Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006564.1 Hibiscus syriacus cultivar Beakdansim tig00016065_pilon, whole genome shotgun sequence
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: 1886890
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:1006666 original size:283 final size:280
Alignment explanation
Indices: 1006187--1006762 Score: 781
Period size: 283 Copynumber: 2.0 Consensus size: 280
1006177 CATATATTCG
*
1006187 GGTCGGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGT
1 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGT--GTTTTTTAAGTGTGATATTCGGGT
* ** *
1006252 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCGAAAATTTATATAATTTTACCTTATAT
64 CGGGTCGAGTTCAGGTTTAGGGTCAAAAATACCCGCCCGAAAAAGTATATAATTTTACCGTATAT
* *
1006317 ATTTAGGAATAATTACAATAATACCCTTTTATATATAATTTTTTTTCAATTAAGTCACTGTTTTT
129 ATTTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTCCAATTAAGTCACTGTTTTT
* * *
1006382 ATTGAATGAAAATATTTTTTTATTATTTCGGGTCGGGTCGAATTTCTAATTCT-TATATTC-AGG
194 ATTGAATAAAAATAATTTTTTATTATTTCAGGTCGGGTCGAATTTCTAATT-TATATATTCGA-G
*
1006445 TCGGGT-AGGGTTAAACTTTATTTT
257 TCGGGTCA-GGTGAAACTTTATTTT
** *
1006469 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTTTGGT-TTTTTTAAGTGTGCTATTCGGGTCG
1 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTGTTTTTTAAGTGTGATATTCGGGTCG
* *
1006533 GGTCGGGTTC-GAGTTTAGGGTCAAAAATATCCGACCCGACCCAAAAAGTATATAATTTTACCGT
66 GGTCGAGTTCAG-GTTTAGGGTCAAAAATACCCG-CCCG----AAAAAGTATATAATTTTACCGT
*
1006597 ATATA-TTAGGAATAATTACAATAATACCCCTCTCTCTATAT-A-TTTTTTCCAATTAAGTCACT
125 ATATATTTAGGAATAATTACAATAATA-CCCT-TCTATATATAATTTTTTTCCAATTAAGTCACT
* **
1006659 GTTTTTATTGAATAAAAATAATTTTTTATTATTTCAGGTTGGGTCGGGTTTCTAATTTATATATT
188 GTTTTTATTGAATAAAAATAATTTTTTATTATTTCAGGTCGGGTCGAATTTCTAATTTATATATT
*
1006724 CGATTCGGGTCAGGTGAAACTTTATTTT
253 CGAGTCGGGTCAGGTGAAACTTTATTTT
*
1006752 GGTTGGGTCGG
1 GGTCGGGTCGG
1006763 TCTCGGATGG
Statistics
Matches: 261, Mismatches: 22, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
278 1 0.00
279 52 0.20
280 4 0.02
282 37 0.14
283 129 0.49
284 31 0.12
285 7 0.03
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (280 bp):
GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTGTTTTTTAAGTGTGATATTCGGGTCG
GGTCGAGTTCAGGTTTAGGGTCAAAAATACCCGCCCGAAAAAGTATATAATTTTACCGTATATAT
TTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTCCAATTAAGTCACTGTTTTTAT
TGAATAAAAATAATTTTTTATTATTTCAGGTCGGGTCGAATTTCTAATTTATATATTCGAGTCGG
GTCAGGTGAAACTTTATTTT
Found at i:1007679 original size:15 final size:15
Alignment explanation
Indices: 1007622--1007676 Score: 94
Period size: 15 Copynumber: 3.7 Consensus size: 15
1007612 TTCCAGAAAA
*
1007622 TGAATTACTGAAATT
1 TGAATTACTGGAATT
1007637 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1007652 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1007667 TGAATT-CTGG
1 TGAATTACTGG
1007677 GAAATGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
14 4 0.10
15 35 0.90
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:1007694 original size:20 final size:20
Alignment explanation
Indices: 1007671--1007720 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1007661 GGAATTTGAA
*
1007671 TTCTGGGAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
1007691 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1007711 TTCTGGAAAA
1 TTCTGGAAAA
1007721 CATATGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1007919 original size:28 final size:28
Alignment explanation
Indices: 1007887--1007965 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
1007877 CTTTACTAAA
1007887 ATTATTGAAATATATAAATAATATTAT-C
1 ATTATT-AAATATATAAATAATATTATAC
* *
1007915 ATTATTAAATATATAAAAAAATATTATAT
1 ATTATTAAATATAT-AAATAATATTATAC
*
1007944 ATTATTAAA-ATAAAAATAATAT
1 ATTATTAAATATATAAATAATAT
1007966 CTTATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
27 16 0.36
28 20 0.44
29 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
ATTATTAAATATATAAATAATATTATAC
Found at i:1007971 original size:25 final size:26
Alignment explanation
Indices: 1007887--1007983 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 26
1007877 CTTTACTAAA
*
1007887 ATTATTGAAATATATAAATAATATTAT
1 ATTATT-AAATATAAAAATAATATTAT
*
1007914 CATTATTAAATATATAAAAAAATATTATAT
1 -ATTATTAAATATA-AAAATAATA-T-TAT
1007944 ATTATTAAA-ATAAAAATAATATCT-T
1 ATTATTAAATATAAAAATAATAT-TAT
1007969 ATTATTATAATATAA
1 ATTATTA-AATATAA
1007984 TTGATTATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
25 8 0.13
26 4 0.07
27 19 0.32
28 16 0.27
29 10 0.17
30 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (26 bp):
ATTATTAAATATAAAAATAATATTAT
Found at i:1008019 original size:22 final size:23
Alignment explanation
Indices: 1007994--1008059 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
1007984 TTGATTATTT
1007994 TATATATATTAAAAATA-TAATA
1 TATATATATTAAAAATATTAATA
*
1008016 TATAT-TATTATAAATATTAATA
1 TATATATATTAAAAATATTAATA
* * * *
1008038 AATATATTTTAAATATTTTAAT
1 TATATATATTAAAAATATTAAT
1008060 TAAATTTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 10 0.28
22 14 0.39
23 12 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATTAAAAATATTAATA
Found at i:1008030 original size:21 final size:20
Alignment explanation
Indices: 1007994--1008053 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
1007984 TTGATTATTT
*
1007994 TATATATATTAAAAATATAA
1 TATATATATTATAAATATAA
1008014 TATATATTATTATAAATATTAA
1 TATATA-TATTATAAATA-TAA
* *
1008036 TAAATATATTTTAAATAT
1 TATATATATTATAAATAT
1008054 TTTAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.20
21 20 0.57
22 8 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATATTATAAATATAA
Found at i:1008046 original size:53 final size:55
Alignment explanation
Indices: 1007903--1008058 Score: 148
Period size: 53 Copynumber: 2.9 Consensus size: 55
1007893 GAAATATATA
* * *
1007903 AATAATAT-TATCATTATTAAATATATAA-AAAAATATTATATAT-TATT-AAAAT
1 AATAATATATATTATTATTAAATAT-TAATAAATATATTTTATATATATTAAAAAT
* * **
1007955 AAAAATAATATCTTATTATTATAATA-TAATTGAT-TATTTTATATATATTAAAAAT
1 AATAAT-ATATATTATTATTA-AATATTAATAAATATATTTTATATATATTAAAAAT
* *
1008010 -ATAATATATATTATTA-TAAATATTAATAAATATATTTTAAATATTTTAA
1 AATAATATATATTATTATTAAATATTAATAAATATATTTTATATATATTAA
1008059 TTAAATTTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
51 4 0.05
52 13 0.16
53 39 0.47
54 18 0.22
55 9 0.11
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (55 bp):
AATAATATATATTATTATTAAATATTAATAAATATATTTTATATATATTAAAAAT
Found at i:1008290 original size:42 final size:42
Alignment explanation
Indices: 1008244--1008354 Score: 204
Period size: 42 Copynumber: 2.6 Consensus size: 42
1008234 TACATTTCGA
*
1008244 AAAACGAATTACGTGAAACAAACACGGGAAAACGTTTTCCGG
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGG
*
1008286 AAAACGAATTACGTGAAACAAACACGGGAACACATTTTCCGG
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGG
1008328 AAAACGAATTACGTGAAACAAACACGG
1 AAAACGAATTACGTGAAACAAACACGG
1008355 AAATTCGGGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (42 bp):
AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCGG
Found at i:1011083 original size:26 final size:26
Alignment explanation
Indices: 1011060--1011122 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
1011050 CCTATATTCG
1011060 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1011086 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1011112 GGTCGGGTCGG
1 GGTCGGGTCGG
1011123 TTCGGTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.35
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1011365 original size:289 final size:282
Alignment explanation
Indices: 1010808--1011387 Score: 833
Period size: 289 Copynumber: 2.0 Consensus size: 282
1010798 TATTCGGGTG
* * *
1010808 GGGTCGGTTGAAACTTTATTTTCGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCGGG
1 GGGTCGGGTGAAACTTTATTTTCGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGCCGGG
* *
1010873 TCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCGAAAATTTATATAATTTTACCTTATATATT
66 TCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAATTATATAATTTTACCTTATATATT
* * *
1010938 TAGGAATAATTACAATAATACCCTTTTATATATAATTATTTTCAATTAAGTCACTGTTTTTATTG
131 TAGGAATAATTACAATAATACCCTTCTATAAATAATTATTTTCAATTAAGTAACTGTTTTTATTG
* * *
1011003 AAAAAAAATATTTTTTTATTACATCGGGTCGGGTCGGATTTCTAATTCCTATATTCGGGTCGGGT
196 AAAAAAAATATTTTTTTATTACATCAGGTCGGGTCGGATTTCTAATTCATATATTCGAGTCGGGT
*
1011068 CGGGTGAAACTTTATTTTGGTC
261 CAGGTGAAACTTTATTTTGGTC
* *
1011090 GGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTCGGTTTCTTTTAAGTGTGATATTCGGGCCG
1 GGGTCGGGTGAAACTTTATTTTCGTCGGGTCGGGTCGG-TT-TTTTAAGTGTGATATTCGGGCCG
*
1011155 GGTCGGGTTCTA-GTTTAGGGTGAAAAATACCCGACCCGACCCAAAAATTATATAATTTTACCTT
64 GGTCGAGTTC-AGGTTTAGGGTGAAAAATACCCG--CC--CCCAAAAATTATATAATTTTACCTT
* *
1011219 ATATATTTAGGAATAATTACAATAATACCCCTCTCTCTAAAT-ATTTTTTTCCAATTAAGTAACT
124 ATATATTTAGGAATAATTACAATAATA-CCCT-TCTATAAATAATTATTTT-CAATTAAGTAACT
* ** * * *
1011283 GTTTTTATTGAATAAAAATA-TTTTTTATTATTTCAGGTTGGGTCGGGTTTCTAATTTATATATT
186 GTTTTTATTGAAAAAAAATATTTTTTTATTACATCAGGTCGGGTCGGATTTCTAATTCATATATT
*
1011347 CGAGTCGGGTCAGGTGAAACTTTATTTTGGTT
251 CGAGTCGGGTCAGGTGAAACTTTATTTTGGTC
1011379 GGGTCGGGT
1 GGGTCGGGT
1011388 CTCGGATGGA
Statistics
Matches: 264, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
282 34 0.13
283 2 0.01
284 52 0.20
285 1 0.00
286 2 0.01
288 50 0.19
289 86 0.33
290 37 0.14
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (282 bp):
GGGTCGGGTGAAACTTTATTTTCGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGCCGGG
TCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAATTATATAATTTTACCTTATATATT
TAGGAATAATTACAATAATACCCTTCTATAAATAATTATTTTCAATTAAGTAACTGTTTTTATTG
AAAAAAAATATTTTTTTATTACATCAGGTCGGGTCGGATTTCTAATTCATATATTCGAGTCGGGT
CAGGTGAAACTTTATTTTGGTC
Found at i:1015088 original size:26 final size:29
Alignment explanation
Indices: 1015058--1015113 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
1015048 AATAAAAATA
1015058 ATTTTT-A-TTAT-TTCGGGTCGGGTCGT
1 ATTTTTAATTTATATTCGGGTCGGGTCGT
1015084 ATTTTTAATTCTTATATTCGGGTCGGGTCG
1 ATTTTTAA-T-TTATATTCGGGTCGGGTCG
1015114 GGTGAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 6 0.24
27 1 0.04
30 4 0.16
31 14 0.56
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.48
Consensus pattern (29 bp):
ATTTTTAATTTATATTCGGGTCGGGTCGT
Found at i:1015127 original size:26 final size:26
Alignment explanation
Indices: 1015104--1015168 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
1015094 CTTATATTCG
1015104 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1015130 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1015156 GGTCGGGTCGGGT
1 GGTCGGGTCGGGT
1015169 CGGTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.12, C:0.12, G:0.40, T:0.35
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1015171 original size:31 final size:28
Alignment explanation
Indices: 1015095--1015168 Score: 111
Period size: 26 Copynumber: 2.8 Consensus size: 28
