Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 142 of 235
Found at i:47783540 original size:116 final size:116
Alignment explanation
Indices: 47783387--47783940 Score: 856
Period size: 116 Copynumber: 4.9 Consensus size: 116
47783377 GCAAAACATT
* *
47783387 TAGCAGCG-TTTTAT-AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
47783450 AGCAAAACATTTAGTGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAA
*
47783501 TAGTGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
47783566 AGCAAAACATTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAGGTAAGCAA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAA
*
47783617 TAGTGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
47783682 AGCAAAACATTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAGGTAAGCAA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAA
* **
47783733 TAGCGGTGTTTTTATAAAAAAATACCAC-AAAAATAA-TTTACTTTAAAAAATAGTCATTTTATA
1 TAGCGGCGTTTTTAT-AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATA
*
47783796 TAGCAAAATATTTAGCGGCG---TT-T----------GCAAAAGGTAAGCAA
65 TAGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAA
47783834 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
* *
47783899 AGCAAAACATTTAGCGGCGTTTTTATAAAAAATGCCACAAAA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAA
47783941 AATAATTTTA
Statistics
Matches: 405, Mismatches: 16, Indels: 36
0.89 0.04 0.08
Matches are distributed among these distances:
100 10 0.02
101 37 0.09
102 46 0.11
105 2 0.00
106 1 0.00
111 1 0.00
112 1 0.00
114 6 0.01
115 52 0.13
116 239 0.59
117 10 0.02
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (116 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAA
Found at i:47783646 original size:232 final size:217
Alignment explanation
Indices: 47783387--47783940 Score: 835
Period size: 217 Copynumber: 2.5 Consensus size: 217
47783377 GCAAAACATT
* *
47783387 TAGCAGCG-TTTTAT-AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
* *
47783450 AGCAAAACATTTAGTGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTTTA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTA
*
47783515 T-AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAACATTTA
131 TAAAAAAACACCAC-AAAAATAA-TTTACTTTAAAAAATAGTCATTTTATATAGCAAAACATTTA
47783579 GCGGCGTTTTCATAAAAAACGCCGCAAAAGGTAAGCAA
194 GCGGCG--TT--T----------GCAAAAGGTAAGCAA
*
47783617 TAGTGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
* *
47783682 AGCAAAACATTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAGGTAAGCAATAGCGGTGTTTTTA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTA
* *
47783747 TAAAAAAATACCACAAAAATAATTTACTTTAAAAAATAGTCATTTTATATAGCAAAATATTTAGC
131 TAAAAAAACACCACAAAAATAATTTACTTTAAAAAATAGTCATTTTATATAGCAAAACATTTAGC
47783812 GGCGTTTGCAAAAGGTAAGCAA
196 GGCGTTTGCAAAAGGTAAGCAA
47783834 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
* *
47783899 AGCAAAACATTTAGCGGCGTTTTTATAAAAAATGCCACAAAA
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAA
47783941 AATAATTTTA
Statistics
Matches: 307, Mismatches: 14, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
217 118 0.38
227 1 0.00
229 2 0.01
230 6 0.02
231 52 0.17
232 118 0.38
233 10 0.03
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (217 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTA
TAAAAAAACACCACAAAAATAATTTACTTTAAAAAATAGTCATTTTATATAGCAAAACATTTAGC
GGCGTTTGCAAAAGGTAAGCAA
Found at i:47783830 original size:101 final size:102
Alignment explanation
Indices: 47783718--47783920 Score: 347
Period size: 102 Copynumber: 2.0 Consensus size: 102
47783708 AAAAAACGCC
* *
47783718 GCAAAAGGTAAGCAATAGCGGTGTTTTTATAAAAAAATACCAC-AAAAATAA-TTTACTTTAAAA
1 GCAAAAGGTAAGCAATAGCGGCGTTTTTAT-AAAAAACACCACAAAAAATAATTTTACTTTAAAA
*
47783781 AATAGTCATTTTATATAGCAAAATATTTAGCGGCGTTT
65 AATAGTCATTTTATATAGCAAAACATTTAGCGGCGTTT
*
47783819 GCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAA
1 GCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACACCACAAAAAATAATTTTACTTTAAAAA
47783884 ATAGTCATTTTATATAGCAAAACATTTAGCGGCGTTT
66 ATAGTCATTTTATATAGCAAAACATTTAGCGGCGTTT
47783921 TTATAAAAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
100 10 0.10
101 37 0.39
102 49 0.51
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (102 bp):
GCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACACCACAAAAAATAATTTTACTTTAAAAA
ATAGTCATTTTATATAGCAAAACATTTAGCGGCGTTT
Found at i:47783927 original size:76 final size:76
Alignment explanation
Indices: 47783834--47784183 Score: 481
Period size: 76 Copynumber: 4.8 Consensus size: 76
47783824 AGGTAAGCAA
47783834 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
47783899 AGCAAAACATT
66 AGCAAAACATT
*
47783910 TAGCGGCGTTTTTATAAAAAATGCCACAAAAAATAATTTTAC-----------GTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
47783964 AGCAAAACATT
66 AGCAAAACATT
47783975 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
47784040 AGCAAAACATT
66 AGCAAAACATT
47784051 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTC--------T
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
47784108 AGCAAAACATT
66 AGCAAAACATT
* ** *
47784119 TAGTGGCGTTTTTATAAAAAACGTTACAAAAAAATAATTTTA--TAAAAAAATAGGTCATTTCTA
1 TAGCGGCGTTTTTATAAAAAACGCCAC-AAAAAATAATTTTACTTTAAAAAATA-GTCATTT-TA
47784182 TA
63 TA
47784184 AAATCCCCTC
Statistics
Matches: 246, Mismatches: 6, Indels: 43
0.83 0.02 0.15
Matches are distributed among these distances:
65 64 0.26
67 9 0.04
68 39 0.16
69 14 0.06
76 120 0.49
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.33
Consensus pattern (76 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
AGCAAAACATT
Found at i:47783979 original size:141 final size:144
Alignment explanation
Indices: 47783834--47784183 Score: 539
Period size: 141 Copynumber: 2.4 Consensus size: 144
47783824 AGGTAAGCAA
47783834 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
* * ***
47783899 AGCAAAACATTTAGCGGCGTTTTTATAAAAAATGCCACAAAAAATAATTTTAC-GT-CATTTTA-
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTGTAAAAAATAG
47783961 TATAGCAAAACATT
