Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 290 of 320
Found at i:92898827 original size:88 final size:85
Alignment explanation
Indices: 92898735--92899065 Score: 280
Period size: 88 Copynumber: 3.8 Consensus size: 85
92898725 CCACTGCTGT
* * * *
92898735 TTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC-CTACTGCTTAGGGAGATAAGATCTTTA
1 TTAGGG-GATAAGAACTG--ATTTTCAGTCTGCT-CCACTACTGCTTAGGGAGATAAGATCTATA
92898799 ATTTTCAGCCTGTTACCCTACTGC
62 ATTTTCAGCCTGTTACCCTACTGC
* *
92898823 TTAGGGGGTATAGGAACTCG--TTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
1 TTA-GGGG-ATAAGAACT-GATTTTCAGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
*
92898886 TTTTCAGCTTGTTACCCTACTGC
63 TTTTCAGCCTGTTACCCTACTGC
* * * * * * * *
92898909 TTAGATGGTTAAGGCTCACTG-TCTTC-GATCTGCTCCGCTACTACTTAAGGAGATAAGATCTGT
1 TTAG-GGGATAA-G--AACTGATTTTCAG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
92898972 AATTTTCAGCCTGTTACCCTACTGC
61 AATTTTCAGCCTGTTACCCTACTGC
* * * * *
92898997 TTAGGGGGTTAAG-GCTCACAGTCTTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 TTA-GGGGATAAGAACT--GA-TTTTCAG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
92899060 AATTTT
61 AATTTT
92899066 TACCGATGTT
Statistics
Matches: 204, Mismatches: 24, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
84 2 0.01
85 5 0.02
86 64 0.31
87 2 0.01
88 119 0.58
89 11 0.05
90 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (85 bp):
TTAGGGGATAAGAACTGATTTTCAGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTT
TCAGCCTGTTACCCTACTGC
Found at i:92898907 original size:218 final size:220
Alignment explanation
Indices: 92898564--92899002 Score: 634
Period size: 218 Copynumber: 2.0 Consensus size: 220
92898554 ACTGTTTAAA
* ** **
92898564 GAGATAAAATCTGTAATTTTTAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACAGTCTTC
1 GAGATAAAATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGAACACAGTCTTC
* * *
92898629 AATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTA
66 AATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTCTAGCCTGTTACCCTACTGCTTA
* * ** *
92898694 GAGGGTTAAGGTTCACTGTCTTCGATCTACTCCACTGCTGTTTAGGGAGATAAGATCTGTAATTT
131 GAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAATTT
92898759 TCAGCCTGTTACCCTACTGCTTAGG
196 TCAGCCTGTTACCCTACTGCTTAGG
* * * *
92898784 GAGATAAGATCTTTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGG-TATAGGAACTC-GT-TT
1 GAGATAAAATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTA-AGGAACACAGTCTT
* *
92898846 CAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTT-TCAGCTTGTTACCCTACTGCT
65 CAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTCT-AGCCTGTTACCCTACTGCT
* * *
92898910 TAGATGGTTAAGGCTCACTGTCTTCGATCTGCTCCGCTACTACTTAAGGAGATAAGATCTGTAAT
129 TAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAAT
92898975 TTTCAGCCTGTTACCCTACTGCTTAGG
194 TTTCAGCCTGTTACCCTACTGCTTAGG
92899002 G
1 G
92899003 GGTTAAGGCT
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
217 1 0.01
218 144 0.74
219 4 0.02
220 46 0.24
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (220 bp):
GAGATAAAATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGAACACAGTCTTC
AATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTCTAGCCTGTTACCCTACTGCTTA
GAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAATTT
TCAGCCTGTTACCCTACTGCTTAGG
Found at i:92898908 original size:130 final size:131
Alignment explanation
Indices: 92898640--92898912 Score: 385
Period size: 130 Copynumber: 2.1 Consensus size: 131
92898630 ATCTGCTCCG
92898640 CTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
1 CTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
* * * * *
92898705 TTCACTGTCTTCGATCTACTCCACTGCTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTA
66 -TAACTGTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTA
92898770 CC
130 CC
* *
92898772 CTACTGCTTAGGGAGATAAGATCTT-TAATTT-TCAGCCTGTTACCCTACTGCTTAG-GGGGTAT
1 CTACTGCTTAGGGAGACAAGAT-TTGTAATTTCT-AGCCTGTTACCCTACTGCTTAGAGGGTTA-
* *
92898834 AGG-AACTCGT-TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTG
63 AGGTAACT-GTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTG
92898897 TTACC
127 TTACC
92898902 CTACTGCTTAG
1 CTACTGCTTAG
92898913 ATGGTTAAGG
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
130 66 0.52
131 8 0.06
132 52 0.41
133 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (131 bp):
CTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
TAACTGTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTAC
C
Found at i:92899023 original size:306 final size:307
Alignment explanation
Indices: 92898464--92899065 Score: 836
Period size: 306 Copynumber: 2.0 Consensus size: 307
92898454 ATCTGCTCCA
*
92898464 CTACTGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACTCTACTGCTTAGGGGGTTAAGG
1 CTACTGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACCCTACTGCTTAGGGGGTTAAGG
* ** * * * *
92898529 CTCACTGTCTTTGATCTACTCCACTACTGTTTAAAGAGATAAAATCTGTAATTTTTAGCCTATTT
66 C-AACTGTCTTCAATCTACTCCACTACTGCTTAAAGAGATAAAATCTATAATTTTCAGCCTATTA
* * * *
92898594 TCCTACTGCTTAGGGGGTTAAGGCTCACAGTCTTCAATCTGCTCCGCTACTGCTTAGGGAGACAA
130 CCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCAATCTGCTCCGCTACTACTTAAGGAGACAA
* * *
92898659 GATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGTTCACTGTCTTCGATCTAC
195 GATCTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCGATCTAC
* *
92898724 TCCACTGCTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
260 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
* **
92898772 CTACTGCTTAGGGAGATAAGATCTTTAATTTTC-AGCCTGTTACCCTACTGCTTAGGGGG-TATA
1 CTACTGCTTAGGGAGATAAAATCCGTAATTTTCTA-CCTGTTACCCTACTGCTTAGGGGGTTA-A
* ** * * *
92898835 GG-AACTCGT-TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTGT
64 GGCAACT-GTCTTCAATCTACTCCACTACTGCTTAAAGAGATAAAATCTATAATTTTCAGCCTAT
* * * *
92898898 TACCCTACTGCTTAGATGGTTAAGGCTCACTGTCTTCGATCTGCTCCGCTACTACTTAAGGAGAT
128 TACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCAATCTGCTCCGCTACTACTTAAGGAGAC
*
92898963 AAGATCTGTAATTT-TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACAGTCTTCGATC
193 AAGATCTGTAATTTCT-AGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCGATC
*
92899027 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
257 TACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
92899066 TACCGATGTT
Statistics
Matches: 258, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
305 1 0.00
306 196 0.76
307 5 0.02
308 56 0.22
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (307 bp):
CTACTGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACCCTACTGCTTAGGGGGTTAAGG
CAACTGTCTTCAATCTACTCCACTACTGCTTAAAGAGATAAAATCTATAATTTTCAGCCTATTAC
CCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCAATCTGCTCCGCTACTACTTAAGGAGACAAG
ATCTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
Found at i:92911103 original size:21 final size:21
Alignment explanation
Indices: 92911078--92911123 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
92911068 AATAGTAAAA
*
92911078 AATAAGAATAAAAACAAGAAT
1 AATAAAAATAAAAACAAGAAT
* *
92911099 AATAAAAATAAGAATAAGAAT
1 AATAAAAATAAAAACAAGAAT
92911120 AATA
1 AATA
92911124 GTCATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (21 bp):
AATAAAAATAAAAACAAGAAT
Found at i:92911104 original size:15 final size:15
Alignment explanation
Indices: 92911084--92911115 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92911074 AAAAAATAAG
92911084 AATAAAAACAAGAAT
1 AATAAAAACAAGAAT
*
92911099 AATAAAAATAAGAAT
1 AATAAAAACAAGAAT
92911114 AA
1 AA
92911116 GAATAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (15 bp):
AATAAAAACAAGAAT
Found at i:92911123 original size:15 final size:15
Alignment explanation
Indices: 92911075--92911123 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
92911065 AATAATAGTA
92911075 AAAAATAAGAAT---
1 AAAAATAAGAATAAG
* *
92911087 AAAAACAAGAATAAT
1 AAAAATAAGAATAAG
92911102 AAAAATAAGAATAAG
1 AAAAATAAGAATAAG
*
92911117 AATAATA
1 AAAAATA
92911124 GTCATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.37
15 19 0.63
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAAATAAGAATAAG
Found at i:92917215 original size:3 final size:3
Alignment explanation
Indices: 92917209--92917242 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
92917199 ATATCAAAAC
92917209 TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
92917243 ATGTATACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:92919338 original size:46 final size:46
Alignment explanation
Indices: 92919285--92919460 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
92919275 TATTTGGGCA
92919285 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
92919331 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
92919378 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
92919424 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92919461 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:92919440 original size:93 final size:93
Alignment explanation
Indices: 92919281--92919453 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
92919271 GGGATATTTG
* *
92919281 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92919346 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