1015085 TTTTTAATTC
*
1015095 TTATATTCGGGTCGGGTCGGGTGAAACT
1 TTATTTTCGGGTCGGGTCGGGTGAAACT
1015123 TTATTTT--GGTCGGGTCGGGTGAAACT
1 TTATTTTCGGGTCGGGTCGGGTGAAACT
1015149 TTATTTT--GGTCGGGTCGGGT
1 TTATTTTCGGGTCGGGTCGGGT
1015169 CGGTTTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 39 0.87
28 6 0.13
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (28 bp):
TTATTTTCGGGTCGGGTCGGGTGAAACT
Found at i:1015403 original size:287 final size:280
Alignment explanation
Indices: 1014850--1015431 Score: 739
Period size: 287 Copynumber: 2.0 Consensus size: 280
1014840 ATATATTCGT
* * * *
1014850 GTCGGGTTGGGTGAAACTTTATTTTTGTCTGGTAGGGTCAGTTTTTTAAGTGTGATATTCGGGTC
1 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTAGGGTCAGTTTTTTAAGTGTGATATTCGAGTC
* **
1014915 GGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCGAAAATTTATATAATTTTACCGTATAT
66 GGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCGTATAT
*
1014980 ATTTAGGAATAATTACAATAATATCCTTCTATATATAATTTTTTTCAATTAAGTCATTGTTTTTA
131 ATTTAGGAATAATTACAATAATATCCTTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTA
* * *
1015045 TTGAATAAAAATAATTTTTATTATTTCGGGTCGGGTCGTATTTTTAATTCTTATATTCGGGTCGG
196 TTGAATAAAAATAATTTTTATTATTTCAGGTCGGGTCGTATTTCTAATTCTTATATT---GTCGA
1015110 GTC-G-GGTGAAACTTTATTTTG
258 GTCGGAGGTGAAACTTTATTTTG
* *
1015131 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATTCGAG
1 GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTAGGGTCAG--TTTTTTAAGTGTGATATTCGAG
* *
1015196 TCGGGTCGGGTTC-GAGTTTAGGGTGAAACATACCCGACCCGACCCAAAAAGTATATAATTTTAC
64 TCGGGTCGAGTTCAG-GTTTAGGGTGAAAAATACCCG--CC--CCCAAAAAGTATATAATTTTAC
* *
1015260 CTTATATATTTAGGAATAATTACAATAATATCCCTCTCTCTATAT-ATTTTTTTCCAATTAAGTC
124 CGTATATATTTAGGAATAATTACAATAATAT-CCT-TCTATATATAATTTTTTT-CAATTAAGTC
* *
1015324 ACTGTTTTTATTGAATAAAAATAATTTTTTTTATTATTTCAGGTTGGGTCAG-GTTTCTAA-T-T
186 ACTGTTTTTATTGAATAAAAATAA---TTTTTATTATTTCAGGTCGGGTC-GTATTTCTAATTCT
1015386 TATATAT-TCGAGTCGGGTCAGGTGAAACTTTATTTTG
247 TATAT-TGTCGAGTC-GG--AGGTGAAACTTTATTTTG
*
1015423 GTTGGGTCG
1 GTCGGGTCG
1015432 AGTCTCGGAT
Statistics
Matches: 261, Mismatches: 20, Indels: 29
0.84 0.06 0.09
Matches are distributed among these distances:
281 36 0.14
282 1 0.00
283 53 0.20
285 2 0.01
287 55 0.21
288 11 0.04
289 42 0.16
290 6 0.02
291 2 0.01
292 52 0.20
293 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.41
Consensus pattern (280 bp):
GTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTAGGGTCAGTTTTTTAAGTGTGATATTCGAGTC
GGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCGTATAT
ATTTAGGAATAATTACAATAATATCCTTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTA
TTGAATAAAAATAATTTTTATTATTTCAGGTCGGGTCGTATTTCTAATTCTTATATTGTCGAGTC
GGAGGTGAAACTTTATTTTG
Found at i:1018946 original size:26 final size:26
Alignment explanation
Indices: 1018886--1018946 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
1018876 CTTATATTCA
* *
1018886 GGTCGGGTAGGGTTAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
*
1018912 GGTCAGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1018938 GGTCGGGTC
1 GGTCGGGTC
1018947 TGGTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.38
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1020143 original size:15 final size:15
Alignment explanation
Indices: 1020071--1020140 Score: 106
Period size: 15 Copynumber: 4.7 Consensus size: 15
1020061 TTCCATAAAA
*
1020071 TGAATTACTGAAATT
1 TGAATTACTGGAATT
1020086 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
1020101 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
1020116 TGAATTACTGGAATT
1 TGAATTACTGGAATT
1020131 TGAATT-CTGG
1 TGAATTACTGG
1020141 GAAATGAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
14 4 0.08
15 46 0.92
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:1020150 original size:29 final size:30
Alignment explanation
Indices: 1020071--1020152 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
1020061 TTCCATAAAA
*
1020071 TGAATTACT-GAAATTTGAATTACTGGAATT
1 TGAATTACTGGAAA-ATGAATTACTGGAATT
1020101 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
*
1020131 TGAATT-CTGGGAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
1020153 ATTTCTGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
29 15 0.31
30 30 0.61
31 4 0.08
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:1020158 original size:20 final size:20
Alignment explanation
Indices: 1020135--1020204 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
1020125 GGAATTTGAA
*
1020135 TTCTGGGAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
1020155 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1020175 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1020195 TTCTGGAAAA
1 TTCTGGAAAA
1020205 CATCTGGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1020420 original size:24 final size:25
Alignment explanation
Indices: 1020371--1020552 Score: 76
Period size: 27 Copynumber: 7.2 Consensus size: 25
1020361 TTTACTAAAA
1020371 TATTATTGAAATATATAAATAATTAT
1 TATTATT-AAATATATAAATAATTAT
* *
1020397 TCATTATTAAATATAAAAATTTATTAT
1 T-ATTATTAAATATATAAA-TAATTAT
* *
1020424 ATATTATTAAA-ATAAAATATAATATCT
1 -TATTATTAAATATATAA-ATAAT-TAT
* * *
1020451 TA-TATTATA-ATATAATTGATTAT
1 TATTATTAAATATATAAATAATTAT
*
1020474 T-TTA-TATAATATTAAAAATATAATT-T
1 TATTATTA-AATA-T-ATAA-ATAATTAT
* *
1020500 ATATTATTATAA-ATATTAATAAATA-
1 -TATTATTA-AATATATAAATAATTAT
* * *
1020525 TATT-TTAAATATTTTAATAATTAA
1 TATTATTAAATATATAAATAATTAT
1020549 TATT
1 TATT
1020553 TTGATGAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
22 4 0.03
23 20 0.17
24 12 0.10
25 17 0.14
26 28 0.23
27 30 0.25
28 5 0.04
29 5 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
TATTATTAAATATATAAATAATTAT
Found at i:1020422 original size:27 final size:26
Alignment explanation
Indices: 1020370--1020446 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
1020360 CTTTACTAAA
*
1020370 ATATTATTGAAATATATAAATAATTAT
1 ATATTATT-AAATATAAAAATAATTAT
*
1020397 -TCATTATTAAATATAAAAATTTATTAT
1 AT-ATTATTAAATATAAAAA-TAATTAT
1020424 ATATTATTAAA-ATAAAATATAAT
1 ATATTATTAAATATAAAA-ATAAT
1020447 ATCTTATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
26 20 0.47
27 22 0.51
28 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
ATATTATTAAATATAAAAATAATTAT
Found at i:1020528 original size:21 final size:21
Alignment explanation
Indices: 1020482--1020537 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1020472 ATTTTATATA
* **
1020482 ATATTAAAAATA-TAATTTAT
1 ATATTATAAATATTAATAAAT
1020502 ATTATTATAAATATTAATAAAT
1 A-TATTATAAATATTAATAAAT
*
1020524 ATATTTTAAATATT
1 ATATTATAAATATT
1020538 TTAATAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 22 0.73
22 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTATAAATATTAATAAAT
Found at i:1020537 original size:33 final size:30
Alignment explanation
Indices: 1020459--1020545 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 30
1020449 CTTATATTAT
*
1020459 AATATAATTGATTATTTTATATAATATTAAA
1 AATATAATTTA-TATTTTATATAATATTAAA
1020490 AATATAATTTATATTATTATA-AATATTAATA
1 AATATAATTTATATT-TTATATAATATTAA-A
*
1020521 AATATATTTTAAATATTTTA-ATAAT
1 AATATAATTT--ATATTTTATATAAT
1020546 TAATATTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
30 12 0.24
31 26 0.53
32 6 0.12
33 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
AATATAATTTATATTTTATATAATATTAAA
Found at i:1020550 original size:30 final size:31
Alignment explanation
Indices: 1020478--1020550 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
1020468 GATTATTTTA
*
1020478 TATAAT-ATTAA-AAATATAATTTATATTAT
1 TATAATAATTAATAAATATAATTTATAATAT
*
1020507 TATAA-ATATTAATAAATATATTTTA-AATAT
1 TATAATA-ATTAATAAATATAATTTATAATAT
*
1020537 TTTAATAATTAATA
1 TATAATAATTAATA
1020551 TTTTGATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 5 0.14
30 20 0.54
31 12 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TATAATAATTAATAAATATAATTTATAATAT
Found at i:1020783 original size:42 final size:42
Alignment explanation
Indices: 1020724--1020840 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 42
1020714 AATTACATTT
*
1020724 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
1020766 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
* *
1020808 CGGAAAACGAATTACATGAAACACACACGGGAA
1 CGGAAAACGAATTACGTGAAACAAACACGGGAA
1020841 TTCGGGGAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (42 bp):
CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
Found at i:1023586 original size:26 final size:26
Alignment explanation
Indices: 1023563--1023625 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
1023553 CTTATATTCG
1023563 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1023589 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1023615 GGTCGGGTCGG
1 GGTCGGGTCGG
1023626 TTCGGTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.35
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1023595 original size:31 final size:28
Alignment explanation
Indices: 1023554--1023625 Score: 107
Period size: 26 Copynumber: 2.7 Consensus size: 28
1023544 ATTCTATTTC
*
1023554 TTATATTCGGGTCGGGTCGGGTGAAACT
1 TTATTTTCGGGTCGGGTCGGGTGAAACT
1023582 TTATTTT--GGTCGGGTCGGGTGAAACT
1 TTATTTTCGGGTCGGGTCGGGTGAAACT
1023608 TTATTTT--GGTCGGGTCGG
1 TTATTTTCGGGTCGGGTCGG
1023626 TTCGGTTTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 37 0.86
28 6 0.14
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (28 bp):
TTATTTTCGGGTCGGGTCGGGTGAAACT
Found at i:1023811 original size:288 final size:282
Alignment explanation
Indices: 1023306--1023889 Score: 834
Period size: 288 Copynumber: 2.0 Consensus size: 282
1023296 CATATATTCG
* *
1023306 GGTCGGGTCGGGTGAAACTTTATTTTCGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGT
1 GGTCGGGTCGGGTGAAACTTTATTTTCGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGC
* *
1023371 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCGAAAATTTATATAATTTTACCTTATA
66 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAATTATATAATTTTACCTTATA
* * *
1023436 TATTTAGGAATAATTACAATAATACCCTTTTATATATAATTATTTTCAATTAAGTCACTGTTTTT
131 TATTTAGGAATAATTACAATAATACCCTTCTATAAATAATTATTTTCAATTAAGTAACTGTTTTT
* * *
1023501 ATTGAATAAAAATATTTTTTTTATTACATCGGGTCGGGTCGGAATTCT-ATTTCTTATATTCGGG
196 ATTGAATAAAAATA-TTTTTTTATTACATCAGGTCGGGTCGGAATTCTAATTT-ATATATTCGAG
*
1023565 TCGGGTCGGGTGAAACTTTATTTT
259 TCGGGTCAGGTGAAACTTTATTTT
* *
1023589 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTCGGTTTCTTTTAAGTGTGATATTCGG
1 GGTCGGGTCGGGTGAAACTTTATTTTCGTCGGGTCGGGTCGG-TT-TTTTAAGTGTGATATTCGG
*
1023654 GCCGGGTCGGGTTC-GAGTTTAGGGTGAAAAATACCCGACCCGACCAAAAATTATATAATTTTAC
64 GCCGGGTCGAGTTCAG-GTTTAGGGTGAAAAATACCCG-CCC--CCAAAAATTATATAATTTTAC
* *
1023718 CTTATATATTTAGGAATAATTACAATAATACCCCTCTCTCTAAAT-ATTTTTTTCCAATTAAGTA
125 CTTATATATTTAGGAATAATTACAATAATA-CCCT-TCTATAAATAATTATTTT-CAATTAAGTA
** * * **
1023782 ACTGTTTTTATTGAATAAAAATA-TTTTTTATTATTTTAGGTTGGGTCGGGTTTCTAATTTATAT
