTTGCTGTTTTTGTTTTTTTTGT
1 TGTTGCT-TTGTTGTTATTTTTGC
*
27037669 TGTTGCTTTGTAGTTATTTTTGC
1 TGTTGCTTTGTTGTTATTTTTGC
*
27037692 TGTTGTTTTGGTTGTTATTTTTGC
1 TGTTGCTTT-GTTGTTATTTTTGC
27037716 TGTT
1 TGTT
27037720 TGGATGCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 20 0.45
24 24 0.55
ACGTcount: A:0.04, C:0.05, G:0.23, T:0.68
Consensus pattern (23 bp):
TGTTGCTTTGTTGTTATTTTTGC
Found at i:27039256 original size:6 final size:7
Alignment explanation
Indices: 27039229--27039255 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
27039219 ATGAAAGAAG
27039229 GAAAAAA
1 GAAAAAA
27039236 GAAAAAA
1 GAAAAAA
27039243 GAAAAAA
1 GAAAAAA
27039250 GAAAAA
1 GAAAAA
27039256 GGGCAGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:27039517 original size:3 final size:3
Alignment explanation
Indices: 27039509--27039533 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27039499 ACTGAGCGGC
27039509 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
27039534 CTCAATTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:27042025 original size:17 final size:17
Alignment explanation
Indices: 27041988--27042046 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
27041978 CCAATTTAAA
*
27041988 TTGACTCGAACCTGTCCCG
1 TTGACT-GAACC-GACCCG
*
27042007 TTGATTGAACCGACCCG
1 TTGACTGAACCGACCCG
27042024 TTGACTGAACCGACCCG
1 TTGACTGAACCGACCCG
27042041 TTGACT
1 TTGACT
27042047 TTGATCGATC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 27 0.73
18 5 0.14
19 5 0.14
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.25
Consensus pattern (17 bp):
TTGACTGAACCGACCCG
Found at i:27042059 original size:17 final size:17
Alignment explanation
Indices: 27042039--27042084 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 17
27042029 TGAACCGACC
27042039 CGTTGACTTTGATCGAT
1 CGTTGACTTTGATCGAT
*
27042056 CGTTGACTTTTTGATTGAT
1 CGTTGAC--TTTGATCGAT
27042075 CGTTGACTTT
1 CGTTGACTTT
27042085 TTCTAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
19 16 0.62
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (17 bp):
CGTTGACTTTGATCGAT
Found at i:27042070 original size:19 final size:19
Alignment explanation
Indices: 27042046--27042086 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
27042036 ACCCGTTGAC
27042046 TTTGATCGATCGTTGACTT
1 TTTGATCGATCGTTGACTT
*
27042065 TTTGATTGATCGTTGACTT
1 TTTGATCGATCGTTGACTT
27042084 TTT
1 TTT
27042087 CTAGAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.54
Consensus pattern (19 bp):
TTTGATCGATCGTTGACTT
Found at i:27043051 original size:32 final size:32
Alignment explanation
Indices: 27043010--27043073 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
27043000 GATAAGATGT
27043010 ATGTTCTTTAGAGACA-ATCTAGGCTTTTTAGC
1 ATGTTCTTTAGAGACACA-CTAGGCTTTTTAGC
27043042 ATGTTCTTTAGAGACACACTAGGCTTTTTAGC
1 ATGTTCTTTAGAGACACACTAGGCTTTTTAGC
27043074 TCATTTCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.97
33 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (32 bp):
ATGTTCTTTAGAGACACACTAGGCTTTTTAGC
Found at i:27043976 original size:36 final size:36
Alignment explanation
Indices: 27043928--27044158 Score: 309
Period size: 36 Copynumber: 6.4 Consensus size: 36
27043918 TGATAACTGT
* *
27043928 TGTGAAAGTAAATTTGTGGGTATGTTATTCATGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* * * *
27043964 TGAGACGGTAAATATGAGGGTATGTTATTCAGGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* *
27044000 TGTGACAGTAAATATGTTGGTATGTTATTCATGTCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
27044036 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* *
27044072 TGTGACAGTAAATATGTGAGTATGTTATTCGTGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* * * * *
27044108 TGAGATAGAAAATATATGGGTATGTTATTCATGTCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* *
27044144 TCTGACAGTGAATAT
1 TGTGACAGTAAATAT
27044159 ATTGTGCTGA
Statistics
Matches: 167, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 167 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.36
Consensus pattern (36 bp):
TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
Found at i:27044519 original size:66 final size:66
Alignment explanation
Indices: 27044408--27044544 Score: 195
Period size: 66 Copynumber: 2.1 Consensus size: 66
27044398 GGGGAAATAA
* * * * *
27044408 GGAGAGTGTTAGCTTTACGCTTCACTTTTGGGATATGTTTGACTCTATAAGTCTTTTGTTGTGTT
1 GGAGAGTGTTAGCTATACGCTTCACTTATGGGATATGTTTGACTCTATAAGTCATTTGGTATGTT
27044473 T
66 T
* *
27044474 GGAGAGTGTTAGCTATATGCTTCACTTATGGGATATGTTCT-ACTCTATGAGTCATTTGGTATGT
1 GGAGAGTGTTAGCTATACGCTTCACTTATGGGATATGTT-TGACTCTATAAGTCATTTGGTATGT
27044538 TT
