Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 354 of 356
Found at i:113463252 original size:12 final size:12
Alignment explanation
Indices: 113463231--113463422 Score: 216
Period size: 12 Copynumber: 16.5 Consensus size: 12
113463221 GGCTTCTTCC
*
113463231 TCAAGTTCAAGT
1 TCAAGATCAAGT
113463243 TCAAGATCAAGT
1 TCAAGATCAAGT
* *
113463255 TGAAGATCAAGA
1 TCAAGATCAAGT
*
113463267 TCAAGTTCAAGT
1 TCAAGATCAAGT
*
113463279 TGAAGATCAAGT
1 TCAAGATCAAGT
* *
113463291 TGAAGATCAAGA
1 TCAAGATCAAGT
113463303 TCAAGATCAAGT
1 TCAAGATCAAGT
*
113463315 TGAAGATCAAG-
1 TCAAGATCAAGT
113463326 T-----TCAAGT
1 TCAAGATCAAGT
113463333 TCAAGATCAAGT
1 TCAAGATCAAGT
* *
113463345 TGAATATCAAGT
1 TCAAGATCAAGT
*
113463357 TCAAGATCAAGA
1 TCAAGATCAAGT
*
113463369 TCAAGTTCAAGT
1 TCAAGATCAAGT
* *
113463381 TCAAGTTCAAGA
1 TCAAGATCAAGT
113463393 TCAAGATCAAGT
1 TCAAGATCAAGT
113463405 TCAAGATCAAGT
1 TCAAGATCAAGT
113463417 TCAAGA
1 TCAAGA
113463423 AAATTTGTTC
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.03
7 1 0.01
11 1 0.01
12 145 0.95
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (12 bp):
TCAAGATCAAGT
Found at i:113463254 original size:18 final size:18
Alignment explanation
Indices: 113463231--113463421 Score: 249
Period size: 18 Copynumber: 10.6 Consensus size: 18
113463221 GGCTTCTTCC
113463231 TCAAGTTCAAGTTCAAGA
1 TCAAGTTCAAGTTCAAGA
* *
113463249 TCAAGTTGAAGATCAAGA
1 TCAAGTTCAAGTTCAAGA
*
113463267 TCAAGTTCAAGTTGAAGA
1 TCAAGTTCAAGTTCAAGA
* *
113463285 TCAAGTTGAAGATCAAGA
1 TCAAGTTCAAGTTCAAGA
* *
113463303 TCAAGATCAAGTTGAAGA
1 TCAAGTTCAAGTTCAAGA
113463321 TCAAGTTCAAGTTCAAGA
1 TCAAGTTCAAGTTCAAGA
* *
113463339 TCAAGTTGAA-TATCAAGT
1 TCAAGTTCAAGT-TCAAGA
* * *
113463357 TCAAGATCAAGATCAAGT
1 TCAAGTTCAAGTTCAAGA
113463375 TCAAGTTCAAGTTCAAGA
1 TCAAGTTCAAGTTCAAGA
*
113463393 TCAAGATCAAGTTCAAGA
1 TCAAGTTCAAGTTCAAGA
113463411 TCAAGTTCAAG
1 TCAAGTTCAAG
113463422 AAAATTTGTT
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
17 1 0.01
18 146 0.99
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (18 bp):
TCAAGTTCAAGTTCAAGA
Found at i:113466314 original size:3 final size:3
Alignment explanation
Indices: 113466306--113466543 Score: 225
Period size: 3 Copynumber: 79.7 Consensus size: 3
113466296 TTAATTAATT
* * *
113466306 TTA TTA TTA TTA TTT TTA CTA TTA TTA TTTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * **
113466352 TTTA TTA TCA TTA TTA TTA CTA CCA TTA TTA TTA TTA TTA TTA TT-
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
113466397 TTA CTA -TA TTCA TTA TTA TTA TTA CTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
113466442 CTA TTA CCA TTA TTA TTA CTA TT- TCTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
113466487 TTA TCA TTA -TA GTA TTA TTA TTA TTT TTA TTA CTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
113466533 TCA TTA TTA TT
1 TTA TTA TTA TT
113466544 TTTAAAATCA
Statistics
Matches: 190, Mismatches: 36, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
2 9 0.05
3 171 0.90
4 10 0.05
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:113470788 original size:462 final size:462
Alignment explanation
Indices: 113469910--113471264 Score: 2323
Period size: 462 Copynumber: 2.9 Consensus size: 462
113469900 AAGTTCAAGA
* * * *
113469910 AAGTTTGTCAACTCTTGGAGCTCAATTCAAGAGTTTGGAAAACCAACTTTATGACGAAAACAATA
1 AAGTTGGTCAACTTTTGGAGCTGAATTCAAGAGTTTGGAAAACCAACTTTATGAAGAAAACAATA
*
113469975 ATAAAGTGTCCTTCAAAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAATGGCTTGGAT
66 ATAAAGTGTCCTTCAAAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAAT-GCTT--TT
** * * * * * * * *
113470040 CTTCTTCCAGGCTACCTCAAACCTATTGCAAACCAAATCGAAAAGGCTCATGGGGAAGCTACTGG
128 GGTCTTCCAGACTACCTTAAGCCTATTGCGAACCAAATCGAAGAGGCTCGTGGGAAAGCTGCTGG
* * * * * * * *
113470105 GATTGCTCATGAATATATTCAACTTTTAGTCTGCGCTGCTATCAATGAGATGCAAGAATCGGCAG
193 GCTTGTTCATGGATGTATTCAAATTTTAGTCTGCGCTGCTATCAAGGAGATGCAAGATTCGGCAT
* * *
113470170 TGAAGTCTTTGAACTGGGATACGCTGAAAAAATGGGGAGCGACTCTCAATTATGCTAGGCAACTT
258 TGGAGTCTTTGAACTGGGATACGTTGAAAAAATGGGGAGCGACGCTCAATTATGCTAGGCAACTT
*
113470235 GGTTTTCAAGTGAGCTTAGCTGATGAGTTACTGAGGAAAACTTTTGTTGCCTACATGTGTTTCAA
323 GGTTTTCAAGTGAGCTTTGCTGATGAGTTACTGAGGAAAACTTTTGTTGCCTACATGTGTTTCAA
*
113470300 ATTTTTGATAAACCAACCTAATGACAAAAAGAACAATCAAGTGTCCGACGAAGATTTGGAAAGCC
388 ATTTTTGATAAACCAACCTGATGACAAAAAGAACAATCAAGTGTCCGACGAAGATTTGGAAAGCC
113470365 AAGTTTATGG
453 AAGTTTATGG
*
113470375 AAGTTGGTCAACTTTTGGAGCTGAATTCAAGAGTTTGGAAAACCAACATTATGAAGAAAACAATA
1 AAGTTGGTCAACTTTTGGAGCTGAATTCAAGAGTTTGGAAAACCAACTTTATGAAGAAAACAATA
113470440 ATAAAGTGTCCTTCAAAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAATGCTTTTGGT
66 ATAAAGTGTCCTTCAAAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAATGCTTTTGGT
113470505 CTTCCAGACTACCTTAAGCCTATTGCGAACCAAATCGAAGAGGCTCGTGGGAAAGCTGCTGGGCT
131 CTTCCAGACTACCTTAAGCCTATTGCGAACCAAATCGAAGAGGCTCGTGGGAAAGCTGCTGGGCT
113470570 TGTTCATGGATGTATTCAAATTTTAGTCTGCGCTGCTATCAAGGAGATGCAAGATTCGGCATTGG
196 TGTTCATGGATGTATTCAAATTTTAGTCTGCGCTGCTATCAAGGAGATGCAAGATTCGGCATTGG
*
113470635 AGTCTTTGAACTGGGATACGTTGGAAAAATGGGGAGCGACGCTCAATTATGCTAGGCAACTTGGT
261 AGTCTTTGAACTGGGATACGTTGAAAAAATGGGGAGCGACGCTCAATTATGCTAGGCAACTTGGT
*
113470700 TTTCAAGTAAGCTTTGCTGATGAGTTACTGAGGAAAACTTTTGTTGCCTACATGTGTTTCAAATT
326 TTTCAAGTGAGCTTTGCTGATGAGTTACTGAGGAAAACTTTTGTTGCCTACATGTGTTTCAAATT
113470765 TTTGATAAACCAACCTGATGACAAAAAGAACAATCAAGTGTCCGACGAAGATTTGGAAAGCCAAG
391 TTTGATAAACCAACCTGATGACAAAAAGAACAATCAAGTGTCCGACGAAGATTTGGAAAGCCAAG
*
113470830 TTTGTGG
456 TTTATGG
*
113470837 AAGTTGGTCAACTTTTGGAGCTGAATTCAAGAGTTTGGAAAACCAACTTTATGAAGAAAACAACA
1 AAGTTGGTCAACTTTTGGAGCTGAATTCAAGAGTTTGGAAAACCAACTTTATGAAGAAAACAATA
* *
113470902 CTAAAGTGTCCTTCACAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAATGCTTTTGGT
66 ATAAAGTGTCCTTCAAAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAATGCTTTTGGT
113470967 CTTCCAGACTACCTTAAGCCTATTGCGAACCAAATCGAAGAGGCTCGTGGGAAAGCTGCTGGGCT
131 CTTCCAGACTACCTTAAGCCTATTGCGAACCAAATCGAAGAGGCTCGTGGGAAAGCTGCTGGGCT
113471032 TGTTCATGGATGTATTCAAATTTTAGTCTGCGCTGCTATCAAGGAGATGCAAGATTCGGCATTGG
196 TGTTCATGGATGTATTCAAATTTTAGTCTGCGCTGCTATCAAGGAGATGCAAGATTCGGCATTGG
** *
113471097 AGTCTTTGAACTGGGATACGTTGAAAAAATGGGGAGTAACGCTCAATTGTGCTAGGCAACTTGGT
261 AGTCTTTGAACTGGGATACGTTGAAAAAATGGGGAGCGACGCTCAATTATGCTAGGCAACTTGGT
*
113471162 TTTCAAGTGAGCTTTGCTGATGAGTTACTGAGGAAAACTCTTGTTGCCTACATGTGTTTCAAATT
326 TTTCAAGTGAGCTTTGCTGATGAGTTACTGAGGAAAACTTTTGTTGCCTACATGTGTTTCAAATT
*
113471227 TTTGATAAACCAACCTGATGACAAAAACAACAATCAAG
391 TTTGATAAACCAACCTGATGACAAAAAGAACAATCAAG
113471265 GCAAATTTCG
Statistics
Matches: 847, Mismatches: 43, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
462 727 0.86
464 4 0.00
465 116 0.14
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (462 bp):
AAGTTGGTCAACTTTTGGAGCTGAATTCAAGAGTTTGGAAAACCAACTTTATGAAGAAAACAATA
ATAAAGTGTCCTTCAAAGATTTCGAAGGATTAGAAGAGGCATTGAAGAAAACTAATGCTTTTGGT
CTTCCAGACTACCTTAAGCCTATTGCGAACCAAATCGAAGAGGCTCGTGGGAAAGCTGCTGGGCT
TGTTCATGGATGTATTCAAATTTTAGTCTGCGCTGCTATCAAGGAGATGCAAGATTCGGCATTGG
AGTCTTTGAACTGGGATACGTTGAAAAAATGGGGAGCGACGCTCAATTATGCTAGGCAACTTGGT
TTTCAAGTGAGCTTTGCTGATGAGTTACTGAGGAAAACTTTTGTTGCCTACATGTGTTTCAAATT
TTTGATAAACCAACCTGATGACAAAAAGAACAATCAAGTGTCCGACGAAGATTTGGAAAGCCAAG
TTTATGG
Found at i:113473021 original size:79 final size:79
Alignment explanation
Indices: 113472931--113473077 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 79
113472921 ATACATACTG
* *
113472931 CATTGAACATCAGCT-GG-CTTAACTAGCATTCGAGAACATGGATGGTGTAAGG-TATCTGAGAG
1 CATTGAACATCA-CTCGGTC-TAACTAGCATTCGAGAACATGGATGGTAT-AGGCTATATGAGAG
113472993 AACACACACATACACTA
63 AACACACACATACACTA
* * *
113473010 CATTGAACATCACTCGGTCTAACTAGCATTTGAGAGCATGGATGGTATAGGCTATATGATAGAAC
1 CATTGAACATCACTCGGTCTAACTAGCATTCGAGAACATGGATGGTATAGGCTATATGAGAGAAC
113473075 ACA
66 ACA
113473078 TAAATGTATC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
78 5 0.08
79 54 0.90
80 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (79 bp):
CATTGAACATCACTCGGTCTAACTAGCATTCGAGAACATGGATGGTATAGGCTATATGAGAGAAC
ACACACATACACTA
Found at i:113474550 original size:43 final size:43
Alignment explanation
Indices: 113474459--113474551 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 43
113474449 TCAAAATTTT
* * * *
113474459 AAACTTTCATAGTAAATTTTACTTAAATTATTTATTTTTCATT
1 AAACTTTCATAATAAATATTACTTAAATTATATATTTTTCATA
* *
113474502 TAACTTTCATAATAAATAATTA-TT-AATTCTATATTTTTTCATA
1 AAACTTTCATAATAAAT-ATTACTTAAATTATATA-TTTTTCATA
113474545 AAACTTT
1 AAACTTT
113474552 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 7 0.17
43 31 0.76
44 3 0.07
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.52
Consensus pattern (43 bp):
AAACTTTCATAATAAATATTACTTAAATTATATATTTTTCATA
Found at i:113474882 original size:33 final size:32
Alignment explanation
Indices: 113474774--113474883 Score: 78
Period size: 33 Copynumber: 3.2 Consensus size: 32
113474764 AATAAGTTAA
*
113474774 AAAATATAATACATCAAATTCACTTAAAAATATT
1 AAAATATAATACATC-AATACAC-TAAAAATATT
** * * *
113474808 AAAATA-AATATTTTTCAACAAATTAAAAATAAATTT
1 AAAATATAATA--CATCAATACACTAAAAAT--A-TT
113474844 AAAAATATAATACATCATATACACTAAAAATATT
1 -AAAATATAATACATCA-ATACACTAAAAATATT
113474878 AAAATA
1 AAAATA
113474884 AATGTTTCCC
Statistics
Matches: 57, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
33 17 0.30
34 11 0.19
35 4 0.07
36 5 0.09
37 16 0.28
38 4 0.07
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAATATAATACATCAATACACTAAAAATATT
Found at i:113474905 original size:70 final size:71
Alignment explanation
Indices: 113474760--113474920 Score: 225
Period size: 71 Copynumber: 2.3 Consensus size: 71
113474750 ATTTTTTATA
* * * **
113474760 TAAAAATAAGTTAAAAAATATAATACATCAAATTCACTTAAAAATATTAAAATAAATATTTTTCA
1 TAAAAATAAATTTAAAAATATAATACATCAAATACACTTAAAAATATTAAAATAAATATTTCCCA
113474825 ACAAAT
66 ACAAAT
* *
113474831 TAAAAATAAATTTAAAAATATAATACATCATATACAC-TAAAAATATTAAAATAAATGTTTCCCA
1 TAAAAATAAATTTAAAAATATAATACATCAAATACACTTAAAAATATTAAAATAAATATTTCCCA
**
113474895 ACGGAT
66 ACAAAT
113474901 TAAAAATAAATTTTAAAAAT
1 TAAAAATAAA-TTTAAAAAT