131 TATAGCAAAACATT
47783975 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
*
47784040 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAG
66 AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTGTAAAAAATAG
*
47784105 TCTAGCAAAACATT
131 TATAGCAAAACATT
* ** *
47784119 TAGTGGCGTTTTTATAAAAAACGTTACAAAAAAATAATTTTA--TAAAAAAATAGGTCATTTCTA
1 TAGCGGCGTTTTTATAAAAAACGCCAC-AAAAAATAATTTTACTTTAAAAAATA-GTCATTT-TA
47784182 TA
63 TA
47784184 AAATCCCCTC
Statistics
Matches: 192, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
141 117 0.61
142 1 0.01
143 12 0.06
144 44 0.23
145 18 0.09
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.33
Consensus pattern (144 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
AGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTGTAAAAAATAG
TATAGCAAAACATT
Found at i:47785451 original size:24 final size:24
Alignment explanation
Indices: 47785409--47785468 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
47785399 AGAGACTACT
47785409 GTTATCTA-TTCTAAGTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
* *
47785432 TTTATCTATTTCTAATTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
47785456 GTTATCTATTTCT
1 GTTATCTATTTCT
47785469 GCCTTCAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 7 0.21
24 26 0.79
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.58
Consensus pattern (24 bp):
GTTATCTATTTCTAAGTTGTTTAA
Found at i:47786762 original size:16 final size:15
Alignment explanation
Indices: 47786730--47786759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47786720 GCTTTTGTTT
47786730 TTTTATTCTTTTAAA
1 TTTTATTCTTTTAAA
*
47786745 TTTTATTGTTTTAAA
1 TTTTATTCTTTTAAA
47786760 ATTGCAGGAA
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:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTATTCTTTTAAA
Found at i:47788542 original size:43 final size:42
Alignment explanation
Indices: 47788493--47788735 Score: 163
Period size: 43 Copynumber: 5.6 Consensus size: 42
47788483 ATAAACGTCA
*
47788493 CTAAAGA-ATTGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCG
1 CTAAAGATA-TGTAC-TTTAGCGGCGTTTGTGAGAAAAGCGCCG
* * * *
47788536 CTAAAGATCATGTTCTTTAGCTGCGTTTGTGGGAAAAGTGCCG
1 CTAAAGAT-ATGTACTTTAGCGGCGTTTGTGAGAAAAGCGCCG
* * * * *
47788579 CTAAAGGTCATGGT-CTTCAGCGGCATTTGTGGGAGAAGCGCCG
1 CTAAAGAT-AT-GTACTTTAGCGGCGTTTGTGAGAAAAGCGCCG
* * * *
47788622 CTAAAGGTCATGGT-CTTTAGCGGCGTTTATGGGAAAAGCGCTG
1 CTAAAGAT-AT-GTACTTTAGCGGCGTTTGTGAGAAAAGCGCCG
* * * * *
47788665 TTAAAGGTCATGGT-CTTCAGCTGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGAT-AT-GTACTTTAGCGGCGTTTGTGAGAAAAGCGCCG
* *
47788708 CTAAAGGTCATGGT-CTTTAGCGACGTTT
1 CTAAAGAT-AT-GTACTTTAGCGGCGTTT
47788736 AGTTATAAAA
Statistics
Matches: 172, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
43 165 0.96
44 6 0.03
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (42 bp):
CTAAAGATATGTACTTTAGCGGCGTTTGTGAGAAAAGCGCCG
Found at i:47788639 original size:86 final size:86
Alignment explanation
Indices: 47788511--47788736 Score: 326
Period size: 86 Copynumber: 2.6 Consensus size: 86
47788501 TTGTACTTTT
* ** * * * * *
47788511 AGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGCGTTTGTGGGAAAAGTG
1 AGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTATGGGAAAAGCG
47788576 CCGCTAAAGGTCATGGTCTTC
66 CCGCTAAAGGTCATGGTCTTC
*
47788597 AGCGGCATTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTATGGGAAAAGCG
1 AGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTATGGGAAAAGCG
* *
47788662 CTGTTAAAGGTCATGGTCTTC
66 CCGCTAAAGGTCATGGTCTTC
* * *
47788683 AGCTGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTA
1 AGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTA
47788737 GTTATAAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 125 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (86 bp):
AGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTATGGGAAAAGCG
CCGCTAAAGGTCATGGTCTTC
Found at i:47794844 original size:14 final size:14
Alignment explanation
Indices: 47794817--47794846 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
47794807 ATTCAAATGG
47794817 TTTATTATAATTTT
1 TTTATTATAATTTT
47794831 TTTA-TATAATTTT
1 TTTATTATAATTTT
47794844 TTT
1 TTT
47794847 GATAAATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTATAATTTT
Found at i:47796223 original size:27 final size:27
Alignment explanation
Indices: 47796192--47796247 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
47796182 CATAGTTATG
* * *
47796192 TTTGGCGAACTGTGTTCGCATATGTGT
1 TTTGGCAAACTGAGTTCACATATGTGT
47796219 TTTGGCAAACTGAGTTCACATATGTGT
1 TTTGGCAAACTGAGTTCACATATGTGT
47796246 TT
1 TT
47796248 GTTCAGCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (27 bp):
TTTGGCAAACTGAGTTCACATATGTGT
Found at i:47800022 original size:19 final size:19
Alignment explanation
Indices: 47799998--47800050 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
47799988 GATCATATCT
47799998 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47800017 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47800036 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
47800051 TCTTGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47800653 original size:45 final size:45
Alignment explanation
Indices: 47800602--47801069 Score: 298
Period size: 44 Copynumber: 10.7 Consensus size: 45
47800592 TTGTTTATTT
* * * * *
47800602 AGTCTGCCCCACTGAAATTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
*
47800647 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * *
47800692 GGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCCGA-TAC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *
47800734 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTG
* ** * * * *
47800776 AATCCACTCCACTGCAACTTCAGGGAGATAGGA-T-TATTAGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTG
* * *** *
47800820 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * * *
47800865 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTG
* * *