92919374 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92919439 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
92919454 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:92920930 original size:24 final size:23
Alignment explanation
Indices: 92920897--92920942 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
92920887 GGGTCTGGGT
*
92920897 TTAGTAGGTTTTGGGGTTATTGGC
1 TTAGTAGGTTTAGGGGTT-TTGGC
*
92920921 TTAGTGGGTTTAGGGGTTTTGG
1 TTAGTAGGTTTAGGGGTTTTGG
92920943 GCCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (23 bp):
TTAGTAGGTTTAGGGGTTTTGGC
Found at i:92921658 original size:224 final size:219
Alignment explanation
Indices: 92921261--92921777 Score: 657
Period size: 224 Copynumber: 2.3 Consensus size: 219
92921251 TTTCAGCCTG
*
92921261 TTACCCTACTGCTTAGGGGGTTAAGGCCCATTATCTGT-GATCTGTTTCCCTACTGCTTAGGGTG
1 TTACCCTACTGCTTAGGGGGTTAA-GCCCATCATCT-TCGATCTGTTTCCCTACTGCTTAGGGTG
* * * * * * *
92921325 ATAAGATCTGTAGATTCAGTCTGTTCCATTATAACTTCAGAGAGATAAGAATTGCTAGATTCAAT
64 ATAAGATCTATAAATTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGAAGTGCTAGATGCAAT
* *
92921390 CTGTTCCACTGCAACTTCAGGGAGACAAGATCTGTAACTTTCAGCCTATTACCCTACTACTTAGG
129 CTGTTCCACTGCAACTTCAGGAAGACAAGATCTGTAACTTTCAGCCCATTACCCTACTACTTAGG
92921455 GGGTTAAGG-TCTGTAAATTTGGCTTGC
194 GGGTTAAGGCT-TGTAAATTTGGCTT-C
* *
92921482 -TACCTTACTGCTTAGGGGGTTAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG-GTT
1 TTACCCTACTGCTTAGGGGGTTAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGAT
* * *
92921545 AAGATCTATAAATTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGACTAGTGACTAGTGACTG
66 AAGATCTATAAATTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGA--AGTG-CTA--GA-TG
* * * ** *
92921610 CAATCTGCTT-CACTGCAACTTCAGGAAGGCTAGATTTGTAGTTTTCAGCCCATTACCCTACTGC
125 CAATCTG-TTCCACTGCAACTTCAGGAAGACAAGATCTGTAACTTTCAGCCCATTACCCTACTAC
*
92921674 TTAGGGGGTTAAGGCTTGTAACTTTGGCTTC
189 TTAGGGGGTTAAGGCTTGTAAATTTGGCTTC
* * * *
92921705 TTACCCTACTACTTAGGTGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTGCTTAGGGTGA
1 TTACCCTACTGCTTAGGGGGTT-AAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGA
92921770 TAAGATCT
65 TAAGATCT
92921778 GTAGATCTTC
Statistics
Matches: 256, Mismatches: 28, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
218 43 0.17
219 34 0.13
220 25 0.10
221 3 0.01
223 3 0.01
224 99 0.39
225 40 0.16
226 9 0.04
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (219 bp):
TTACCCTACTGCTTAGGGGGTTAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGAT
AAGATCTATAAATTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGAAGTGCTAGATGCAATCT
GTTCCACTGCAACTTCAGGAAGACAAGATCTGTAACTTTCAGCCCATTACCCTACTACTTAGGGG
GTTAAGGCTTGTAAATTTGGCTTC
Found at i:92921835 original size:88 final size:87
Alignment explanation
Indices: 92921705--92921911 Score: 245
Period size: 88 Copynumber: 2.3 Consensus size: 87
92921695 CTTTGGCTTC
* * ** * * *
92921705 TTACCCTACTACTTAGGTGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTGCTTAGGGTGA
1 TTACCCTACTGCTTAGG-GGTTAAGGCTTGTCATCTTCGATCTATATCCCTACTACTTAGGGGGA
*
92921770 TAAGATCTGTAGATCTTCAGCCT-G
65 TAAGATCTGTA-AACTTCAG-CTGG
* * *
92921794 TTATCCTACTGCTTAGGGGTTAAGGCTTGTCATCTTTGATCTATATCCCTACTACTTAGGGGGTT
1 TTACCCTACTGCTTAGGGGTTAAGGCTTGTCATCTTCGATCTATATCCCTACTACTTAGGGGGAT
**
92921859 AAGATCTGTAAACTTTTGCTGG
66 AAGATCTGTAAACTTCAGCTGG
92921881 TTACCCTACTGCTTAGGGGGTTTAAGGCTTG
1 TTACCCTACTGCTTA-GGGG-TTAAGGCTTG
92921912 GTGGTTTGAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
86 2 0.02
87 20 0.20
88 54 0.53
89 25 0.25
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (87 bp):
TTACCCTACTGCTTAGGGGTTAAGGCTTGTCATCTTCGATCTATATCCCTACTACTTAGGGGGAT
AAGATCTGTAAACTTCAGCTGG
Found at i:92922118 original size:43 final size:42
Alignment explanation
Indices: 92921978--92922128 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 42
92921968 ATCTGCTTTA
* * * * * *
92921978 CTACTGCTTAGGGTGATAAGATCTATGAACTTTAGCTTGTTACC
1 CTACTGCTTAGGGGGTTAAGATCT-CGAA-TTCAACCTGTTACC
* * * * * *
92922022 CTACTGCTTAGGGGGCTAA-AGCTCGTCACCTTCGATCTGTTTCC
1 CTACTGCTTAGGGGGTTAAGATCTCG--A-ATTCAACCTGTTACC
92922066 CTACTGCTTAGGGGGTTAAGATCTGCGAATTCAACCTGTTACC
1 CTACTGCTTAGGGGGTTAAGATCT-CGAATTCAACCTGTTACC
92922109 CTACTGCTTAGGGGGTTAAG
1 CTACTGCTTAGGGGGTTAAG
92922129 GCCTGGTGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 34 0.40
44 45 0.53
45 3 0.04
46 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (42 bp):
CTACTGCTTAGGGGGTTAAGATCTCGAATTCAACCTGTTACC
Found at i:92935281 original size:5 final size:5
Alignment explanation
Indices: 92935258--92935342 Score: 134
Period size: 5 Copynumber: 16.6 Consensus size: 5
92935248 AAGAATTTAC
* *
92935258 TTATA TTATAA GTAAA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
92935309 TTATA TTATA TTATA TTATA TTATA TTATTA TTA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTA
92935343 AAATGTATTA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
5 66 0.89
6 8 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:92938409 original size:4 final size:4
Alignment explanation
Indices: 92938400--92938440 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
92938390 GTGAGTCTGC
92938400 TTCT TTCT TTCT TTCT CTT-T TTCT TTCT TTCTT TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTC-T TTCT TTCT
92938441 AATTTTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 26 0.76
5 6 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:92938425 original size:20 final size:19
Alignment explanation
Indices: 92938400--92938438 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
92938390 GTGAGTCTGC
92938400 TTCTTTCTTTCTTTCTCTTT
1 TTCTTTCTTTCTTT-TCTTT
92938420 TTCTTTCTTTCTTTTCTTT
1 TTCTTTCTTTCTTTTCTTT
92938439 CTAATTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTCTTTCTTTCTTTTCTTT
Found at i:92943708 original size:3 final size:3
Alignment explanation
Indices: 92943700--92943750 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
92943690 CAAGCCTGTT
* * * *
92943700 TCA TCA TCA ACA TCA TCA TCG TCCA -CA CCA TTA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA T-CA TCA TCA TCA TCA TCA TCA TCA
92943745 TCA TCA
1 TCA TCA
92943751 CTGTCATCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.92
4 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:92956204 original size:26 final size:26
Alignment explanation
Indices: 92956148--92956205 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
92956138 CTTTTACCTA
**
92956148 AATAAAAAAAATAAAAATAACATGCC
1 AATAAAAAAAATAAAAATAACATAAC
92956174 AATAAAAAAATATAACAAA-AACATAAC
1 AATAAAAAAA-ATAA-AAATAACATAAC
92956201 -ATAAA
1 AATAAA
92956206 CTATCTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.54
27 10 0.36
28 3 0.11
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (26 bp):
AATAAAAAAAATAAAAATAACATAAC
Found at i:92957020 original size:6 final size:6
Alignment explanation
Indices: 92957009--92957039 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
92956999 TGAGGGAAGA
*
92957009 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
92957040 GAATGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:92957034 original size:18 final size:18
Alignment explanation
Indices: 92957011--92957062 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
92957001 AGGGAAGAAA
92957011 AAAGAAAAAGAAAAAGAG
1 AAAGAAAAAGAAAAAGAG
* *
92957029 AAAGAAAAAGAGAATGAG
1 AAAGAAAAAGAAAAAGAG
* *
92957047 -AAGAAGAAGAAGAAGA
1 AAAGAAAAAGAAAAAGA
92957063 AGAGGGTGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGAG
Found at i:92957048 original size:26 final size:26
Alignment explanation
Indices: 92957004--92957066 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
92956994 ATAGGTGAGG
92957004 GAAGAAAAA-AGAAAAAGAAAAAG-A
1 GAAGAAAAAGAGAAAAAGAAAAAGAA
** *
92957028 GAAAGAAAAAGAGAATGAGAAGAAGAA
1 G-AAGAAAAAGAGAAAAAGAAAAAGAA
*
92957055 GAAGAAGAAGAG
1 GAAGAAAAAGAG
92957067 GGTGGGAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 8 0.25
26 21 0.66
27 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (26 bp):
GAAGAAAAAGAGAAAAAGAAAAAGAA
Found at i:92957053 original size:14 final size:12
Alignment explanation
Indices: 92957009--92957042 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
92956999 TGAGGGAAGA
*
92957009 AAAAAGAAAAAG
1 AAAAAGAGAAAG
92957021 AAAAAGAGAAAG
1 AAAAAGAGAAAG
92957033 AAAAAGAGAA
1 AAAAAGAGAA
92957043 TGAGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:92957149 original size:27 final size:27
Alignment explanation
Indices: 92957096--92957150 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
92957086 TAATATTTTT
* *
92957096 TTTAAGGAAATAATTTTTTATTGTTAA
1 TTTAAGGAAATAATTATTTATTATTAA
92957123 TTTAAGGAAATAAATTATTTA-TATTAA
1 TTTAAGGAAAT-AATTATTTATTATTAA
92957150 T
1 T
92957151 GGTTAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (27 bp):
TTTAAGGAAATAATTATTTATTATTAA
Found at i:92957526 original size:14 final size:14
Alignment explanation
Indices: 92957507--92957535 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92957497 AGCTTAATAG
92957507 TATATTTTAAAAAA
1 TATATTTTAAAAAA
92957521 TATATTTTAAAAAA
1 TATATTTTAAAAAA
92957535 T
1 T