113474921 TTTTTATAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
70 38 0.47
71 42 0.52
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (71 bp):
TAAAAATAAATTTAAAAATATAATACATCAAATACACTTAAAAATATTAAAATAAATATTTCCCA
ACAAAT
Found at i:113477281 original size:5 final size:5
Alignment explanation
Indices: 113477271--113477304 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
113477261 AGGGCCTCAT
113477271 TTAAA TTAAA TTAAA TTAAA TTAAA TT-AA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
113477305 AGTTTTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:113477507 original size:18 final size:18
Alignment explanation
Indices: 113477484--113477523 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
113477474 TAAAAGTGAA
113477484 TTTTATAAATCACATTAT
1 TTTTATAAATCACATTAT
**
113477502 TTTTATTTATCACATTAT
1 TTTTATAAATCACATTAT
113477520 TTTT
1 TTTT
113477524 TCTATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATAAATCACATTAT
Found at i:113478412 original size:16 final size:16
Alignment explanation
Indices: 113478374--113478412 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
113478364 TGGCAGCAGC
* *
113478374 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
113478390 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
113478406 AAAGAAA
1 AAAGAAA
113478413 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:113478808 original size:26 final size:26
Alignment explanation
Indices: 113478733--113478808 Score: 127
Period size: 26 Copynumber: 2.9 Consensus size: 26
113478723 TAAAATTGTA
*
113478733 CAATTTGCTGCTGTTGG-TCTTTTGAC
1 CAATTTGTTGCTGTTGGTTC-TTTGAC
113478759 CAATTTGTTGCTGTTGGTTCTTTGAC
1 CAATTTGTTGCTGTTGGTTCTTTGAC
113478785 CAATTTGTTGCTGTTGGTTCTTTG
1 CAATTTGTTGCTGTTGGTTCTTTG
113478809 TTGCAATGCA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 46 0.96
27 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.50
Consensus pattern (26 bp):
CAATTTGTTGCTGTTGGTTCTTTGAC
Found at i:113482931 original size:16 final size:16
Alignment explanation
Indices: 113482893--113482931 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
113482883 TGGCAGCAGC
* *
113482893 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
113482909 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
113482925 AAAGAAA
1 AAAGAAA
113482932 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:113483327 original size:26 final size:26
Alignment explanation
Indices: 113483252--113483327 Score: 118
Period size: 26 Copynumber: 2.9 Consensus size: 26
113483242 TAAAATTGTA
*
113483252 CAATTTGCTGCTGTTGG-TCTTTTGAC
1 CAATTTGTTGCTGTTGGTTC-TTTGAC
113483278 CAATTTGTTGCTGTTGGTTCTTTGAC
1 CAATTTGTTGCTGTTGGTTCTTTGAC
*
113483304 CAATTTGTTGCTATTGGTTCTTTG
1 CAATTTGTTGCTGTTGGTTCTTTG
113483328 TTGCAATGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 45 0.96
27 2 0.04
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (26 bp):
CAATTTGTTGCTGTTGGTTCTTTGAC
Found at i:113489813 original size:12 final size:13
Alignment explanation
Indices: 113489796--113489832 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
113489786 GAACCGGACA
113489796 CGAACCGAA-CTC
1 CGAACCGAAGCTC
113489808 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
113489820 CGAACCGTAGCTC
1 CGAACCGAAGCTC
113489833 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:113492280 original size:22 final size:24
Alignment explanation
Indices: 113492230--113492281 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
113492220 AGGGTAAAAT
*
113492230 CCGTGTAGTAGGCTGTGTGGTGGG
1 CCGTGTAGTAGGCTGAGTGGTGGG
113492254 CCGTGTAGT-GGCTCGAGT-GT-GG
1 CCGTGTAGTAGGCT-GAGTGGTGGG
113492276 CCGTGT
1 CCGTGT
113492282 GGGCCATACG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 12 0.46
ACGTcount: A:0.08, C:0.17, G:0.46, T:0.29
Consensus pattern (24 bp):
CCGTGTAGTAGGCTGAGTGGTGGG
Found at i:113492314 original size:19 final size:19
Alignment explanation
Indices: 113492289--113492395 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
113492279 TGTGGGCCAT
* *
113492289 ACGAGCATATGGGCCCTAT
1 ACGAGCATATGGGCCCCAC
*
113492308 ACTAGCATATGGGCCCCAC
1 ACGAGCATATGGGCCCCAC
*
113492327 ACGAGCATATAGGCCCCAC
1 ACGAGCATATGGGCCCCAC
* * *
113492346 ATGATCATATGGGCTCCAC
1 ACGAGCATATGGGCCCCAC
113492365 ACGAGCATATGGGCCCCAC
1 ACGAGCATATGGGCCCCAC
113492384 ACGAGCATATGG
1 ACGAGCATATGG
113492396 CCTCTACGCG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 76 1.00
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (19 bp):
ACGAGCATATGGGCCCCAC
Found at i:113492471 original size:19 final size:19
Alignment explanation
Indices: 113492449--113492485 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
113492439 ACACGAGCAC
113492449 GTGGGCCCCACATAGGCAA
1 GTGGGCCCCACATAGGCAA
* *
113492468 GTGGGCCCTACATGGGCA
1 GTGGGCCCCACATAGGCA
113492486 TGTGAGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.30, G:0.35, T:0.14
Consensus pattern (19 bp):
GTGGGCCCCACATAGGCAA
Found at i:113493311 original size:34 final size:34
Alignment explanation
Indices: 113493268--113493335 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
113493258 GATGACTATA
113493268 TGAACTGCTACTGAAACTGAAATGGGCTAAGGCC
1 TGAACTGCTACTGAAACTGAAATGGGCTAAGGCC
* *
113493302 TGAATTGCTACTGAAACTGAAATGGGCTTAGGCC
1 TGAACTGCTACTGAAACTGAAATGGGCTAAGGCC
113493336 CATACTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (34 bp):
TGAACTGCTACTGAAACTGAAATGGGCTAAGGCC
Found at i:113494149 original size:9 final size:9
Alignment explanation
Indices: 113494137--113494250 Score: 62
Period size: 9 Copynumber: 12.9 Consensus size: 9
113494127 TATTAGATTG
113494137 TTTATAATT
1 TTTATAATT
*
113494146 TTTATAATA
1 TTTATAATT
113494155 TTTATAAGTT
1 TTTATAA-TT
113494165 TTTA-AGA-T
1 TTTATA-ATT
113494173 TTTATACATT
1 TTTATA-ATT
**
113494183 TTTCCAATT
1 TTTATAATT
113494192 TTTATAAGTT
1 TTTATAA-TT
* * *
113494202 TATATTAGT
1 TTTATAATT
113494211 TTTAT--TT
1 TTTATAATT
*
113494218 TTT-TAATA
1 TTTATAATT
113494226 TTTA-ATATT
1 TTTATA-ATT
*
113494235 TTTATGATT
1 TTTATAATT
113494244 TTT-TAAT
1 TTTATAAT
113494251 AATATCTATA
Statistics
Matches: 79, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 13 0.16
9 43 0.54
10 18 0.23
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:113494262 original size:22 final size:21
Alignment explanation
Indices: 113494228--113494269 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
113494218 TTTTAATATT
* *
113494228 TAATATTTTTATGATTTTTTAA
1 TAATATCTATATG-TTTTTTAA
113494250 TAATATCTATATGTTTTTTA
1 TAATATCTATATGTTTTTTA
113494270 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (21 bp):
TAATATCTATATGTTTTTTAA
Found at i:113494396 original size:17 final size:16
Alignment explanation
Indices: 113494369--113494402 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
113494359 TACGTTTATA
113494369 TAAATTTTAATATTTT
1 TAAATTTTAATATTTT
113494385 TAAATATTTAATATTTT
1 TAAAT-TTTAATATTTT
113494402 T
1 T
113494403 GCTATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAAATTTTAATATTTT
Found at i:113494468 original size:18 final size:19
Alignment explanation
Indices: 113494441--113494478 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
113494431 TTTAATGATT
113494441 TTTTTATAAT-TTATTATGA
1 TTTTTATAATGTT-TTATGA
113494460 TTTTT-TAATGTTTTATGA
1 TTTTTATAATGTTTTATGA
113494478 T
1 T
113494479 AAAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (19 bp):
TTTTTATAATGTTTTATGA
Found at i:113496769 original size:29 final size:26
Alignment explanation
Indices: 113496717--113496854 Score: 177
Period size: 26 Copynumber: 5.1 Consensus size: 26
113496707 AATTAGTTGG
113496717 CTCCATATCAAGCTACTCTTGAAAGT
1 CTCCATATCAAGCTACTCTTGAAAGT
* *
113496743 CTCCATGTCAAGAGCATACTCTTGAAAGG
1 CTCCATATC-A-AGC-TACTCTTGAAAGT
113496772 CTCCATATCAAGCTACTCTTGAAAGT
1 CTCCATATCAAGCTACTCTTGAAAGT
* * *
113496798 CTCCATATCAAAAGCCTGCTCTTAAAAGG
1 CTCCATATC--AAG-CTACTCTTGAAAGT
113496827 CTCCATATCAAGCTACTCTTGAAAGT
1 CTCCATATCAAGCTACTCTTGAAAGT
113496853 CT
1 CT
113496855 AGCCTGCTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
26 42 0.44
27 7 0.07
28 7 0.07
29 40 0.42
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (26 bp):
CTCCATATCAAGCTACTCTTGAAAGT
Found at i:113496778 original size:55 final size:55
Alignment explanation
Indices: 113496715--113496854 Score: 235
Period size: 55 Copynumber: 2.5 Consensus size: 55
113496705 ACAATTAGTT
* * *
113496715 GGCTCCATATCAAGCTACTCTTGAAAGTCTCCATGTCAAGAGCATACTCTTGAAA
1 GGCTCCATATCAAGCTACTCTTGAAAGTCTCCATATCAAAAGCATACTCTTAAAA
* *
113496770 GGCTCCATATCAAGCTACTCTTGAAAGTCTCCATATCAAAAGCCTGCTCTTAAAA
1 GGCTCCATATCAAGCTACTCTTGAAAGTCTCCATATCAAAAGCATACTCTTAAAA
113496825 GGCTCCATATCAAGCTACTCTTGAAAGTCT
1 GGCTCCATATCAAGCTACTCTTGAAAGTCT
113496855 AGCCTGCTCT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (55 bp):
GGCTCCATATCAAGCTACTCTTGAAAGTCTCCATATCAAAAGCATACTCTTAAAA
Found at i:113496879 original size:45 final size:45
Alignment explanation
Indices: 113496810--113496896 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
113496800 CCATATCAAA
*
113496810 AGCCTGCTCTTAAAAGGCTCCATATCAAGCTACTCTTGAAAGTCT
1 AGCCTGCTCTTAAAAGGCTCCATATCAAGCTACTCTTAAAAGTCT
*
113496855 AGCCTGCTCTTAAAAGGCTTCATATCAAGCTACTCTTAAAAG
1 AGCCTGCTCTTAAAAGGCTCCATATCAAGCTACTCTTAAAAG
113496897 GAGCTCGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (45 bp):
AGCCTGCTCTTAAAAGGCTCCATATCAAGCTACTCTTAAAAGTCT
Found at i:113498113 original size:14 final size:14
Alignment explanation
Indices: 113498094--113498136 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
113498084 ATGTTGATGA
*
113498094 AAAAAATTCAATCT
1 AAAAAATTCAATAT
113498108 AAAAAATAT-AATTAT
1 AAAAAAT-TCAA-TAT
113498123 AAAAAATTCAATAT
1 AAAAAATTCAATAT
113498137 TGAATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAATTCAATAT
Found at i:113500508 original size:30 final size:29
Alignment explanation
Indices: 113500473--113500546 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
113500463 AGATTAATAT
*
113500473 ATGATAAAATTATATTTTAACCCTTTAAAA
1 ATGATAAAATTATA-TTTAACCATTTAAAA
*
113500503 ATGATAAAAATT-TGATTTAATCATTTAAAA
1 ATGAT-AAAATTAT-ATTTAACCATTTAAAA