65 TT
27044540 GGAGA
1 GGAGA
27044545 TCCGTGTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
66 62 0.98
67 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.43
Consensus pattern (66 bp):
GGAGAGTGTTAGCTATACGCTTCACTTATGGGATATGTTTGACTCTATAAGTCATTTGGTATGTT
T
Found at i:27044632 original size:10 final size:10
Alignment explanation
Indices: 27044614--27044686 Score: 85
Period size: 10 Copynumber: 7.4 Consensus size: 10
27044604 ATTTATCATA
*
27044614 AAATATGATT
1 AAATGTGATT
27044624 AAATGTGATT
1 AAATGTGATT
* *
27044634 ATATGTGACT
1 AAATGTGATT
* *
27044644 ATATGTGGTT
1 AAATGTGATT
*
27044654 ATATGTGATT
1 AAATGTGATT
27044664 AAATGTGATT
1 AAATGTGATT
27044674 AAATGTG-TT
1 AAATGTGATT
27044683 AAAT
1 AAAT
27044687 ATTAATGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
9 6 0.11
10 50 0.89
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.42
Consensus pattern (10 bp):
AAATGTGATT
Found at i:27044711 original size:23 final size:23
Alignment explanation
Indices: 27044677--27044791 Score: 142
Period size: 23 Copynumber: 5.0 Consensus size: 23
27044667 TGTGATTAAA
*
27044677 TGTG-TTAAATATTAATGTGATT
1 TGTGCTTAAATATTAATATGATT
*
27044699 TGTGCTTAAATATTGATATGATT
1 TGTGCTTAAATATTAATATGATT
*
27044722 CGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* * *
27044745 TCTGTTTAAATGTTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* * *
27044768 TATGTTTAAATGTTAATATGATT
1 TGTGCTTAAATATTAATATGATT
27044791 T
1 T
27044792 AGGCATAAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
22 4 0.05
23 79 0.95
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (23 bp):
TGTGCTTAAATATTAATATGATT
Found at i:27049606 original size:23 final size:23
Alignment explanation
Indices: 27049580--27049682 Score: 125
Period size: 23 Copynumber: 4.5 Consensus size: 23
27049570 TGTTACAAAG
* *
27049580 TTAATATGATTTGTGCTTAAATA
1 TTAATGTGATTTGTGATTAAATA
*
27049603 TTAATGTGATTTGTGATTAAATG
1 TTAATGTGATTTGTGATTAAATA
* ** *
27049626 CTAATGTGATTTGTTCTTAAATG
1 TTAATGTGATTTGTGATTAAATA
*
27049649 TTAATGTGATTTGTGATTAAACA
1 TTAATGTGATTTGTGATTAAATA
*
27049672 TTAATATGATT
1 TTAATGTGATT
27049683 ATTGTAATAC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
TTAATGTGATTTGTGATTAAATA
Found at i:27049682 original size:46 final size:46
Alignment explanation
Indices: 27049580--27049682 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
27049570 TGTTACAAAG
**
27049580 TTAATATGATTTGTGCTTAAATATTAATGTGATTTGTGATTAAATG
1 TTAATATGATTTGTGCTTAAATATTAATGTGATTTGTGATTAAACA
* * * *
27049626 CTAATGTGATTTGTTCTTAAATGTTAATGTGATTTGTGATTAAACA
1 TTAATATGATTTGTGCTTAAATATTAATGTGATTTGTGATTAAACA
27049672 TTAATATGATT
1 TTAATATGATT
27049683 ATTGTAATAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.48
Consensus pattern (46 bp):
TTAATATGATTTGTGCTTAAATATTAATGTGATTTGTGATTAAACA
Found at i:27055222 original size:21 final size:21
Alignment explanation
Indices: 27055163--27055222 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
27055153 AATAGTGCAG
* *
27055163 ACTTCTACCAATACAAGCGAC
1 ACTTCTACCGATACAAGTGAC
* *
27055184 AGTTCTACCGATATAAGTGAC
1 ACTTCTACCGATACAAGTGAC
*
27055205 TCTTCTACCGATACAAGT
1 ACTTCTACCGATACAAGT
27055223 CTTATTTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:27056609 original size:20 final size:20
Alignment explanation
Indices: 27056573--27056622 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
27056563 TCATTAAGCT
*
27056573 TTAATTAATCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
27056593 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
27056613 TTAATATAAA
1 TTAAT-TAAA
27056623 TTATACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:27056915 original size:23 final size:23
Alignment explanation
Indices: 27056884--27057000 Score: 155
Period size: 23 Copynumber: 5.1 Consensus size: 23
27056874 ATCTGTTACA
* *
27056884 ATTTTTGCTTAAATGTTAATATG
1 ATTTATGCTTAAATATTAATATG
27056907 ATTTATGCTTAAATATTAA-ATG
1 ATTTATGCTTAAATATTAATATG
*
27056929 ATTTATGCTTAAATATTAATGTG
1 ATTTATGCTTAAATATTAATATG
* *
27056952 ATTTATGTTTAAATGTTAATATG
1 ATTTATGCTTAAATATTAATATG
* * *
27056975 ATTTATGCTGAAATATTCATGTG
1 ATTTATGCTTAAATATTAATATG
27056998 ATT
1 ATT
27057001 AATATGTGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
22 22 0.27
23 60 0.73
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTATGCTTAAATATTAATATG
Found at i:27056954 original size:45 final size:46
Alignment explanation
Indices: 27056884--27057000 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 46
27056874 ATCTGTTACA
* * *
27056884 ATTTTTGCTTAAATGTTAATATGATTTATGCTTAAATATTAA-ATG