47800909 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTAGA-TGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *
47800951 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTGTAATT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTC-G-ATTTCTTG
* * * * * * *
47800993 AATCTGCTCCATTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTG
*
47801037 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
47801070 TTTGCCATCT
Statistics
Matches: 333, Mismatches: 63, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.00
40 45 0.14
41 17 0.05
42 9 0.03
43 16 0.05
44 134 0.40
45 111 0.33
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:47800966 original size:173 final size:171
Alignment explanation
Indices: 47800649--47801069 Score: 390
Period size: 173 Copynumber: 2.4 Consensus size: 171
47800639 ATTTCTTGAG
* ** ** *
47800649 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTACAACTTCA
* **
47800714 GGAAGATAAGACCCGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAAT
66 GGAAGATAAGACCCGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGA--TGTGATTGCAAT
* * * *
47800779 CCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTAGCTTTAA
129 CCACTCCACTGCAACTTCAGAGAGATAAGATCT-GTAACTTTAA
47800822 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTACAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTC-CACTACAACTTC
* * ** * * *
47800886 AGGAGGATAAGGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-GTAGA-TG
65 AGGAAGATAAGACCCG-ATAC-GA-TCTGCT-CACTGCAACTTCAGAGAGATAAGATGT-GATTG
* ** * *
47800949 CGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAA
125 CAATCCACTCCACTGCAACTTCAGAGAGATAAGATCTGTAACTTTAA
* * * * * * *
47800995 TCTGCTCCATTGCGACTTCAGGGAGATAGGATTATTGGC-T-TT-AATCTGCTCCACTGCAACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATCTTCAGTCTGCTCCACTACAACTT
*
47801057 CAGGGAGATAAGA
64 CAGGAAGATAAGA
47801070 TTTGCCATCT
Statistics
Matches: 203, Mismatches: 35, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
172 27 0.13
173 128 0.63
174 14 0.07
175 6 0.03
176 6 0.03
177 22 0.11
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (171 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCCACTACAACTTCA
GGAAGATAAGACCCGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATGTGATTGCAATCC
ACTCCACTGCAACTTCAGAGAGATAAGATCTGTAACTTTAA
Found at i:47800970 original size:217 final size:217
Alignment explanation
Indices: 47800552--47801086 Score: 695
Period size: 217 Copynumber: 2.5 Consensus size: 217
47800542 ATTTCAGAGA
* * * * * *
47800552 GATTCTAATCCACTCCACTACAACTTTAGGGAGAT-GGAATTTGTTTA--TTTAGTCTGCCCCAC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGG-A-TT-ATTAGCTTTAATCTGCTCCAC
* * * *** * *
47800614 TGAAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
63 TGCAACTTCAGGGAGATAAGA-TTGCCATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAG
* * *
47800679 ACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCCGATACGATCTGCTCTC
127 ACTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCAGATACGATCTGCTCTC
47800744 TGCAACTTCAGAGAGATAAGATCTGT
192 TGCAACTTCAGAGAGATAAGATCTGT
47800770 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGC
*
47800835 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGG
66 AACTTCAGGGAGATAAGATT-GCCATCTTCAGTCTGCTC-CACTACAACTTCAGGGA-GATAAGA
* * ** *
47800898 CTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTAGATGCGATCTGCTCTCT
128 CTCGCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCAGATACGATCTGCTCTCT
47800962 GCAACTTCAGAGAGATAAGATCTGT
193 GCAACTTCAGAGAGATAAGATCTGT
* ** * * *
47800987 AATTTTAATCTGCTCCATTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGC
47801052 AACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
66 AACTTCAGGGAGATAAGA-TTGCCATCTTCAGTCT
47801087 TTTAAATTGC
Statistics
Matches: 281, Mismatches: 29, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
216 3 0.01
217 171 0.61
218 105 0.37
219 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (217 bp):
GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGC
AACTTCAGGGAGATAAGATTGCCATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTC
GCTTACTTGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACCAGATACGATCTGCTCTCTGCA
ACTTCAGAGAGATAAGATCTGT
Found at i:47801505 original size:44 final size:44
Alignment explanation
Indices: 47801435--47801556 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
47801425 ATCTGCTATT
* *
47801435 TTCAACCTACTCCACTATTG-CTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTACTGAC-CAGGGAGATAGGACTT-ACAATC
* * *
47801479 TT-AGACCTATTCCATTGCTGACCAGGGAGATAGGACTTATAATC
1 TTCA-ACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATC
*
47801523 TTCAACCTATTCCACTACTGTCCAGGGAGATAGG
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGG
47801557 GCTGGGGTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.02
44 61 0.92
45 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATC
Found at i:47801693 original size:88 final size:88
Alignment explanation
Indices: 47801556--47802132 Score: 870
Period size: 88 Copynumber: 6.6 Consensus size: 88
47801546 AGGGAGATAG
* * * * *
47801556 GGCTGGGGTCATCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACATAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
47801621 TTCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
47801644 AGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
47801709 TCCGCTGCAACCCAGGGAGACAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
47801732 GGCTGGTGTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
47801797 TCCGCTACAACCCAGGGAGACAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
47801820 GGCTGGTGTCTTCGATCTGCTTCACTATCAGTGCAGGAAGGCAAGATCTG-TAATTTTTAACTTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
47801884 CTCCGCTGCAACCCAGGGAGGCAA
65 CTCCGCTGCAACCCAGGGAGGCAA
*
47801908 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACC-GC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
**
47801972 TTTGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