187 ACTGTTTTTATTGAATAAAAATATTTTTTTATTACATCAGGTCGGGTCGGAATTCTAATTTATAT
1023846 ATTCGAGTCGGGTCAGGTGAAACTTTATTTT
252 ATTCGAGTCGGGTCAGGTGAAACTTTATTTT
*
1023877 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
1023890 CTCGGATGGA
Statistics
Matches: 268, Mismatches: 23, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
283 39 0.15
284 3 0.01
285 52 0.19
286 3 0.01
288 118 0.44
289 15 0.06
290 38 0.14
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (282 bp):
GGTCGGGTCGGGTGAAACTTTATTTTCGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGC
CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAATTATATAATTTTACCTTATA
TATTTAGGAATAATTACAATAATACCCTTCTATAAATAATTATTTTCAATTAAGTAACTGTTTTT
ATTGAATAAAAATATTTTTTTATTACATCAGGTCGGGTCGGAATTCTAATTTATATATTCGAGTC
GGGTCAGGTGAAACTTTATTTT
Found at i:1027844 original size:263 final size:255
Alignment explanation
Indices: 1027278--1027896 Score: 897
Period size: 263 Copynumber: 2.4 Consensus size: 255
1027268 CTTATTCATA
*
1027278 TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTC
1 TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCTTATATTCGGGTC
* *
1027343 GGGTCGGGTGAAACTTTATTTTCGTCTGGTCGGGTCGGTTTTTTAAGTGTGGTATTCGGGTCGGG
66 GGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCGGG
* *
1027408 TCGAGTTCAGGTTTAGGGTGAAAAATACCCACCCCGAAAATTTATATAATTTTACCTTATATATT
131 TCGAGTTCAGGTTTAGGGTGAAAAATACCCACCCCCAAAAATTATATAATTTTACCTTATATATT
* * *
1027473 TAGGAATAATTACAATAATACCCTTTTATATATAATTTTTTTCAATTAAGTCACAGTTTT
196 TAGGAATAATTACAATAATACCCTTCTATAAATAATTTTTTTCAATTAAGTAACAGTTTT
* *
1027533 TATTGAATAAAAATATTTTTTATTACTTCGGGTCGGGTCAGATTTCTAATTCTTATATTCGGGTC
1 TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCTTATATTCGGGTC
*
1027598 GGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGTTCGGTTTCTTTTAAGTGTGATATTCGGGTCG
66 GGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGG-TT-TTTTAAGTGTGATATTCGGGTCG
1027663 GGTC-AGGTTC-GAGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAATTATATAATTTTACCT
129 GGTCGA-GTTCAG-GTTTAGGGTGAAAAATACCC-A-CC--CCCAAAAATTATATAATTTTACCT
*
1027726 TATATATTTAGGAATAATTACAATAATACCCCTCTCTCTAAAT-ATTTTTTTCCAATTAAGTAAC
188 TATATATTTAGGAATAATTACAATAATA-CCCT-TCTATAAATAATTTTTTT-CAATTAAGTAAC
*
1027790 TGTTTT
250 AGTTTT
* * * * *
1027796 TATTGAATAAAAATAGTTTTTATTATTTCAGGTTGGGTCGGGTTTCTAATT-TATATATTCGAGT
1 TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCT-TATATTCGGGT
* **
1027860 CGAGTCAAGTGAAACTTTATTTTGGT-TGGGTCGGGTC
65 CGGGTCGGGTGAAACTTTATTTTGGTCT-GGTCGGGTC
1027897 TCGGATGGAG
Statistics
Matches: 327, Mismatches: 24, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
255 98 0.30
256 4 0.01
257 50 0.15
258 1 0.00
259 2 0.01
261 50 0.15
262 14 0.04
263 108 0.33
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (255 bp):
TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCTTATATTCGGGTC
GGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCGGG
TCGAGTTCAGGTTTAGGGTGAAAAATACCCACCCCCAAAAATTATATAATTTTACCTTATATATT
TAGGAATAATTACAATAATACCCTTCTATAAATAATTTTTTTCAATTAAGTAACAGTTTT
Found at i:1031597 original size:26 final size:26
Alignment explanation
Indices: 1031574--1031635 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
1031564 CTTATATTCG
*
1031574 GGTCGGGTTGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
*
1031600 GGTCGGGTCGGGTGAAATTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1031626 GGTCGGGTCG
1 GGTCGGGTCG
1031636 TGGCGGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.13, C:0.10, G:0.39, T:0.39
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1031883 original size:291 final size:282
Alignment explanation
Indices: 1031318--1031903 Score: 822
Period size: 291 Copynumber: 2.0 Consensus size: 282
1031308 CATATATTCA
* *
1031318 GGTCGGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGT
1 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGC
**
1031383 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCTGAAAATTTATATAATTTTACCTTATA
66 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCTGAAAAAGTATATAATTTTACCTTATA
* * *
1031448 TATTTAGGAATAATTACAATAATACCCTTTTATATATAATTTTTTTCAATTAAGTTACTGTTTTT
131 TATTTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTCAATTAAGTCACTATTTTT
* * *
1031513 ATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGGCGGATTTCTAATTCTTATATTCGGGTC
196 ATTGAATAAAAATATGTTTTTATTATTTCAGGTCGGGGCGGATTTCTAATTCTTATATTCGAGTC
**
1031578 GGGTTGGGTGAAACTTTATTTT
261 GGGTCAGGTGAAACTTTATTTT
*
1031600 GGTCGGGTCGGGTGAAATTTTATTTTGGTCGGGTCGTGG-CGGTTTCTTTTAAGTGTGATATTCG
1 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCG-GGTCGG-TT-TTTTAAGTGTGATATTCG
* *
1031664 TGCCGGGTCGGGTTC-GAGTTTAGGGTGAAAAATACCCGACCC-GACCCAAAAAGTATATAATTT
63 GGCCGGGTCGAGTTCAG-GTTTAGGGTGAAAAATACCCG-CCCTG----AAAAAGTATATAATTT
*
1031727 TACCTTATATATTTAGGAATAATTACAATAATACCCCTCTCTCTATAT-ATTTTTTTCCAATTAA
122 TACCTTATATATTTAGGAATAATTACAATAATA-CCCT-TCTATATATAATTTTTTT-CAATTAA
* * * *
1031791 GTCACTATTTTTTTTGAATAAAAATAATGTTTTTATTATTTCAGGTTGGGTCGGGTTTCTAATT-
184 GTCACTATTTTTATTGAATAAAAAT-ATGTTTTTATTATTTCAGGTCGGGGCGGATTTCTAATTC
1031855 TATATATTCGAGTCGGGTCAGGTGAAACTTTATTTT
248 T-TATATTCGAGTCGGGTCAGGTGAAACTTTATTTT
*
1031891 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
1031904 CTCGGATGGA
Statistics
Matches: 269, Mismatches: 21, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
282 37 0.14
283 5 0.02
284 52 0.19
285 3 0.01
288 47 0.17
289 12 0.04
290 37 0.14
291 76 0.28
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.41
Consensus pattern (282 bp):
GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGC
CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCTGAAAAAGTATATAATTTTACCTTATA
TATTTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTCAATTAAGTCACTATTTTT
ATTGAATAAAAATATGTTTTTATTATTTCAGGTCGGGGCGGATTTCTAATTCTTATATTCGAGTC
GGGTCAGGTGAAACTTTATTTT
Found at i:1035655 original size:26 final size:26
Alignment explanation
Indices: 1035632--1035696 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
1035622 CTTATATTCG
*
1035632 GGTCGGGTTGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1035658 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1035684 GGTCGGGTCGGGT
1 GGTCGGGTCGGGT
1035697 CGGTTTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.12, C:0.11, G:0.40, T:0.37
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1035699 original size:31 final size:28
Alignment explanation
Indices: 1035623--1035696 Score: 102
Period size: 26 Copynumber: 2.8 Consensus size: 28
1035613 TTTCTAATTC
* *
1035623 TTATATTCGGGTCGGGTTGGGTGAAACT
1 TTATTTTCGGGTCGGGTCGGGTGAAACT
1035651 TTATTTT--GGTCGGGTCGGGTGAAACT
1 TTATTTTCGGGTCGGGTCGGGTGAAACT
1035677 TTATTTT--GGTCGGGTCGGGT
1 TTATTTTCGGGTCGGGTCGGGT
1035697 CGGTTTCTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 38 0.86
28 6 0.14
ACGTcount: A:0.14, C:0.11, G:0.36, T:0.39
Consensus pattern (28 bp):
TTATTTTCGGGTCGGGTCGGGTGAAACT
Found at i:1035921 original size:291 final size:283
Alignment explanation
Indices: 1035375--1035959 Score: 861
Period size: 291 Copynumber: 2.0 Consensus size: 283
1035365 CATATATTCA
* * *
1035375 GGTCGGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGT
1 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATGCGGGC
* * **
1035440 CGGGTCGGGTTCAGGTTTAGGGTGAAAAATACCCGCCCCGAAAATTTATATAATTTTACCTTATA
66 CGAGTCGGGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCTTATA
* * *
1035505 TATTTAGGAATAATTACAATAATACCCTTTTATATATAATTTTTTTCAATTAAGTTACTGTTTTT
131 TATTTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTCAATTAAGTCACTATTTTT
* * * *
1035570 ATTGAATAAAAATATTTTTTTTATTATTTCGGGTCGGGGCGGATTTCTAATTCTTATATTCGGGT
196 ATTGAATAAAAATAATGTTTTTATTATTTCAGGTCGGGGCGGATTTCTAATTCTTATATTCGAGT
**
1035635 CGGGTTGGGTGAAACTTTATTTT
261 CGGGTCAGGTGAAACTTTATTTT
1035658 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTCTTTTAAGTGTGATATGCGG
1 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG-TT-TTTTAAGTGTGATATGCGG
1035723 GCCGAGTCGGGTTC-GAGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAAGTATATAATTTTA
64 GCCGAGTCGGGTTCAG-GTTTAGGGTGAAAAATACCCG--CC--CCCAAAAAGTATATAATTTTA
*
1035787 CCTTATATATTTAGGAATAATTACAATAATACCCCTCTCTCTATAT-ATTTTTTTCCAATTAAGT
124 CCTTATATATTTAGGAATAATTACAATAATA-CCCT-TCTATATATAATTTTTTT-CAATTAAGT
* * *
1035851 CACTATTTTTATTGAATAAAAATAATGTTTTTATTATTTCAGGTTGGGTCGGGTTTCTAATT-TA
186 CACTATTTTTATTGAATAAAAATAATGTTTTTATTATTTCAGGTCGGGGCGGATTTCTAATTCT-
1035915 TATATTCGAGTCGGGTCAGGTGAAACTTTATTTT
250 TATATTCGAGTCGGGTCAGGTGAAACTTTATTTT
*
1035949 GGTTGGGTCGG
1 GGTCGGGTCGG
1035960 TCTCGGATGG
Statistics
Matches: 270, Mismatches: 21, Indels: 14
0.89 0.07 0.05
Matches are distributed among these distances:
283 41 0.15
284 3 0.01
285 51 0.19
287 2 0.01
289 49 0.18
290 13 0.05
291 111 0.41
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (283 bp):
GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTAAGTGTGATATGCGGGC
CGAGTCGGGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCTTATA
TATTTAGGAATAATTACAATAATACCCTTCTATATATAATTTTTTTCAATTAAGTCACTATTTTT
ATTGAATAAAAATAATGTTTTTATTATTTCAGGTCGGGGCGGATTTCTAATTCTTATATTCGAGT
CGGGTCAGGTGAAACTTTATTTT
Found at i:1039722 original size:26 final size:26
Alignment explanation
Indices: 1039699--1039761 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
1039689 ATTATATTCG
1039699 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1039725 GGTCGGGTCGGGTGAAACTTTATTTT
1 GGTCGGGTCGGGTGAAACTTTATTTT
1039751 GGTCGGGTCGG
1 GGTCGGGTCGG
1039762 TTTCTTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.35
Consensus pattern (26 bp):
GGTCGGGTCGGGTGAAACTTTATTTT
Found at i:1040019 original size:284 final size:280
Alignment explanation
Indices: 1039443--1040021 Score: 835
Period size: 283 Copynumber: 2.0 Consensus size: 280
1039433 CATATATTCG
* *
1039443 GGTCGGGTCGGGTAAAACTTTATTTTGGTCTGGTCGGGTCGGTTTTTTAACTGTGATATTCGGGT
1 GGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGTCGGGT--GTTTTTTAACTGTGATATTCGGGC
* **
1039508 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCGAAAATTTATATAATTTTACCTTATA
64 CGGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCTTATA
* *
1039573 TATTTAGGAATAATTATAATAATACCCATTTATATATAATTTTTTTCAATTAAGTCACTGTTTTT
129 TATTTAGGAATAATTACAATAATACCCATCTATATATAATTTTTTTCAATTAAGTCACTGTTTTT
* * *
1039638 ATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTATTATATTCGGGTC
194 ATTGAATAAAAATATGTTTTTATTATTTCAGGTCGGGTCGGATTTCTAATTATTATATTCGAGTC
*
1039703 GGGTCGGGTGAAACTTTATTTT
259 GGGTCAGGTGAAACTTTATTTT
* *
1039725 GGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTC-GGT-TTCTTTTAAGTGTGATATTCGGGCC
1 GGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGTCGGGTGTT-TTTTAACTGTGATATTCGGGCC
* *
1039788 GGGTCGGGTTC-GAGTTTAGGGTGAAAAATACCGGACCCGACCCAAAAAGTATATAATTTTACCT
65 GGGTCGAGTTCAG-GTTTAGGGTGAAAAATACCCG--CC--CCCAAAAAGTATATAATTTTACCT
* * *
1039852 TATATATTTAGGAATAATTACAATAATACCCCTCTCTATAT-ATTTTTTTCCAATTAAGTCATTG
125 TATATATTTAGGAATAATTACAATAATACCCATCTATATATAATTTTTTT-CAATTAAGTCACTG