1 ATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATG
* *
27056929 ATTTATGCTTAAATATTAATGTGATTTATGTTTAAATGTTAATATG
1 ATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATG
* *
27056975 ATTTATGCTGAAATATTCATGTGATT
1 ATTTATGCTTAAATATTAATGTGATT
27057001 AATATGTGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 37 0.58
46 27 0.42
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (46 bp):
ATTTATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATG
Found at i:27065595 original size:20 final size:21
Alignment explanation
Indices: 27065570--27065610 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
27065560 TTACATTTTT
*
27065570 TAAAGTTAAAA-TCAAAACTA
1 TAAAGTTAAAAGGCAAAACTA
27065590 TAAAGTTAAAAGGCAAAACTA
1 TAAAGTTAAAAGGCAAAACTA
27065611 CGTCGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
TAAAGTTAAAAGGCAAAACTA
Found at i:27067787 original size:14 final size:14
Alignment explanation
Indices: 27067765--27067807 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
27067755 TAAAATTTTA
27067765 AAACCCTAAATCTT
1 AAACCCTAAATCTT
* *
27067779 AAACTCTAAAATTTT
1 AAACCCT-AAATCTT
27067794 AAACCCTAAATCTT
1 AAACCCTAAATCTT
27067808 TAATTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (14 bp):
AAACCCTAAATCTT
Found at i:27067809 original size:15 final size:15
Alignment explanation
Indices: 27067765--27067810 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
27067755 TAAAATTTTA
27067765 AAACCCTAAATC-TT
1 AAACCCTAAATCTTT
*
27067779 AAACTCTAAAAT-TTT
1 AAACCCT-AAATCTTT
27067794 AAACCCTAAATCTTT
1 AAACCCTAAATCTTT
27067809 AA
1 AA
27067811 TTATTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.33
Consensus pattern (15 bp):
AAACCCTAAATCTTT
Found at i:27070275 original size:16 final size:16
Alignment explanation
Indices: 27070254--27070284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27070244 ATAATGTGAA
27070254 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
27070270 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
27070285 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:27071127 original size:26 final size:26
Alignment explanation
Indices: 27071082--27071138 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
27071072 ACAATTCTGG
*
27071082 GCGA-AATTCTTGACACGTTCATGCA
1 GCGACAATTCTTGACACGTTCATACA
*
27071107 GCGACAATTCTAT-ACATGTTCATACA
1 GCGACAATTCT-TGACACGTTCATACA
*
27071133 GTGACA
1 GCGACA
27071139 TTCCTGGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 22 0.81
27 1 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (26 bp):
GCGACAATTCTTGACACGTTCATACA
Found at i:27071172 original size:37 final size:38
Alignment explanation
Indices: 27071131--27071204 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
27071121 CATGTTCATA
*
27071131 CAGTGACA-TTCCTGGTTGCAA-TTGAAGAATACTTATG
1 CAGTGACAGTT-CTGGATGCAATTTGAAGAATACTTATG
* *
27071168 CAGTGATAGTTCTGGATGCAATTTGAAGAATATTTAT
1 CAGTGACAGTTCTGGATGCAATTTGAAGAATACTTAT
27071205 ACAGCGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.50
38 16 0.50
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (38 bp):
CAGTGACAGTTCTGGATGCAATTTGAAGAATACTTATG
Found at i:27071214 original size:38 final size:37
Alignment explanation
Indices: 27071142--27071216 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
27071132 AGTGACATTC
* * *
27071142 CTGGTTGCAATTGAAGAATACTTATGCAGTGATAGTT
1 CTGGATGCAATTGAAGAATACTTATACAGCGATAGTT
*
27071179 CTGGATGCAATTTGAAGAATATTTATACAGCGATAGTT
1 CTGGATGCAA-TTGAAGAATACTTATACAGCGATAGTT
27071217 TAAGGTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 9 0.27
38 24 0.73
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (37 bp):
CTGGATGCAATTGAAGAATACTTATACAGCGATAGTT
Found at i:27072077 original size:33 final size:33
Alignment explanation
Indices: 27072035--27072104 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
27072025 GTTATACTAA
*
27072035 CATTCCCCTAGCTTTTTACCCTTTTTGATCTTT
1 CATTCCCCTAGCTTTTTACCCTTTTTGATATTT
27072068 CATTCCCCTAGCTTTTTACCCTTTTTGATATTT
1 CATTCCCCTAGCTTTTTACCCTTTTTGATATTT
27072101 CATT
1 CATT
27072105 GATACCACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.14, C:0.29, G:0.06, T:0.51
Consensus pattern (33 bp):
CATTCCCCTAGCTTTTTACCCTTTTTGATATTT
Found at i:27080330 original size:37 final size:37
Alignment explanation
Indices: 27080275--27080692 Score: 254
Period size: 37 Copynumber: 11.1 Consensus size: 37
27080265 TTAAATATCT
* * *
27080275 CGATGAACATCGGCACGAAGCCTGCTAGGCACATAACT
1 CGAT-AACACCGGCACGAAGCCTGCTAGGCATATAACC
* * * * *
27080313 CGATAACACCGTCACGAAGCTTGATAGGCACATAGCC
1 CGATAACACCGGCACGAAGCCTGCTAGGCATATAACC
* * * * * * *