92957536 TTGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:92957788 original size:147 final size:145
Alignment explanation
Indices: 92957502--92958422 Score: 1352
Period size: 146 Copynumber: 6.3 Consensus size: 145
92957492 AGAATAGCTT
** ** *
92957502 AATAGTATATTTTAAAAAATATATTTTAAAAAATTTGAAAATAAAATAAAAAAGGCCAAAATCAG
1 AATAGTATATTTTAAAAAATA-AAATCCAAAAA--T-AAAATAAAA-AAAAACGGCCAAAATCAG
* *
92957567 AGTTTTTTACTAAATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACTAAAATA
61 AGTTTTTTACTAAATTAATATAAA-AAACTAAAATAATACATTTGAAACATTATGTACTAAAATA
92957632 ATATAAAAAATAAAATACGAA
125 ATATAAAAAATAAAATACGAA
* *
92957653 AATAGTATATTTTAATAAATAAAATCCAAAAATAAAATAAAAAACAAACGGCCAGAATCAGAGTT
1 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAA-AAACGGCCAAAATCAGAGTT
*
92957718 TTTTACTAAATTAATATAAAAAATTAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
65 TTTTACTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-
92957783 AAAAAATAAAATACGAA
129 AAAAAATAAAATACGAA
* * *
92957800 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAT--AAAAAAAGGGCCAAAATCACAGATT
1 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTT
92957863 TTTACTAAATTAATATAAAAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT-
66 TTTACTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
92957925 AAAAATAAAATACGAA
130 AAAAATAAAATACGAA
* * * *
92957941 AATAGTATATTTTAAAAAATAAAATCCGAAAAT-AAA-AATATAAAAGGGCCAAAATCAGAGTTT
1 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAAAAACGGCCAAAATCAGAG-TT
* * *
92958004 TTTTTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAATATTATTTACTAAAATAATAT
65 TTTTACTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
92958069 AAACAATAAAATACGAA
129 AAAAAATAAAATACGAA
*
92958086 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAATAAACAGCCAAAATCAGAGTT
1 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAA-AAACGGCCAAAATCAGAGTT
* *
92958151 TTTTACTAAATTAATATAAAAAACTAAAAAAATACATTTGAAACATTATATACTAAAATAATATA
65 TTTTACTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
92958216 AAAAATAAAATACGAA
130 AAAAATAAAATACGAA
* * *
92958232 AATAATATATTTTAAAAAGTAAAATCCGAAAATAAAATAAAAAAAATAAACGGCCAAAATCAGAG
1 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAT--AAAAAA-AAACGGCCAAAATCAGAG
*
92958297 TTTTTTACTAAATTAATATAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAA
63 TTTTTTACTAAATTAATAT-AAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAA
*
92958362 TATAAAAAATAAAATACAAA
126 TATAAAAAATAAAATACGAA
* * *
92958382 AATAATATATTTTAAAAAATAGAATCTAAAAATAAAATAAA
1 AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAA
92958423 TACCAAAATA
Statistics
Matches: 707, Mismatches: 47, Indels: 35
0.90 0.06 0.04
Matches are distributed among these distances:
140 3 0.00
141 67 0.09
142 37 0.05
143 26 0.04
144 57 0.08
145 69 0.10
146 141 0.20
147 123 0.17
148 63 0.09
149 5 0.01
150 96 0.14
151 20 0.03
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.28
Consensus pattern (145 bp):
AATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAAAAACGGCCAAAATCAGAGTTT
TTTACTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
AAAATAAAATACGAA
Found at i:92958118 original size:13 final size:12
Alignment explanation
Indices: 92958098--92958133 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
92958088 TAGTATATTT
92958098 TAAAAAATAAAA
1 TAAAAAATAAAA
*
92958110 TCCAAAAATAAAA
1 T-AAAAAATAAAA
92958123 TAAAAAATAAA
1 TAAAAAATAAA
92958134 CAGCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:92958222 original size:12 final size:13
Alignment explanation
Indices: 92958198--92958240 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
92958188 TTGAAACATT
*
92958198 ATATACTAAAATA
1 ATATACAAAAATA
92958211 ATATA-AAAAATA
1 ATATACAAAAATA
* *
92958223 AAATACGAAAATA
1 ATATACAAAAATA
92958236 ATATA
1 ATATA
92958241 TTTTAAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (13 bp):
ATATACAAAAATA
Found at i:92958233 original size:25 final size:26
Alignment explanation
Indices: 92958200--92958275 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 26
92958190 GAAACATTAT
*
92958200 ATACTAAAATAATATAAAAAA-TAAA
1 ATACGAAAATAATATAAAAAAGTAAA
92958225 ATACGAAAATAATATATTTTAAAAAGTAAA
1 ATACGAAAATAATATA----AAAAAGTAAA
* *
92958255 ATCCGAAAATAAAATAAAAAA
1 ATACGAAAATAATATAAAAAA
92958276 AATAAACGGC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
25 15 0.35
26 5 0.12
29 5 0.12
30 18 0.42
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (26 bp):
ATACGAAAATAATATAAAAAAGTAAA
Found at i:92958372 original size:12 final size:13
Alignment explanation
Indices: 92958355--92958390 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
92958345 ATTATGTACT
92958355 AAAATAATATA-A
1 AAAATAATATACA
*
92958367 AAAATAAAATACA
1 AAAATAATATACA
92958380 AAAATAATATA
1 AAAATAATATA
92958391 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:92958411 original size:54 final size:55
Alignment explanation
Indices: 92958318--92958422 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 55
92958308 ATTAATATAA
* * * *
92958318 AAAATACAAAAATAATACATTTGAAACATTATGTACT-AAAATAATATAAAAAAT
1 AAAATACAAAAATAATACATTTGAAAAAATATGAACTAAAAATAAAATAAAAAAT
* *
92958372 AAAATACAAAAATAATATATTTTAAAAAATA-GAATCTAAAAATAAAATAAA
1 AAAATACAAAAATAATACATTTGAAAAAATATGAA-CTAAAAATAAAATAAA
92958423 TACCAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
53 2 0.05
54 29 0.67
55 12 0.28
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.27
Consensus pattern (55 bp):
AAAATACAAAAATAATACATTTGAAAAAATATGAACTAAAAATAAAATAAAAAAT
Found at i:92964759 original size:22 final size:22
Alignment explanation
Indices: 92964734--92964775 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
92964724 TACCTTTTCT
92964734 TTTCTTTTCTTTCT-TCTTCTCC
1 TTTC-TTTCTTTCTATCTTCTCC
92964756 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCTATCTTCT
92964776 TCTTCTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTATCTTCTCC
Found at i:92964773 original size:25 final size:27
Alignment explanation
Indices: 92964729--92964778 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
92964719 AAAATTACCT
*
92964729 TTTCTTTTCTTTTCTTTCTTCTTCTCC
1 TTTCTTTTCTTTTCTATCTTCTTCTCC
92964756 TTTC-TTTC-TTTCTATCTTCTTCT
1 TTTCTTTTCTTTTCTATCTTCTTCT
92964779 TCTGTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 4 0.18
27 4 0.18
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTCTTTTCTTTTCTATCTTCTTCTCC
Found at i:92964908 original size:27 final size:27
Alignment explanation
Indices: 92964874--92964926 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
92964864 AGGCACCGCT
92964874 GGTGCCGCCTGTAGGGTACCCTCCACC
1 GGTGCCGCCTGTAGGGTACCCTCCACC
* *
92964901 GGTGCCGCTTGTGGGGTACCCTCCAC
1 GGTGCCGCCTGTAGGGTACCCTCCAC
92964927 TAATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.09, C:0.38, G:0.32, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTGTAGGGTACCCTCCACC
Found at i:92965480 original size:10 final size:9
Alignment explanation
Indices: 92965454--92965500 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
92965444 TCTCCTTTCC
*
92965454 TTTTCTATT
1 TTTTCTCTT
92965463 TATTTCT-TT
1 T-TTTCTCTT
*
92965472 CTTTCTCTT
1 TTTTCTCTT
92965481 TTTTCCTCTT
1 TTTT-CTCTT
92965491 TTTTCTCTT
1 TTTTCTCTT
92965500 T
1 T
92965501 CTTTTTTCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 5 0.15
9 14 0.42
10 14 0.42
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:92970663 original size:21 final size:21
Alignment explanation
Indices: 92970637--92970677 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92970627 AGACGAGCAA
* *
92970637 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
92970658 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
92970678 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:92971446 original size:16 final size:16
Alignment explanation
Indices: 92971425--92971456 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
92971415 ACAATTGTGT
92971425 ATATTTGCAGAAGCTG
1 ATATTTGCAGAAGCTG
92971441 ATATTTGCAGAAGCTG
1 ATATTTGCAGAAGCTG
92971457 CATGACGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
ATATTTGCAGAAGCTG
Found at i:92974025 original size:15 final size:15
Alignment explanation
Indices: 92974007--92974038 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92973997 ATCGTAACTT
92974007 ATATTCAATGATCTC
1 ATATTCAATGATCTC
*
92974022 ATATTGAATGATCTC
1 ATATTCAATGATCTC
92974037 AT
1 AT
92974039 GCTATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (15 bp):
ATATTCAATGATCTC
Found at i:92976066 original size:102 final size:104
Alignment explanation
Indices: 92975923--92976131 Score: 323
Period size: 105 Copynumber: 2.0 Consensus size: 104
92975913 ATTTTTAACT
92975923 AATTTGCATGAAATAATAGTAATAGAAATATT-AAAAAAAAAA-TTATAAAGTTAGTTTGTTATT
1 AATTTGCATGAAATAATAGTAATAGAAATATTAAAAAAAAAAAGTTATAAAGTTAGTTTGTTATT
* ** * *
92975986 GTACATTCTAATGTAAGTCAACTGCAAATTAGATTTATA
66 GGACATTCTAACATAAGTCAACTACAAATTAGATATATA
* * *
92976025 AATTTGCATGAAATAATAGTTATCGAAATATTAAAAAAAAAAAAGTTATAAAGTTGGTTTGTTAT
1 AATTTGCATGAAATAATAGTAATAGAAATATT-AAAAAAAAAAAGTTATAAAGTTAGTTTGTTAT
92976090 TGGACATTCTAACATAAGTCAACTACAAATTAGATATATA
65 TGGACATTCTAACATAAGTCAACTACAAATTAGATATATA
92976130 AA
1 AA
92976132 ATCTATTATA