* *
1039916 TTTTTATTGAATAAAAATAATGTTTTTATTATTTCAGGTTGGGTCGGGTTTCTAATT-TATATAT
189 TTTTTATTGAATAAAAAT-ATGTTTTTATTATTTCAGGTCGGGTCGGATTTCTAATTAT-TATAT
1039980 TCGAGTCGGGTCAGGTGAAACTTTATTTT
252 TCGAGTCGGGTCAGGTGAAACTTTATTTT
*
1040009 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
1040022 CTCGGATGGA
Statistics
Matches: 267, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
278 3 0.01
279 50 0.19
281 5 0.02
282 41 0.15
283 90 0.34
284 78 0.29
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (280 bp):
GGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGTCGGGTGTTTTTTAACTGTGATATTCGGGCCG
GGTCGAGTTCAGGTTTAGGGTGAAAAATACCCGCCCCCAAAAAGTATATAATTTTACCTTATATA
TTTAGGAATAATTACAATAATACCCATCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTAT
TGAATAAAAATATGTTTTTATTATTTCAGGTCGGGTCGGATTTCTAATTATTATATTCGAGTCGG
GTCAGGTGAAACTTTATTTT
Found at i:1045005 original size:148 final size:149
Alignment explanation
Indices: 1044800--1045069 Score: 438
Period size: 148 Copynumber: 1.8 Consensus size: 149
1044790 TAATTTTAAG
* *
1044800 AAAATATATTAATATATATATATCTTTATAAATAAGATATTTATTTACTTAGAAATATCAGAAAA
1 AAAATAAATTAATATATATATATCTTTAAAAATAAGATATTTATTTACTTAGAAATATCAGAAAA
*
1044865 TGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAA
66 GGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAA
1044930 TATTTTTCTAAAAATAATT
131 TATTTTTCTAAAAATAATT
* *
1044949 AAAATAAATTAATATATATA-AT-TTATAAAAATAGGATATTTATTTA-TTTGAGAATATCAGAA
1 AAAATAAATTAATATATATATATCTT-TAAAAATAAGATATTTATTTACTTAGA-AATATCAGAA
* *
1045011 AAGGACTTCTAGGTGCTTTAAGACAGCTCATTTCTTAATATTAAAAAATAAATAAATAT
64 AAGGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATAT
1045070 GATTATTTTT
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
147 6 0.05
148 87 0.78
149 19 0.17
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (149 bp):
AAAATAAATTAATATATATATATCTTTAAAAATAAGATATTTATTTACTTAGAAATATCAGAAAA
GGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAA
TATTTTTCTAAAAATAATT
Found at i:1045225 original size:23 final size:22
Alignment explanation
Indices: 1045195--1045237 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1045185 TAATAATAAT
1045195 AACAATAATAAT-TAAATATATA
1 AACAATAA-AATATAAATATATA
1045217 AACATATAAAATATAAATATA
1 AACA-ATAAAATATAAATATA
1045238 AATATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (22 bp):
AACAATAAAATATAAATATATA
Found at i:1046611 original size:3 final size:3
Alignment explanation
Indices: 1046605--1046631 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1046595 AATAATTTTT
1046605 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1046632 ATCAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1051219 original size:56 final size:54
Alignment explanation
Indices: 1051103--1051227 Score: 133
Period size: 56 Copynumber: 2.3 Consensus size: 54
1051093 GATGTACTCG
* * * *
1051103 GTCTCACTAAGCATCAAATATCATTTCACCATATAGACTTAAGTATGGTTGTCC
1 GTCTCACTAAGCATCAAATATCAATTCACCATATAGACATAAGTATCGTTGTCA
* * * * *
1051157 GATCTCACTAAGCATCATACTATTAATTCACCATATAGTCATAAGTATCTTTGCTTA
1 G-TCTCACTAAGCATCA-AATATCAATTCACCATATAGACATAAGTATCGTTG-TCA
*
1051214 GTCTCACGAAGCAT
1 GTCTCACTAAGCAT
1051228 TAAGAGTCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
54 1 0.02
55 15 0.26
56 40 0.69
57 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (54 bp):
GTCTCACTAAGCATCAAATATCAATTCACCATATAGACATAAGTATCGTTGTCA
Found at i:1053259 original size:181 final size:182
Alignment explanation
Indices: 1052913--1053381 Score: 717
Period size: 181 Copynumber: 2.6 Consensus size: 182
1052903 GATCCAAATT
* * * **
1052913 AAAAATGTGTCGATCCAAAACGATATAACA-GTTAAAACTATGACAAAACCGGTATTGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACATG-TAAAAATATGATAAAACCGGTATCAAAATGAT
* * * * *
1052977 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
1053042 CGTGAATTTAAAAGAGAAGCAATTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
1053095 AAAAATGTATCGATCCAAAACGATATACCATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
1053160 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
1053224 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
1053276 AAAAATATATCGATCTACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1053341 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATA
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATA
1053382 TTTTCGTAAG
Statistics
Matches: 263, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 165 0.63
182 97 0.37
183 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:1053357 original size:17 final size:19
Alignment explanation
Indices: 1053317--1053357 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1053307 GTAAAAATAT
*
1053317 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
1053337 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
1053354 GATA
1 GATA
1053358 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:1055598 original size:21 final size:21
Alignment explanation
Indices: 1055572--1055636 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1055562 AAGACAATCA
*
1055572 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1055593 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1055614 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1055635 AG
1 AG
1055637 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1055712 original size:33 final size:33
Alignment explanation
Indices: 1055670--1055735 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1055660 AAATAGATGG
*
1055670 AGTGGTGAAAGAAGTAAAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAAAGGTGTTAAGGGGTGA
***
1055703 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAAAGGTGTTAAGGGGTGA
1055736 TATTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAAAGGTGTTAAGGGGTGA
Found at i:1057355 original size:19 final size:19
Alignment explanation
Indices: 1057331--1057379 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1057321 AATGTAGGGT
1057331 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1057350 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1057369 TAATTTTGTAT
1 TAATTTTGTAT
1057380 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1058207 original size:199 final size:200
Alignment explanation
Indices: 1057613--1058246 Score: 1171
Period size: 200 Copynumber: 3.2 Consensus size: 200
1057603 AATTTACAAT
*
1057613 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1057678 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
1057743 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCTAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1057808 AATGA
196 AATGA
*
1057813 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1057878 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
1057943 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1058008 AATGA
196 AATGA
*
1058013 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGCCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1058078 CGAAACCCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
1058142 ATGAGAGAATAAGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1058207 AATGA
196 AATGA
* *
1058212 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCC
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCC
1058247 CATAAACATC
Statistics
Matches: 423, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
199 135 0.32
200 288 0.68
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:1059832 original size:6 final size:6
Alignment explanation
Indices: 1059821--1059872 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
1059811 CAAGCGGTCA
* * * * * *
1059821 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
1059869 ATGA
1 ATGA
1059873 TGATCCAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:1059843 original size:12 final size:12
Alignment explanation
Indices: 1059821--1059872 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
1059811 CAAGCGGTCA
*
1059821 ATGAAGATGAAG
1 ATGACGATGAAG
*
1059833 CTGACGATGAAG
1 ATGACGATGAAG
*
1059845 ATGACGATGATG
1 ATGACGATGAAG
* *
1059857 ATGATGATGATG
1 ATGACGATGAAG
1059869 ATGA
1 ATGA
1059873 TGATCCAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1059858 original size:3 final size:3
Alignment explanation
Indices: 1059838--1059876 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
1059828 TGAAGCTGAC
* *
1059838 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1059877 CCAAACAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:1061431 original size:183 final size:182
Alignment explanation
Indices: 1061086--1061491 Score: 688
Period size: 183 Copynumber: 2.2 Consensus size: 182
1061076 CAAAGTTTTC
* *
1061086 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1061151 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCCATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
1061216 TAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1061270 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1061335 CAAAAAGTGTCCACATT-TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGT-C-CATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
1061399 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1061453 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1061492 TATAATGTAC
Statistics
Matches: 211, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
183 134 0.64
184 73 0.35
185 1 0.00
186 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCCATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1061578 original size:120 final size:120
Alignment explanation
Indices: 1061365--1061611 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
1061355 ACATCGGAAC
1061365 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
*
1061430 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
1061485 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
*
1061550 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
1061605 CCAGAAT
1 CCAGAAT
1061612 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:1061739 original size:303 final size:303
Alignment explanation
Indices: 1061186--1061776 Score: 1083
Period size: 303 Copynumber: 2.0 Consensus size: 303
1061176 CGGAACCCAT
*
1061186 AATTATAATGTAATAGATAATTTTGTAATATAATCGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
1061251 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
*
1061316 AAATGTGTCGATACCTTGTCAAAAAGTGTCCACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACATTGTCAAAAAGTGTCCACATTTACACATCGGAACCCAGAATTATAATGTA
1061381 ATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACC
*
1061446 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
261 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * *
1061489 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
1061554 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
* *
1061619 AAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCTAGAATTATAATGTA
131 AAATGTGTCGATACATTGTCAAAAAGTGTCCACATTTACACATCGGAACCCAGAATTATAATGTA