* *
113500533 ATTATAAAAATATA
1 ATGATAAAATTATA
113500547 AACTATTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 6 0.16
30 24 0.65
31 7 0.19
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (29 bp):
ATGATAAAATTATATTTAACCATTTAAAA
Found at i:113505771 original size:18 final size:18
Alignment explanation
Indices: 113505748--113505782 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113505738 TCATGCCTTC
*
113505748 CAACTTTCTTTCCCAATT
1 CAACTTCCTTTCCCAATT
113505766 CAACTTCCTTTCCCAAT
1 CAACTTCCTTTCCCAAT
113505783 CTGTTATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (18 bp):
CAACTTCCTTTCCCAATT
Found at i:113510639 original size:12 final size:12
Alignment explanation
Indices: 113510618--113510647 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
113510608 CCTATTACTG
*
113510618 TTGATGAAGATT
1 TTGATCAAGATT
113510630 TTGATCAAGATT
1 TTGATCAAGATT
113510642 TTGATC
1 TTGATC
113510648 TTGAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (12 bp):
TTGATCAAGATT
Found at i:113517270 original size:19 final size:18
Alignment explanation
Indices: 113517225--113517362 Score: 77
Period size: 19 Copynumber: 7.2 Consensus size: 18
113517215 TTTTTCAAAT
*
113517225 TTATTAAAA-TATAAATAA
1 TTATTAAAATTGTAAA-AA
113517243 -TATTTAAAATTAGTAAAAA
1 TTA-TTAAAATT-GTAAAAA
* *
113517262 TTATTAAAAATTGTGAATA
1 TTATT-AAAATTGTAAAAA
*
113517281 TCATTAAAATTGTTAAATAA
1 TTATTAAAATTG-TAAA-AA
* *
113517301 TGATTAGAAATTGTAATAA
1 TTATTA-AAATTGTAAAAA
113517320 TTATTGAAAAATT-TATAAGAA
1 TTATT--AAAATTGTA-AA-AA
*
113517341 TT-TTGAAAATTTTAAAAA
1 TTATT-AAAATTGTAAAAA
113517359 TTAT
1 TTAT
113517363 AATAATTTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 27
0.71 0.08 0.20
Matches are distributed among these distances:
17 2 0.02
18 17 0.18
19 34 0.36
20 31 0.33
21 11 0.12
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (18 bp):
TTATTAAAATTGTAAAAA
Found at i:113517382 original size:28 final size:28
Alignment explanation
Indices: 113517326--113517380 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
113517316 ATAATTATTG
113517326 AAAAATTTATAAGAATTTTGAAAATTTT
1 AAAAATTTATAAGAATTTTGAAAATTTT
* * *
113517354 AAAAA-TTATAATAATTTTTACAATTTT
1 AAAAATTTATAAGAATTTTGAAAATTTT
113517381 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (28 bp):
AAAAATTTATAAGAATTTTGAAAATTTT
Found at i:113523922 original size:19 final size:20
Alignment explanation
Indices: 113523882--113523925 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
113523872 GTTTCTTTTG
* *
113523882 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
113523901 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
113523920 GCATTA
1 GCATTA
113523926 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:113528187 original size:86 final size:86
Alignment explanation
Indices: 113528042--113528305 Score: 384
Period size: 86 Copynumber: 3.1 Consensus size: 86
113528032 AGTAAAAATT
* * * *
113528042 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTACCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATACCAGATCTTGCCTTCCT
113528107 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
113528128 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATACCAGATCTTGCCTTCCT
* *
113528193 GCACTGACAGCGAAGTAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
113528214 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATACCAGATCTTGCCTTCCT
* * *
113528279 GTATTTGGCAGCAAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
113528301 GAAGA
1 GAAGA
113528306 TGGCAGATTT
Statistics
Matches: 158, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
86 139 0.88
87 19 0.12
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATACCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:113528431 original size:135 final size:135
Alignment explanation
Indices: 113528253--113528663 Score: 709
Period size: 135 Copynumber: 3.1 Consensus size: 135
113528243 GCAGAGCTGG
*
113528253 TTGAAGA-TATCAGATCTTGCTTTTCTGTATTTGGCAGCAAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGATTATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
113528317 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
66 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
113528382 ATAGA
131 ATAGA
* *
113528387 TTAAAGATTATCAGATCTTACTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGATTATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
*
113528452 ACCTCCCTGACCACAGTGGAGTACGTTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
66 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
113528517 ATAGA
131 ATAGA
* * * *
113528522 TTGAAGATT-GCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGATTATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
* * *
113528586 ACCTCCCTGACCATAGTGGAGTACATTGAAGCTGATAACTCTATCTCCTTGTATTTGGCAGTGGA
66 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
113528651 ATAGA
131 ATAGA
113528656 TTGAAGAT
1 TTGAAGAT
113528664 CAAAGAGGGC
Statistics
Matches: 262, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 130 0.50
135 132 0.50
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (135 bp):
TTGAAGATTATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
ATAGA
Found at i:113528615 original size:134 final size:133
Alignment explanation
Indices: 113528253--113528663 Score: 696
Period size: 134 Copynumber: 3.1 Consensus size: 133
113528243 GCAGAGCTGG
*
113528253 TTGAAGATATCAGATCTTGCTTTTCTGTATTTGGCAGCAAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGAT-TCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
113528318 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
65 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
113528383 TAGA
130 TAGA
* *
113528387 TTAAAGATTATCAGATCTTACTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGA-T-TCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTT
*
113528452 ACCTCCCTGACCACAGTGGAGTACGTTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
64 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
113528517 ATAGA
129 ATAGA
* * *
113528522 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATT-CAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
113528587 CCTCCCTGACCATAGTGGAGTACATTGAAGCTGATAACTCTATCTCCTTGTATTTGGCAGTGGAA
65 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
113528652 TAGA
130 TAGA
113528656 TTGAAGAT
1 TTGAAGAT
113528664 CAAAGAGGGC
Statistics
Matches: 262, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
133 1 0.00
134 131 0.50
135 130 0.50
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (133 bp):
TTGAAGATTCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC
CTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAAT
AGA
Found at i:113528677 original size:95 final size:95
Alignment explanation
Indices: 113528565--113528758 Score: 343
Period size: 95 Copynumber: 2.0 Consensus size: 95
113528555 GCAGCGAAGC
* * *
113528565 AGATCAAAGATGGCAGATTTTACCTCCCTGACCATAGTGGAGTACATTGAAGCTGATAACTCTAT
1 AGATCAAAGAGGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
113528630 CTCCTTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTAA
113528660 AGATCAAAGAGGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGAGGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
113528725 CTCCCTGTATTTGGCAGTGGAATAGATTAA
66 CTCCCTGTATTTGGCAGTGGAATAGATTAA
113528755 AGAT
1 AGAT
113528759 TGTAGATCTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGAGGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTAA
Found at i:113528881 original size:44 final size:43
Alignment explanation
Indices: 113528795--113529082 Score: 247
Period size: 44 Copynumber: 6.5 Consensus size: 43
113528785 CAGCAAAGCA
* *
113528795 GATCGAAGATAACAGATCTTATCTTCCTATATTGGTAGGAAGTG
1 GATCGAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGGAAGTG
* * *
113528839 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAAGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTG
* * * * * *
113528883 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGAAG-ATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTG
* * * * *
113528927 GATCGAAGATAACAGGTCCTATCTTCCTATATTGATAGGAAGTG
1 GATCGAAGAT-GCAGATCTTGTCTTCCTATATTGGTAGGAAGTG
* *
113528971 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTG
1 GATCGAAGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTG
* * * * * *
113529015 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGAAG-ATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTG
* *
113529059 GATCGAAGAAAGTAGATCTTGTCT
1 GATCGAAG-ATGCAGATCTTGTCT
113529083 CATGTATTGG
Statistics
Matches: 198, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
43 44 0.22
44 109 0.55
45 45 0.23
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GATCGAAGATGCAGATCTTGTCTTCCTATATTGGTAGGAAGTG
Found at i:113529091 original size:88 final size:88
Alignment explanation
Indices: 113528762--113529110 Score: 280
Period size: 88 Copynumber: 4.0 Consensus size: 88
113528752 TAAAGATTGT
* * * * * *
113528762 AGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCGAAGATAA-CAGATCTTATCTTCCTATA
1 AGATCTTGTCTTCCTATA-TTGGC-GCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATATA
*
113528826 TTGGTAGGAAGTGGATCGAAG-ATGC
63 TTGGTAGGAAGTGGATCGAAGAAAGC
* * * *
113528851 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCTATATTGG-CGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATT
* *
113528916 GG-CGTGAAGTAGATCGAAGATAA-C
65 GGTAG-GAAGTGGATCGAAGA-AAGC
* * * ** * * **
113528940 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATT
1 AGATCTTGTCTTCCTATATTG-GCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATT
* *
113529003 GGTGGCGAAGTGGATCGCAGAAAGC
65 GGTAG-GAAGTGGATCGAAGAAAGC
* * * * *
113529028 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTG
1 AGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTG
* * * *
113529092 GCATGAAGTAGATTGAAGA
66 GTAGGAAGTGGATCGAAGA
113529111 TTACAGATCT
Statistics
Matches: 202, Mismatches: 48, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
87 40 0.20
88 115 0.57
89 46 0.23
90 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (88 bp):
AGATCTTGTCTTCCTATATTGGCGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTG
GTAGGAAGTGGATCGAAGAAAGC
Found at i:113529121 original size:43 final size:43
Alignment explanation
Indices: 113528877--113529110 Score: 193
Period size: 44 Copynumber: 5.3 Consensus size: 43
113528867 TATTGGTGGC
* *
113528877 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGGCAT
* * * * * ** *
113528921 GAAGTAGATCGAAGATAA-CAGGTCCTATCTTCCTATATTGATAG
1 GAAGTAGATCGAAGA-AAGCAGATCTTGTC-TCATGTATTGGCAT
* * *** ***
113528965 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGG-CAT
* * *
113529009 GAAGTGGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGGCAT
*
113529053 GAAGTAGATCGAAGAAAGTAGATCTTGTCTCATGTATTGGCAT
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTCATGTATTGGCAT
*
113529096 GAAGTAGATTGAAGA
1 GAAGTAGATCGAAGA
113529111 TTACAGATCT
Statistics
Matches: 154, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 45 0.29
44 84 0.55
45 24 0.16
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTCATGTATTGGCAT
Found at i:113529121 original size:132 final size:132
Alignment explanation
Indices: 113528762--113529067 Score: 513
Period size: 132 Copynumber: 2.3 Consensus size: 132
113528752 TAAAGATTGT
* * ** *
113528762 AGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCGAAGATAACAGATCTTATCTTCCTATAT
1 AGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGATAACAGATCTTATCTTCCTATAT
113528827 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGA
64 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGA
113528892 AAGC
129 AAGC
* *
113528896 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTATCTTCCTATATTG
* *
113528961 ATAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTGGATCGCAGAAA
66 GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
113529026 GC
131 GC
113529028 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
113529068 AAGTAGATCT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
132 142 0.87
133 5 0.03
134 16 0.10
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (132 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTATCTTCCTATATTG
GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
GC
Found at i:113533908 original size:104 final size:104
Alignment explanation
Indices: 113533728--113534152 Score: 636
Period size: 104 Copynumber: 4.1 Consensus size: 104
113533718 TGTTGTAAAT
* * * **
113533728 TTAGAGGCTTCAAGATTTTCTTATAAGTAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAACAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
113533793 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTAAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * * *
113533832 TTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAACTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAACAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
113533897 TTTTGATTCATCATTTTCGCTTAAACTTGAATATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
*
113533936 TTAGAGGTTTCAAGATTTTCATGTAAACAAGGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAACAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
113534001 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * * * *
113534040 TTAGAGGTTTCAAGATTTTTATGTAAACAATTAATCAAAGCTCTTACATTGTAGCAGGAGTTTGT
1 TTAGAGGTTTCAAGATTTTCATGTAAACAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * *
113534105 TTTTGA-TCTGTAATTTTCGCATAAACTCGAGTATTTAAC
66 TTTTGATTC-ATCATTTTCGCTTAAACTTGAGTATTTAAC
*
113534144 TTAGTGGTT
1 TTAGAGGTT
113534153 GGTGCCTGAT
Statistics
Matches: 294, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
103 2 0.01
104 292 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (104 bp):
TTAGAGGTTTCAAGATTTTCATGTAAACAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
Found at i:113536198 original size:91 final size:91
Alignment explanation
Indices: 113536060--113536267 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
113536050 TTGATTTTAG
* *
113536060 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
113536125 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
113536152 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
113536217 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
113536243 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
113536268 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:113536236 original size:26 final size:28
Alignment explanation
Indices: 113536182--113536242 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
113536172 TATTATCAAG
* *
113536182 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
113536210 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
113536236 AATTATA
1 AATTATA
113536243 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:113536242 original size:44 final size:43
Alignment explanation
Indices: 113536100--113536242 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
113536090 GAATTTTATG
* *
113536100 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
113536144 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
113536191 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
113536235 AAATTATA
1 AAATTATA
113536243 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:113536360 original size:59 final size:57
Alignment explanation
Indices: 113536294--113536482 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
113536284 ATTTTATTAA
113536294 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
113536353 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
113536414 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
113536473 ATCATATATT
1 ATCATATATT
113536483 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:113536391 original size:66 final size:64
Alignment explanation
Indices: 113536321--113536519 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
113536311 AAATATATTT
113536321 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
113536386 G
64 G
* * * * * **
113536387 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
113536441 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
113536506 G
64 G
*
113536507 AATATTGATTATT
1 AATATTAATTATT
113536520 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:113536407 original size:120 final size:120
Alignment explanation
Indices: 113536283--113536580 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
113536273 AATTATTTTA
* * *
113536283 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
113536347 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
113536403 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
113536468 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
113536523 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
113536581 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:113536423 original size:61 final size:61
Alignment explanation
Indices: 113536356--113536543 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
113536346 TTATAGTATC
113536356 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
113536417 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
113536475 C
61 T
*
113536476 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
113536537 ATATATT
1 ATATATT
113536544 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:113536443 original size:15 final size:15
Alignment explanation
Indices: 113536408--113536459 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
113536398 TTAAGAATTT
*
113536408 TATTAAATTAT-ATA
1 TATTTAATTATAATA
113536422 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
113536436 TATTTAATAATAAT-
1 TATTTAATTATAATA
113536450 TATGTTAATT
1 TAT-TTAATT
113536460 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:113536552 original size:18 final size:17
Alignment explanation
Indices: 113536524--113536558 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
113536514 ATTATTAAGA
*
113536524 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
113536541 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
113536559 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:113536788 original size:44 final size:45
Alignment explanation
Indices: 113536723--113536813 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
113536713 ACCTCTATTC
* * *
113536723 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
113536767 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
113536812 CA
1 CA
113536814 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:113536815 original size:16 final size:16
Alignment explanation
Indices: 113536794--113536862 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
113536784 GATTAGCTAT
113536794 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113536810 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
113536827 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113536843 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
113536859 TACA
1 TACA
113536863 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:113536836 original size:33 final size:32
Alignment explanation
Indices: 113536794--113536862 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
113536784 GATTAGCTAT
113536794 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
113536827 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
113536859 TACA
1 TACA
113536863 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:113538364 original size:3 final size:3
Alignment explanation
Indices: 113538356--113538538 Score: 124
Period size: 3 Copynumber: 59.7 Consensus size: 3
113538346 GAAACTAAAT
113538356 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA AGTA GGA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA --ATA ATA ATA ATA
* * * * * * * * *
113538404 CATTA ACA AGA CA-A ATA AT- CTA ATA ACA GTG ATA GTA CTA A-A GAAA
1 -A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
113538450 ATA ATA ATA TTA GTA ATA GTA ATA A-A TATA ATG GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
113538495 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
113538539 CTAAACTTTG
Statistics
Matches: 143, Mismatches: 24, Indels: 26
0.74 0.12 0.13