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
102 30 0.31
104 10 0.10
105 56 0.58
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (104 bp):
AATTTGCATGAAATAATAGTAATAGAAATATTAAAAAAAAAAAGTTATAAAGTTAGTTTGTTATT
GGACATTCTAACATAAGTCAACTACAAATTAGATATATA
Found at i:92979156 original size:18 final size:19
Alignment explanation
Indices: 92979119--92979155 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
92979109 TTGGTGGGAA
92979119 TATAAAT-TTTAGAGTTTT
1 TATAAATATTTAGAGTTTT
*
92979137 TATAAATATTTTGAGTTTT
1 TATAAATATTTAGAGTTTT
92979156 AAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAGTTTT
Found at i:92979161 original size:18 final size:20
Alignment explanation
Indices: 92979124--92979162 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
92979114 GGGAATATAA
*
92979124 ATTTTAGAGTTTTTATAAAT
1 ATTTTAGAGTTTTTAAAAAT
92979144 ATTTT-GAG-TTTTAAAAAT
1 ATTTTAGAGTTTTTAAAAAT
92979162 A
1 A
92979163 ACATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
ATTTTAGAGTTTTTAAAAAT
Found at i:92988673 original size:39 final size:39
Alignment explanation
Indices: 92988619--92988791 Score: 287
Period size: 39 Copynumber: 4.5 Consensus size: 39
92988609 CCTTATGTGA
* *
92988619 GGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
*
92988658 GGGCTAAGTCCCGAAGCCATTCGTGCTGGTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
92988697 GGGCT-A-TCCCGAAGGCATTCGTGCTGGTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
* *
92988734 GGGCTATGTCCCGAAGGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
92988773 GGGCTAAGTCCCGAAGGCA
1 GGGCTAAGTCCCGAAGGCA
92988792 ATTGTGTTGG
Statistics
Matches: 125, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
37 35 0.28
38 1 0.01
39 89 0.71
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCC
Found at i:92988755 original size:76 final size:78
Alignment explanation
Indices: 92988619--92988791 Score: 287
Period size: 76 Copynumber: 2.2 Consensus size: 78
92988609 CCTTATGTGA
*
92988619 GGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGCCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGGCTAAGTCCCGAAGCCATTCGTGC
92988684 TGGTATTATATCC
66 TGGTATTATATCC
* * *
92988697 GGGCT-A-TCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTATGTCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGGCTAAGTCCCGAAGCCATTCGTGC
*
92988760 TGGTGTTATATCC
66 TGGTATTATATCC
92988773 GGGCTAAGTCCCGAAGGCA
1 GGGCTAAGTCCCGAAGGCA
92988792 ATTGTGTTGG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
76 70 0.80
77 2 0.02
78 16 0.18
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (78 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGGCTAAGTCCCGAAGCCATTCGTGC
TGGTATTATATCC
Found at i:92994349 original size:22 final size:22
Alignment explanation
Indices: 92994299--92994350 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
92994289 ATACTTGTTA
92994299 AAATTTT-TATAATTTATATTT
1 AAATTTTCTATAATTTATATTT
* *
92994320 AAACTTTCTATACTTTATATTT
1 AAATTTTCTATAATTTATATTT
*
92994342 ATATTTTCT
1 AAATTTTCT
92994351 CATCAACCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATTTTCTATAATTTATATTT
Found at i:92994986 original size:11 final size:11
Alignment explanation
Indices: 92994970--92994999 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
92994960 AATTTATATT
92994970 TAAAAATTATA
1 TAAAAATTATA
*
92994981 TAAAAATAATA
1 TAAAAATTATA
92994992 TAAAAATT
1 TAAAAATT
92995000 TAATATGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:92995257 original size:13 final size:13
Alignment explanation
Indices: 92995236--92995270 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
92995226 TGGTTAATTG
*
92995236 AATGAAAGAACAA
1 AATGGAAGAACAA
92995249 AATGGAAGAACAA
1 AATGGAAGAACAA
92995262 AATGGAAGA
1 AATGGAAGA
92995271 TATTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.23, T:0.09
Consensus pattern (13 bp):
AATGGAAGAACAA
Found at i:92995597 original size:25 final size:27
Alignment explanation
Indices: 92995568--92995621 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
92995558 TTTTTGAAAT
92995568 ATTAAATA-TTA-AATTTTAATCACTC
1 ATTAAATATTTATAATTTTAATCACTC
*
92995593 ATTAAATATTTTATAATTTTAGTCACTC
1 ATTAAATA-TTTATAATTTTAATCACTC
92995621 A
1 A
92995622 ACTATCCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 8 0.32
27 3 0.12
28 14 0.56
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTAAATATTTATAATTTTAATCACTC
Found at i:92995816 original size:30 final size:31
Alignment explanation
Indices: 92995764--92995831 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
92995754 AATAGTCGCT
* * *
92995764 CAACTATTCAGTTTGTTCTATTTTGGTCACC
1 CAACTATTCACTTTGTTATATTTTAGTCACC
*
92995795 CAACTATT-ACTTTGTTATATTTTAGTCACT
1 CAACTATTCACTTTGTTATATTTTAGTCACC
92995825 CAACTAT
1 CAACTAT
92995832 CCAATTAACG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (31 bp):
CAACTATTCACTTTGTTATATTTTAGTCACC
Found at i:92997650 original size:24 final size:25
Alignment explanation
Indices: 92997623--92997673 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
92997613 ATTGGCTCGC
92997623 ATGAGCTTCCTGATTATG-ACTTTT
1 ATGAGCTTCCTGATTATGTACTTTT
* *
92997647 ATGAGCTTCCTGTTTATGTGCTTTT
1 ATGAGCTTCCTGATTATGTACTTTT
92997672 AT
1 AT
92997674 AAGCACTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (25 bp):
ATGAGCTTCCTGATTATGTACTTTT
Found at i:92999636 original size:50 final size:50
Alignment explanation
Indices: 92999512--92999760 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
92999502 GATAATAACA
* * ** * *
92999512 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
92999563 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
92999613 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
92999663 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
92999718 ATGCTAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
92999761 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:92999690 original size:100 final size:104
Alignment explanation
Indices: 92999511--92999760 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
92999501 TGATAATAAC
**
92999511 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
92999576 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
92999613 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
92999676 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
92999718 ATGCTAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
92999761 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:92999876 original size:13 final size:13
Alignment explanation
Indices: 92999855--92999886 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92999845 GCTTGGATCA
*
92999855 TCATCAAATAAAT
1 TCATAAAATAAAT
92999868 TCATAAAATAAAT
1 TCATAAAATAAAT
92999881 TCATAA
1 TCATAA
92999887 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:93000132 original size:30 final size:30
Alignment explanation
Indices: 93000098--93000155 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
93000088 CCTCGACTCT
**
93000098 AACTTTTTGAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
93000128 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
93000156 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:93000743 original size:16 final size:16
Alignment explanation
Indices: 93000724--93000756 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93000714 TTCTATTCTG
*
93000724 TTTCTTTTCTTTCTTT
1 TTTCTATTCTTTCTTT
93000740 TTTCTATTCTTTCTTT
1 TTTCTATTCTTTCTTT
93000756 T
1 T
93000757 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTCTTTCTTT
Found at i:93000790 original size:19 final size:19
Alignment explanation
Indices: 93000766--93000808 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
93000756 TGTTTTATGT
93000766 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
93000785 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
93000804 ATATA
1 ATATA
93000809 AAACATAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:93000800 original size:24 final size:24
Alignment explanation
Indices: 93000772--93000840 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
93000762 ATGTATATAT
*
93000772 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATATATTAATC
* *
93000796 ATAATATAATATAAAACA-TAATC
1 ATAATATAATATAATATATTAATC
*
93000819 ATTACTATAATATAATAATATT
1 A-TAATATAATATAAT-ATATT
93000841 TTTTAACACA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 5 0.14
24 28 0.78
25 2 0.06
26 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (24 bp):
ATAATATAATATAATATATTAATC
Found at i:93000835 original size:5 final size:5
Alignment explanation
Indices: 93000765--93000809 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
93000755 TTGTTTTATG
93000765 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA
93000810 AACATAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 23 0.64
6 8 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:93001537 original size:20 final size:18
Alignment explanation
Indices: 93001512--93001548 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
93001502 ATTGCTAAGC
93001512 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
93001532 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