27080350 TGACAATACCGGCACAAAGTCTACTAGGCATAAAACC
1 CGATAACACCGGCACGAAGCCTGCTAGGCATATAACC
* ** * * * * *
27080387 TGATATTATCGAG-ACGAAGTCTGTTGGGCATATAGCC
1 CGATAACACCG-GCACGAAGCCTGCTAGGCATATAACC
27080424 CGATAACACCGGCACGAAGGCCTGCTAGGCATA-AACCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATATAA-CC
* * * * * * *
27080462 CGATATCACCTGCACGAAACCTACTAGGCACATAGCT
1 CGATAACACCGGCACGAAGCCTGCTAGGCATATAACC
*
27080499 CGATAACATCGGCACGAAGGCCTGCTAGGCATA-AAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATATAA-CC
* * * *
27080537 TGATAACATCGACACGAAGGCCTTCTAGGCATA-AAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATATAA-CC
* * *
27080575 CGATAACACCAGTACGAAGGCCTACTAGGCATA-AAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATATAA-CC
* * * * * *
27080613 CAATATCACCAGCACGAAGCTTGCTAGGCACATAGCC
1 CGATAACACCGGCACGAAGCCTGCTAGGCATATAACC
* ** *
27080650 CAATAACACCAACACGAAGGCTTGCTAGGCATA-AAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATATAA-CC
27080688 CGATA
1 CGATA
27080693 TTACTTGTAT
Statistics
Matches: 299, Mismatches: 71, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
36 1 0.00
37 149 0.50
38 149 0.50
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (37 bp):
CGATAACACCGGCACGAAGCCTGCTAGGCATATAACC
Found at i:27080456 original size:38 final size:37
Alignment explanation
Indices: 27080275--27080692 Score: 309
Period size: 38 Copynumber: 11.1 Consensus size: 37
27080265 TTAAATATCT
* * *
27080275 CGATGAACATCGGCACGAAGCCTGCTAGGCACATAA-CT
1 CGAT-AACACCGGCACGAAGCCTGCTAGGCATA-AAGCC
* * * * *
27080313 CGATAACACCGTCACGAAGCTTGATAGGCACATAGCC
1 CGATAACACCGGCACGAAGCCTGCTAGGCATAAAGCC
* * * * * * *
27080350 TGACAATACCGGCACAAAGTCTACTAGGCATAAAACC
1 CGATAACACCGGCACGAAGCCTGCTAGGCATAAAGCC
* ** * * * * *
27080387 TGATATTATCGAG-ACGAAGTCTGTTGGGCATATAGCC
1 CGATAACACCG-GCACGAAGCCTGCTAGGCATAAAGCC
*
27080424 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAACCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATAAAGCC
* * * * * * *
27080462 CGATATCACCTGCACGAAACCTACTAGGCACATAGCT
1 CGATAACACCGGCACGAAGCCTGCTAGGCATAAAGCC
*
27080499 CGATAACATCGGCACGAAGGCCTGCTAGGCATAAAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATAAAGCC
* * * *
27080537 TGATAACATCGACACGAAGGCCTTCTAGGCATAAAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATAAAGCC
* * *
27080575 CGATAACACCAGTACGAAGGCCTACTAGGCATAAAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATAAAGCC
* * * * * *
27080613 CAATATCACCAGCACGAAGCTTGCTAGGCACATAGCC
1 CGATAACACCGGCACGAAGCCTGCTAGGCATAAAGCC
* ** *
27080650 CAATAACACCAACACGAAGGCTTGCTAGGCATAAAGCC
1 CGATAACACCGGCACGAA-GCCTGCTAGGCATAAAGCC
27080688 CGATA
1 CGATA
27080693 TTACTTGTAT
Statistics
Matches: 301, Mismatches: 73, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
36 2 0.01
37 147 0.49
38 152 0.50
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (37 bp):
CGATAACACCGGCACGAAGCCTGCTAGGCATAAAGCC
Found at i:27080479 original size:75 final size:74
Alignment explanation
Indices: 27080275--27080693 Score: 362
Period size: 75 Copynumber: 5.6 Consensus size: 74
27080265 TTAAATATCT
* * * * * *
27080275 CGATGAACATCGGCACGAA-GCCTGCTAGGCACATAA-CTCGATAACACCGTCACGAAGCTTGAT
1 CGAT-AACACCGGCACGAAGGCCTGCTAGGCATA-AAGCCCGATATCACCGACACGAAGC-TGCT
27080338 AGGCACATAGCC
63 AGGCACATAGCC
* * * * * * * * * * * * *
27080350 TGACAATACCGGCAC-AAAGTCTACTAGGCATAAAACCTGATATTATCGAGACGAAGTCTGTTGG
1 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCGACACGAAG-CTGCTAG
*
27080414 GCATATAGCC
65 GCACATAGCC
* * *
27080424 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAACCCCGATATCACCTG-CACGAAACCTACTA
1 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAAGCCCGATATCACC-GACACG-AAGCTGCTA
*
27080488 GGCACATAGCT
64 GGCACATAGCC
* * * * *
27080499 CGATAACATCGGCACGAAGGCCTGCTAGGCATAAAGCCTGATAACATCGACACGAAGGCCTTCTA
1 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCGACACGAA-G-CTGCTA
* *
27080564 GGCATAAAGCC
64 GGCACATAGCC
* * * *
27080575 CGATAACACCAGTACGAAGGCCTACTAGGCATAAAGCCCAATATCACC-AGCACGAAGCTTGCTA
1 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCGA-CACGAAGC-TGCTA
27080639 GGCACATAGCC
64 GGCACATAGCC
* ** *
27080650 CAATAACACCAACACGAAGGCTTGCTAGGCATAAAGCCCGATAT
1 CGATAACACCGGCACGAAGGCCTGCTAGGCATAAAGCCCGATAT
27080694 TACTTGTATG
Statistics
Matches: 272, Mismatches: 61, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
73 4 0.01
74 63 0.23
75 143 0.53
76 62 0.23
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (74 bp):
CGATAACACCGGCACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCGACACGAAGCTGCTAGG
CACATAGCC