47801995 GGCTAGTGTTTTCGATCTGCTTCGTTGTCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
47802060 TTCGCTACAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
47802083 GGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
47802133 TTATCTTCAC
Statistics
Matches: 446, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
87 81 0.18
88 364 0.82
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:47802102 original size:263 final size:263
Alignment explanation
Indices: 47801544--47802133 Score: 876
Period size: 263 Copynumber: 2.2 Consensus size: 263
47801534 CCACTACTGT
* * * * * * * *
47801544 CCAGGGAGATAGGGCTGGGGTCATCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
1 CCAGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCACTATCAGTGCAGGAAGGCAAGATCTG-TA
* *
47801609 TTTTTAACATACTTCGCTGCAACCCAGGGAGGCAAAGTTGGTGTCTTCGATCTGCTTCGCTGTCG
65 TTTTTAACATACTCCGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCG
* *
47801674 GTGCAGGAAGGTAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGT
130 GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGACAAGGCTAGT
*
47801739 GTCTTCGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTA
195 GTCTTCGATCTGCTTCACTATCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTA
47801804 CAAC
260 CAAC
47801808 CCAGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCACTATCAGTGCAGGAAGGCAAGATCTGTAA
1 CCAGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCACTATCAGTGCAGGAAGGCAAGATCTGT-A
* * *
47801873 TTTTTAACTTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
65 TTTTTAACATACTCCGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCG
* ** *
47801938 GTGCAGGAAGGCAAGATTTGCTATTTTTAACC-GCTTTGCTGCAACCCAGGGAGGCAAGGCTAGT
130 GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGACAAGGCTAGT
* ** * *
47802002 GTTTTCGATCTGCTTCGTTGTCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTTCGCTA
195 GTCTTCGATCTGCTTCACTATCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTA
47802067 CAAC
260 CAAC
* * * * * *
47802071 CCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGT
1 CCAGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCACTATCAGTGCAGGAAGGCAAGATCTGT
47802134 TATCTTCACT
Statistics
Matches: 294, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
263 149 0.51
264 145 0.49
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (263 bp):
CCAGGGAGACAAGGCTGGTGTCTTCGATCTGCTTCACTATCAGTGCAGGAAGGCAAGATCTGTAT
TTTTAACATACTCCGCTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGG
TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGACAAGGCTAGTG
TCTTCGATCTGCTTCACTATCGGTGCAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTAC
AAC
Found at i:47809142 original size:19 final size:19
Alignment explanation
Indices: 47809118--47809171 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
47809108 AATCATATCT
47809118 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47809137 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47809156 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47809172 CTTGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47809167 original size:38 final size:40
Alignment explanation
Indices: 47809095--47809171 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
47809085 AAATTAAATC
47809095 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
47809137 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
47809172 CTTGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:47809503 original size:28 final size:30
Alignment explanation
Indices: 47809443--47809498 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
47809433 CATAGAGGCT
47809443 TTCCTTTGACAGAGATCACCACAAAGGCAC
1 TTCCTTTGACAGAGATCACCACAAAGGCAC
*
47809473 TTCCTTT-A-AGAGATTTACCACAAAGG
1 TTCCTTTGACAGAGA-TCACCACAAAGG
47809499 TCTTCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 12 0.50
30 7 0.29
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (30 bp):
TTCCTTTGACAGAGATCACCACAAAGGCAC
Found at i:47809690 original size:61 final size:61
Alignment explanation
Indices: 47809516--47809869 Score: 318
Period size: 61 Copynumber: 5.8 Consensus size: 61
47809506 AAACAGAAGC
* * * * *
47809516 TGCCACAAAAGTTTTCCTTTACATTCAATACTCACCACAAAGGTTTTCTTGTCTAGAGTTT
1 TGCCACAAAAGTTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTGTCCAGAGTTT
* * * * *
47809577 TGCCACAAAAGTTAT-CATTATA-TCTAGTACTCATCACAAAGGCTTTCTTGTCCAAAGTTT
1 TGCCACAAAAGTTATCCTTTACATTC-AGTACTCACCACAAAGGCTTTCCTGTCCAGAGTTT
* *
47809637 TGCCACAAAAGTTATCCTTTACATTCAGTACTCACTATAAAGGCTTTCCTGTCCAGAGTTT
1 TGCCACAAAAGTTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTGTCCAGAGTTT
* * * * * * * * * *
47809698 TGCCACAAAGGTTGTCATTTACATTTAATACACACCATAAAGGCTTTCATGTCTAGAGTTG
1 TGCCACAAAAGTTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTGTCCAGAGTTT
* * * * * * * * *
47809759 TGCCACAAAGGCTATCCTTTATA-TCTAGTACTCACCAAAAAGGTTTTTCTATCCAAATTTT
1 TGCCACAAAAGTTATCCTTTACATTC-AGTACTCACCACAAAGGCTTTCCTGTCCAGAGTTT
* * * * * * **
47809820 TCCCACAAAGGATGTCATTTACATTTAGTACTTGCCACAAAGGCTTTCCT
1 TGCCACAAAAGTTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCT
47809870 TCTCCTGATG
Statistics
Matches: 236, Mismatches: 52, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
59 2 0.01
60 51 0.22
61 180 0.76
62 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (61 bp):
TGCCACAAAAGTTATCCTTTACATTCAGTACTCACCACAAAGGCTTTCCTGTCCAGAGTTT
Found at i:47809789 original size:122 final size:122
Alignment explanation
Indices: 47809516--47809867 Score: 375
Period size: 122 Copynumber: 2.9 Consensus size: 122
47809506 AAACAGAAGC
* * * * * *
47809516 TGCCACAAAAGTTTTCCTTTACATTCAATACTCACCACAAAGGTTTTCTTGTCTAGAGTTTTGCC
1 TGCCACAAAAGCTATCCTTTACATTCAGTACTCACCAAAAAGGTTTTCCTGTCCAGAGTTTTGCC
* * * * * * * * *
47809581 ACAAAAGTTATCA-TTATATCTAGTACTCATCACAAAGGCTTTCTTGTCCAAAGTTT
66 ACAAAGGTTGTCATTTACATTTAATACACACCACAAAGGCTTTCATGTCCAAAGTTG
* * * *
47809637 TGCCACAAAAGTTATCCTTTACATTCAGTACTCACTATAAAGGCTTTCCTGTCCAGAGTTTTGCC
1 TGCCACAAAAGCTATCCTTTACATTCAGTACTCACCAAAAAGGTTTTCCTGTCCAGAGTTTTGCC
* * *