93001549 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:93003397 original size:50 final size:50
Alignment explanation
Indices: 93003339--93003443 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
93003329 TTTTAATGTG
93003339 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
93003388 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
93003438 AGTATT
1 AGTATT
93003444 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:93004987 original size:46 final size:44
Alignment explanation
Indices: 93004883--93005094 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 44
93004873 ATGAGATTTG
* *
93004883 TGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGA
* * * *
93004929 CGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 --TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA
* * * *
93004975 TGTTAGCCAGTGTCAGACATGTCTAGGACATGCGTCGG-TTACGAGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGA
* * * *
93005021 TGTGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCA-CGGTTACA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC-G--AGA
* *
93005067 TGTGTCAGTGTAAGACCTGTCTGGGACA
1 TGTGCCAGTGTAAGACATGTCTGGGACA
93005095 CGGCATCGAC
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 31 0.23
45 2 0.01
46 76 0.56
47 13 0.10
48 12 0.09
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA
Found at i:93007905 original size:20 final size:18
Alignment explanation
Indices: 93007880--93007916 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
93007870 ATTGCTAAGC
93007880 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
93007900 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
93007917 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:93010725 original size:40 final size:42
Alignment explanation
Indices: 93010630--93010715 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
93010620 ACGGGCAGAG
*
93010630 ACACGG-GCGTGTGTCTCAACCATGTGTGGCACACAGCCTGGC
1 ACACGGAG-GTGTGTCTCAACCATGTGTGGCACACAGCCTAGC
* **
93010672 ACACGGATGTGTGTCTCAACTGTGTGTGGCACACAGCCTAGC
1 ACACGGAGGTGTGTCTCAACCATGTGTGGCACACAGCCTAGC
93010714 AC
1 AC
93010716 TGGGGTGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (42 bp):
ACACGGAGGTGTGTCTCAACCATGTGTGGCACACAGCCTAGC
Found at i:93012467 original size:5 final size:5
Alignment explanation
Indices: 93012457--93012482 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
93012447 TGATTCCATT
93012457 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
93012483 TTATATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:93034000 original size:22 final size:23
Alignment explanation
Indices: 93033919--93034001 Score: 57
Period size: 22 Copynumber: 3.7 Consensus size: 23
93033909 TTTTTATTAT
* *
93033919 TATTTTTATAA--GTTAATATCA
1 TATTTTTATAATTTTTAATATAA
* *
93033940 -ATTTTAATACTTTTTAATATTTAA
1 TATTTTTATAATTTTTAATA--TAA
* *
93033964 TAATCTTTATGATTTTTAATAT-A
1 T-ATTTTTATAATTTTTAATATAA
93033987 TATTTTTATAATTTT
1 TATTTTTATAATTTT
93034002 ATGATTTTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
20 8 0.17
22 18 0.39
23 2 0.04
24 3 0.07
26 15 0.33
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTTATAATTTTTAATATAA
Found at i:93034150 original size:20 final size:20
Alignment explanation
Indices: 93034112--93034150 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93034102 TTTAATATTT
* * *
93034112 ATAAGTTTTTATTATTTTTC
1 ATAAGTTTATATCAATTTTC
93034132 ATAAGTTTATATCAATTTT
1 ATAAGTTTATATCAATTTT
93034151 AATATTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (20 bp):
ATAAGTTTATATCAATTTTC
Found at i:93034199 original size:9 final size:10
Alignment explanation
Indices: 93034178--93034214 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
93034168 TTAATTTTAA
93034178 TATTTTTAT-
1 TATTTTTATC
93034187 TATTTTT-TC
1 TATTTTTATC
*
93034196 TATTTTTCTC
1 TATTTTTATC
93034206 TATTTTTAT
1 TATTTTTAT
93034215 ATTATTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
8 1 0.04
9 14 0.56
10 10 0.40
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TATTTTTATC
Found at i:93034217 original size:18 final size:17
Alignment explanation
Indices: 93034171--93034227 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
93034161 AAATATTTTA
*
93034171 ATTTTAATATTTTTATT
1 ATTTTTATATTTTTATT
* *
93034188 ATTTTTTCTATTTTTCTCT
1 A-TTTTTATATTTTTAT-T
* *
93034207 ATTTTTATATTATTATG
1 ATTTTTATATTTTTATT
93034224 ATTT
1 ATTT
93034228 ACAATTTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 5 0.16
18 24 0.77
19 2 0.06
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (17 bp):
ATTTTTATATTTTTATT
Found at i:93037402 original size:37 final size:38
Alignment explanation
Indices: 93037337--93037418 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
93037327 GAAAATTACT
93037337 AATATAT-ATTTAAAAATAATATACAATAAATAAT-AA
1 AATATATAATTTAAAAATAATATACAATAAATAATAAA
* * * *
93037373 AATATATAATTTAAAATTAAT-TAATAATAACTTATAAA
1 AATATATAATTTAAAAATAATAT-ACAATAAATAATAAA
93037411 AATATATA
1 AATATATA
93037419 CAATATCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 8 0.21
37 21 0.54
38 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (38 bp):
AATATATAATTTAAAAATAATATACAATAAATAATAAA
Found at i:93038810 original size:51 final size:51
Alignment explanation
Indices: 93038734--93038850 Score: 234
Period size: 51 Copynumber: 2.3 Consensus size: 51
93038724 ATTACACCAA
93038734 CAGTCACTCAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTTCATTT
1 CAGTCACTCAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTTCATTT
93038785 CAGTCACTCAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTTCATTT
1 CAGTCACTCAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTTCATTT
93038836 CAGTCACTCAACTTT
1 CAGTCACTCAACTTT
93038851 CAAAAAGTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (51 bp):
CAGTCACTCAACTTTGGGGTAGCTGACAAAACAGTCACCTAGGTTTCATTT
Found at i:93039055 original size:20 final size:20
Alignment explanation
Indices: 93039018--93039056 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
93039008 AAAATAGTAA
*
93039018 AAGAAGAAGAGGATGAGGAG
1 AAGAAGAAGAGGAAGAGGAG
93039038 AAGAAGAAG-GAGAAGAGGA
1 AAGAAGAAGAG-GAAGAGGA
93039057 AAAATGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.54, C:0.00, G:0.44, T:0.03
Consensus pattern (20 bp):
AAGAAGAAGAGGAAGAGGAG
Found at i:93040361 original size:21 final size:21
Alignment explanation
Indices: 93040328--93040383 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
93040318 GTTAGGGTAG
*
93040328 CTTGTTGAGTTGGGGTACCCT
1 CTTGCTGAGTTGGGGTACCCT
* *
93040349 CTTGCTGATTTGGGGTAGCCT
1 CTTGCTGAGTTGGGGTACCCT
* *
93040370 GTTGCTAAGTTGGG
1 CTTGCTGAGTTGGG
93040384 ACACCAACTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.11, C:0.16, G:0.36, T:0.38
Consensus pattern (21 bp):
CTTGCTGAGTTGGGGTACCCT
Found at i:93041053 original size:40 final size:40
Alignment explanation
Indices: 93040946--93041053 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
93040936 AAAAAAATAC
**
93040946 TCACTGCATGCATATTAAAAAATAGGCAACACACCAACAA
1 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
93040986 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
1 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
* *
93041026 TCAGTGCATGCATATTAAAAAACATTCA
1 TCACTGCATGCATATTAAAAAATATTCA
93041054 CTAAAATAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.22
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
Found at i:93042722 original size:15 final size:15
Alignment explanation
Indices: 93042704--93042732 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93042694 ATGCATCACT
93042704 ATCACTACCAGACAC
1 ATCACTACCAGACAC
93042719 ATCACTACCAGACA
1 ATCACTACCAGACA
93042733 TGTTTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.38, G:0.07, T:0.14
Consensus pattern (15 bp):
ATCACTACCAGACAC
Found at i:93043110 original size:64 final size:64
Alignment explanation
Indices: 93043040--93043167 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
93043030 TAGGAGCTTG
* *
93043040 GATACAAACAATGACATATATACACAATAAACATCAGTTTGATCATGACATTCATACAATGGCA
1 GATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGACATTCATACAATGGCA
* *
93043104 GATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGGCATTTATACAATGGCA
1 GATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGACATTCATACAATGGCA
93043168 TTTATACAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (64 bp):
GATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGACATTCATACAATGGCA
Found at i:93043166 original size:14 final size:14
Alignment explanation
Indices: 93043147--93043181 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
93043137 TCAGTTTGAT
93043147 AATGGCATTTATAC
1 AATGGCATTTATAC
93043161 AATGGCATTTATAC
1 AATGGCATTTATAC
93043175 AATGGCA
1 AATGGCA
93043182 GATACAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (14 bp):
AATGGCATTTATAC
Found at i:93043182 original size:78 final size:78
Alignment explanation
Indices: 93043088--93043245 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 78
93043078 TTGATCATGA
93043088 CATTCATACAATGGCAGATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGGC
1 CATTCATACAATGGCAGATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGGC
*
93043153 ATTTATACAATGG
66 ATTCATACAATGG
* ** * *