Found at i:27080558 original size:113 final size:113
Alignment explanation
Indices: 27080413--27080693 Score: 348
Period size: 113 Copynumber: 2.5 Consensus size: 113
27080403 AAGTCTGTTG
* * *
27080413 GGCATATAGCCCGATAACACCGGCACGAAGGCCTGCTAGGCATAAACCCCGATATCACCTGCACG
1 GGCATATAGCCCGATAACACCGACACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCAGCACG
* * * * *
27080478 AA-ACCTACTAGGCACATAGCTCGATAACATCGGCACGAAGGCCTGCTA
66 AAGACCTACTAGGCACAAAGCCCAATAACACCAGCACGAA-GCCTGCTA
* * * * * *
27080526 GGCATAAAGCCTGATAACATCGACACGAAGGCCTTCTAGGCATAAAGCCCGATAACACCAGTACG
1 GGCATATAGCCCGATAACACCGACACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCAGCACG
* * * *
27080591 AAGGCCTACTAGGCATAAAGCCCAATATCACCAGCACGAAGCTTGCTA
66 AAGACCTACTAGGCACAAAGCCCAATAACACCAGCACGAAGCCTGCTA
* * * *
27080639 GGCACATAGCCCAATAACACCAACACGAAGGCTTGCTAGGCATAAAGCCCGATAT
1 GGCATATAGCCCGATAACACCGACACGAAGGCCTGCTAGGCATAAAGCCCGATAT
27080694 TACTTGTATG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
113 111 0.79
114 29 0.21
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (113 bp):
GGCATATAGCCCGATAACACCGACACGAAGGCCTGCTAGGCATAAAGCCCGATATCACCAGCACG
AAGACCTACTAGGCACAAAGCCCAATAACACCAGCACGAAGCCTGCTA
Found at i:27080603 original size:151 final size:150
Alignment explanation
Indices: 27080373--27080692 Score: 408
Period size: 151 Copynumber: 2.1 Consensus size: 150
27080363 ACAAAGTCTA
* ** * * * * *
27080373 CTAGGCATAAAACCTGATATTATCGAGACGAAGTCTGTTGGGCATATAGCCCGATAACACCGGCA
1 CTAGGCATAAAGCCTGATAACATCGACACGAAGCCTGTTAGGCATAAAGCCCGATAACACCAGCA
* * * * *
27080438 CGAAGGCCTGCTAGGCATAAACCCCGATATCACCTGCACGAAACCTACTAGGCACATAGCTCGAT
66 CGAAGGCCTACTAGGCATAAACCCCAATATCACCAGCACGAAACCTACTAGGCACATAGCCCAAT
* **
27080503 AACATCGGCACGAAGGCCTG
131 AACACCAACACGAAGGCCTG
27080523 CTAGGCATAAAGCCTGATAACATCGACACGAAGGCCT-TCTAGGCATAAAGCCCGATAACACCAG
1 CTAGGCATAAAGCCTGATAACATCGACACGAA-GCCTGT-TAGGCATAAAGCCCGATAACACCAG
* * * * *
27080587 TACGAAGGCCTACTAGGCATAAAGCCCAATATCACCAGCACGAAGCTTGCTAGGCACATAGCCCA
64 CACGAAGGCCTACTAGGCATAAACCCCAATATCACCAGCACGAAACCTACTAGGCACATAGCCCA
*
27080652 ATAACACCAACACGAAGGCTTG
129 ATAACACCAACACGAAGGCCTG
*
27080674 CTAGGCATAAAGCCCGATA
1 CTAGGCATAAAGCCTGATA
27080693 TTACTTGTAT
Statistics
Matches: 145, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
150 29 0.20
151 116 0.80
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (150 bp):
CTAGGCATAAAGCCTGATAACATCGACACGAAGCCTGTTAGGCATAAAGCCCGATAACACCAGCA
CGAAGGCCTACTAGGCATAAACCCCAATATCACCAGCACGAAACCTACTAGGCACATAGCCCAAT
AACACCAACACGAAGGCCTG
Found at i:27080802 original size:12 final size:12
Alignment explanation
Indices: 27080787--27080817 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
27080777 CTTATAAATA
27080787 AGAATTTATATG
1 AGAATTTATATG
27080799 AGAATTTATATG
1 AGAATTTATATG
27080811 AGAATTT
1 AGAATTT
27080818 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (12 bp):
AGAATTTATATG
Found at i:27097427 original size:6 final size:6
Alignment explanation
Indices: 27097416--27097460 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
27097406 ACATAAAAAG
* *
27097416 AAAGAA AAAG-A AAAGAA AAAGAG AAAGAG AAAGAGA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGA-A AAAGAA AAA
27097461 AATATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.14
6 25 0.71
7 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:27097442 original size:12 final size:12
Alignment explanation
Indices: 27097410--27097460 Score: 70
Period size: 11 Copynumber: 4.3 Consensus size: 12
27097400 TCAGTCACAT
27097410 AAAA-AGAAAGA
1 AAAAGAGAAAGA
27097421 AAAAGA-AAAGA
1 AAAAGAGAAAGA
27097432 AAAAGAGAAAGA
1 AAAAGAGAAAGA
*
27097444 GAAAGAGAAAAGA
1 AAAAGAG-AAAGA
27097457 AAAA
1 AAAA
27097461 AATATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 15 0.43
12 12 0.34
13 8 0.23
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAGA
Found at i:27097953 original size:19 final size:20
Alignment explanation
Indices: 27097914--27097956 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
27097904 TAAAATAAAT
27097914 ATAATTACAATTTAAATTTA
1 ATAATTACAATTTAAATTTA
27097934 ATAATTA-AATTGTAAA-TTA
1 ATAATTACAATT-TAAATTTA
27097953 ATAA
1 ATAA
27097957 AAACAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAATTACAATTTAAATTTA
Found at i:27101492 original size:24 final size:24
Alignment explanation
Indices: 27101463--27101546 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
27101453 TAGACTAATA
*
27101463 AGAGTTTGACTGAAACAAATAAGC
1 AGAGTTTAACTGAAACAAATAAGC
*
27101487 AGAGTTTAATTGAAACAAATAAGC
1 AGAGTTTAACTGAAACAAATAAGC
* * **
27101511 AGAGTTTAATTGAAATAAATAAAT
1 AGAGTTTAACTGAAACAAATAAGC