Matches are distributed among these distances:
2 5 0.03
3 124 0.87
4 11 0.08
5 2 0.01
6 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:113538800 original size:3 final size:3
Alignment explanation
Indices: 113538786--113538872 Score: 68
Period size: 3 Copynumber: 28.7 Consensus size: 3
113538776 ATAATGACAG
* * *
113538786 TAA TAG TAA TAA TAA TAAA TAA TAAA TAA TAC TAG TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
113538832 TAA TAG TAA TAA AAA TAA AAA TAG CAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
113538873 CTGATAACAA
Statistics
Matches: 64, Mismatches: 17, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 6 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:113538815 original size:17 final size:17
Alignment explanation
Indices: 113538793--113538854 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
113538783 CAGTAATAGT
113538793 AATAATAATAAATAATA
1 AATAATAATAAATAATA
*
113538810 AATAATACTAGTAA-AAT-
1 AATAATAATA--AATAATA
*
113538827 AATAATAAT-AGTAATA
1 AATAATAATAAATAATA
113538843 AA-AATAA-AAATA
1 AATAATAATAAATA
113538855 GCAATGATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 2 0.06
17 17 0.47
18 3 0.08
19 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (17 bp):
AATAATAATAAATAATA
Found at i:113538866 original size:18 final size:18
Alignment explanation
Indices: 113538787--113538872 Score: 79
Period size: 18 Copynumber: 4.9 Consensus size: 18
113538777 TAATGACAGT
*
113538787 AATAGTAATAATAATA--
1 AATAATAATAATAATAGC
* *
113538803 AATAATAAATAATACTAGT
1 AATAAT-AATAATAATAGC
*
113538822 AA-AATAATAATAATAGT
1 AATAATAATAATAATAGC
* *
113538839 AATAAAAATAAAAATAGC
1 AATAATAATAATAATAGC
*
113538857 AATGATAATAATAATA
1 AATAATAATAATAATA
113538873 CTGATAACAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
16 5 0.09
17 22 0.39
18 28 0.49
19 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (18 bp):
AATAATAATAATAATAGC
Found at i:113540243 original size:25 final size:25
Alignment explanation
Indices: 113540213--113540262 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
113540203 ATATAGTACC
*
113540213 AAGTTTGCTAGCTAACTTTCCAGTA
1 AAGTTTGCCAGCTAACTTTCCAGTA
* *
113540238 AAGTTTTCCAGCTAACTTTCTAGTA
1 AAGTTTGCCAGCTAACTTTCCAGTA
113540263 GTCTTATCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (25 bp):
AAGTTTGCCAGCTAACTTTCCAGTA
Found at i:113540844 original size:90 final size:90
Alignment explanation
Indices: 113540733--113541075 Score: 535
Period size: 90 Copynumber: 3.8 Consensus size: 90
113540723 CAAGAGCTAG
* ** * *
113540733 TTGATGTCAAATGCAAGCATAGATGAGAACTACTTGTTACCAAGTGGAGGTATGAACTCTCAAGA
1 TTGATGTCAAATGCAAGCATAGATGAGAACTACTTGTTCCCAAGTGGAGACATGAACTTTCAAGG
** *
113540798 GAAAGAGTTCTCAAGTGATAACCCC
66 GGGAGAGTTCTCAAGTGAGAACCCC
* * *
113540823 TTGATCTTAAATGC-AGACATAGATGAGAACTACTTGTTCCCGAGTGGAGACATGAACTTTCAAG
1 TTGATGTCAAATGCAAG-CATAGATGAGAACTACTTGTTCCCAAGTGGAGACATGAACTTTCAAG
*
113540887 GGGGAGAGTTCTCAAGTGAGAACCTC
65 GGGGAGAGTTCTCAAGTGAGAACCCC
* *
113540913 TTGATGTCAAATGCAAGCATAAATGAGAACTACTTGTTCCCTAGTGGAGACATGAACTTTCAAGG
1 TTGATGTCAAATGCAAGCATAGATGAGAACTACTTGTTCCCAAGTGGAGACATGAACTTTCAAGG
113540978 GGGAGAGTTCTCAAGTGAGAACCCC
66 GGGAGAGTTCTCAAGTGAGAACCCC
*
113541003 TTGATGTCAAATGCAAGCATAGATGAGAACTACTTGTTCCTAAGTGGAGACATGAACTTTCAAGG
1 TTGATGTCAAATGCAAGCATAGATGAGAACTACTTGTTCCCAAGTGGAGACATGAACTTTCAAGG
113541068 GGGAGAGT
66 GGGAGAGT
113541076 GGTCAAGCAA
Statistics
Matches: 231, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
89 2 0.01
90 227 0.98
91 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (90 bp):
TTGATGTCAAATGCAAGCATAGATGAGAACTACTTGTTCCCAAGTGGAGACATGAACTTTCAAGG
GGGAGAGTTCTCAAGTGAGAACCCC
Found at i:113546747 original size:13 final size:13
Alignment explanation
Indices: 113546724--113546761 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
113546714 TTTTTAATTT
113546724 CAAACCTCAAATCC
1 CAAACCTCAAA-CC
113546738 CAAA-CTCAAACC
1 CAAACCTCAAACC
113546750 CAAACCTCAAAC
1 CAAACCTCAAAC
113546762 TTGAACCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 13 0.57
14 4 0.17
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.11
Consensus pattern (13 bp):
CAAACCTCAAACC
Found at i:113549262 original size:40 final size:40
Alignment explanation
Indices: 113549218--113549347 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 40
113549208 TGTTTGGCAC
113549218 TAAGTGTGCGTTTCAAAATAGCTTCGACTATAGATAGCAT
1 TAAGTGTGCGTTTCAAAATAGCTTCGACTATAGATAGCAT
** * * * *
113549258 TAAGTGTGCAAATTGAGAA-AGCTTCGACTATATGA-GGCAC
1 TAAGTGTGC-GTTTCAAAATAGCTTCGACTATA-GATAGCAT
* ** * * *
113549298 TGAGTGTGCGATACCGAGATAGCTTCGGCTATAGATAGCAT
1 TAAGTGTGCG-TTTCAAAATAGCTTCGACTATAGATAGCAT
113549339 TAAGTGTGC
1 TAAGTGTGC
113549348 AAATTGAGAA
Statistics
Matches: 66, Mismatches: 19, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
40 36 0.55
41 30 0.45
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (40 bp):
TAAGTGTGCGTTTCAAAATAGCTTCGACTATAGATAGCAT
Found at i:113549330 original size:41 final size:41
Alignment explanation
Indices: 113549272--113549404 Score: 162
Period size: 41 Copynumber: 3.3 Consensus size: 41
113549262 TGTGCAAATT
*
113549272 GAGAAAGCTTCGACTATATGAGGCACTGAGTGTGCGATACC
1 GAGAAAGCTTCGGCTATATGAGGCACTGAGTGTGCGATACC
* * * * * **
113549313 GAGATAGCTTCGGCTATA-GATAGCATTAAGTGTGC-AAATT
1 GAGAAAGCTTCGGCTATATGA-GGCACTGAGTGTGCGATACC
113549353 GAGAAAGCTTCGGCTATATGAGGCACTGAGTGTGCGATACC
1 GAGAAAGCTTCGGCTATATGAGGCACTGAGTGTGCGATACC
*
113549394 GAGATAGCTTC
1 GAGAAAGCTTC
113549405 AGTTTATTGA
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 32 0.44
41 41 0.56
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (41 bp):
GAGAAAGCTTCGGCTATATGAGGCACTGAGTGTGCGATACC
Found at i:113549338 original size:81 final size:81
Alignment explanation
Indices: 113549235--113549404 Score: 322
Period size: 81 Copynumber: 2.1 Consensus size: 81
113549225 GCGTTTCAAA
113549235 ATAGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAAAGCTTCGACTATATGAGGCACTG
1 ATAGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAAAGCTTCGACTATATGAGGCACTG
113549300 AGTGTGCGATACCGAG
66 AGTGTGCGATACCGAG
* *
113549316 ATAGCTTCGGCTATAGATAGCATTAAGTGTGCAAATTGAGAAAGCTTCGGCTATATGAGGCACTG
1 ATAGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAAAGCTTCGACTATATGAGGCACTG
113549381 AGTGTGCGATACCGAG
66 AGTGTGCGATACCGAG
113549397 ATAGCTTC
1 ATAGCTTC
113549405 AGTTTATTGA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (81 bp):
ATAGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAAAGCTTCGACTATATGAGGCACTG
AGTGTGCGATACCGAG
Found at i:113549369 original size:40 final size:40
Alignment explanation
Indices: 113549237--113549370 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
113549227 GTTTCAAAAT
113549237 AGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAA
1 AGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAA
* * * * ** *
113549277 AGCTTCGACTATATGA-GGCACTGAGTGTGCGATACCGAGAT
1 AGCTTCGACTATA-GATAGCATTAAGTGTGC-AAATTGAGAA
*
113549318 AGCTTCGGCTATAGATAGCATTAAGTGTGCAAATTGAGAA
1 AGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAA
*
113549358 AGCTTCGGCTATA
1 AGCTTCGACTATA
113549371 TGAGGCACTG
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
40 45 0.59
41 31 0.41
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (40 bp):
AGCTTCGACTATAGATAGCATTAAGTGTGCAAATTGAGAA
Found at i:113549385 original size:40 final size:40
Alignment explanation
Indices: 113549260--113549387 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
113549250 GATAGCATTA
*
113549260 AGTGTGCAAATTGAGAAAGCTTCGACTATATGAGGCACTG
1 AGTGTGCAAATTGAGAAAGCTTCGGCTATATGAGGCACTG
* ** * * * *
113549300 AGTGTGCGATACCGAGATAGCTTCGGCTATA-GATAGCATTA
1 AGTGTGC-AAATTGAGAAAGCTTCGGCTATATGA-GGCACTG
113549341 AGTGTGCAAATTGAGAAAGCTTCGGCTATATGAGGCACTG
1 AGTGTGCAAATTGAGAAAGCTTCGGCTATATGAGGCACTG
113549381 AGTGTGC
1 AGTGTGC
113549388 GATACCGAGA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
40 39 0.56
41 31 0.44
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGTGCAAATTGAGAAAGCTTCGGCTATATGAGGCACTG
Found at i:113556427 original size:41 final size:41
Alignment explanation
Indices: 113556356--113556545 Score: 263
Period size: 41 Copynumber: 4.6 Consensus size: 41
113556346 GCATTCGACA
* * *
113556356 TAACTTTCTCGCTATGGGCGCGAGCGTATTCAACTGCAACG
1 TAACTTTCTCGCGATGGGCGCGAGCATATTCAACTTCAACG
* ** * * *
113556397 TAAATTTCTCGCGATCAGAGCGGGCATATTCAACTTCAACA
1 TAACTTTCTCGCGATGGGCGCGAGCATATTCAACTTCAACG
* *
113556438 TAACTTTTTTCGCAATGGGCGCGAGCATATTCAACTTCAACG
1 TAAC-TTTCTCGCGATGGGCGCGAGCATATTCAACTTCAACG
*
113556480 TAACTTTCTCGCGATGGGCGCGAGCATATTCAACTTCAATG
1 TAACTTTCTCGCGATGGGCGCGAGCATATTCAACTTCAACG
113556521 TAACTTTCTCGCGATGGGCGCGAGC
1 TAACTTTCTCGCGATGGGCGCGAGC
113556546 GAGCATACTC
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
41 94 0.73
42 34 0.27
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (41 bp):
TAACTTTCTCGCGATGGGCGCGAGCATATTCAACTTCAACG
Found at i:113556491 original size:83 final size:82
Alignment explanation
Indices: 113556353--113556545 Score: 269
Period size: 83 Copynumber: 2.3 Consensus size: 82
113556343 AGCGCATTCG
* *
113556353 ACATAACTTTCTCGCTATGGGCGCGAGCGTATTCAACTGCAACGTAAATTTCTCGCGATCAGAGC
1 ACATAACTTTCTCGCAATGGGCGCGAGCATATTCAACTGCAACGTAAATTTCTCGCGATCAGAGC
*
113556418 GGGCATATTCAACTTCA
66 GAGCATATTCAACTTCA
* * * ** *
113556435 ACATAACTTTTTTCGCAATGGGCGCGAGCATATTCAACTTCAACGTAACTTTCTCGCGATGGGCG
1 ACATAAC-TTTCTCGCAATGGGCGCGAGCATATTCAACTGCAACGTAAATTTCTCGCGATCAGAG
113556500 CGAGCATATTCAACTTCA
65 CGAGCATATTCAACTTCA
** *
113556518 ATGTAACTTTCTCGCGATGGGCGCGAGC
1 ACATAACTTTCTCGCAATGGGCGCGAGC
113556546 GAGCATACTC
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
82 26 0.27
83 71 0.73
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (82 bp):
ACATAACTTTCTCGCAATGGGCGCGAGCATATTCAACTGCAACGTAAATTTCTCGCGATCAGAGC
GAGCATATTCAACTTCA
Found at i:113557250 original size:33 final size:33
Alignment explanation
Indices: 113557208--113557427 Score: 269
Period size: 33 Copynumber: 6.3 Consensus size: 33
113557198 TATACCAAGA
113557208 TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