* *
1061684 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGTGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACC
1061749 TATATCGACACTTTTTAATATTGTGTCG
261 TATATCGACACTTTTTAATATTGTGTCG
1061777 ATAATTTTAA
Statistics
Matches: 277, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 277 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (303 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATGTGTCGATACATTGTCAAAAAGTGTCCACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:1065229 original size:87 final size:87
Alignment explanation
Indices: 1065125--1065374 Score: 464
Period size: 87 Copynumber: 2.9 Consensus size: 87
1065115 AAATAGGTCA
* *
1065125 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1065190 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
1065212 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1065277 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
*
1065299 ATATAAGCGCTATCTATTTCATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
1065364 CCGGTTAAATA
66 CCCGTTAAATA
1065375 ATATAACATA
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 159 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:1065259 original size:23 final size:23
Alignment explanation
Indices: 1065209--1065253 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1065199 TACCTATTTT
* *
1065209 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1065232 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1065254 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1067594 original size:272 final size:273
Alignment explanation
Indices: 1067254--1067797 Score: 729
Period size: 272 Copynumber: 2.0 Consensus size: 273
1067244 TGGATGAGCC
* * * *
1067254 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCCTTAT
1 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTATCCCTCATTGGATAAGTTCTTCTCATTAT
* * *
1067319 GAACTCTACATTGGAAATGTTGATCCACCTCATTCTTTGATGTAA-TCAAATAAAGTGATAATGC
66 GAACTCTACACTGGAAATGTTGATCCACCTCATTCTGTGATGGAACTCAAA-AAAGTGATAATGC
** *
1067383 TGATCCAACTCCATATGTGA-TGTATAAGCCAAGGTTGAACAAGTTCTTCTCA-TTATGAACTTC
130 TGATCCAACTCCATATACGACAG-ATAAGCCAAGGTTGAACAAGTTCTTCT-AGTTATGAACTTC
* * * * *
1067446 TTCTCCCTCATTAGATGAGTTATTCTC-A-AACTCTCCCATTGGAAATTTTAATCCACCTCTTTC
193 TTCTCCCTCATTAGACGAGTTATTCTCTAGAACTCT-CCACTGGAAATATTAATCCACCTCATTA
1067509 TGTGATGGAATCGTGCT
257 TGTGATGGAATCGTGCT
*
1067526 AAGGTTGAACAAGTTCTTCTCATTATAAAGTTCTTATCCCTCATTGGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTATCCCTCATTGGATAAGTTCTTCTCATTAT
* ** * * *
1067591 GAACTCTCCACTGGAAATGTTGATCTGCCTCCTTCTGTGATGGAACTGAAAAAAGTGATGATGCT
66 GAACTCTACACTGGAAATGTTGATCCACCTCATTCTGTGATGGAACTCAAAAAAGTGATAATGCT
* * *
1067656 GATCTAACTCCATATACGACAGATGAGCCAAGTTTGAACAAGTTCTTCTAGTTATGAACTTCTTC
131 GATCCAACTCCATATACGACAGATAAGCCAAGGTTGAACAAGTTCTTCTAGTTATGAACTTCTTC
* * * *
1067721 TTCCTCATTGGACGAGTTCTTCTCATTATGAACTCTCCACTGGAAATATTAGTCCACCTCATTAT
196 TCCCTCATTAGACGAGTTATTCTC--TA-GAACTCTCCACTGGAAATATTAATCCACCTCATTAT
1067786 GTGATGGAATCG
258 GTGATGGAATCG
1067798 AACAAAGTGA
Statistics
Matches: 235, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
271 1 0.00
272 186 0.79
273 5 0.02
275 1 0.00
276 36 0.15
277 6 0.03
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (273 bp):
AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTATCCCTCATTGGATAAGTTCTTCTCATTAT
GAACTCTACACTGGAAATGTTGATCCACCTCATTCTGTGATGGAACTCAAAAAAGTGATAATGCT
GATCCAACTCCATATACGACAGATAAGCCAAGGTTGAACAAGTTCTTCTAGTTATGAACTTCTTC
TCCCTCATTAGACGAGTTATTCTCTAGAACTCTCCACTGGAAATATTAATCCACCTCATTATGTG
ATGGAATCGTGCT
Found at i:1067824 original size:159 final size:159
Alignment explanation
Indices: 1067530--1067829 Score: 435
Period size: 159 Copynumber: 1.9 Consensus size: 159
1067520 CGTGCTAAGG
* *
1067530 TTGAACAAGTTCTTCTCATTATAAAGTTCTTATCCCTCATTGGATAAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATAAACTTCTTATCCCTCATTGGACAAGTTCTTCTCATTATGAAC
* ** * *
1067595 TCTCCACTGGAAATGTTGATCTGCCTCCTTCTGTGATGGAACTGAAAAAAGTGATGATGCTGATC
66 TCTCCACTGGAAATATTGATCCACCTCATTATGTGATGGAACTGAAAAAAGTGATGATGCTGATC
*
1067660 TAACTCCATATACGACAGATGAGCCAAGT
131 CAACTCCATATACGACAGATGAGCCAAGT
* * * *
1067689 TTGAACAAGTTCTTCT-AGTTATGAACTTCTTCTTCCTCATTGGACGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCA-TTATAAACTTCTTATCCCTCATTGGACAAGTTCTTCTCATTATGAA
*
1067753 CTCTCCACTGGAAATATT-AGTCCACCTCATTATGTGATGGAA-TCGAACAAAGTGATGATGCTG
65 CTCTCCACTGGAAATATTGA-TCCACCTCATTATGTGATGGAACT-GAAAAAAGTGATGATGCTG
1067816 ATCCAACTCCATAT
128 ATCCAACTCCATAT
1067830 GCGATGGTTG
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
158 3 0.02
159 122 0.98
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (159 bp):
TTGAACAAGTTCTTCTCATTATAAACTTCTTATCCCTCATTGGACAAGTTCTTCTCATTATGAAC
TCTCCACTGGAAATATTGATCCACCTCATTATGTGATGGAACTGAAAAAAGTGATGATGCTGATC
CAACTCCATATACGACAGATGAGCCAAGT
Found at i:1068206 original size:118 final size:119
Alignment explanation
Indices: 1068052--1068277 Score: 359
Period size: 118 Copynumber: 1.9 Consensus size: 119
1068042 GAGCAAAGCG
* * *
1068052 TTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCATTCTGTGAT
1 TTTGAACAAGTTATCCTCATTATGAACTTCTTCATTGGAAATGTTAATCCACCTCATTCTGTGAT
* *
1068117 GGATTCGA-GCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTATTGTCCTTTA
66 GGAATC-ATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTGTCCTTTA
1068171 TTTG-ACAAGTTATCCTCATTATGAAC-TCTCTCATTGGAAATGTTAATCCACCTCATTCTGTGA
1 TTTGAACAAGTTATCCTCATTATGAACTTCT-TCATTGGAAATGTTAATCCACCTCATTCTGTGA
*
1068234 TGGAATCATGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTT
65 TGGAATCATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTT
1068278 CTTCTCCCTC
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
117 4 0.04
118 91 0.92
119 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (119 bp):
TTTGAACAAGTTATCCTCATTATGAACTTCTTCATTGGAAATGTTAATCCACCTCATTCTGTGAT
GGAATCATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTGTCCTTTA
Found at i:1068307 original size:118 final size:118
Alignment explanation
Indices: 1068057--1068314 Score: 358
Period size: 118 Copynumber: 2.2 Consensus size: 118
1068047 AAGCGTTTGA
* *
1068057 ACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCATTCTGTGATGGATT
1 ACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTAATCCACCTCATTCTGTGATGGAAT
* * * * **
1068122 CGAGCAAAGGTTGAACAAGTTCTTCTTATTATGAACTTATTGTCCTTTATTTG
66 CGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGG
* *
1068175 ACAAGTTATCCTCATTATGAAC-TCTCTCATTGGAAATGTTAATCCACCTCATTCTGTGATGGAA
1 ACAAGTTCTTCTCATTATGAACTTCT-TCATTGGAAATGTTAATCCACCTCATTCTGTGATGGAA
* *
1068239 TC-ATGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
65 TCGA-GCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGG
**
1068293 ATGAGTTCTTCTCATTATGAAC
1 ACAAGTTCTTCTCATTATGAAC
1068315 CCTTCCATTA
Statistics
Matches: 122, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
117 4 0.03
118 118 0.97
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (118 bp):
ACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTAATCCACCTCATTCTGTGATGGAAT
CGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGG
Found at i:1070226 original size:64 final size:62
Alignment explanation
Indices: 1070152--1070337 Score: 180
Period size: 65 Copynumber: 2.9 Consensus size: 62
1070142 TGACTGTTGG
* *
1070152 ACCCTTAGTGCATCGGTGCACTAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCA-AAA
1 ACCCTGAGTGCATCGATGCACT--GAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA
** * *
1070215 TAGGCTGAGTGCATCGATGAATGGCTG-GTGCATCGATGCATCAAATGCATTCGATGTTTTCATA
1 -ACCCTGAGTGCATCGATGCA---CTGAGTGCATCGATGCATAAAATGCATTCGATG-TTTCATA
1070279 AA
61 AA
* * *
1070281 ACCCTGAGTGTATCGATGCA-TGGTATGTGCATCGATGCATGAAATGCTTTCGATGTT
1 ACCCTGAGTGCATCGATGCACT-G-A-GTGCATCGATGCATAAAATGCATTCGATGTT
1070338 CAATTTATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 45 0.45
65 49 0.49
66 3 0.03
67 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (62 bp):
ACCCTGAGTGCATCGATGCACTGAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA
Found at i:1070311 original size:65 final size:65
Alignment explanation
Indices: 1070178--1070337 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
1070168 TGCACTAAGA
**
1070178 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGGCTGAGTGCATCGATGAATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGAATGGCTG
* * *
1070242 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGTATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGAATGGCT
*
1070305 AT
65 -G
* *
1070307 GTGCATCGATGCATGAAATGCTTTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
1070338 CAATTTATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 29 0.34
65 53 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGAATGGCTG
Found at i:1070376 original size:65 final size:63
Alignment explanation
Indices: 1070178--1070385 Score: 199
Period size: 65 Copynumber: 3.2 Consensus size: 63
1070168 TGCACTAAGA
* ** * *
1070178 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGGCTGAGTGCATCGATGAATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC-AATTAACCTGAGTGCATCGATGCATGGTTG
* * *
1070242 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACCCTGAGTGTATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-TAA-CCTGAGTGCATCGATGCATGGT-
1070306 T-
62 TG
* * *
1070307 GTGCATCGATGCATGAAATGCTTTCGATG-TTCAATTTATTCCTTG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TTA-ACC-TGAGTGCATCGATGCATGG-T
1070370 TG
62 TG
*
1070372 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1070386 CACTTTAAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 19
0.78 0.09 0.12
Matches are distributed among these distances:
63 4 0.03
64 49 0.41
65 66 0.55
66 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATTAACCTGAGTGCATCGATGCATGGTTG
Found at i:1072845 original size:151 final size:151
Alignment explanation
Indices: 1072625--1072926 Score: 604
Period size: 151 Copynumber: 2.0 Consensus size: 151
1072615 TTTGACGAAA
1072625 TTGATTATAAAATCTAGTTTAGAATCATAATATAATCAAAGCCCGATATAATGTTCATCATAGAA
1 TTGATTATAAAATCTAGTTTAGAATCATAATATAATCAAAGCCCGATATAATGTTCATCATAGAA
1072690 CTAATTAAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAA
66 CTAATTAAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAA
1072755 CAAAACAAAGTCTACTCGTCC
131 CAAAACAAAGTCTACTCGTCC
1072776 TTGATTATAAAATCTAGTTTAGAATCATAATATAATCAAAGCCCGATATAATGTTCATCATAGAA
1 TTGATTATAAAATCTAGTTTAGAATCATAATATAATCAAAGCCCGATATAATGTTCATCATAGAA
1072841 CTAATTAAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAA
66 CTAATTAAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAA
1072906 CAAAACAAAGTCTACTCGTCC
131 CAAAACAAAGTCTACTCGTCC
1072927 ATAGAAGGAT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (151 bp):
TTGATTATAAAATCTAGTTTAGAATCATAATATAATCAAAGCCCGATATAATGTTCATCATAGAA
CTAATTAAAACAATCCCAAAGCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCAAAA
CAAAACAAAGTCTACTCGTCC