27101535 AGAGTTTAACTG
1 AGAGTTTAACTG
27101547 GAAGATTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAGC
Found at i:27106474 original size:7 final size:7
Alignment explanation
Indices: 27106464--27106496 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27106454 TTTAAAGTTT
27106464 AAGGTTC
1 AAGGTTC
27106471 AAGGTTC
1 AAGGTTC
27106478 AA-GTTC
1 AAGGTTC
*
27106484 AAAGTTC
1 AAGGTTC
27106491 AAGGTT
1 AAGGTT
27106497 TTGATTGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (7 bp):
AAGGTTC
Found at i:27107839 original size:24 final size:24
Alignment explanation
Indices: 27107806--27107858 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
27107796 AAAAATAATT
* *
27107806 TTTTAGTTAAACTATGTTTATTAG
1 TTTTAATTAAACTATATTTATTAG
* * *
27107830 TTTTAATTAAATTTTATTTATTTG
1 TTTTAATTAAACTATATTTATTAG
27107854 TTTTA
1 TTTTA
27107859 GTCAAACTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTTAATTAAACTATATTTATTAG
Found at i:27112790 original size:22 final size:23
Alignment explanation
Indices: 27112765--27112809 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
27112755 TTTTTTTGTC
* *
27112765 AATAATATTTTTATTAA-TATTT
1 AATAATATGTTAATTAATTATTT
*
27112787 AATATTATGTTAATTAATTATTT
1 AATAATATGTTAATTAATTATTT
27112810 TTAATTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AATAATATGTTAATTAATTATTT
Found at i:27118558 original size:59 final size:60
Alignment explanation
Indices: 27118481--27118595 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
27118471 ATCACTTTAA
* * *
27118481 TATTAAATTAACATAATATTTAT-CAAGATAAATATT-AGATTAAATTTTATATTAAATCT
1 TATTAAAATAACAAAATATTTATACAAGATAAATATTGA-ATTAAATTTAATATTAAATCT
*
27118540 TATTAAAATAATAAAATATTTATACAAGATAAATATTGAATTAAATTTAATATTAA
1 TATTAAAATAACAAAATATTTATACAAGATAAATATTGAATTAAATTTAATATTAA
27118596 GATAATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.40
60 29 0.58
61 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (60 bp):
TATTAAAATAACAAAATATTTATACAAGATAAATATTGAATTAAATTTAATATTAAATCT
Found at i:27120682 original size:26 final size:27
Alignment explanation
Indices: 27120653--27120710 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
27120643 TTTCATTATT
*
27120653 ATTAAACTTAATCATTT-T-AATATTAA
1 ATTAAACATAAT-ATTTATAAATATTAA
*
27120679 ATT-AACATAATATTTATAAATATTAG
1 ATTAAACATAATATTTATAAATATTAA
27120705 ATTAAA
1 ATTAAA
27120711 TTTAGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 8 0.30
26 13 0.48
27 2 0.07
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTAAACATAATATTTATAAATATTAA
Found at i:27124975 original size:50 final size:50
Alignment explanation
Indices: 27124919--27125026 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 50
27124909 ATATTAATCT
*
27124919 AATTTAAAATTAAATAAATTTTAAATATAT-AATTATTATTAATTTATTTA
1 AATTTAAAATTAAATAAATTTTAAATATATAAATT-TTATTAATTTATATA
** *** *
27124969 AATTTAAAATTATTTAAATTTTCTCTATGTAAATTTTATTAATTTATATA
1 AATTTAAAATTAAATAAATTTTAAATATATAAATTTTATTAATTTATATA
27125019 AATTTAAA
1 AATTTAAA
27125027 TAAACTAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 46 0.92
51 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (50 bp):
AATTTAAAATTAAATAAATTTTAAATATATAAATTTTATTAATTTATATA
Found at i:27141421 original size:71 final size:71
Alignment explanation
Indices: 27141305--27141448 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 71
27141295 TCCCTCGTCC
27141305 TCGGATAGCTATATTCAATTTTTTACCTCCACAAGCAATACTAATTTTATCATTAATTTTTCGAT
1 TCGGATAGCTATATTCAATTTTTTACCTCCACAAGCAATACTAATTTTATCATTAATTTTTCGAT
27141370 CTTTTT
66 CTTTTT
* *
27141376 TCGGATAGCTATATTCAATTTTTTACCTCCACAAGCAATACTAATTTTGTCATTAATTTTTTGAT
1 TCGGATAGCTATATTCAATTTTTTACCTCCACAAGCAATACTAATTTTATCATTAATTTTTCGAT
27141441 CTTTTT
66 CTTTTT
27141447 TC
1 TC
27141449 CCCAGACTAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (71 bp):
TCGGATAGCTATATTCAATTTTTTACCTCCACAAGCAATACTAATTTTATCATTAATTTTTCGAT
CTTTTT
Found at i:27151145 original size:8 final size:8
Alignment explanation
Indices: 27151121--27151154 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
27151111 AAAATAGGTG
27151121 AAAATAAT
1 AAAATAAT
* *
27151129 ACAACAAT
1 AAAATAAT
27151137 AAAATAAT
1 AAAATAAT
27151145 AAAATAAT
1 AAAATAAT
27151153 AA
1 AA
27151155 TACTATGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:27152725 original size:16 final size:15
Alignment explanation
Indices: 27152704--27152734 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
27152694 ATTAAAATGA
27152704 ATATTTTTTCATTTTT
1 ATATTTTTT-ATTTTT
27152720 ATATTTTTTATTTTT
1 ATATTTTTTATTTTT
27152735 GCTTATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