47809702 ACAAAGGTTGTCATTTACATTTAATACACACCATAAAGGCTTTCATGTCTAGAGTTG
66 ACAAAGGTTGTCATTTACATTTAATACACACCACAAAGGCTTTCATGTCCAAAGTTG
* * * * * * *
47809759 TGCCACAAAGGCTATCCTTTATA-TCTAGTACTCACCAAAAAGGTTTTTCTATCCAAATTTTTCC
1 TGCCACAAAAGCTATCCTTTACATTC-AGTACTCACCAAAAAGGTTTTCCTGTCCAGAGTTTTGC
* * ***
47809823 CACAAAGGATGTCATTTACATTTAGTACTTGCCACAAAGGCTTTC
65 CACAAAGGTTGTCATTTACATTTAATACACACCACAAAGGCTTTC
47809868 CTTCTCCTGA
Statistics
Matches: 193, Mismatches: 36, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
121 71 0.37
122 122 0.63
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (122 bp):
TGCCACAAAAGCTATCCTTTACATTCAGTACTCACCAAAAAGGTTTTCCTGTCCAGAGTTTTGCC
ACAAAGGTTGTCATTTACATTTAATACACACCACAAAGGCTTTCATGTCCAAAGTTG
Found at i:47812324 original size:17 final size:16
Alignment explanation
Indices: 47812285--47812316 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
47812275 AATTTTATAA
47812285 AAATTTCAAAAAATAC
1 AAATTTCAAAAAATAC
47812301 TAAATTTCAAAAAATA
1 -AAATTTCAAAAAATA
47812317 AATTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATTTCAAAAAATAC
Found at i:47817956 original size:9 final size:9
Alignment explanation
Indices: 47817936--47817964 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
47817926 TTTTGTTTCG
47817936 TTTTAT-TT
1 TTTTATATT
47817944 TTTTATATT
1 TTTTATATT
47817953 TTTTATATT
1 TTTTATATT
47817962 TTT
1 TTT
47817965 ATTATTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTATATT
Found at i:47817956 original size:17 final size:18
Alignment explanation
Indices: 47817936--47817972 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47817926 TTTTGTTTCG
*
47817936 TTTTATTTTTTTA-TATT
1 TTTTATATTTTTATTATT
47817953 TTTTATATTTTTATTATT
1 TTTTATATTTTTATTATT
47817971 TT
1 TT
47817973 GAAATACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTATATTTTTATTATT
Found at i:47818663 original size:3 final size:3
Alignment explanation
Indices: 47818655--47818875 Score: 128
Period size: 3 Copynumber: 74.0 Consensus size: 3
47818645 AATATTACAC
* * * *
47818655 TAT TAT TAT TAT TAG TAT TGT TGA- AAT TAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
47818700 TAT TCT TAC TAT TAT TAT TAA CAT TAT TAC CAT TAGT T-T TAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * * *
47818745 TAT T-T TAT TAC TAT TAA CAT CAT TAT TAG AAT TAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* * * *
47818790 TAT TAC TAT TAT TAT TTT TAT TAT TAA TGT TAT T-T CTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * *
47818835 TAT AAT TAC CAT TAA T-T TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47818876 ATTTCTATGT
Statistics
Matches: 157, Mismatches: 52, Indels: 18
0.69 0.23 0.08
Matches are distributed among these distances:
2 7 0.04
3 144 0.92
4 6 0.04
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:47818930 original size:17 final size:18
Alignment explanation
Indices: 47818908--47818941 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47818898 CTAAGTTTAA
47818908 ATATATT-TTGTTTTATC
1 ATATATTATTGTTTTATC
*
47818925 ATATATTATTTTTTTAT
1 ATATATTATTGTTTTAT
47818942 TTACTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
ATATATTATTGTTTTATC
Found at i:47825186 original size:24 final size:24
Alignment explanation
Indices: 47825154--47825211 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
47825144 ATGTCTCAAA
47825154 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
*
47825178 ATTACAGTGGATTGAGCCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
47825202 ATTACAGTGG
1 ATTACAGTGG
47825212 GGGCAATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:47825928 original size:45 final size:43
Alignment explanation
Indices: 47825860--47825973 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
47825850 CATAACAAGT
*
47825860 CTTATCTCACTGAAGTGGCAGTGGAACAAATTGAAGATACCCAAC
1 CTTATCTC-CTGAAGTTGCAGTGGAACAAATTGAAGAT-CCCAAC
* * ** * *
47825905 CTTATCTCTCTGAAGTTGAAGTGGAGCAGGTTGAAGATGCCAAT
1 CTTATCTC-CTGAAGTTGCAGTGGAACAAATTGAAGATCCCAAC
47825949 CTTATCTCCTTGAAGTTGCAGTGGA
1 CTTATCTCC-TGAAGTTGCAGTGGA
47825974 GTAGATTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 26 0.44
45 32 0.54
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
CTTATCTCCTGAAGTTGCAGTGGAACAAATTGAAGATCCCAAC
Found at i:47826226 original size:44 final size:44
Alignment explanation
Indices: 47825680--47826244 Score: 336
Period size: 44 Copynumber: 12.5 Consensus size: 44
47825670 TAACCAACCT
* * * * * **
47825680 TATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAGATACCAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAATCC
* *
47825724 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAATCC
* * * * *
47825768 TATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAACGATGAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TATCAATCC
* * * * * * * *
47825812 TATAC-CTCTGAAGTTGCAGTAGATCGGATTAAATCTACCATAACAAGTCT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGATT-GA---A-GATATCAA-TCC
* * * * *
47825862 TATCTCACTGAAGTGGCAGTGGAACAAATTGAAGATACCCAA-CC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-TCAATCC
* * * ** *
47825906 TTATCTCTCTGAAGTTGAAGTGGAGCAGGTTGAAGATGCCAATCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAATCC
* * * * *
47825951 TATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAATCC
* * *
47825995 TATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAATGATGAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ATCAATCC
* * * * * * *
47826039 TA-CACCTCTGAAGTTGCAGTAGG-TCAGATTAAATCTACCACAACAAGTCT
1 TATCTCC-CTGAAGTTGCAGT-GGAGCAGATT-GA---A-GATATCAA-TCC
* * * *
47826089 TATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATACCCAA-CC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-TCAATCC
** * *
47826133 TTATCTCTTTGAAGTTGCAGTGGAGCA-AGTTGAAGATACCAATCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATATCAATCC
* * *
47826178 TATCTCCCTTAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAATCC
*
47826222 TATCTCCCTGAACTTGCAGTGGA
1 TATCTCCCTGAAGTTGCAGTGGA
47826245 ATGGATTAAA
Statistics
Matches: 399, Mismatches: 92, Indels: 60