93043166 CATTTATACAATGGCAGATACAAACAATGGTAGATATACATAATAAGCATCAGTTTGATAATGGC
1 CATTCATACAATGGCAGATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGGC
*
93043231 ATTCGTACAATGG
66 ATTCATACAATGG
93043244 CA
1 CA
93043246 AATACAAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (78 bp):
CATTCATACAATGGCAGATACAAACAATGACAGATATACACAATAAACATCAGTTTGATAATGGC
ATTCATACAATGG
Found at i:93043425 original size:18 final size:18
Alignment explanation
Indices: 93043404--93043521 Score: 67
Period size: 18 Copynumber: 6.2 Consensus size: 18
93043394 TTCTAATTCT
* *
93043404 AAATCGAGATCAAAATCG
1 AAATCGAAATCAAAATCA
*
93043422 AAATTGAAATCAAAATCA
1 AAATCGAAATCAAAATCA
**
93043440 AAATC-AGAATCAGTGAGTGCTTCA
1 AAATCGA-AATCA---A--AAT-CA
* *
93043464 AAATTGTAATCAAAATCA
1 AAATCGAAATCAAAATCA
* *
93043482 AAATAGAAATCGAAATCA
1 AAATCGAAATCAAAATCA
* *
93043500 AAATCAAAATCAAAATCG
1 AAATCGAAATCAAAATCA
93043518 AAAT
1 AAAT
93043522 TAAAATTAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
17 1 0.01
18 59 0.79
19 1 0.01
21 2 0.03
23 1 0.01
24 11 0.15
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATCGAAATCAAAATCA
Found at i:93043482 original size:6 final size:6
Alignment explanation
Indices: 93043471--93043532 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
93043461 TCAAAATTGT
* *
93043471 AATCAA AATCAA AAT-AGA AATCGA AATCAA AATCAA AATCAA AATCGA
1 AATCAA AATCAA AATCA-A AATCAA AATCAA AATCAA AATCAA AATCAA
* *
93043519 AATTAA AATTAA AA
1 AATCAA AATCAA AA
93043533 CCGAAATAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 48 0.98
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (6 bp):
AATCAA
Found at i:93043491 original size:24 final size:24
Alignment explanation
Indices: 93043471--93043532 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
93043461 TCAAAATTGT
93043471 AATCAAAATCAAAATAGAAATCGA
1 AATCAAAATCAAAATAGAAATCGA
93043495 AATCAAAATCAAAATCA-AAATCGA
1 AATCAAAATCAAAAT-AGAAATCGA
* *
93043519 AATTAAAATTAAAA
1 AATCAAAATCAAAA
93043533 CCGAAATAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 34 0.97
25 1 0.03
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (24 bp):
AATCAAAATCAAAATAGAAATCGA
Found at i:93043526 original size:18 final size:18
Alignment explanation
Indices: 93043471--93043539 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
93043461 TCAAAATTGT
*
93043471 AATCAAAATC-AAAATAGA
1 AATCAAAATCGAAATTA-A
* * *
93043489 AATCGAAATCAAAATCAA
1 AATCAAAATCGAAATTAA
93043507 AATCAAAATCGAAATTAA
1 AATCAAAATCGAAATTAA
* *
93043525 AATTAAAACCGAAAT
1 AATCAAAATCGAAAT
93043540 AACCCTAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 38 0.90
19 4 0.10
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.19
Consensus pattern (18 bp):
AATCAAAATCGAAATTAA
Found at i:93046465 original size:105 final size:108
Alignment explanation
Indices: 93046342--93046593 Score: 334
Period size: 113 Copynumber: 2.3 Consensus size: 108
93046332 TTTATGTTGA
* * *
93046342 TTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CT-ATTA-TAAATTGTTTGTTTAGTTTAATG
1 TTTTAATTTATTTAAAAGTTATTTTGTTAGTAATCTGATTAGTAAATTATTTATTTAGTTTAATG
93046404 TTTATTGTGATTTGTTAGGTTATGAATGTAAAT-TTTTATTAAT
66 TTTATTGTGATTTGTTAGGTTATGAATGT-AATCTTTTATTAAT
* * *
93046447 TTTTAATTTATTTAAAAGTTATTTTATTAGTAATTTTTGTGATTAGGTTAATTATTTATTTAGTT
1 TTTTAATTTATTTAAAAGTTATTTTGTTAGTAA----TCTGATTA-GTAAATTATTTATTTAGTT
*
93046512 TAATGTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTATTATT
61 TAATGTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTATTAAT
*
93046560 TTTTAATTTTTTTTAAAA-TTATTTTGTTAGTAAT
1 TTTTAA-TTTATTTAAAAGTTATTTTGTTAGTAAT
93046594 TTTTGTGATT
Statistics
Matches: 128, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
105 31 0.24
109 1 0.01
110 1 0.01
111 4 0.03
112 3 0.02
113 78 0.61
114 10 0.08
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (108 bp):
TTTTAATTTATTTAAAAGTTATTTTGTTAGTAATCTGATTAGTAAATTATTTATTTAGTTTAATG
TTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTATTAAT
Found at i:93046527 original size:113 final size:113
Alignment explanation
Indices: 93046383--93046625 Score: 409
Period size: 113 Copynumber: 2.2 Consensus size: 113
93046373 AACTATTATA
*
93046383 AATTGTTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAAAT-TTTTATTAAT
1 AATTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGT-AATCTTTTATTAAT
93046447 TTTTAA-TTTATTTAAAAGTTATTTTATTAGTAATTTTTGTGATTAGGTT
65 TTTTAATTTTATTTAAAA-TTATTTTATTAGTAATTTTTGTGATTAGGTT
* *
93046496 AATTATTTATTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTATTATTT
1 AATTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTATTAATT
* *
93046561 TTTAATTTTTTTTAAAATTATTTTGTTAGTAATTTTTGTGATTAGGTT
66 TTTAATTTTATTTAAAATTATTTTATTAGTAATTTTTGTGATTAGGTT
93046609 AATTATTTGTTTAGTTT
1 AATTATTTGTTTAGTTT
93046626 CACAAGATTC
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
112 3 0.02
113 109 0.89
114 10 0.08
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.59
Consensus pattern (113 bp):
AATTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTATTAATT
TTTAATTTTATTTAAAATTATTTTATTAGTAATTTTTGTGATTAGGTT
Found at i:93048837 original size:40 final size:40
Alignment explanation
Indices: 93048780--93048997 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
93048770 CGGATGATAA
* *
93048780 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
93048820 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
93048860 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
93048900 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
93048940 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
93048980 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
93048998 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:93051762 original size:13 final size:13
Alignment explanation
Indices: 93051746--93051770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93051736 CTTTTCCCCC
93051746 TTTCTTTCTTTTG
1 TTTCTTTCTTTTG
93051759 TTTCTTTCTTTT
1 TTTCTTTCTTTT
93051771 TCTCCCCTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTCTTTCTTTTG
Found at i:93052011 original size:23 final size:23
Alignment explanation
Indices: 93051964--93052013 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
93051954 CTTTTACTTA
* *
93051964 ATACTTATATATAATTTAATAAT
1 ATACTTATATATAAGTAAATAAT
93051987 ATACTTATATGATAAGTAAATATAT
1 ATACTTATAT-ATAAGTAAATA-AT
93052012 AT
1 AT
93052014 GTATTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 9 0.39
25 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (23 bp):
ATACTTATATATAAGTAAATAAT
Found at i:93053939 original size:46 final size:46
Alignment explanation
Indices: 93053676--93053939 Score: 352
Period size: 46 Copynumber: 5.7 Consensus size: 46
93053666 TGTCATAGTG
* * * * *
93053676 TCTTTCAACTATGGTCTTACTCCTTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTAC-ACATTTCATATCAGGTTGCCATGGTA
** * *
93053722 TCTTTCAACCATGGTCTTATTC-TTTGCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTT-CATATCAGGTTGCCATGGTA
** * *
93053768 TCTTTCAACCATGGTCTTATTCATTTCTTATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
93053814 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCACGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
93053860 CCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCACGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
93053906 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
93053940 AGAGTACACT
Statistics
Matches: 202, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
44 3 0.01
45 2 0.01
46 194 0.96
47 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:93056086 original size:11 final size:11
Alignment explanation
Indices: 93056070--93056131 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
93056060 ATTTATATAC
93056070 TAATAA-AATAA
1 TAATAATAA-AA
93056081 TAATAATAAAA
1 TAATAATAAAA
93056092 TAATAATAAAA
1 TAATAATAAAA
* *
93056103 TATCTTATTAAAA
1 TA--ATAATAAAA
*
93056116 TATTAATAAAA
1 TAATAATAAAA
93056127 TAATA
1 TAATA
93056132 TTTATCTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
11 33 0.75
12 2 0.05
13 9 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:93056089 original size:14 final size:14
Alignment explanation
Indices: 93056070--93056100 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
93056060 ATTTATATAC
93056070 TAATAAAATAATAA
1 TAATAAAATAATAA
93056084 TAATAAAATAATAA
1 TAATAAAATAATAA
93056098 TAA
1 TAA
93056101 AATATCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATAAAATAATAA
Found at i:93056422 original size:30 final size:31
Alignment explanation
Indices: 93056366--93056424 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
93056356 CACCCTTAAA
* * *
93056366 ATATTTACACTATTGATCCTTCAAATTTTTT
1 ATATTTACACTATTAACCCCTCAAATTTTTT
93056397 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
93056425 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTT
Found at i:93056432 original size:30 final size:31
Alignment explanation
Indices: 93056366--93056434 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
93056356 CACCCTTAAA
* * * *
93056366 ATATTTACACTATTGATCCTTCAAATTTTTT
1 ATATTTACACTATTAACCCCTCAAATTTTTG
93056397 ATATTTACACT-TTAACCCCTCAAA-TTTTG
1 ATATTTACACTATTAACCCCTCAAATTTTTG