1 TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
113557241 TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
1 TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
*
113557274 TCCTTAATGCTGAGTGCAGGCATAGGTGAGAAC
1 TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
* * * *
113557307 TACTTGATGCCGACTGCAGGCATAGGTGTGAAC
1 TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
*
113557340 TCCTTGATGCCGATGTCGAGTGCTGGCATAGGTGAGAAC
1 TCCTTGATG-C----T-GAGTGCAGGCATAGGTGAGAAC
*
113557379 TCCTTGATGCCGATGCCGAGTGCAGGCATAGGTGAAAAC
1 TCCTTGATG-C--T---GAGTGCAGGCATAGGTGAGAAC
113557418 TCCTTGATGC
1 TCCTTGATGC
113557428 CAAATGCAAG
Statistics
Matches: 164, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
33 101 0.62
34 1 0.01
37 1 0.01
38 1 0.01
39 60 0.37
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (33 bp):
TCCTTGATGCTGAGTGCAGGCATAGGTGAGAAC
Found at i:113562838 original size:60 final size:59
Alignment explanation
Indices: 113562710--113562841 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 59
113562700 TCACTAATAC
113562710 TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGA
1 TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGA
* * * *
113562769 TCTCTCAACTATTAGTAAATTTATTTTTTGGTCACTTAACTATGAAAAGTTATC-AAATGGA
1 TCACCCAACTATTAATAAATTTA-TTTTTGGTCACTCAACTATGAAAAGTTA-CAAAAT-GA
113562830 -CACCCAACTATT
1 TCACCCAACTATT
113562842 CAATTTCTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 20 0.31
60 41 0.64
61 3 0.05
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (59 bp):
TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGA
Found at i:113564066 original size:24 final size:24
Alignment explanation
Indices: 113564034--113564082 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
113564024 CTATCAAACC
113564034 AACACATGGTCAATCACCGTCTTT
1 AACACATGGTCAATCACCGTCTTT
113564058 AACACATGGTCAATCACCGTCTTT
1 AACACATGGTCAATCACCGTCTTT
113564082 A
1 A
113564083 GTCATTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (24 bp):
AACACATGGTCAATCACCGTCTTT
Found at i:113565717 original size:16 final size:16
Alignment explanation
Indices: 113565692--113565722 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113565682 ATAATTTAAA
*
113565692 TCTAATACTTATTTTT
1 TCTAACACTTATTTTT
113565708 TCTAACACTTATTTT
1 TCTAACACTTATTTT
113565723 ATCAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTAACACTTATTTTT
Found at i:113569762 original size:15 final size:15
Alignment explanation
Indices: 113569742--113569791 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
113569732 TTCAAGTACT
113569742 ATTATTATTTATCTA
1 ATTATTATTTATCTA
*
113569757 ATTATTTTTTATCTA
1 ATTATTATTTATCTA
*
113569772 TTTA-TA-TT-TCT-
1 ATTATTATTTATCTA
113569783 ATTATTATT
1 ATTATTATT
113569792 ATATTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 3 0.10
12 5 0.17
13 3 0.10
14 1 0.03
15 17 0.59
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:113569854 original size:3 final size:3
Alignment explanation
Indices: 113569846--113569982 Score: 150
Period size: 3 Copynumber: 45.0 Consensus size: 3
113569836 TCATTGTTTC
* * * *
113569846 ATT ATT ATT ATT ACT ACT ATT ATTT ATT ATC ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * *
113569892 ACT ATT ATT ATT ATTT ACT ATT ATT ATTT ATT ATC ATT ATT ATC ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
**
113569939 ATT ATT ACA ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
113569983 CATCTATTTA
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
2 2 0.02
3 101 0.90
4 9 0.08
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:113570088 original size:20 final size:20
Alignment explanation
Indices: 113570065--113570102 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
113570055 ATATTATTCT
113570065 TATTATTATTGTTATTTATC
1 TATTATTATTGTTATTTATC
113570085 TATTATTATTGTTATTTA
1 TATTATTATTGTTATTTA
113570103 GTTATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTATTATTGTTATTTATC
Found at i:113570116 original size:23 final size:22
Alignment explanation
Indices: 113570064--113570119 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 22
113570054 TATATTATTC
113570064 TTATTATTATTGTTATTTATCTA
1 TTATT-TTATTGTTATTTATCTA
113570087 TTA--TTATTGTTATTTAGT-TA
1 TTATTTTATTGTTATTTA-TCTA
113570107 TATATTTTATTGT
1 T-TATTTTATTGT
113570120 AAATTTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 16 0.55
21 3 0.10
23 10 0.34
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (22 bp):
TTATTTTATTGTTATTTATCTA
Found at i:113570116 original size:26 final size:25
Alignment explanation
Indices: 113570053--113570117 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
113570043 TTACTTATAA
*
113570053 ATATATTATTCTTATTATTATTGTT
1 ATATATTATTATTATTATTATTGTT
* *
113570078 ATTTATCTATTATTATTGTTATTTAGTT
1 ATATAT-TATTATTATTATTA-TT-GTT
113570106 ATATATT-TTATT
1 ATATATTATTATT
113570118 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 5 0.15
26 17 0.52
27 3 0.09
28 8 0.24
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (25 bp):
ATATATTATTATTATTATTATTGTT
Found at i:113570223 original size:20 final size:20
Alignment explanation
Indices: 113570195--113570240 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
113570185 TTTTCCTCAA
113570195 TATTAATTTATGTATTTTCT
1 TATTAATTTATGTATTTTCT
* *
113570215 TATTTATTTATTTATTTTCTT
1 TATTAATTTATGTATTTTC-T
113570236 TATTA
1 TATTA
113570241 TGTTAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (20 bp):
TATTAATTTATGTATTTTCT
Found at i:113572558 original size:19 final size:18
Alignment explanation
Indices: 113572534--113572581 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
113572524 AAAAATATTT
*
113572534 TAATTAATTTTTTAATTAA
1 TAATTAATTTTTT-ATAAA
113572553 TAATTAATGTTTTTATAAA
1 TAATTAAT-TTTTTATAAA
113572572 TAA-TAATTTT
1 TAATTAATTTT
113572582 AGAGAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 4 0.15
19 15 0.56
20 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATTAATTTTTTATAAA
Found at i:113572575 original size:22 final size:19
Alignment explanation
Indices: 113572534--113572579 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
113572524 AAAAATATTT
*
113572534 TAATTAATTTTTTAATTAA
1 TAATTAATTTTTTAAATAA
113572553 TAATTAATGTTTTTATAAATAA
1 TAATTAA--TTTTT-TAAATAA
113572575 TAATT
1 TAATT
113572580 TTAGAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
21 5 0.22
22 11 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTAATTTTTTAAATAA
Found at i:113576699 original size:26 final size:26
Alignment explanation
Indices: 113576670--113576722 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
113576660 TAAAAGGCAA
*
113576670 GAGACAAAAGAACCATACAAAGTACT
1 GAGACAAAAGAACCATAAAAAGTACT
113576696 GAGACAAAAGAACCATAAAAAGTACT
1 GAGACAAAAGAACCATAAAAAGTACT
113576722 G
1 G
113576723 CGCTGTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.11
Consensus pattern (26 bp):
GAGACAAAAGAACCATAAAAAGTACT
Found at i:113577392 original size:11 final size:11
Alignment explanation
Indices: 113577376--113577408 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
113577366 CACTTTTATG
113577376 TTGTTACTATT
1 TTGTTACTATT
113577387 TTGTTA--ATT
1 TTGTTACTATT
113577396 TTGTTACTATT
1 TTGTTACTATT
113577407 TT
1 TT
113577409 AGACGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (11 bp):
TTGTTACTATT
Found at i:113579858 original size:13 final size:13
Alignment explanation
Indices: 113579840--113579864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113579830 TCGACTCGAC
113579840 TTGACTCAATTTT
1 TTGACTCAATTTT
113579853 TTGACTCAATTT
1 TTGACTCAATTT
113579865 GACTCGACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (13 bp):
TTGACTCAATTTT
Found at i:113581345 original size:51 final size:51
Alignment explanation
Indices: 113581281--113581416 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 51
113581271 TGGAAACATG
113581281 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGAT-ATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAT-ATATGGA
* * * ** * * ** *
113581332 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAATATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAATATATGGA
* * *
113581383 ATCTTAGAAGATATGATATTATATTCTTGGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
113581417 TTGATGGTAG
Statistics
Matches: 65, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
51 63 0.97
52 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAATATATGGA
Found at i:113583384 original size:96 final size:96
Alignment explanation
Indices: 113583100--113583389 Score: 472
Period size: 96 Copynumber: 3.0 Consensus size: 96
113583090 GTGTCCAAGG
* * * * *
113583100 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* * *
113583165 AAAAGCCGAAGCCAAGAGGGCAAAGAGAAAC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
113583196 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
113583261 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
* *
113583292 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
113583357 TAAAGCTGAAGCCAAGAGGGCTAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
113583388 AA
1 AA
113583390 AAAGAAGCGA
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 182 1.00
ACGTcount: A:0.36, C:0.18, G:0.34, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:113584360 original size:51 final size:51
Alignment explanation
Indices: 113584296--113584431 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
113584286 TGGAAACATG
* *
113584296 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATTTGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * *
113584347 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
113584398 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
113584432 TTGATGGTAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:113585010 original size:81 final size:81
Alignment explanation
Indices: 113584875--113585034 Score: 257
Period size: 81 Copynumber: 2.0 Consensus size: 81
113584865 TCACCCCGCC
* * * * *
113584875 AGACCAACTTATCTTTTGTGTAAATTTAGTAATGAGTTAATTTGTGACATAAATTCAATCAACGG