Found at i:1083946 original size:13 final size:12
Alignment explanation
Indices: 1083920--1083944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1083910 TAGAATAAGC
1083920 AGAAAAAAATAA
1 AGAAAAAAATAA
1083932 AGAAAAAAATAA
1 AGAAAAAAATAA
1083944 A
1 A
1083945 AGGCATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AGAAAAAAATAA
Found at i:1085262 original size:18 final size:18
Alignment explanation
Indices: 1085239--1085275 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1085229 AATCCTAAAA
1085239 AAATTACAATTGGTTCCT
1 AAATTACAATTGGTTCCT
1085257 AAATTACAATTGGTTCCT
1 AAATTACAATTGGTTCCT
1085275 A
1 A
1085276 TTGCATGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (18 bp):
AAATTACAATTGGTTCCT
Found at i:1086234 original size:56 final size:54
Alignment explanation
Indices: 1086118--1086241 Score: 131
Period size: 56 Copynumber: 2.2 Consensus size: 54
1086108 GATGTACTCG
* * * * *
1086118 GTCTCACTAAGCATCAAATATCATTTCACCATATAGACTTAAGTATGGTTGTTC
1 GTCTCACTAAGCATCAAATATCAATTCACCATATAGACCTAAATATAGTTGTTA
* * * *
1086172 GATCTCACTAAGCATCAGACTATTAATTCACCATATAGTCCTAAATATATTTGCTTA
1 G-TCTCACTAAGCATCA-AATATCAATTCACCATATAGACCTAAATATAGTTG-TTA
*
1086229 GTCTCACGAAGCA
1 GTCTCACTAAGCA
1086242 ATAAGAGTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
54 1 0.02
55 15 0.26
56 38 0.67
57 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (54 bp):
GTCTCACTAAGCATCAAATATCAATTCACCATATAGACCTAAATATAGTTGTTA
Found at i:1087906 original size:6 final size:6
Alignment explanation
Indices: 1087895--1087926 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
1087885 AGATTGAATC
1087895 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CT
1 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CT
1087927 TGAACCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCAAA
Found at i:1089031 original size:35 final size:34
Alignment explanation
Indices: 1088992--1089058 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
1088982 ATTCATGCAT
* *
1088992 CTAGTTCATTGAATAAAGTTAGTTCATTAATTAAA
1 CTAGTTCATTCAATAAA-CTAGTTCATTAATTAAA
* *
1089027 CTAGTTCATTCATTAAACTAGTTCATTTATTA
1 CTAGTTCATTCAATAAACTAGTTCATTAATTA
1089059 GCCTAACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (34 bp):
CTAGTTCATTCAATAAACTAGTTCATTAATTAAA
Found at i:1089033 original size:17 final size:17
Alignment explanation
Indices: 1088992--1089058 Score: 82
Period size: 17 Copynumber: 3.9 Consensus size: 17
1088982 ATTCATGCAT
1088992 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
1089009 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
*
1089027 CTAGTTCATTCATTAAA
1 CTAGTTCATTAATTAAA
*
1089044 CTAGTTCATTTATTA
1 CTAGTTCATTAATTA
1089059 GCCTAACTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:1090611 original size:49 final size:49
Alignment explanation
Indices: 1090533--1090629 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
1090523 TAATTTGATC
* * *
1090533 ACATATTAAGTCACATAAAACAAGGGAAATGATAAAATTATCCCAAAAA
1 ACATATCAAGTCACATAAAACAAGAGAAATGATAAAATGATCCCAAAAA
* **
1090582 ACATATCAAGTCATATAAAATGAGAGAAATGATAAAATGATCCCAAAA
1 ACATATCAAGTCACATAAAACAAGAGAAATGATAAAATGATCCCAAAA
1090630 TATCATTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (49 bp):
ACATATCAAGTCACATAAAACAAGAGAAATGATAAAATGATCCCAAAAA
Found at i:1090973 original size:31 final size:31
Alignment explanation
Indices: 1090920--1091004 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
1090910 ATAGAATTTT
*
1090920 CACTTTTATTTTTAT---TAGTGAAAAAATC
1 CACTTTCATTTTTATCAGTAGTGAAAAAATC
1090948 CACTTTCATTTTTATCAGTAGTGAAAAAATC
1 CACTTTCATTTTTATCAGTAGTGAAAAAATC
* *
1090979 CACATTCATTCTTATCAGTAGTGAAA
1 CACTTTCATTTTTATCAGTAGTGAAA
1091005 GAAGATTCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 14 0.27
31 37 0.73
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (31 bp):
CACTTTCATTTTTATCAGTAGTGAAAAAATC
Found at i:1093017 original size:17 final size:17
Alignment explanation
Indices: 1092997--1093032 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1092987 TTTGTAGGGA
*
1092997 ATTGTATTTTCAGTCTT
1 ATTGTATTTTCAATCTT
*
1093014 ATTGTGTTTTCAATCTT
1 ATTGTATTTTCAATCTT
1093031 AT
1 AT
1093033 ATAATTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (17 bp):
ATTGTATTTTCAATCTT
Found at i:1094550 original size:23 final size:23
Alignment explanation
Indices: 1094520--1094577 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
1094510 TCAGAATAAA
* **
1094520 AAAACTCTGTTTACCATAGCTGG
1 AAAACTCTGTTTACCAGAGCCAG
*
1094543 AAAACTCTATTTACCAGAGCCAG
1 AAAACTCTGTTTACCAGAGCCAG
1094566 AAAACTCTGTTT
1 AAAACTCTGTTT
1094578 CTACATGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (23 bp):
AAAACTCTGTTTACCAGAGCCAG
Found at i:1094870 original size:22 final size:22
Alignment explanation
Indices: 1094843--1094901 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1094833 TTTCTGTTCT
*
1094843 GCTGTTTGGTACCTGTTCCGCC
1 GCTGTTTGGTACCTATTCCGCC
*
1094865 GCTGTTTGGTACCTATTCTGCC
1 GCTGTTTGGTACCTATTCCGCC
* *
1094887 ACTG-TTGGTAACTAT
1 GCTGTTTGGTACCTAT
1094902 CCGACCAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (22 bp):
GCTGTTTGGTACCTATTCCGCC
Found at i:1099679 original size:23 final size:23
Alignment explanation
Indices: 1099649--1099692 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1099639 CTAAGCATGG
1099649 AGGTAGCGAGATCACGAGAAGGA
1 AGGTAGCGAGATCACGAGAAGGA
1099672 AGGTAGCGAGATCACGAGAAG
1 AGGTAGCGAGATCACGAGAAG
1099693 AAATTGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.39, T:0.09
Consensus pattern (23 bp):
AGGTAGCGAGATCACGAGAAGGA
Found at i:1099984 original size:162 final size:164
Alignment explanation
Indices: 1099717--1100044 Score: 642
Period size: 162 Copynumber: 2.0 Consensus size: 164
1099707 CAAAGAAAGT
1099717 ATATTCTAGACTTACTTTCTGAAACTGGAATGACTAATTGTAAGCCCTCGGAAACTCCTATAGAA
1 ATATTCTAGACTTACTTTCTGAAACTGGAATGACTAATTGTAAGCCCTCGGAAACTCCTATAGAA
1099782 GTTAACTTGAAATTGAGTAAAGATGGAAACCCGGTAAACAAAGAACGTTATTAAAGGCTAGTTGG
66 GTTAACTTGAAATTGAGTAAAGATGGAAACCCGGTAAACAAAGAACGTTATTAAAGGCTAGTTGG
1099847 TAAACTAATTTATCTATCTCT-ACTAGACC-GAC
131 TAAACTAATTTATCTATCTCTAACTAGACCTGAC
1099879 ATATTCTAGACTTACTTTCTGAAACTGGAATGACTAATTGTAAGCCCTCGGAAACTCCTATAGAA
1 ATATTCTAGACTTACTTTCTGAAACTGGAATGACTAATTGTAAGCCCTCGGAAACTCCTATAGAA
1099944 GTTAACTTGAAATTGAGTAAAGATGGAAACCCGGTAAACAAAGAACGTTATTAAAGGCTAGTTGG
66 GTTAACTTGAAATTGAGTAAAGATGGAAACCCGGTAAACAAAGAACGTTATTAAAGGCTAGTTGG
1100009 TAAACTAATTTATCTATCTCTAACTAGACCTGAC
131 TAAACTAATTTATCTATCTCTAACTAGACCTGAC
1100043 AT
1 AT
1100045 TGTTTTTCCT
Statistics
Matches: 164, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
162 151 0.92
163 8 0.05
164 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (164 bp):
ATATTCTAGACTTACTTTCTGAAACTGGAATGACTAATTGTAAGCCCTCGGAAACTCCTATAGAA
GTTAACTTGAAATTGAGTAAAGATGGAAACCCGGTAAACAAAGAACGTTATTAAAGGCTAGTTGG
TAAACTAATTTATCTATCTCTAACTAGACCTGAC
Found at i:1100892 original size:23 final size:23
Alignment explanation
Indices: 1100845--1100902 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
1100835 TTAGAATAAA
* *
1100845 AAAACCCTGTTTACTAGAGCCGG
1 AAAACTCTGTTTACCAGAGCCGG
* *
1100868 AAAACTCTGTTTACCATAGCTGG
1 AAAACTCTGTTTACCAGAGCCGG
*
1100891 AAAATTCTGTTT
1 AAAACTCTGTTT
1100903 CCACAAGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (23 bp):
AAAACTCTGTTTACCAGAGCCGG
Found at i:1102784 original size:21 final size:21
Alignment explanation
Indices: 1102758--1102810 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
1102748 TGCAACTATT
*
1102758 TGTCCTGCATGTGCTCTTGAA
1 TGTCCTGCATATGCTCTTGAA
1102779 TGTCCTGCATATGCTCTTGAA
1 TGTCCTGCATATGCTCTTGAA
*
1102800 TGTACTGCATA
1 TGTCCTGCATA
1102811 CAAAAACCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (21 bp):
TGTCCTGCATATGCTCTTGAA
Found at i:1105596 original size:57 final size:57
Alignment explanation
Indices: 1105508--1105621 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
1105498 ATTCATCTTT
1105508 GCTCCAACGCCGTCTTTCCCGCGAACCTCGTGGATCTCGTGGATCCGGGTCGGTAAA
1 GCTCCAACGCCGTCTTTCCCGCGAACCTCGTGGATCTCGTGGATCCGGGTCGGTAAA
1105565 GCTCCAACGCCGTCTTTCCCGCGAACCTCGTGGATCTCGTGGATCCGGGTCGGTAAA
1 GCTCCAACGCCGTCTTTCCCGCGAACCTCGTGGATCTCGTGGATCCGGGTCGGTAAA
1105622 ATAGAGAACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.16, C:0.33, G:0.28, T:0.23
Consensus pattern (57 bp):
GCTCCAACGCCGTCTTTCCCGCGAACCTCGTGGATCTCGTGGATCCGGGTCGGTAAA
Found at i:1108769 original size:20 final size:20
Alignment explanation
Indices: 1108739--1108795 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
1108729 TCTGGAATCA
1108739 AAGGG-ATCGATCCTTTTAC
1 AAGGGTATCGATCCTTTTAC
1108758 AAGGGTATCGATCCTTTTAC
1 AAGGGTATCGATCCTTTTAC
1108778 AAGGGTATCGATCCTTTT
1 AAGGGTATCGATCCTTTT
1108796 GTCAAAAGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 5 0.14
20 32 0.86
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (20 bp):
AAGGGTATCGATCCTTTTAC
Found at i:1109970 original size:24 final size:24
Alignment explanation
Indices: 1109936--1109992 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
1109926 CATTCGACTT
*
1109936 GATCATACTCACGATGTCTTGAAA
1 GATCATGCTCACGATGTCTTGAAA
1109960 GATCATGCTCACGATGTCTTGAAA
1 GATCATGCTCACGATGTCTTGAAA
1109984 GATCATGCT
1 GATCATGCT
1109993 AGCAAGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
GATCATGCTCACGATGTCTTGAAA
Found at i:1110987 original size:129 final size:129
Alignment explanation
Indices: 1110794--1111032 Score: 408
Period size: 129 Copynumber: 1.9 Consensus size: 129
1110784 ACAATGGGTA
*
1110794 ATGATCTCTGCAACAAAACAACAATATTTGCAATGAATAATTATTCTCTAACCACCTAATTCAAC
1 ATGATCTCTGCAACAAAACAACAATATTTGCAATGAATAATTATTCTCTAACCACATAATTCAAC
*
1110859 CCAATTTGTTCGAATTTAAAAAATTGAAAAAGTTAGGGTTTTGAAAAAATTTTACCCAAATGTG
66 CCAATTTATTCGAATTTAAAAAATTGAAAAAGTTAGGGTTTTGAAAAAATTTTACCCAAATGTG
* * *
1110923 ATGAT-TCATGCAATAAAACAATAATATTTGCAATGAATAATTATTCTTTAACCACATAATTCAA
1 ATGATCTC-TGCAACAAAACAACAATATTTGCAATGAATAATTATTCTCTAACCACATAATTCAA
*
1110987 CCCAATTTATTCGAATTTTAAAAATTGAAAAAGTTAGGGTTTTGAA
65 CCCAATTTATTCGAATTTAAAAAATTGAAAAAGTTAGGGTTTTGAA
1111033 GAATGATGTG
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
128 2 0.02
129 101 0.98
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.33
Consensus pattern (129 bp):
ATGATCTCTGCAACAAAACAACAATATTTGCAATGAATAATTATTCTCTAACCACATAATTCAAC
CCAATTTATTCGAATTTAAAAAATTGAAAAAGTTAGGGTTTTGAAAAAATTTTACCCAAATGTG
Found at i:1113446 original size:24 final size:24
Alignment explanation
Indices: 1113341--1113446 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
1113331 AACGGAGATA
* *
1113341 TCAGAAATCAAAATAGAATTCAAA
1 TCAGAAATCAAAACAGAATTCAAG
* * * *
1113365 TAAGATATCATAACAGAA-TCCAG
1 TCAGAAATCAAAACAGAATTCAAG
* * *
1113388 ATCAGAAATCAGAACATAATTCAGG
1 -TCAGAAATCAAAACAGAATTCAAG
* *
1113413 TCTTG-CATCAAAACAGAATTCAAG
1 TC-AGAAATCAAAACAGAATTCAAG
1113437 TCAGAAATCA
1 TCAGAAATCA
1113447 GATAAAATTT
Statistics
Matches: 59, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
23 4 0.07
24 51 0.86
25 4 0.07