93056426 AGTATTTAC
1 A-TATTTAC
93056435 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTG
Found at i:93058806 original size:24 final size:24
Alignment explanation
Indices: 93058791--93058842 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
93058781 AATCAAAGTC
93058791 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
93058815 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
93058839 AAAT
1 AAAT
93058843 CTTCTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:93060972 original size:50 final size:49
Alignment explanation
Indices: 93060917--93061019 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 49
93060907 ATTTATATTT
*
93060917 TTAAAATATTATAAAAAAATT-T-AATTAATTAATTTTGAGATCTAAATAAG
1 TTAAAAT-TT-TAAAAAAATTCTAAAATAA-TAATTTTGAGATCTAAATAAG
** *
93060967 TTAAAATTTTAAAAATTTTCTAAAATAATAATTTTGGGATCTAAATAAG
1 TTAAAATTTTAAAAAAATTCTAAAATAATAATTTTGAGATCTAAATAAG
93061016 TTAA
1 TTAA
93061020 TTGGTTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
48 8 0.17
49 27 0.57
50 12 0.26
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (49 bp):
TTAAAATTTTAAAAAAATTCTAAAATAATAATTTTGAGATCTAAATAAG
Found at i:93061188 original size:40 final size:40
Alignment explanation
Indices: 93061143--93061220 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
93061133 AGATTACATG
*
93061143 TTTAACTTTTTAGTTGTAAGGACCATTGTAGATAGACGTT
1 TTTAACTTTTTAGTTATAAGGACCATTGTAGATAGACGTT
93061183 TTTAACTTTTTAGTTATAAGGACCATTGTAGATAGACG
1 TTTAACTTTTTAGTTATAAGGACCATTGTAGATAGACG
93061221 GTGTGTTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTAACTTTTTAGTTATAAGGACCATTGTAGATAGACGTT
Found at i:93061463 original size:8 final size:8
Alignment explanation
Indices: 93061450--93061479 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
93061440 TCGTCACAAT
93061450 ATATATAC
1 ATATATAC
93061458 ATATATAC
1 ATATATAC
*
93061466 ATATATAT
1 ATATATAC
93061474 ATATAT
1 ATATAT
93061480 TAGATTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATATAC
Found at i:93063459 original size:16 final size:16
Alignment explanation
Indices: 93063426--93063459 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93063416 ACCTCATGTT
* *
93063426 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
93063442 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
93063458 AA
1 AA
93063460 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:93068238 original size:16 final size:16
Alignment explanation
Indices: 93068205--93068238 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93068195 GGAGATTGTT
* *
93068205 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
93068221 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
93068237 AA
1 AA
93068239 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:93074388 original size:27 final size:28
Alignment explanation
Indices: 93074352--93074414 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
93074342 CATTTTCATA
93074352 TATTTGATTTT-GATACTCACTCAATTTTT
1 TATTT-ATTTTAGATACTCACT-AATTTTT
* *
93074381 T-TTTATTTTAGATATTTACTAATTTTT
1 TATTTATTTTAGATACTCACTAATTTTT
93074408 TATTTAT
1 TATTTAT
93074415 AAAAAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.43
28 16 0.53
29 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTTATTTTAGATACTCACTAATTTTT
Found at i:93076841 original size:18 final size:19
Alignment explanation
Indices: 93076808--93076846 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
93076798 AAAAAGAATT
93076808 AAATTGAATAAAAGA-TAA
1 AAATTGAATAAAAGATTAA
* *
93076826 AAATTGAATTATAGATTAA
1 AAATTGAATAAAAGATTAA
93076845 AA
1 AA
93076847 GAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
AAATTGAATAAAAGATTAA
Found at i:93076953 original size:10 final size:10
Alignment explanation
Indices: 93076938--93077003 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 10
93076928 TGTTGGTTAA
93076938 ATATTAAATT
1 ATATTAAATT
93076948 ATATTATTAGATCAT
1 ATATTA--A-AT--T
*
93076963 ATTTTAAATT
1 ATATTAAATT
93076973 ATA-TAAATT
1 ATATTAAATT
*
93076982 ATATTATATT
1 ATATTAAATT
*
93076992 ATATTATATT
1 ATATTAAATT
93077002 AT
1 AT
93077004 TATAAATAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
9 9 0.19
10 26 0.55
12 3 0.06
13 3 0.06
15 6 0.13
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (10 bp):
ATATTAAATT
Found at i:93076989 original size:5 final size:5
Alignment explanation
Indices: 93076970--93077003 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
93076960 CATATTTTAA
*
93076970 ATTAT A-TAA ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
93077004 TATAAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:93076999 original size:15 final size:14
Alignment explanation
Indices: 93076970--93077010 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
93076960 CATATTTTAA
93076970 ATTATATAAATTAT
1 ATTATATAAATTAT
*
93076984 ATTATATTATATTAT
1 ATTATA-TAAATTAT
93076999 ATTATTATAAAT
1 ATTA-TATAAAT
93077011 AACTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 6 0.26
15 15 0.65
16 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATATAAATTAT
Found at i:93077065 original size:15 final size:17
Alignment explanation
Indices: 93077035--93077069 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
93077025 CATATGTATA
93077035 GTGTGAATAAATTACAT
1 GTGTGAATAAATTACAT
93077052 GTGT-AATAAA-TACAT
1 GTGTGAATAAATTACAT
93077067 GTG
1 GTG
93077070 GGCAATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (17 bp):
GTGTGAATAAATTACAT
Found at i:93077553 original size:3 final size:3
Alignment explanation
Indices: 93077545--93077569 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
93077535 AAATAGATAT
93077545 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
93077570 ATAAAGAAAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:93087327 original size:78 final size:78
Alignment explanation
Indices: 93087193--93087349 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
93087183 ATGCAAGTTT
* * * * *
93087193 CGAGTGTTGCTGTCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACCATTGCGAATTCAG
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
93087258 TCCTCATTAACCC
66 TCCTCATTAACCC
* * * *
93087271 CGAGTGTCGCTGCCTTATCAATGGAAGCTAAGCCAATTAAGTTAGAATCACAATTGCAAATTCAC
1 CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
**
93087336 TCCTTGTTAACCC
66 TCCTCATTAACCC
93087349 C
1 C
93087350 TTGACTAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
CGAGTGTCGCTGCCTTACCAAAGGAAGCTAAGCCAAATAAGATAGAATCACAATTGCAAATTCAC
TCCTCATTAACCC
Found at i:93087536 original size:34 final size:34
Alignment explanation
Indices: 93087493--93087560 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
93087483 TTAAATGTAG
93087493 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
93087527 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
1 AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
93087561 GAATTTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (34 bp):
AACATTTGGGTTTTGCCCAAAGCAGATCGAGATT
Found at i:93087576 original size:34 final size:34
Alignment explanation
Indices: 93087504--93087576 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
93087494 ACATTTGGGT
* **
93087504 TTTGCCCAAAGCAGATCGAGATTAACATTTGGGT
1 TTTGCCCAAAGCAGATCGAGATTAACATTTAGAA
*
93087538 TTTGCCCAAAGCAGATCGAGATTGA-ATTTCAGAA
1 TTTGCCCAAAGCAGATCGAGATTAACATTT-AGAA
93087572 TTTGC
1 TTTGC
93087577 ATGCTCGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 4 0.12
34 30 0.88
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (34 bp):
TTTGCCCAAAGCAGATCGAGATTAACATTTAGAA
Found at i:93112244 original size:15 final size:16
Alignment explanation
Indices: 93112224--93112257 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
93112214 ATGTTGAACC
*
93112224 ATTAACTGGA-GATTT
1 ATTAACTGCACGATTT
93112239 ATTAACTGCACGATTT
1 ATTAACTGCACGATTT
93112255 ATT
1 ATT
93112258 GATTGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (16 bp):
ATTAACTGCACGATTT
Found at i:93116461 original size:134 final size:133
Alignment explanation
Indices: 93116196--93116581 Score: 506
Period size: 134 Copynumber: 2.9 Consensus size: 133
93116186 TCATTCATTC
* * * * *
93116196 AAAAATTCTTC-AAAACAAAGACGAGATTTGATATTTGGCAATCCGCGGAATCGTGCCCTAACGT
1 AAAAATTCTTCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGT
* * ** * *
93116260 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTCCATTCATGTCT
66 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCACGCCT
93116325 TTT
131 TTT
*
93116328 AAAAATTCTCTCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCTTAACG
1 AAAAATTCT-TCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
* *
93116393 TGTTGGGTTGCAATTTCGCGTTTACTCAAAATAATCGAATATCCCTTCAAGATTTCACCCACGCC
65 TGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCACGCC
93116458 TTTT
130 TTTT
** ** * * * *
93116462 AAAAATTCTT-TAAAACGAAGGTGATGTGCGATATTTGGCAATTCGCAGAATTGTGCCCTAACAT
1 AAAAATTCTTCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGT
* * * * *
93116526 GTTGGGTTGCAATTTCTCGGTTGCTTAAAATGATCAAATATCCCTTCAAAATTTCA
66 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCA
93116582 TTCATGTCTC
Statistics
Matches: 222, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
132 103 0.46