0.72 0.17 0.11
Matches are distributed among these distances:
43 8 0.02
44 248 0.62
45 71 0.18
46 10 0.03
49 12 0.03
50 47 0.12
51 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAATCC
Found at i:47826330 original size:227 final size:227
Alignment explanation
Indices: 47825665--47826346 Score: 1051
Period size: 227 Copynumber: 3.0 Consensus size: 227
47825655 GATCAAGATG
* * * *
47825665 GAAGATAACCAACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAGATACCAATATTATCTC
1 GAAGATACCCAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTC
* *
47825730 CCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTACAGTGGAGCGG
66 CCTTAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
* * *
47825795 ATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGATCGGATTAAATCTACCATAACAAGT
131 ATTAAAACGATGAATCCTAAACCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACCATAACAAGT
* * * * * *
47825860 CTTATCTCACTGAAGTGGCAGTGGAACAAATT
196 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
* *
47825892 GAAGATACCCAACCTTATCTCTCTGAAGTTGAAGTGGAGCAGGTTGAAGATGCCAATCTTATCT-
1 GAAGATACCCAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTC
* *
47825956 CCTTGAAGTTGCAGTGGAGTAGATTAAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
66 CCTT-AAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
* * *
47826021 GATTAAAATGATGAATCCTACACCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACCACAACAAG
130 GATTAAAACGATGAATCCTAAACCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACCATAACAAG
*
47826086 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACT
195 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
* *
47826119 GAAGATACCCAACCTTATCTCTTTGAAGTTGCAGTGGAGCAAGTTGAAGATACCAATCTTATCTC
1 GAAGATACCCAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTC
* **
47826184 CCTTAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAACTTGCAGTGGAATGG
66 CCTTAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
* * **
47826249 ATTAAAACAATGAATCCTAAACCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACTATAATGAGT
131 ATTAAAACGATGAATCCTAAACCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACCATAACAAGT
*
47826314 CTTATCTCCCTAAAGTTGTAGTGGAGCAGACT
196 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
47826346 G
1 G
47826347 TAGTTAGCAG
Statistics
Matches: 413, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
226 3 0.01
227 406 0.98
228 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (227 bp):
GAAGATACCCAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTC
CCTTAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
ATTAAAACGATGAATCCTAAACCTCTGAAGTTGCAGTAGGTCAGATTAAATCTACCATAACAAGT
CTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
Found at i:47826920 original size:36 final size:36
Alignment explanation
Indices: 47826877--47826949 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
47826867 ACCCGGCCGC
47826877 CGCACCTAGCCCTAACCGCCTGCAGCGCCGTACCAA
1 CGCACCTAGCCCTAACCGCCTGCAGCGCCGTACCAA
*
47826913 CGCACCTAGCCCTGACCGCCTGCAGCGCCGTACCAA
1 CGCACCTAGCCCTAACCGCCTGCAGCGCCGTACCAA
47826949 C
1 C
47826950 TCCACCCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.21, C:0.48, G:0.21, T:0.11
Consensus pattern (36 bp):
CGCACCTAGCCCTAACCGCCTGCAGCGCCGTACCAA
Found at i:47827816 original size:3 final size:3
Alignment explanation
Indices: 47827808--47828036 Score: 137
Period size: 3 Copynumber: 77.0 Consensus size: 3
47827798 AATATTACAC
* * * *
47827808 TAT TAT TAT TAG TAG TAT TAT TGA- TAT TAT TAT TAA TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
47827853 TAT TTT TAT TCT TAC TAT TAT TAT TAG CAT TAT TAT CAT TAGT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * * * *
47827898 TAT TTT TAT T-T TAT TAC TAT TAA CAT CAT TAT TAG AAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * *
47827946 TGT TAT TAC TAT TTT TAT T-T TGT TAT TAA TAT TAT T-T CTAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * *
47827990 TAT TAT TAT TAT AAT TAC CAT TAA T-T TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47828037 ATTTCTATGT
Statistics
Matches: 167, Mismatches: 49, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
2 9 0.05
3 151 0.90
4 7 0.04
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:47828563 original size:13 final size:13
Alignment explanation
Indices: 47828545--47828570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47828535 AGTAAAACTA
47828545 CGTATTTTGAGAT
1 CGTATTTTGAGAT
47828558 CGTATTTTGAGAT
1 CGTATTTTGAGAT
47828571 TTGAAAAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
CGTATTTTGAGAT
Found at i:47831464 original size:12 final size:12
Alignment explanation
Indices: 47831447--47831472 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47831437 CCAGTGTTTG
47831447 GATAGCATGGTC
1 GATAGCATGGTC
47831459 GATAGCATGGTC
1 GATAGCATGGTC
47831471 GA
1 GA
47831473 ACATCCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (12 bp):
GATAGCATGGTC
Found at i:47849778 original size:24 final size:26
Alignment explanation
Indices: 47849736--47849794 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
47849726 AAAGAAAACA
** *
47849736 AAATAATATATAGAACAATTTGAGGT
1 AAATAATATATAGAACAATTCAAAGT
*
47849762 AAATAATATA-A-AGCAATTCAAAGT
1 AAATAATATATAGAACAATTCAAAGT
47849786 AAATAATAT
1 AAATAATAT
47849795 GCAATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 18 0.62
25 1 0.03
26 10 0.34
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATAATATATAGAACAATTCAAAGT
Found at i:47849798 original size:21 final size:22
Alignment explanation
Indices: 47849760--47849814 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
47849750 ACAATTTGAG
*
47849760 GTAAATAATATAAAGCAATTCAAA
1 GTAAATAATAT--AGCAATTAAAA
47849784 GTAAATAATAT-GCAATTAAAA
1 GTAAATAATATAGCAATTAAAA
* *
47849805 ATAAAAAATA
1 GTAAATAATA
47849815 ACATACAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.61
24 11 0.39
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
GTAAATAATATAGCAATTAAAA
Found at i:47850097 original size:25 final size:24