1 AGACCAACCTATCTTTTGTGTAAATTCAGTAATAAGTTAATTTGTGACACAAATTCAATCAACAG
113584940 GATTATTAATATAAAA
66 GATTATTAATATAAAA
* *
113584956 AGACCAACCTATTTTTTGTGTAAATTCAGTATTAAGTTAATTTGTGACACAAATTCAATCAACAG
1 AGACCAACCTATCTTTTGTGTAAATTCAGTAATAAGTTAATTTGTGACACAAATTCAATCAACAG
113585021 GATTATTAATATAA
66 GATTATTAATATAA
113585035 TAAAAATGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (81 bp):
AGACCAACCTATCTTTTGTGTAAATTCAGTAATAAGTTAATTTGTGACACAAATTCAATCAACAG
GATTATTAATATAAAA
Found at i:113585477 original size:18 final size:18
Alignment explanation
Indices: 113585435--113585477 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
113585425 AATAATTTAA
113585435 AATTTGTGAAAATTATAAG
1 AATTT-TGAAAATTATAAG
* *
113585454 AGTTTTGAAAATTATAAT
1 AATTTTGAAAATTATAAG
113585472 AATTTT
1 AATTTT
113585478 TACTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
AATTTTGAAAATTATAAG
Found at i:113586428 original size:29 final size:29
Alignment explanation
Indices: 113586386--113586442 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
113586376 GGAGGGAGAA
*
113586386 AAAAATAAAACAAACAAACATGATAAACT
1 AAAAATAAAACAAACAAACATGAAAAACT
*
113586415 AAAACTAAAACAAACAAACATGAAAAAC
1 AAAAATAAAACAAACAAACATGAAAAAC
113586443 AAGTCATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.70, C:0.16, G:0.04, T:0.11
Consensus pattern (29 bp):
AAAAATAAAACAAACAAACATGAAAAACT
Found at i:113587178 original size:21 final size:21
Alignment explanation
Indices: 113587153--113587194 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
113587143 CAAAAGTTAG
113587153 CTTCAAAAGGGTCAAAAACAC
1 CTTCAAAAGGGTCAAAAACAC
113587174 CTTCAAAAGGGTCAAAAACAC
1 CTTCAAAAGGGTCAAAAACAC
113587195 TTTTGAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (21 bp):
CTTCAAAAGGGTCAAAAACAC
Found at i:113587352 original size:73 final size:73
Alignment explanation
Indices: 113587266--113587406 Score: 248
Period size: 73 Copynumber: 1.9 Consensus size: 73
113587256 TTGCCTTGCT
*
113587266 TTTTCTTTCAAGTCCTGAAAAATCAAGTTAAAAAAATTAAATTACAGATTTAGATCATGAAATTA
1 TTTTCTTTCAAGTCCTGAAAAATCAAGTTAAAAAAATTAAATTACAGATTTAGACCATGAAATTA
113587331 AACCTGAC
66 AACCTGAC
*
113587339 TTTTCATTT-AAGTCCTGAAAAATCAAGTTAAAAAAATTAAATTAGAGATTTAGACCATGAAATT
1 TTTTC-TTTCAAGTCCTGAAAAATCAAGTTAAAAAAATTAAATTACAGATTTAGACCATGAAATT
113587403 AAAC
65 AAAC
113587407 TTAGTAAATA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
73 62 0.95
74 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (73 bp):
TTTTCTTTCAAGTCCTGAAAAATCAAGTTAAAAAAATTAAATTACAGATTTAGACCATGAAATTA
AACCTGAC
Found at i:113587481 original size:94 final size:94
Alignment explanation
Indices: 113587366--113587649 Score: 471
Period size: 94 Copynumber: 3.0 Consensus size: 94
113587356 AAAAATCAAG
* *
113587366 TTAAAAAAATTAAATTAGAGATTTAGACCATGAAATTAAACTTAGTAAATAAATTCTAATAATTT
1 TTAAAAAATTTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCTAATAATTT
*
113587431 ACCTACCTCTGATCGTTGTGGATCAAGTT
66 ACGTACCTCTGATCGTTGTGGATCAAGTT
* * *
113587460 TT-AAAAGTCTTAAATTTGAGATTTAGATCATGAAATTAAACTTAATAAATAAATTCTAATAATT
1 TTAAAAAAT-TTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCTAATAATT
*
113587524 TACGTACCTCTGATCATTGTGGATCAAGTT
65 TACGTACCTCTGATCGTTGTGGATCAAGTT
*
113587554 TTAAAAAATTTAAATTAGAGATTTAGATCATGAAAGTAAACTTAGTAAATAAATTCTAATAATTT
1 TTAAAAAATTTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCTAATAATTT
*
113587619 ACGTACCTTTGATCGTTGTGGATCAAGTT
66 ACGTACCTCTGATCGTTGTGGATCAAGTT
113587648 TT
1 TT
113587650 TCAATCGTCT
Statistics
Matches: 175, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
93 4 0.02
94 166 0.95
95 5 0.03
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (94 bp):
TTAAAAAATTTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCTAATAATTT
ACGTACCTCTGATCGTTGTGGATCAAGTT
Found at i:113589479 original size:41 final size:41
Alignment explanation
Indices: 113589383--113589499 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
113589373 TTACAATGGC
113589383 TTCTCGCGATGGGCGCGAGCATATTCAACTTCAAC-GAACT
1 TTCTCGCGATGGGCGCGAGCATATTCAACTTCAACAGAACT
* *
113589423 TTCTCGCGATAGGCGCGAGCATATTCAACTTCAACATAACT
1 TTCTCGCGATGGGCGCGAGCATATTCAACTTCAACAGAACT
*
113589464 TTCTCGCGATGGGCGCGAGCATATTCAACTTTAACA
1 TTCTCGCGATGGGCGCGAGCATATTCAACTTCAACA
113589500 ATATTAATTG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 34 0.47
41 38 0.53
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TTCTCGCGATGGGCGCGAGCATATTCAACTTCAACAGAACT
Found at i:113592115 original size:84 final size:84
Alignment explanation
Indices: 113591964--113592130 Score: 280
Period size: 84 Copynumber: 2.0 Consensus size: 84
113591954 AGGACTACTT
* * *
113591964 GATGCCGAGTGGAAACATGAACTTTCAAGGGAGACAATTTGAGAGCTCCTTAATGTTGAATGGAG
1 GATGCCGAGTGGAAACATGAACTTTCAAGGGAGACAACTTGAGAGCTCCTTAATGTCGAATGCAG
*
113592029 GCATAGGTGTGAGCAACTG
66 GCATAGGTGTGAACAACTG
* *
113592048 GATGCCGAGTGGAAACATGAACTTTCAAGGGAGAGAACTTGAGAGCTCCTTAATGTCGAGTGCAG
1 GATGCCGAGTGGAAACATGAACTTTCAAGGGAGACAACTTGAGAGCTCCTTAATGTCGAATGCAG
113592113 GCATAGGTGTGAACAACT
66 GCATAGGTGTGAACAACT
113592131 CAATGCCAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.23
Consensus pattern (84 bp):
GATGCCGAGTGGAAACATGAACTTTCAAGGGAGACAACTTGAGAGCTCCTTAATGTCGAATGCAG
GCATAGGTGTGAACAACTG
Found at i:113594812 original size:47 final size:47
Alignment explanation
Indices: 113594743--113594838 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
113594733 CTCTCTCTTT
113594743 TCTTCACTGCAGTAAAAGAACGTAAGGTTGACTTTACTAATTCAATA
1 TCTTCACTGCAGTAAAAGAACGTAAGGTTGACTTTACTAATTCAATA
* * * *
113594790 TCTTCACTGCAGTAGAAGAACGTATGGTTGGCTTTTCTAATTCAATA
1 TCTTCACTGCAGTAAAAGAACGTAAGGTTGACTTTACTAATTCAATA
113594837 TC
1 TC
113594839 ATATCTTGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (47 bp):
TCTTCACTGCAGTAAAAGAACGTAAGGTTGACTTTACTAATTCAATA
Found at i:113598585 original size:6 final size:6
Alignment explanation
Indices: 113598569--113598604 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
113598559 TTTTTTTAAG
*
113598569 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TTATCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
113598605 GATGTCTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:113600010 original size:28 final size:28
Alignment explanation
Indices: 113599958--113600011 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
113599948 GGGTACTTCA
* **
113599958 TTTATTACTTAATTTTCTTAGTTATTTT
1 TTTAGTACTTAATTTTCCAAGTTATTTT
*
113599986 TTTAGTACTTAATTTTCCAATTTATT
1 TTTAGTACTTAATTTTCCAAGTTATT
113600012 AAATATAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTAGTACTTAATTTTCCAAGTTATTTT
Found at i:113603452 original size:34 final size:34
Alignment explanation
Indices: 113603412--113603476 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
113603402 ATTTTCAATT
*
113603412 AATTCAAATCAATTTTATTTTTTTTAATATTGAA
1 AATTCAAATCAATTTTATTTATTTTAATATTGAA
113603446 AATTCAAATCAATTTTATTTATTTTAATATT
1 AATTCAAATCAATTTTATTTATTTTAATATT
113603477 ATATTATCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (34 bp):
AATTCAAATCAATTTTATTTATTTTAATATTGAA
Found at i:113603560 original size:20 final size:19
Alignment explanation
Indices: 113603517--113603565 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
113603507 ATTTGATGTT
113603517 AATTTAGAA-TAAGATGAA
1 AATTTAGAATTAAGATGAA
113603535 ATATTTAAGAATTAAGGAT-AA
1 A-ATTT-AGAATTAA-GATGAA
113603556 AATTTAGAAT
1 AATTTAGAAT
113603566 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 9 0.33
20 8 0.30
21 6 0.22
22 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (19 bp):
AATTTAGAATTAAGATGAA
Found at i:113603988 original size:35 final size:35
Alignment explanation
Indices: 113603949--113604019 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
113603939 GAGAGGATAC
113603949 CATAAAGAGAATAAGGGTAAATTACATTAATGTCA
1 CATAAAGAGAATAAGGGTAAATTACATTAATGTCA
113603984 CATAAAGAGAATAAGGGTAAATTACATTAATGTCA
1 CATAAAGAGAATAAGGGTAAATTACATTAATGTCA
113604019 C
1 C
113604020 TCAACTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (35 bp):
CATAAAGAGAATAAGGGTAAATTACATTAATGTCA
Found at i:113606936 original size:31 final size:32
Alignment explanation
Indices: 113606890--113606956 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
113606880 TATTTTCAGC
*
113606890 TATATTACTCAAATTTAGGTGTGAGTTTCAAA
1 TATATTACTCAAATTTAGGTGTGAGTGTCAAA
*
113606922 TATA-TACTCGAATTTAGGTGTGAGTGTCAAA
1 TATATTACTCAAATTTAGGTGTGAGTGTCAAA
113606953 TATA
1 TATA
113606957 ACTTCATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (32 bp):
TATATTACTCAAATTTAGGTGTGAGTGTCAAA
Found at i:113613770 original size:21 final size:22
Alignment explanation
Indices: 113613741--113613787 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
113613731 CAGAAGGAGT
*
113613741 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
113613763 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
113613784 GAGT
1 GAGT
113613788 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:113615606 original size:28 final size:28
Alignment explanation
Indices: 113615575--113615633 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
113615565 TCGAGTCACT
*
113615575 TTTAAAAAAAATCTTTAACCCTTCAATC
1 TTTAAAAAAAATCTTTAAACCTTCAATC
*** * *
113615603 TTTATCCAATATCTTTAAATCTTCAATC
1 TTTAAAAAAAATCTTTAAACCTTCAATC
113615631 TTT
1 TTT
113615634 CAATCAAGCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTAAAAAAAATCTTTAAACCTTCAATC
Found at i:113621049 original size:254 final size:254
Alignment explanation
Indices: 113620584--113621070 Score: 796
Period size: 254 Copynumber: 1.9 Consensus size: 254
113620574 GGTACTACAA
* * *
113620584 AGTTTACTTATTCATTATCTCTCTTGCTTTGATTTTCCTGAATTTCTTGAGAAAATTCCGTTTCA
1 AGTTTACTTATTCATTATATCTCTTGCTTTGATTTTCCTGAATTACTTAAGAAAATTCCGTTTCA
* *
113620649 TATAATTTTCCTTCAATGATTTGCTTCTTCTTAATTTATATCTGAATGTTCGATTGTATTGTTTT
66 TATAATCTTCCTTCAATGATTTGCTTCTTCTTAATTTATATCTCAATGTTCGATTGTATTGTTTT
* *
113620714 TTTTATTCAACGATTTCTTCTGATCCAAGTTAAAATTTTCACAGATCTGTGCAAGATGAGCAACG
131 TTTTATTCAACGATTTCTTCTGATCCAAGTTAAAATTCTCACAGATCAGTGCAAGATGAGCAACG
*
113620779 GTGACAGTCATTGGAATGACGAAGATTGGAGACTCAATATAGGTGATCTGATTTTCCTG