133 3 0.01
134 116 0.52
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (133 bp):
AAAAATTCTTCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGT
GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACCCACGCCT
TTT
Found at i:93116597 original size:132 final size:132
Alignment explanation
Indices: 93116196--93116611 Score: 526
Period size: 132 Copynumber: 3.1 Consensus size: 132
93116186 TCATTCATTC
* * * ** * *
93116196 AAAAATTCTTCAAAACAAAGACGAGATTTGATATTTGGCAATCCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAATGCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTG
* *
93116261 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTCCATTCATGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTT
93116326 TT
131 TT
* *
93116328 AAAAATTCTCTCTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATAGTGCCTTAACG
1 AAAAATTCT-T-TAAAACGAAGACGAAATGCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
* * ** * *
93116393 TGTTGGGTTGCAATTTCGCGTTTACTCAAAATAATCGAATATCCCTTCAAGATTTCACCCACGCC
64 TGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTC
93116458 TTTT
129 TTTT
** ** * * *
93116462 AAAAATTCTTTAAAACGAAGGTGATGTGCGATATTTGGCAATTCGCAGAATTGTGCCCTAACATG
1 AAAAATTCTTTAAAACGAAGACGAAATGCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTG
* * * * * *
93116527 TTGGGTTGCAATTTCTCGGTTGCTTAAAATGATCAAATATCCCTTCAAAATTTCATTCATGTCTC
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTT
*
93116592 CT
131 TT
*
93116594 AAAAATTATTTAAAACGA
1 AAAAATTCTTTAAAACGA
93116612 GGGCAACATT
Statistics
Matches: 244, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
132 126 0.52
133 2 0.01
134 116 0.48
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (132 bp):
AAAAATTCTTTAAAACGAAGACGAAATGCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGTCTT
TT
Found at i:93116974 original size:130 final size:129
Alignment explanation
Indices: 93116732--93116974 Score: 324
Period size: 130 Copynumber: 1.9 Consensus size: 129
93116722 ATTAAAAACA
* * **
93116732 CTTTAAAACGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGTGCCCTACCGTGCTAGGTTG
1 CTTTAAAACGAAGACAATATTCAATGTTTGGCGATTTGAGAATCGAACCCTACCGTGCTAGGTTG
* * * * *
93116797 CGCTTTTTCATTGGTCCGAAACAATTGCAGATCCCTTCGAAATTTCACTCACATTTTCTAAAAT
66 CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTCCGAAATTTCACTCACATTTTCTAAAAT
* * * *
93116861 CTTTCAAAATGAAGACAATATTCAATGTTTGGTGATTTGAGAATCGAACCCTATCGTGCTGGGTT
1 CTTT-AAAACGAAGACAATATTCAATGTTTGGCGATTTGAGAATCGAACCCTACCGTGCTAGGTT
* * * *
93116926 GCGCTTTTTCATTTGTCCCAAATAATCGAACATCTCTCCGGAATTTCAC
65 GCGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTCCGAAATTTCAC
93116975 ACGTATTTTC
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
129 4 0.04
130 92 0.96
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (129 bp):
CTTTAAAACGAAGACAATATTCAATGTTTGGCGATTTGAGAATCGAACCCTACCGTGCTAGGTTG
CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTCCGAAATTTCACTCACATTTTCTAAAAT
Found at i:93120304 original size:16 final size:15
Alignment explanation
Indices: 93120249--93120304 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
93120239 AATTTAAAAG
*
93120249 ATATAAT-AACTAAA
1 ATATAATAAATTAAA
93120263 A-ATAATCAAATTAAA
1 ATATAAT-AAATTAAA
*
93120278 ATATAAAAAATTAAA
1 ATATAATAAATTAAA
*
93120293 TTCATAATAAAT
1 AT-ATAATAAAT
93120305 ACAAATAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 16 0.47
16 12 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATAATAAATTAAA
Found at i:93126167 original size:11 final size:11
Alignment explanation
Indices: 93126151--93126175 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
93126141 ACACCCAAGG
93126151 TTACTAAACTA
1 TTACTAAACTA
93126162 TTACTAAACTA
1 TTACTAAACTA
93126173 TTA
1 TTA
93126176 GTAAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (11 bp):
TTACTAAACTA
Found at i:93129550 original size:20 final size:20
Alignment explanation
Indices: 93129527--93129564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93129517 TTTTCGATAA
* *
93129527 ATAAATGGTATTTGGTTTGG
1 ATAAATGGAAATTGGTTTGG
93129547 ATAAATGGAAATTGGTTT
1 ATAAATGGAAATTGGTTT
93129565 CGTAAGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (20 bp):
ATAAATGGAAATTGGTTTGG
Found at i:93130470 original size:24 final size:22
Alignment explanation
Indices: 93130428--93130473 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
93130418 TAGTTTTTTT
*
93130428 TATTTTTAATTATTGATTTTAA
1 TATTTTTAATTATTAATTTTAA
93130450 TATTTTTAAATTTATTAATTTTAA
1 TATTTTT-AA-TTATTAATTTTAA
93130474 GTAAGGTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTTTTAATTATTAATTTTAA
Found at i:93137438 original size:18 final size:19
Alignment explanation
Indices: 93137417--93137476 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
93137407 AATCGGTTAA
*
93137417 TCAGTAAT-ATTCATTTAT
1 TCAGTAATCAGTCATTTAT
93137435 TCAGT-ATCAGTCATTTAT
1 TCAGTAATCAGTCATTTAT
* * *
93137453 TCTGTAA-CAGTAAATTAT
1 TCAGTAATCAGTCATTTAT
93137471 TCAGTA
1 TCAGTA
93137477 GCAGACAGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.06
18 32 0.91
19 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (19 bp):
TCAGTAATCAGTCATTTAT
Found at i:93137617 original size:6 final size:6
Alignment explanation
Indices: 93137608--93137633 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93137598 CACCGTAAGG
93137608 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
93137634 GGCGGTACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:93139817 original size:50 final size:50
Alignment explanation
Indices: 93139740--93139966 Score: 346
Period size: 50 Copynumber: 4.5 Consensus size: 50
93139730 CCATGGCAAC
* *
93139740 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
93139790 AAGTGATAAGTGATAGCTTCGGTTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
93139840 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
93139890 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
93139941 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
93139967 CTGAACAATG
Statistics
Matches: 162, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 139 0.86
51 23 0.14
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:93144910 original size:50 final size:50
Alignment explanation
Indices: 93144835--93145107 Score: 453
Period size: 50 Copynumber: 5.5 Consensus size: 50
93144825 CCATGGCAAC
93144835 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
93144885 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
93144935 AAGTGATAAGTGATAGCTTCGG-TACACTTA--TGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
93144982 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
93145032 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAAGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
93145082 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
93145108 CTGATCAATG
Statistics
Matches: 209, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 37 0.18
48 8 0.04
49 8 0.04
50 156 0.75
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:93145004 original size:97 final size:98
Alignment explanation
Indices: 93144835--93145107 Score: 417
Period size: 97 Copynumber: 2.8 Consensus size: 98
93144825 CCATGGCAAC
93144835 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TGAAAGTGATAAGTGAT
1 AAGTGATAAGTGATAGCTTCGG-TACACTTA-CTGATCAAGGA-AAAGTGAAAGTGATAAGTGAT
93144899 AGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
63 AGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
93144935 AAGTGATAAGTGATAGCTTCGGTACACTTA-TGATCAAGGATAAGTGAAAGTGATAAGTGATAGC
1 AAGTGATAAGTGATAGCTTCGGTACACTTACTGATCAAGGAAAAGTGAAAGTGATAAGTGATAGC
93144999 TTCGGCTACACTTATCTGATCAAGGACAAATGA
66 TTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
93145032 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAAG-GCAAGTAAAAAGTGGT
1 AAGTGATAAGTGATAGCTTC-GGTACACTTA-CTGATCAAGGA-AAAGTGAAAGTGATAAGTGAT
93145096 AGCTTCGGCTAC
63 AGCTTCGGCTAC
93145108 CTGATCAATG
Statistics
Matches: 161, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
96 2 0.01
97 83 0.52
98 9 0.06
99 8 0.05
100 56 0.35
101 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (98 bp):
AAGTGATAAGTGATAGCTTCGGTACACTTACTGATCAAGGAAAAGTGAAAGTGATAAGTGATAGC
TTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:93145102 original size:147 final size:147
Alignment explanation
Indices: 93144835--93145103 Score: 484
Period size: 147 Copynumber: 1.8 Consensus size: 147
93144825 CCATGGCAAC
93144835 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
* * * *
93144900 GCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATAGCTTCGGTACACTTA
66 GCTTCAGCTACACTTATCTGATCAAGGACAAAGGAAAGTAAAAAGTGATAGCTTCGGTACACTTA
93144965 TGATCAAGGATAAGTGA
131 TGATCAAGGATAAGTGA
93144982 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
* *
93145047 GCTTCAGCTACACTTATCTGATCAAGGACAAAGGCAAGTAAAAAGTGGTAGCTTCGG
66 GCTTCAGCTACACTTATCTGATCAAGGACAAAGGAAAGTAAAAAGTGATAGCTTCGG
93145104 CTACCTGATC
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
147 116 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (147 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTGATA
GCTTCAGCTACACTTATCTGATCAAGGACAAAGGAAAGTAAAAAGTGATAGCTTCGGTACACTTA
TGATCAAGGATAAGTGA
Done.