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (24 bp):
TCAGAAATCAAAACAGAATTCAAG
Found at i:1115941 original size:24 final size:25
Alignment explanation
Indices: 1115835--1115941 Score: 89
Period size: 24 Copynumber: 4.4 Consensus size: 25
1115825 AAACGGAGAT
1115835 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAAAACAGAATTCAAG
* * * * *
1115859 ATAAGATATCATAATAGAA-TCCAG
1 ATCAGAAATCAAAACAGAATTCAAG
*
1115883 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAAAACAGAATTCAAG
* * *
1115907 GTCTTG-CATCAAAACAGAATTCAAG
1 ATC-AGAAATCAAAACAGAATTCAAG
1115932 -TCAGAAATCA
1 ATCAGAAATCA
1115942 GATAAAATAT
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.05
24 56 0.88
25 5 0.08
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (25 bp):
ATCAGAAATCAAAACAGAATTCAAG
Found at i:1118506 original size:24 final size:24
Alignment explanation
Indices: 1118472--1118537 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
1118462 GGAGATATCA
1118472 AAATCAAAATAGAATTCAGATAAG
1 AAATCAAAATAGAATTCAGATAAG
* * * *
1118496 ATATCAGAATAGAATCCAGATCAG
1 AAATCAAAATAGAATTCAGATAAG
* *
1118520 AAATCATAACAGAATTCA
1 AAATCAAAATAGAATTCA
1118538 TGTCTTGTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.21
Consensus pattern (24 bp):
AAATCAAAATAGAATTCAGATAAG
Found at i:1118573 original size:24 final size:25
Alignment explanation
Indices: 1118519--1118573 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
1118509 ATCCAGATCA
* * *
1118519 GAAATCATAACAGAATTCATGTCTT
1 GAAATCAAAACAGAATTCAAGTCTG
*
1118544 G-TATCAAAACAGAATTCAAGTC-G
1 GAAATCAAAACAGAATTCAAGTCTG
1118567 GAAATCA
1 GAAATCA
1118574 GATAAAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.92
25 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (25 bp):
GAAATCAAAACAGAATTCAAGTCTG
Found at i:1122866 original size:24 final size:24
Alignment explanation
Indices: 1122839--1122910 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
1122829 AAATGGAGAT
*
1122839 ATCAAAAATCAAAACAGAATTTAG
1 ATCAAAAATCAAAACAGAATTCAG
* * *
1122863 ATCAAATATCATAACAGAATCCAG
1 ATCAAAAATCAAAACAGAATTCAG
* * *
1122887 ATCAGAAATCAGAACATAATTCAG
1 ATCAAAAATCAAAACAGAATTCAG
1122911 GTCTTGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.21
Consensus pattern (24 bp):
ATCAAAAATCAAAACAGAATTCAG
Found at i:1128208 original size:16 final size:16
Alignment explanation
Indices: 1128187--1128217 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1128177 CACAAAATAA
1128187 AAACAAAATGACATGT
1 AAACAAAATGACATGT
1128203 AAACAAAATGACATG
1 AAACAAAATGACATG
1128218 CATATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (16 bp):
AAACAAAATGACATGT
Found at i:1132126 original size:23 final size:23
Alignment explanation
Indices: 1132100--1132145 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1132090 AAAATTGGTC
1132100 ATTACATTGCTTGAAAACGTAAG
1 ATTACATTGCTTGAAAACGTAAG
*
1132123 ATTACATTGCTTGAAAATGTAAG
1 ATTACATTGCTTGAAAACGTAAG
1132146 GTTATTCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
ATTACATTGCTTGAAAACGTAAG
Found at i:1140399 original size:20 final size:21
Alignment explanation
Indices: 1140353--1140396 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1140343 TGGTTAGTAG
*
1140353 TAAGCCTAGAAGAAAAAATCA
1 TAAGGCTAGAAGAAAAAATCA
1140374 TAAGGCTAGAAGAAAAAATCA
1 TAAGGCTAGAAGAAAAAATCA
1140395 TA
1 TA
1140397 GGCAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (21 bp):
TAAGGCTAGAAGAAAAAATCA
Found at i:1142266 original size:15 final size:15
Alignment explanation
Indices: 1142226--1142268 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1142216 TGCCTATGAG
*
1142226 ATAAGCCATGTGA-A
1 ATAAGCTATGTGATA
*
1142240 ATGAGCTATGTGATA
1 ATAAGCTATGTGATA
*
1142255 ATAAGTTATGTGAT
1 ATAAGCTATGTGAT
1142269 TACATGATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (15 bp):
ATAAGCTATGTGATA
Found at i:1142604 original size:21 final size:21
Alignment explanation
Indices: 1142471--1142659 Score: 128
Period size: 21 Copynumber: 8.9 Consensus size: 21
1142461 TCGAGGGTTC
1142471 TATGTGGTCATTTGGGACATA
1 TATGTGGTCATTTGGGACATA
** * *
1142492 TATGTAATCCTTTGGAACATA
1 TATGTGGTCATTTGGGACATA
* * * *
1142513 TATGCGATTC-TTCGAGACATA
1 TATGTG-GTCATTTGGGACATA
* * * *
1142534 TATTTGGTCCTTTGGAATATA
1 TATGTGGTCATTTGGGACATA
* * ** *
1142555 TATGTGGTCCTTAAGGAGATTTC
1 TATGTGGTCATT-TGG-GACATA
*
1142578 TATGTGTTCATTTGGGACATA
1 TATGTGGTCATTTGGGACATA
* *
1142599 TATGTGGTCATTCGAGACATA
1 TATGTGGTCATTTGGGACATA
*
1142620 TATGTGGTCATTCGGGACATA
1 TATGTGGTCATTTGGGACATA
* * *
1142641 TATATGGTTATTCGGGACA
1 TATGTGGTCATTTGGGACA
1142660 AATTCTATGT
Statistics
Matches: 130, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
20 2 0.02
21 109 0.84
22 6 0.05
23 13 0.10
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (21 bp):
TATGTGGTCATTTGGGACATA
Found at i:1142637 original size:42 final size:42
Alignment explanation
Indices: 1142471--1142659 Score: 146
Period size: 42 Copynumber: 4.5 Consensus size: 42
1142461 TCGAGGGTTC
* * ** *
1142471 TATGTGGTCATTTGGGACATATATGTAATCCTTTGGAACATA
1 TATGTGGTCATTCGAGACATATATGTGGTCATTTGGAACATA
* * * * *
1142513 TATGCGATTC-TTCGAGACATATATTTGGTCCTTTGGAATATA
1 TATGTG-GTCATTCGAGACATATATGTGGTCATTTGGAACATA
* * ** * * *
1142555 TATGTGGTCCTTAAGGAGATTTCTATGTGTTCATTTGGGACATA
1 TATGTGGTCATT--CGAGACATATATGTGGTCATTTGGAACATA
* *
1142599 TATGTGGTCATTCGAGACATATATGTGGTCATTCGGGACATA
1 TATGTGGTCATTCGAGACATATATGTGGTCATTTGGAACATA
* * *
1142641 TATATGGTTATTCGGGACA
1 TATGTGGTCATTCGAGACA
1142660 AATTCTATGT
Statistics
Matches: 114, Mismatches: 29, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
41 2 0.02
42 78 0.68
43 2 0.02
44 32 0.28
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (42 bp):
TATGTGGTCATTCGAGACATATATGTGGTCATTTGGAACATA
Found at i:1149938 original size:20 final size:20
Alignment explanation
Indices: 1149900--1149938 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1149890 TATTGCAGGA
1149900 ATTTATGGCCTCAACAAAAT
1 ATTTATGGCCTCAACAAAAT
1149920 ATTTCATGGCCTCAA-AAAA
1 ATTT-ATGGCCTCAACAAAA
1149939 AAACCTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAT
Found at i:1154712 original size:27 final size:27
Alignment explanation
Indices: 1154674--1154738 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
1154664 ATAACCCACT
*
1154674 ATTTTTCCTCAAAACAACATGTCTCTA
1 ATTTCTCCTCAAAACAACATGTCTCTA
1154701 ATTTCTCCTCAAAACAACATGTCTCTA
1 ATTTCTCCTCAAAACAACATGTCTCTA
1154728 ATTTCTCCTCA
1 ATTTCTCCTCA
1154739 TTGTTTCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (27 bp):
ATTTCTCCTCAAAACAACATGTCTCTA
Found at i:1165050 original size:15 final size:15
Alignment explanation
Indices: 1165030--1165059 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1165020 ATATTAAAAA
1165030 TTAAGAAATTCAAAT
1 TTAAGAAATTCAAAT
1165045 TTAAGAAATTCAAAT
1 TTAAGAAATTCAAAT
1165060 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
TTAAGAAATTCAAAT
Found at i:1167358 original size:90 final size:89
Alignment explanation
Indices: 1167196--1167369 Score: 303
Period size: 90 Copynumber: 1.9 Consensus size: 89
1167186 CACCTAACAC
*
1167196 ATCCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATATCAAATTAATTAAATCTA
1 ATCCTTTTATAGCCAAGTTACCCAAATCATATTAGGGTTTTATTATATCAAATTAATTAAATCTA
*
1167261 TATTTAATTAATTGGAATTTAATA
66 TATTTAATTAATTGAAATTTAATA
* *
1167285 ATCCTTTTATATCCAAGTTACCCAAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCT
1 ATCCTTTTATAGCCAAGTTACCCAAATCATATTAGGG-TTTTATTATATCAAATTAATTAAATCT
1167350 ATATTTAATTAATTGAAATT
65 ATATTTAATTAATTGAAATT
1167370 AACTATTCAG
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 35 0.44
90 45 0.56
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
ATCCTTTTATAGCCAAGTTACCCAAATCATATTAGGGTTTTATTATATCAAATTAATTAAATCTA
TATTTAATTAATTGAAATTTAATA
Found at i:1169088 original size:28 final size:27
Alignment explanation
Indices: 1169051--1169114 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
1169041 GGACTGACTA
*
1169051 ATGTAACATACAAC-TATAATATGCTACT
1 ATGTAACATA-AACATATAATATGC-AAT
1169079 ATGTAACATAAACTATATAATATGCAAT
1 ATGTAACATAAAC-ATATAATATGCAAT
1169107 ATGTAACA
1 ATGTAACA
1169115 CACTAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 3 0.09
28 20 0.61
29 10 0.30
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (27 bp):
ATGTAACATAAACATATAATATGCAAT
Found at i:1169137 original size:15 final size:15
Alignment explanation
Indices: 1169117--1169146 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1169107 ATGTAACACA
*
1169117 CTAATTATTTAATAT
1 CTAATTATCTAATAT
1169132 CTAATTATCTAATAT
1 CTAATTATCTAATAT
1169147 ATGCAATGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
CTAATTATCTAATAT
Found at i:1170818 original size:16 final size:16
Alignment explanation
Indices: 1170797--1170876 Score: 74
Period size: 16 Copynumber: 4.9 Consensus size: 16
1170787 TCTTTCTCTA
1170797 TTTTTCTTTATCTTTC
1 TTTTTCTTTATCTTTC
* *
1170813 TTTTTCTTTTTATTTC
1 TTTTTCTTTATCTTTC
* *
1170829 TTTTCTTTTTTTCCTTTC
1 TTTT-TCTTTAT-CTTTC
*
1170847 TTTTTATTCT-TCTTTC
1 TTTTTCTT-TATCTTTC
1170863 -TTTTCTTTATCTTT
1 TTTTTCTTTATCTTT
1170877 TTCTTCTTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.02
15 11 0.20
16 23 0.43
17 10 0.19
18 9 0.17
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTTATCTTTC
Found at i:1170830 original size:40 final size:37
Alignment explanation
Indices: 1170780--1170884 Score: 102
Period size: 39 Copynumber: 2.6 Consensus size: 37
1170770 GAGTTTTCAC
* * *
1170780 TTTTGTTTCTTTCTCTATTTTTCTTTATCTTTCTTTTTCT
1 TTTTATTTCTTT-TCTTTTTTTCTTT-TCTTT-TTATTCT
*
1170820 TTTTATTTCTTTTCTTTTTTTCCTTTCTTTTTATTCT
1 TTTTATTTCTTTTCTTTTTTTCTTTTCTTTTTATTCT
*
1170857 TCTTTCTTTTCTTTATCTTTTTCTTCTT
1 T-TTT-ATTTCTTT-TCTTTTT-TTCTT
1170885 CATCGATAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 7 0.13
38 8 0.15
39 18 0.33
40 18 0.33
41 4 0.07
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (37 bp):
TTTTATTTCTTTTCTTTTTTTCTTTTCTTTTTATTCT
Found at i:1170846 original size:28 final size:26
Alignment explanation
Indices: 1170807--1170885 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 26
1170797 TTTTTCTTTA
* *
1170807 TCTTTCTTTTTCTTT-TTATTTCTT-T
1 TCTTTCTTTTCCTTTCTT-TTTATTCT
1170832 TCTTT-TTTTCCTTTCTTTTTATTCT
1 TCTTTCTTTTCCTTTCTTTTTATTCT
* *
1170857 TCTTTCTTTTCTTTATCTTTTTCTTCT
1 TCTTTCTTTTCCTT-TCTTTTTATTCT
1170884 TC
1 TC
1170886 ATCGATAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.28
25 13 0.28
26 7 0.15
27 13 0.28
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (26 bp):
TCTTTCTTTTCCTTTCTTTTTATTCT
Found at i:1170866 original size:27 final size:27
Alignment explanation
Indices: 1170815--1170885 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
1170805 TATCTTTCTT
*
1170815 TTTCTTTTTATTTCTT-TTCTTTTTTTCC
1 TTTCTTTTTA-TTCTTCTTC-TCTTTTCC
*
1170843 TTTCTTTTTATTCTTCTT-TCTTTTCT
1 TTTCTTTTTATTCTTCTTCTCTTTTCC
*
1170869 TTATCTTTTTCTTCTTC
1 TT-TCTTTTTATTCTTC
1170886 ATCGATAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 8 0.21