196 GTGACACTCATTGGAATGACGAAGATTGGAGACTCAATATAGGTGATCTGATTTTCCTG
*
113620838 AGTTTACTTATTCATTATTATCTCTTGCTTTGATTTTCCTGAATTACTTAAGAAAATTCTGTTTC
1 AGTTTACTTATTCATTA-TATCTCTTGCTTTGATTTTCCTGAATTACTTAAGAAAATTCCGTTTC
* * *
113620903 ATATAATCTTGCTTCAATGATTTGCTTCTTCTTAATTTATATCTCAATTTTCGATTTTATTG-TT
65 ATATAATCTTCCTTCAATGATTTGCTTCTTCTTAATTTATATCTCAATGTTCGATTGTATTGTTT
* *
113620967 TTTTTATTCTACGATTTCTTCTGATCCAAGTTAAAATTCTCCCAGATCAGTGCAAGATGAGCAAC
130 TTTTTATTCAACGATTTCTTCTGATCCAAGTTAAAATTCTCACAGATCAGTGCAAGATGAGCAAC
* ** *
113621032 GGTTACACTTTTTGGAATGACGAAGATTGGAGTCTCAAT
195 GGTGACACTCATTGGAATGACGAAGATTGGAGACTCAAT
113621071 TTTTGGAATG
Statistics
Matches: 214, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
254 114 0.53
255 100 0.47
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (254 bp):
AGTTTACTTATTCATTATATCTCTTGCTTTGATTTTCCTGAATTACTTAAGAAAATTCCGTTTCA
TATAATCTTCCTTCAATGATTTGCTTCTTCTTAATTTATATCTCAATGTTCGATTGTATTGTTTT
TTTTATTCAACGATTTCTTCTGATCCAAGTTAAAATTCTCACAGATCAGTGCAAGATGAGCAACG
GTGACACTCATTGGAATGACGAAGATTGGAGACTCAATATAGGTGATCTGATTTTCCTG
Found at i:113621076 original size:30 final size:30
Alignment explanation
Indices: 113621040--113621100 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
113621030 ACGGTTACAC
113621040 TTTTTGGAATGACGAAGATTGGAGTCTCAA
1 TTTTTGGAATGACGAAGATTGGAGTCTCAA
113621070 TTTTTGGAATGACGAAGATTGGAGTCTCAA
1 TTTTTGGAATGACGAAGATTGGAGTCTCAA
113621100 T
1 T
113621101 CTCGCTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (30 bp):
TTTTTGGAATGACGAAGATTGGAGTCTCAA
Found at i:113631178 original size:14 final size:15
Alignment explanation
Indices: 113631159--113631192 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
113631149 CAAAATGGTT
113631159 TTATTTCGT-TAAAA
1 TTATTTCGTCTAAAA
113631173 TTATTTCGTCGTAAAA
1 TTATTTCGTC-TAAAA
113631189 TTAT
1 TTAT
113631193 GCCACACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (15 bp):
TTATTTCGTCTAAAA
Found at i:113636827 original size:25 final size:25
Alignment explanation
Indices: 113636799--113636847 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
113636789 ATATTTTTGG
113636799 TATAGTT-GAAATTTAGTATTATTTT
1 TATAGTTAGAAATTTAGT-TTATTTT
* *
113636824 TATATTTAGGAATTTAGTTTATTT
1 TATAGTTAGAAATTTAGTTTATTT
113636848 ATTTTTGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (25 bp):
TATAGTTAGAAATTTAGTTTATTTT
Found at i:113637748 original size:15 final size:15
Alignment explanation
Indices: 113637730--113637759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113637720 GTAATATTTT
113637730 AAATATAAATAACTA
1 AAATATAAATAACTA
*
113637745 AAATATAAATGACTA
1 AAATATAAATAACTA
113637760 TTTTTACACT
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:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
AAATATAAATAACTA
Found at i:113640950 original size:13 final size:13
Alignment explanation
Indices: 113640922--113640955 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
113640912 GTTCGTGTTC
113640922 GATTTTA-TTTTG
1 GATTTTATTTTTG
*
113640934 GATTTTATTTTTT
1 GATTTTATTTTTG
113640947 GATTTTATT
1 GATTTTATT
113640956 GAGAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (13 bp):
GATTTTATTTTTG
Found at i:113645449 original size:4 final size:4
Alignment explanation
Indices: 113645436--113645471 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
113645426 CTATAGAAAC
*
113645436 TACA -ACA TACA TACA TACA TATA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
113645472 TTTATAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:113648671 original size:24 final size:24
Alignment explanation
Indices: 113648639--113648687 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
113648629 ATAACTAAGG
113648639 CACTAACCATCTCAATGAATTCAT
1 CACTAACCATCTCAATGAATTCAT
113648663 CACTAACCATCTCAATGAATTCAT
1 CACTAACCATCTCAATGAATTCAT
113648687 C
1 C
113648688 TTTACACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (24 bp):
CACTAACCATCTCAATGAATTCAT
Found at i:113649513 original size:32 final size:32
Alignment explanation
Indices: 113649477--113649539 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
113649467 ATCTAATTAA
113649477 CATAGTTGCTTATGGTGACAAACTGATACTCT
1 CATAGTTGCTTATGGTGACAAACTGATACTCT
113649509 CATAGTTGCTTATGGTGACAAACTGATACTC
1 CATAGTTGCTTATGGTGACAAACTGATACTC
113649540 GACAACATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (32 bp):
CATAGTTGCTTATGGTGACAAACTGATACTCT
Found at i:113650125 original size:3 final size:3
Alignment explanation
Indices: 113650117--113650150 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
113650107 TCCAGAAATC
113650117 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
113650151 GCATTTGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:113651503 original size:104 final size:104
Alignment explanation
Indices: 113651390--113651602 Score: 277
Period size: 105 Copynumber: 2.0 Consensus size: 104
113651380 AAATTCACAA
* *
113651390 AAAAAATGGAATCGATGAGC-AAAATGCGATCAATGGACCTTAGAGCAGCGACAAAGGCATCGAT
1 AAAAAATGGAATCGATGAGCGAAAAAGCGATCAAGGGACCTTAGAGCAGCGACAAAGGCATCGAT
113651454 AAACAACGT-AAACTCAAAAACAAATACAAGAAAAAAAAAT
66 AAACAACGTAAAACTC-AAAACAAATACAAG-AAAAAAAAT
* * * ** * * *
113651494 AAAAAATGGAATTGATTAGCGAAAAAGTGATTGAGGGAGCTTAGATCAGCGACAAAGGCATTGAT
1 AAAAAATGGAATCGATGAGCGAAAAAGCGATCAAGGGACCTTAGAGCAGCGACAAAGGCATCGAT
* * *
113651559 AAACAACGTAAAACTCGAAACAAATTCAAGAAAAATAAT
66 AAACAACGTAAAACTCAAAACAAATACAAGAAAAAAAAT
113651598 AAAAA
1 AAAAA
113651603 TTTGGAAGTG
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
104 31 0.33
105 57 0.61
106 6 0.06
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (104 bp):
AAAAAATGGAATCGATGAGCGAAAAAGCGATCAAGGGACCTTAGAGCAGCGACAAAGGCATCGAT
AAACAACGTAAAACTCAAAACAAATACAAGAAAAAAAAT
Found at i:113652020 original size:16 final size:15
Alignment explanation
Indices: 113651981--113652019 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
113651971 AGATTAGGAC
113651981 GATGGAAAATTGAAG
1 GATGGAAAATTGAAG
*
113651996 GGTGGAAAACTTGAAG
1 GATGGAAAA-TTGAAG
113652012 GAT-GAAAA
1 GATGGAAAA
113652020 AAAGAGGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.46, C:0.03, G:0.33, T:0.18
Consensus pattern (15 bp):
GATGGAAAATTGAAG
Found at i:113663730 original size:174 final size:174
Alignment explanation
Indices: 113663426--113663806 Score: 475
Period size: 174 Copynumber: 2.2 Consensus size: 174
113663416 AGGTTTTTTT
* * * *
113663426 ATTTTAGAAATAAATTTTAATTGTTAAGCTAGTGCTAATTAGTATAATTCTTGATTAATCCTCTG
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTAGTGCTAATTAGTATAACTCTAGATTAATCCTCTG
* *
113663491 AAATGTAACTTGCGGAAGTATTGTTTAGCTGTAAAAAGTTTTTGATCGGGTAATGGAAGTAATGC
66 AAATGTAACTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGC
* * * * * *
113663556 TTAATGAGCTTCGTATGCATTTG-GATTTGTTCACAAAACGGTGAATAG
131 TTAATGACCTTAGTATGAATTTGAG-TTCGTTCAC--AA--GTGAACAA
* * *
113663604 ATTTTAGAAAGAAAGTTTAATT-TTAAGCTA-T-TTGATTAGTATAACTCTAGATTAATCCTCTG
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTAGTGCTAATTAGTATAACTCTAGATTAATCCTCTG
* * * * * * *
113663666 AAATTTAATTTGC-GATGTATTATTTAGCTGTAAAAGGTTTTTGATTGAGTGATGGAATTAATGC
66 AAATGTAACTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGC
*
113663730 TTAATGACCTTATTATGAATTTGAGTTCGTTCACAAGTGAACAA
131 TTAATGACCTTAGTATGAATTTGAGTTCGTTCACAAGTGAACAA
113663774 ATTTTAGAAAGAAATTTTAATTATTAAGCTAGT
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTAGT
113663807 AATGATTAAT
Statistics
Matches: 177, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
170 27 0.15
171 8 0.05
172 3 0.02
174 71 0.40
175 39 0.22
176 1 0.01
177 8 0.05
178 20 0.11
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (174 bp):
ATTTTAGAAAGAAATTTTAATTATTAAGCTAGTGCTAATTAGTATAACTCTAGATTAATCCTCTG
AAATGTAACTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGC
TTAATGACCTTAGTATGAATTTGAGTTCGTTCACAAGTGAACAA
Found at i:113663827 original size:52 final size:52
Alignment explanation
Indices: 113663771--113663873 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
113663761 CACAAGTGAA
*
113663771 CAAATTTTAGAAAGAAATTTTAATTATTAAGCTAGTAATGATTAATATAATC
1 CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAATC
113663823 CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAAT
1 CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAAT
113663874 TTTTGATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (52 bp):
CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAATC
Found at i:113674123 original size:33 final size:33
Alignment explanation
Indices: 113674086--113674150 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
113674076 AGCTCACGCT
*
113674086 TGCACTCGGCATCAAGGAGTTTTCACCTATGCC
1 TGCACTCGGCATCAAGGAGTTCTCACCTATGCC
*
113674119 TGCACTCGGTATCAAGGAGTTCTCACCTATGC
1 TGCACTCGGCATCAAGGAGTTCTCACCTATGC
113674151 AAAAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (33 bp):
TGCACTCGGCATCAAGGAGTTCTCACCTATGCC
Found at i:113675430 original size:35 final size:35
Alignment explanation
Indices: 113675386--113675552 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
113675376 TCCTCATTGA
** *
113675386 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
113675421 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
113675461 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
113675496 AATACTATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
113675531 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
113675553 CTTTCCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 85 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:113675469 original size:75 final size:73
Alignment explanation
Indices: 113675381--113675552 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
113675371 GGTTTTCCTC
** * * **
113675381 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
113675445 TCAGTATGG
65 TCAGTATGG
* *
113675454 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACTATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
113675519 CTCAGTATGG
64 CTCAGTATGG
113675529 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
113675553 CTTTCCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Done.