Alignment explanation
Indices: 47850060--47850147 Score: 104
Period size: 25 Copynumber: 3.5 Consensus size: 24
47850050 TTAATATAAT
** *
47850060 TTAAAATGCATAATATGTGAAAAAA
1 TTAAAATAAATAATAT-TAAAAAAA
*
47850085 TTAAAATAAATAATAATAAAACAAA
1 TTAAAATAAATAATATTAAAA-AAA
*
47850110 TTAAAATAAATAATATAAAAAAAA
1 TTAAAATAAATAATATTAAAAAAA
47850134 TTTAAAATAAATAA
1 -TTAAAATAAATAA
47850148 ATAAATAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.13
25 48 0.87
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.27
Consensus pattern (24 bp):
TTAAAATAAATAATATTAAAAAAA
Found at i:47850165 original size:25 final size:25
Alignment explanation
Indices: 47850079--47850170 Score: 111
Period size: 25 Copynumber: 3.7 Consensus size: 25
47850069 ATAATATGTG
47850079 AAAAAA-TTAAAATAAATAATAATAA
1 AAAAAATTTAAAATAAATAAT-ATAA
*
47850104 AACAAA-TTAAAATAAATAATATAA
1 AAAAAATTTAAAATAAATAATATAA
47850128 AAAAAATTTAAAATAAATAA-AT-A
1 AAAAAATTTAAAATAAATAATATAA
*
47850151 AATAAATTTCAAAAATAAAT
1 AAAAAATTT--AAAATAAAT
47850171 TGAAATCAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.15
24 11 0.18
25 41 0.67
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAAATTTAAAATAAATAATATAA
Found at i:47851138 original size:44 final size:44
Alignment explanation
Indices: 47851016--47851141 Score: 117
Period size: 44 Copynumber: 2.9 Consensus size: 44
47851006 AACCCATTGC
* * *** *
47851016 AATTTTAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGT
1 AATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCAAATAT
* *** * * * * *
47851060 AATTTCAGGAAGGTTACACTTGTGGTTTCAATCTACTCAAATAT
1 AATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCAAATAT
47851104 AATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTC
1 AATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTC
47851142 CGCTGAAACT
Statistics
Matches: 58, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (44 bp):
AATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCAAATAT
Found at i:47851160 original size:44 final size:44
Alignment explanation
Indices: 47851024--47851160 Score: 109
Period size: 44 Copynumber: 3.1 Consensus size: 44
47851014 GCAATTTTAG
* *
47851024 GGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGTAATTTC-A
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAATTTCAA
* * * * * * *** *
47851067 GGA-AGGTTACACTTGTGGTTTCAATCTACTCAAAT-ATAATTTCAG
1 GGAGAAG--AGATTTGTAGCTTCGATCTACTCCGCTGA-AATTTCAA
*
47851112 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAA
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAATTTCAA
47851156 GGAGA
1 GGAGA
47851161 TAAGAATTGG
Statistics
Matches: 65, Mismatches: 23, Indels: 11
0.66 0.23 0.11
Matches are distributed among these distances:
42 2 0.03
43 3 0.05
44 54 0.83
45 4 0.06
46 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAATTTCAA
Found at i:47851444 original size:142 final size:142
Alignment explanation
Indices: 47851184--47851539 Score: 489
Period size: 142 Copynumber: 2.5 Consensus size: 142
47851174 CTTCAATCTG
* * * * *
47851184 CTCCACTGCAACTTTAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTACAACTTTAGGAAA
1 CTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
* *
47851249 ATAAGATCCGCCATAATTTGTAGCTTTAAACTGTTCCACTGCAACGCTAGGAAATAAGATTCGTT
66 ATAAGATCCGCCATAATTTGTAGCTTTAAACTGTTCCACTGCAACGCCAGGAAATAAGATTCATT
47851314 GTCTTCAGCCTA
131 GTCTTCAGCCTA
* * * *
47851326 CTTCGCTGCAACTTTAGGGAGATAAGGCTGGTGGTTTCAATCTGCTCCAC-GGAACTTCAAGAAG
1 CTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
* * * * *
47851390 ATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTTCATTGCAATGCCAGGGAAATAAGATTTAT
66 ATAAGATCCGCCATAATTTGTAGCTTTAAACTGTTCCACTGCAACGCCA-GGAAATAAGATTCAT
* * *
47851455 TGTCTTTAGTCTG
130 TGTCTTCAGCCTA
* * * *
47851468 CTCCGGTGCAACTTTAGGGAGAAAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGGAG
1 CTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
47851533 ATAAGAT
66 ATAAGAT
47851540 TTGCCGTATT
Statistics
Matches: 185, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
141 53 0.29
142 114 0.62
143 18 0.10
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (142 bp):
CTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
ATAAGATCCGCCATAATTTGTAGCTTTAAACTGTTCCACTGCAACGCCAGGAAATAAGATTCATT
GTCTTCAGCCTA
Found at i:47852418 original size:54 final size:53
Alignment explanation
Indices: 47852349--47852451 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
47852339 CTCCTTTGGT
* * *
47852349 CTCAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCCTTTTTTTTTTGAGA
1 CTCAAAGCGCCCTTTGCAGGTTTTAACCTTGGCCTCT-CCTTTTTTTTTTGAGA
* *
47852403 CTCAAAGCGTCCTTTGTAGGTTTTAACCTTGGCCTCTCCTTTTTTTTTT
1 CTCAAAGCGCCCTTTGCAGGTTTTAACCTTGGCCTCTCCTTTTTTTTTT
47852452 ATTTTTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.27
54 32 0.73
ACGTcount: A:0.11, C:0.27, G:0.17, T:0.45
Consensus pattern (53 bp):
CTCAAAGCGCCCTTTGCAGGTTTTAACCTTGGCCTCTCCTTTTTTTTTTGAGA
Found at i:47852912 original size:9 final size:9
Alignment explanation
Indices: 47852898--47852993 Score: 60
Period size: 9 Copynumber: 10.9 Consensus size: 9
47852888 GTAGAGGTTT
47852898 TTGTTTTTG
1 TTGTTTTTG
47852907 TTGTTTTTG
1 TTGTTTTTG
* *
47852916 TTCTTTGTTT
1 TTGTTT-TTG
*
47852926 TTCTTATTCT-
1 TTGTT-TT-TG
47852936 TTGTTTATT-
1 TTGTTT-TTG
*
47852945 TTGTCTTT-
1 TTGTTTTTG
47852953 TTGTTTTTG
1 TTGTTTTTG
47852962 TT-TTTTTG
1 TTGTTTTTG
*
47852970 TTTTTTTTG
1 TTGTTTTTG
*
47852979 -TCTTTTTG
1 TTGTTTTTG
47852987 TT-TTTTT
1 TTGTTTTT
47852994 CTCTAATGTC
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
8 29 0.39
9 30 0.41
10 13 0.18
11 2 0.03
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.80
Consensus pattern (9 bp):
TTGTTTTTG
Found at i:47852922 original size:7 final size:6
Alignment explanation
Indices: 47852894--47852991 Score: 55
Period size: 6 Copynumber: 16.0 Consensus size: 6
47852884 CTCGGTAGAG
*
47852894 GTTTTT GTTTTT G---TT GTTTTT GTTCTTT GTTTTT CTTATTCT -TTGTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTT-TTT GTTTTT GTT-TT-T GTT-TTT