27 18 0.47
28 12 0.32
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTCTTTTTATTCTTCTTCTCTTTTCC
Found at i:1170880 original size:21 final size:20
Alignment explanation
Indices: 1170799--1170881 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 20
1170789 TTTCTCTATT
1170799 TTTCTTTATC-TTTCTTTTTC
1 TTTCTTT-TCTTTTCTTTTTC
*
1170819 TTTTTATTTCTTTTC-TTTT-
1 TTTCT-TTTCTTTTCTTTTTC
*
1170838 TTTCCTTTCTTTT-TATTCTTC
1 TTTCTTTTCTTTTCT-TT-TTC
1170859 TTTCTTTTCTTTATCTTTTTC
1 TTTCTTTTCTTT-TCTTTTTC
1170880 TT
1 TT
1170882 CTTCATCGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
18 8 0.16
19 5 0.10
20 12 0.24
21 22 0.43
22 3 0.06
23 1 0.02
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCTTTTCTTTTTC
Found at i:1171620 original size:13 final size:13
Alignment explanation
Indices: 1171591--1171620 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1171581 TTTTATTTTC
1171591 TTTCTTTTTCCTT
1 TTTCTTTTTCCTT
*
1171604 TTTCTTTTTCTTT
1 TTTCTTTTTCCTT
1171617 TTTC
1 TTTC
1171621 AAGCATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTCCTT
Found at i:1172522 original size:43 final size:43
Alignment explanation
Indices: 1172461--1172548 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
1172451 CTCAATGACA
*
1172461 TCGATGTCCCATATCGAGAATTGCCATGGTGCAGTCATTACAT
1 TCGATGTCCCATATCGAGAATGGCCATGGTGCAGTCATTACAT
*
1172504 TCGATGTCCCATATCGAGAATGGCCATGGTGCAGTCATTATAT
1 TCGATGTCCCATATCGAGAATGGCCATGGTGCAGTCATTACAT
1172547 TC
1 TC
1172549 TATGCAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (43 bp):
TCGATGTCCCATATCGAGAATGGCCATGGTGCAGTCATTACAT
Found at i:1173781 original size:23 final size:23
Alignment explanation
Indices: 1173754--1173807 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
1173744 TTCTCAAACA
*
1173754 CTGCCAAGTAGAGAATTAATGAT
1 CTGCCAAGTAGAGAATTAATGAG
*
1173777 CTGCCAAGTAGAGAATTAATGGG
1 CTGCCAAGTAGAGAATTAATGAG
1173800 CTGCCAAG
1 CTGCCAAG
1173808 AACTAGTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (23 bp):
CTGCCAAGTAGAGAATTAATGAG
Found at i:1179994 original size:92 final size:92
Alignment explanation
Indices: 1179837--1180009 Score: 294
Period size: 92 Copynumber: 1.9 Consensus size: 92
1179827 TAGAGGGAAC
* * *
1179837 ATTTCCCTATGGCTGACATGAGGAATAAATTCCTATGAAGACATAGGTACTTTGGTCCCTGAAAG
1 ATTTCCCTATGCCTGACATGAGGAATAAATTCCTATGAAGACATAGGTACTTTAGACCCTGAAAG
1179902 TTACTCGA-TAGGTCTACATGAAGAATA
66 TTACTC-ACTAGGTCTACATGAAGAATA
*
1179929 ATTTCCCTATGCCTGATATGAGGAATAAATTCCTATGAAGACATAGGTACTTTAGACCCTGAAAG
1 ATTTCCCTATGCCTGACATGAGGAATAAATTCCTATGAAGACATAGGTACTTTAGACCCTGAAAG
1179994 TTACTCACTAGGTCTA
66 TTACTCACTAGGTCTA
1180010 TACAAAGAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 1 0.01
92 75 0.99
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (92 bp):
ATTTCCCTATGCCTGACATGAGGAATAAATTCCTATGAAGACATAGGTACTTTAGACCCTGAAAG
TTACTCACTAGGTCTACATGAAGAATA
Found at i:1182552 original size:24 final size:24
Alignment explanation
Indices: 1182520--1182569 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1182510 GAAACTTAAC
1182520 TGGCGATGGCGTCATACAGCGGTG
1 TGGCGATGGCGTCATACAGCGGTG
1182544 TGGCGATGGCGTCATACAGCGGTG
1 TGGCGATGGCGTCATACAGCGGTG
1182568 TG
1 TG
1182570 ACGAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.42, T:0.22
Consensus pattern (24 bp):
TGGCGATGGCGTCATACAGCGGTG
Found at i:1183775 original size:21 final size:20
Alignment explanation
Indices: 1183751--1183821 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
1183741 GAAGCGATAA
1183751 ATCCTTTTCATCGAGGGATCG
1 ATCCTTTTCAT-GAGGGATCG
**
1183772 ATCCTTTTGGTGAAGGGATCG
1 ATCCTTTTCATG-AGGGATCG
* *
1183793 ATCCTTTTCCTTGAGGGATTG
1 ATCCTTTT-CATGAGGGATCG
1183814 ATCCTTTT
1 ATCCTTTT
1183822 GTGAATGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.93
22 2 0.05
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
ATCCTTTTCATGAGGGATCG
Found at i:1183797 original size:42 final size:42
Alignment explanation
Indices: 1183722--1183837 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 42
1183712 GTTGTAGGAA
* * * **
1183722 AGGGATCGATCCTTTAGGGGAAGCGATAAATCCTTTTCATCG
1 AGGGATCGATCCTTTTGGTGAAGGGATCGATCCTTTTCATCG
* *
1183764 AGGGATCGATCCTTTTGGTGAAGGGATCGATCCTTTTCCTTG
1 AGGGATCGATCCTTTTGGTGAAGGGATCGATCCTTTTCATCG
* *
1183806 AGGGATTGATCCTTTT-GTGAATGGATCGATCC
1 AGGGATCGATCCTTTTGGTGAAGGGATCGATCC
1183838 CAAACTTTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 15 0.23
42 50 0.77
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (42 bp):
AGGGATCGATCCTTTTGGTGAAGGGATCGATCCTTTTCATCG
Found at i:1185810 original size:31 final size:31
Alignment explanation
Indices: 1185773--1185861 Score: 160
Period size: 31 Copynumber: 2.9 Consensus size: 31
1185763 CGGGGTCACG
1185773 GGGCCTACCCAAGATAGATCTTGGGGCTGAA
1 GGGCCTACCCAAGATAGATCTTGGGGCTGAA
*
1185804 GGGCCTACCCAAGATAGATCTTGGGGCTGCA
1 GGGCCTACCCAAGATAGATCTTGGGGCTGAA
*
1185835 GGGCCTACCCAAGAAAGATCTTGGGGC
1 GGGCCTACCCAAGATAGATCTTGGGGC
1185862 ATCGGTGCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.18
Consensus pattern (31 bp):
GGGCCTACCCAAGATAGATCTTGGGGCTGAA
Found at i:1185872 original size:31 final size:29
Alignment explanation
Indices: 1185773--1185878 Score: 140
Period size: 31 Copynumber: 3.4 Consensus size: 29
1185763 CGGGGTCACG
*
1185773 GGGCCTACCCAAGATAGATCTTGGGGCTGAA
1 GGGCCTACCCAAGATAGATCTTGGGGCT--C
1185804 GGGCCTACCCAAGATAGATCTTGGGGCTGC
1 GGGCCTACCCAAGATAGATCTTGGGGCT-C
*
1185834 AGGGCCTACCCAAGAAAGATCTTGGGGCATC
1 -GGGCCTACCCAAGATAGATCTTGGGGC-TC
1185865 GGTGCCTACCCAAG
1 GG-GCCTACCCAAG
1185879 GGTCACCTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
30 2 0.03
31 66 0.96
32 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.18
Consensus pattern (29 bp):
GGGCCTACCCAAGATAGATCTTGGGGCTC
Found at i:1188034 original size:19 final size:19
Alignment explanation
Indices: 1188010--1188051 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1188000 TTAACTTTTT
1188010 CGGTCAAAGACAAAGCCAA
1 CGGTCAAAGACAAAGCCAA
*
1188029 CGGTCAAAGTCAAAGCCAA
1 CGGTCAAAGACAAAGCCAA
1188048 CGGT
1 CGGT
1188052 TAAATAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.24, T:0.10
Consensus pattern (19 bp):
CGGTCAAAGACAAAGCCAA
Found at i:1188143 original size:20 final size:20
Alignment explanation
Indices: 1188115--1188153 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1188105 CAACGGTTCG
1188115 GGTCAGGTCAACTCAGTTTA
1 GGTCAGGTCAACTCAGTTTA
* *
1188135 GGTCGGGTCAACTCGGTTT
1 GGTCAGGTCAACTCAGTTT
1188154 GGATCTGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (20 bp):
GGTCAGGTCAACTCAGTTTA
Found at i:1190646 original size:20 final size:20
Alignment explanation
Indices: 1190621--1190661 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1190611 TGCACCAATC
*
1190621 TATTTGTAACTAGAAATTCA
1 TATTTGTAACCAGAAATTCA
*
1190641 TATTTGTAACCATAAATTCA
1 TATTTGTAACCAGAAATTCA
1190661 T
1 T
1190662 TCTTTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (20 bp):
TATTTGTAACCAGAAATTCA
Found at i:1193548 original size:19 final size:19
Alignment explanation
Indices: 1193520--1193556 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1193510 CTTTTTCGGT
1193520 CAAAGACAAAGCCAACGGG
1 CAAAGACAAAGCCAACGGG
*
1193539 CAAAGTCAAAGCCAACGG
1 CAAAGACAAAGCCAACGG
1193557 TTAAACAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.27, G:0.24, T:0.03
Consensus pattern (19 bp):
CAAAGACAAAGCCAACGGG
Found at i:1193612 original size:22 final size:20
Alignment explanation
Indices: 1193542--1193613 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 20
1193532 CAACGGGCAA
* *
1193542 AGTCAAAGCCAACGGTTAAAC
1 AGTCAAAGTCAACGG-TAGAC
*
1193563 AGATCAAAGTCAATGGTATGACC
1 AG-TCAAAGTCAACGGTA-GA-C
*
1193586 GGTCAAAGTCAACGGTCAGAC
1 AGTCAAAGTCAACGGT-AGAC
1193607 TAGTCAA
1 -AGTCAA
1193614 CGGTTCGGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 5 0.12
22 32 0.80
23 3 0.08
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (20 bp):
AGTCAAAGTCAACGGTAGAC
Found at i:1196154 original size:20 final size:20
Alignment explanation
Indices: 1196129--1196169 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1196119 TGCACCAATC
*
1196129 TATTTGTAACTAGAAATTCA
1 TATTTGTAACCAGAAATTCA
*
1196149 TATTTGTAACCATAAATTCA
1 TATTTGTAACCAGAAATTCA
1196169 T
1 T
1196170 TCTTTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (20 bp):
TATTTGTAACCAGAAATTCA
Found at i:1198647 original size:119 final size:120
Alignment explanation
Indices: 1198415--1198647 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
1198405 CTTTGAGCTC
* *
1198415 CAAGTTCTTCTCATTATGAACTTTTCACTCTTCTATTCAGACGAGTTCTTCTCATTATGAACTCT
1 CAAGTTCTTCTCATTATGAACTTTTCACTCTTCTATTCAGACGAGTCCTTCTCATTAAGAACTCT
* **
1198480 TCCATTGAAATGTTAATCCACCTCCTTATGTGATGAATTTGAGTAAAATGTCGAA
66 TCCATTGAAATGTTAATCCACCTCCTTATGTGATGAATTCGAACAAAATGTCGAA
* * * *
1198535 CAAGTTCTTCTTATTATGAACTTATTCTC-CTTCT-TT-GGATGAGTCCTTCTCATTAAGAACAT
1 CAAGTTCTTCTCATTATGAACTT-TTCACTCTTCTATTCAGACGAGTCCTTCTCATTAAGAAC-T
* *
1198597 C-TCCATTGGAAATGTTGATCCACCTCCTTTTGTGATAGAA-TCGAACAAAAT
64 CTTCCATT-GAAATGTTAATCCACCTCCTTATGTGAT-GAATTCGAACAAAAT
1198648 ATTGACGCTG
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 26 0.27
119 38 0.39
120 30 0.31
121 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (120 bp):
CAAGTTCTTCTCATTATGAACTTTTCACTCTTCTATTCAGACGAGTCCTTCTCATTAAGAACTCT
TCCATTGAAATGTTAATCCACCTCCTTATGTGATGAATTCGAACAAAATGTCGAA
Found at i:1198887 original size:207 final size:207
Alignment explanation
Indices: 1198611--1199007 Score: 559
Period size: 207 Copynumber: 1.9 Consensus size: 207
1198601 ATTGGAAATG
* *
1198611 TTGATCCACCTCCTTTTGTGATAGAATCGAACAAAATATTGACGCTGATCTACCTCATTCTATGA
1 TTGATCCACCTCCTTTTGTGATAGAATCGAACAAAATATTAACGCTGATCTACCTCATTCTACGA
* * *
1198676 TAGAATCGAGCAAAAAG-GTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTTTCGGACGA
66 TAGAATCGAGC-AAAAGTGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTAGGACAA
* *
1198740 GTTCTTCTCATTATGAACCCTCCATTGGAAATGAC-GATCCACCTCCTTTTGTGATGGAATCGAG
130 GTTCTTCTCATTATGAACCCTCCATTGGAAATG-CTGATCCACCTCCTTCTGCGATGGAATCGAG
1198804 AAAGAATGACAATA
194 AAAGAATGACAATA
* * * * *
1198818 TTGATCCACCT-CTTTCTGTGA-AGGAATCGAACAAAATGTTAATGCTGATCTATCTCCTTCTGC
1 TTGATCCACCTCCTTT-TGTGATA-GAATCGAACAAAATATTAACGCTGATCTACCTCATTCTAC
* * * * *
1198881 GATAGAATCTAGCAATAGTGTGAACAAGTTCTTCTCATTGTGAACTTTTTCTCCCTCTTAGGATA
64 GATAGAATCGAGCAAAAGTGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTAGGACA
* *
1198946 AGTTCTTCTCATTATGAACTCTCCATTGTAAATGCTGATCCACCTCCTTCTGCGATGGAATC
129 AGTTCTTCTCATTATGAACCCTCCATTGGAAATGCTGATCCACCTCCTTCTGCGATGGAATC
1199008 AAACAAAATG
Statistics
Matches: 167, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
206 10 0.06
207 157 0.94
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (207 bp):
TTGATCCACCTCCTTTTGTGATAGAATCGAACAAAATATTAACGCTGATCTACCTCATTCTACGA
TAGAATCGAGCAAAAGTGTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTAGGACAAG
TTCTTCTCATTATGAACCCTCCATTGGAAATGCTGATCCACCTCCTTCTGCGATGGAATCGAGAA
AGAATGACAATA
Done.