ATATTTTTTATTTTT
Found at i:27152996 original size:39 final size:39
Alignment explanation
Indices: 27152948--27153512 Score: 556
Period size: 39 Copynumber: 14.2 Consensus size: 39
27152938 TTAGGTTAAA
* * * * * *
27152948 AGATGGGATGGCTTCAATTTGCCCCATAGTTGGGATAAC
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
** *
27152987 AGATTGGATGGCTTCAATCTGCTTCATGGTCGGGGTAAA
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* *
27153026 AGATTGGATGACTTCAATCTGCCTCATGGTCGGGGTAAG
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* *
27153065 AGATTGGATGGCTTCAATTTGCCCCTTTGGTCGGGGTAAG
1 AGATTGGATGGCTTCAATCTGCCCC-ATGGTCGGGGTAAG
* * * * *
27153105 AGACTAGATGGCTTCAATATACCCCATGGTCGAGGTAAG
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* *
27153144 AGATTGGATGATGTCTTCAATCTACCCTATGGTCGGGGTAAG
1 AGATTGGATG--G-CTTCAATCTGCCCCATGGTCGGGGTAAG
* *
27153186 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAA
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* * * * * *
27153225 AGATCGGATGGCTTTAGTTTGCTCCATGGTCGAGGTAAG
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* *
27153264 AGATTGGATGATGTCTTCAATCTGCCCCATGGTCGAGATAAG
1 AGATTGGATG--G-CTTCAATCTGCCCCATGGTCGGGGTAAG
* * * * *
27153306 AGATTGGACGACTTCAATTTGTCCTATGGTCGGGGTAA-
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* * * * *
27153344 ATGATTAGATGACTTCAATCTGTCCCATGGTCGGGATGAG
1 A-GATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* * * **
27153384 AGATCGAATGGCTTTAATCTGCCTTATGGTCGGGGTAAG
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
* * *
27153423 AGATTGGATGATGTCTTCAATTTACCTCATGGTCGGGGTAAG
1 AGATTGGATG--G-CTTCAATCTGCCCCATGGTCGGGGTAAG
* * * *
27153465 AGATTGGATGGGTTCAATCTGTCTCAAGGTCGGGGTAAG
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
27153504 AGATTGGAT
1 AGATTGGAT
27153513 AGTGTCTTTT
Statistics
Matches: 438, Mismatches: 76, Indels: 24
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.00
39 296 0.68
40 37 0.08
41 3 0.01
42 101 0.23
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (39 bp):
AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAG
Found at i:27153201 original size:81 final size:78
Alignment explanation
Indices: 27152948--27153512 Score: 557
Period size: 81 Copynumber: 7.1 Consensus size: 78
27152938 TTAGGTTAAA
* * * * * *
27152948 AGATGGGATGGCTTCAATTTGCCCCATAGTTG-GGATAACAGATTGGATGGCTTCAATCTG-CTT
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGG-TAAGAGATTGGATGGCTTCAATCTGCCCT
*
27153011 CATGGTCGGGGTAAA
65 -ATGGTCGGGGTAAG
* * * *
27153026 AGATTGGATGACTTCAATCTGCCTCATGGTCGGGGTAAGAGATTGGATGGCTTCAATTTGCCCCT
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGGCTTCAATCTG-CCCT
*
27153091 TTGGTCGGGGTAAG
65 ATGGTCGGGGTAAG
* * * * *
27153105 AGACTAGATGGCTTCAATATACCCCATGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTACC
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATG--G-CTTCAATCTGCC
27153170 CTATGGTCGGGGTAAG
63 CTATGGTCGGGGTAAG
* * * * *
27153186 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAAAGATCGGATGGCTTTAGTTTGCTCC-
1 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGGCTTCAATCTGC-CCT
*
27153250 ATGGTCGAGGTAAG
65 ATGGTCGGGGTAAG
* * * * *
27153264 AGATTGGATGATGTCTTCAATCTGCCCCATGGTCGAGATAAGAGATTGGACGACTTCAATTTGTC
1 AGATTGGATG--G-CTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGGCTTCAATCTGCC
27153329 CTATGGTCGGGGTAA-
63 CTATGGTCGGGGTAAG
* * * * * * * *
27153344 ATGATTAGATGACTTCAATCTGTCCCATGGTCG-GGATGAGAGATCGAATGGCTTTAATCTGCCT
1 A-GATTGGATGGCTTCAATCTGCCCCATGGTCGAGG-TAAGAGATTGGATGGCTTCAATCTGCCC
27153408 TATGGTCGGGGTAAG
64 TATGGTCGGGGTAAG
* * * * * *
27153423 AGATTGGATGATGTCTTCAATTTACCTCATGGTCGGGGTAAGAGATTGGATGGGTTCAATCTG-T
1 AGATTGGATG--G-CTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGGCTTCAATCTGCC
*
27153487 CTCAAGGTCGGGGTAAG
63 CT-ATGGTCGGGGTAAG
27153504 AGATTGGAT
1 AGATTGGAT
27153513 AGTGTCTTTT
Statistics
Matches: 400, Mismatches: 68, Indels: 35
0.80 0.14 0.07
Matches are distributed among these distances:
77 1 0.00
78 140 0.35
79 60 0.15
80 7 0.02
81 182 0.46
82 10 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (78 bp):
AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGGCTTCAATCTGCCCTA
TGGTCGGGGTAAG
Found at i:27153275 original size:120 final size:120
Alignment explanation
Indices: 27152948--27153520 Score: 601
Period size: 120 Copynumber: 4.8 Consensus size: 120
27152938 TTAGGTTAAA
* * * * * *
27152948 AGATGGGATGGCTTCAATTTGCCCCATAGTTGGGATAACAGATTGGATGGCTTCAATCTGCTTCA
1 AGATTGGATGGCTTCAATTTGCCCCATGGTCGGGGTAAAAGATTGGATGGCTTCAATCTGCTCCA
* *
27153013 TGGTCGGGGTAAAAGATTGGATGA---CTTCAATCTG-CCTCATGGTCGGGGTAAG
66 TGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCT-ATGGTCGGGGTAAG
* * * * * * *
27153065 AGATTGGATGGCTTCAATTTGCCCCTTTGGTCGGGGTAAGAGACTAGATGGCTTCAATATACCCC
1 AGATTGGATGGCTTCAATTTGCCCC-ATGGTCGGGGTAAAAGATTGGATGGCTTCAATCTGCTCC
*
27153130 ATGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTACCCTATGGTCGGGGTAAG
65 ATGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCTATGGTCGGGGTAAG
* * * * * *
27153186 AGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAAAGATCGGATGGCTTTAGTTTGCTCCA
1 AGATTGGATGGCTTCAATTTGCCCCATGGTCGGGGTAAAAGATTGGATGGCTTCAATCTGCTCCA
* * *
27153251 TGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGGTCGAGATAAG
66 TGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCTATGGTCGGGGTAAG
* * * * * * *
27153306 AGATTGGACGACTTCAATTTGTCCTATGGTCGGGGTAAATGATTAGATGACTTCAATCTG-TCCC
1 AGATTGGATGGCTTCAATTTGCCCCATGGTCGGGGTAAAAGATTGGATGGCTTCAATCTGCT-CC
* * * * *
27153370 ATGGTCG-GGATGAGAGA-TCGA--ATGGCTTTAATCTGCCTTATGGTCGGGGTAAG
65 ATGGTCGAGG-TAAGAGATTGGATGATGTCTTCAATCTGCCCTATGGTCGGGGTAAG
* * * *
27153423 AGATTGGATGATGTCTTCAATTTACCTCATGGTCGGGGTAAGAGATTGGATGGGTTCAATCTG-T
1 AGATTGGATG--G-CTTCAATTTGCCCCATGGTCGGGGTAAAAGATTGGATGGCTTCAATCTGCT
* *
27153487 CTCAAGGTCGGGGTAAGAGATTGGAT-AGTGTCTT
63 C-CATGGTCGAGGTAAGAGATTGGATGA-TGTCTT
27153521 TTCCTTGCTC
Statistics
Matches: 374, Mismatches: 67, Indels: 24
0.80 0.14 0.05
Matches are distributed among these distances:
117 59 0.16
118 51 0.14
119 7 0.02
120 196 0.52
121 52 0.14
122 4 0.01
123 5 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (120 bp):
AGATTGGATGGCTTCAATTTGCCCCATGGTCGGGGTAAAAGATTGGATGGCTTCAATCTGCTCCA
TGGTCGAGGTAAGAGATTGGATGATGTCTTCAATCTGCCCTATGGTCGGGGTAAG
Found at i:27167427 original size:23 final size:24
Alignment explanation
Indices: 27167369--27167429 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
27167359 ACGAATGGAG
* *
27167369 AGCA-TAAAGGTGC-AAGACGGAG
1 AGCACTAAATGTGCTAAGACGGAA
*
27167391 AGCAC-AAATCTGCTAA-ACGGAA
1 AGCACTAAATGTGCTAAGACGGAA
27167413 AGCACTAAATGTGCTAA
1 AGCACTAAATGTGCTAA
27167430 TAAGCGGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.15
Consensus pattern (24 bp):
AGCACTAAATGTGCTAAGACGGAA
Found at i:27174528 original size:18 final size:17
Alignment explanation
Indices: 27174477--27174528 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
27174467 ACACGATTCA
* *
27174477 TTTTAAATT-TATAATA
1 TTTTATATTATATAATT
*
27174493 TTTTATATTATATTATT
1 TTTTATATTATATAATT
*
27174510 TTTATATATTGTATAATT
1 TTT-TATATTATATAATT
27174528 T
1 T
27174529 AAAATATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 8 0.28
17 8 0.28
18 13 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATTATATAATT
Found at i:27174644 original size:16 final size:16
Alignment explanation
Indices: 27174611--27174670 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
27174601 AGATAATTAT
*
27174611 ATAAAAAATTTA-ATAA
1 ATAAAAAATATATA-AA
27174627 ATAAAAAATATATAAA
1 ATAAAAAATATATAAA
**
27174643 ATTATTAAATAT-TAAA
1 A-TAAAAAATATATAAA
27174659 ATAAATAAATAT
1 ATAAA-AAATAT
27174671 TTTAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 2 0.06
16 25 0.69
17 9 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAAATATATAAA
Found at i:27174659 original size:25 final size:24
Alignment explanation
Indices: 27174609--27174680 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
27174599 TAAGATAATT
* *
27174609 ATATAAAAAATTTAATAAATAAAAA
1 ATATATAAAA-TTATTAAATAAAAA
*
27174634 ATATATAAAATTATTAAATATTAAA
1 ATATATAAAATTATTAAATA-AAAA
*
27174659 ATAAATAAATATT-TTAAA-AAAA
1 ATATATAAA-ATTATTAAATAAAA
27174681 TTTAGACTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.05
24 10 0.25
25 25 0.62
26 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATATAAAATTATTAAATAAAAA
Found at i:27174671 original size:16 final size:16
Alignment explanation
Indices: 27174625--27174671 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
27174615 AAAATTTAAT
27174625 AAATAAA-AAATATATA
1 AAATAAATAAATAT-TA
* *
27174641 AAATTATTAAATATTA
1 AAATAAATAAATATTA
27174657 AAATAAATAAATATT
1 AAATAAATAAATATT
27174672 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAAATAAATATTA
Found at i:27175027 original size:24 final size:23
Alignment explanation
Indices: 27175000--27175044 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
27174990 TGTGTTTTTC
27175000 TTTTTTAATTGTAATT-AATTTAAA
1 TTTTTTAA-TG-AATTAAATTTAAA
27175024 TTTTTTAATGAATTAAATTTA
1 TTTTTTAATGAATTAAATTTA
27175045 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTTAATGAATTAAATTTAAA
Done.