* *
47852942 ATTTTGT CTTTTT GTTTTT GTTTTT -TTGTTT -TTTTT GTCTTTTT GTTTTT
1 GTTTT-T GTTTTT GTTTTT GTTTTT GTT-TTT GTTTTT G--TTTTT GTTTTT
47852992 TTCTCTAATG
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
3 3 0.04
5 5 0.07
6 42 0.55
7 19 0.25
8 7 0.09
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.80
Consensus pattern (6 bp):
GTTTTT
Found at i:47852957 original size:17 final size:16
Alignment explanation
Indices: 47852901--47852993 Score: 86
Period size: 16 Copynumber: 5.8 Consensus size: 16
47852891 GAGGTTTTTG
47852901 TTTTTGTTGTTTTTGT-
1 TTTTTGTT-TTTTTGTC
* *
47852917 TCTTTGTTTTTCTTAT-
1 TTTTTGTTTTT-TTGTC
*
47852933 TCTTTGTTTATTTTGTC
1 TTTTTGTTT-TTTTGTC
*
47852950 TTTTTG--TTTTTGTT
1 TTTTTGTTTTTTTGTC
47852964 TTTTTGTTTTTTTTGTC
1 TTTTTG-TTTTTTTGTC
47852981 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
47852994 CTCTAATGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
14 12 0.18
15 4 0.06
16 29 0.45
17 20 0.31
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (16 bp):
TTTTTGTTTTTTTGTC
Found at i:47852970 original size:31 final size:30
Alignment explanation
Indices: 47852894--47852991 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 30
47852884 CTCGGTAGAG
*
47852894 GTTTTTG--TTTTTGTTGTTTTTGT-TCTTT
1 GTTTTTGTTTTTTTGTT-TTTTTGTCTTTTT
*
47852922 GTTTTTCTTATTCTTTGTTTATTTTGTCTTTTT
1 GTTTTTGTT-TT-TTTGTTT-TTTTGTCTTTTT
47852955 GTTTTTGTTTTTTTGTTTTTTTTGTCTTTTT
1 GTTTTTGTTTTTTTG-TTTTTTTGTCTTTTT
47852986 GTTTTT
1 GTTTTT
47852992 TTCTCTAATG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
28 6 0.10
31 25 0.42
32 17 0.28
33 12 0.20
ACGTcount: A:0.02, C:0.05, G:0.13, T:0.80
Consensus pattern (30 bp):
GTTTTTGTTTTTTTGTTTTTTTGTCTTTTT
Found at i:47852993 original size:8 final size:8
Alignment explanation
Indices: 47852901--47852993 Score: 77
Period size: 8 Copynumber: 11.6 Consensus size: 8
47852891 GAGGTTTTTG
47852901 TTTTTGTT
1 TTTTTGTT
47852909 GTTTTTG-T
1 -TTTTTGTT
*
47852917 TCTTTGTT
1 TTTTTGTT
*
47852925 TTTCTT-AT
1 TTT-TTGTT
*
47852933 TCTTTGTT
1 TTTTTGTT
*
47852941 TATTTTGTC
1 T-TTTTGTT
47852950 TTTTTG--
1 TTTTTGTT
47852956 TTTTTGTT
1 TTTTTGTT
47852964 TTTTTGTTT
1 TTTTTG-TT
*
47852973 TTTTTGTC
1 TTTTTGTT
47852981 TTTTTGTT
1 TTTTTGTT
47852989 TTTTT
1 TTTTT
47852994 CTCTAATGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
6 6 0.09
7 7 0.10
8 33 0.49
9 22 0.32
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (8 bp):
TTTTTGTT
Found at i:47853631 original size:31 final size:31
Alignment explanation
Indices: 47853593--47853654 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
47853583 TAAAGAATGA
*
47853593 AATAAAAGAATATTTTCGTTATGAATGAAAT
1 AATAAAAGAATATTTTAGTTATGAATGAAAT
* *
47853624 AATAAAAGAATATTTTATTTGTGAATGAAAT
1 AATAAAAGAATATTTTAGTTATGAATGAAAT
47853655 GAAAAGGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (31 bp):
AATAAAAGAATATTTTAGTTATGAATGAAAT
Found at i:47857349 original size:22 final size:22
Alignment explanation
Indices: 47857302--47857456 Score: 76
Period size: 25 Copynumber: 6.5 Consensus size: 22
47857292 AAACAATTCC
* **
47857302 AAATAGATAATATATATGGTTTA
1 AAATAAATAATATATA-AATTTA
*
47857325 AAATAAATAATATGTAAATTTA
1 AAATAAATAATATATAAATTTA
* * *
47857347 AAATGGATAATAGTTTAATATAGTTTA
1 AAAT--A-AATAATAT-ATA-AATTTA
** * *
47857374 AAATGCATAATATGTGAAAAACTTA
1 AAATAAATAATA--T-ATAAATTTA
*
47857399 AAATAAATAATAATAAAACAATTTA
1 AAATAAATAAT-AT-ATA-AATTTA
*
47857424 AAATAAATAATATAAAAATTTTA
1 AAATAAATAATATATAAA-TTTA
47857447 AAATAAATAA
1 AAATAAATAA
47857457 ATAAATAATT
Statistics
Matches: 102, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
22 10 0.10
23 31 0.30
24 11 0.11
25 35 0.34
26 6 0.06
27 9 0.09
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
AAATAAATAATATATAAATTTA
Found at i:47857409 original size:52 final size:49
Alignment explanation
Indices: 47857315--47857456 Score: 117
Period size: 49 Copynumber: 2.9 Consensus size: 49
47857305 TAGATAATAT
* * **
47857315 ATATGGTTTAAAATAAATAATATGTAAATTTAAAATGGATAATAGTTTA
1 ATATAGTTTAAAATAAATAATATGTAAACTTAAAATAAATAATAGTTTA
** *
47857364 ATATAGTTTAAAATGCATAATATGTGAAAAACTTAAAATAAATAATA--ATA
1 ATATAGTTTAAAATAAATAATATGT---AAACTTAAAATAAATAATAGTTTA
* * * ** *
47857414 AAACAATTTAAAATAAATAATATAAAAATTTTAAAATAAATAA
1 ATATAGTTTAAAATAAATAATATGTAAA-CTTAAAATAAATAA
47857457 ATAAATAATT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
47 3 0.04
48 13 0.18
49 22 0.30
50 20 0.27
52 16 0.22
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (49 bp):
ATATAGTTTAAAATAAATAATATGTAAACTTAAAATAAATAATAGTTTA
Found at i:47857450 original size:23 final size:23
Alignment explanation
Indices: 47857396--47857466 Score: 99
Period size: 23 Copynumber: 3.0 Consensus size: 23
47857386 TGTGAAAAAC
*
47857396 TTAAAATAAATAATAATAAAACAAT
1 TTAAAATAAATAAT-ATAAAA-ATT
47857421 TTAAAATAAATAATATAAAAATT
1 TTAAAATAAATAATATAAAAATT
47857444 TTAAAATAAATAA-ATAAATAATT
1 TTAAAATAAATAATATAAA-AATT
47857467 GCAAAAATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
22 5 0.11
23 19 0.43
24 6 0.14
25 14 0.32
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (23 bp):
TTAAAATAAATAATATAAAAATT
Found at i:47857473 original size:24 final size:23
Alignment explanation
Indices: 47857398--47857478 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
47857388 TGAAAAACTT
*
47857398 AAAATAAATAATAATAAAACAATT-T
1 AAAATAAATAAT-AT-AAA-AATTCA
**
47857423 AAAATAAATAATATAAAAATTTT
1 AAAATAAATAATATAAAAATTCA
47857446 AAAATAAATAA-ATAAATAATTGCA
1 AAAATAAATAATATAAA-AATT-CA
47857470 AAAATAAAT
1 AAAATAAAT
47857479 TGAAATCAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
22 9 0.18
23 19 0.37
24 11 0.22
25 12 0.24
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.28
Consensus pattern (23 bp):
AAAATAAATAATATAAAAATTCA
Found at i:47865513 original size:18 final size:18
Alignment explanation
Indices: 47865490--47865524 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47865480 ACGATGTGCC
47865490 AAACTACTTTCATGCTTG
1 AAACTACTTTCATGCTTG
* *
47865508 AAACTATTTTGATGCTT
1 AAACTACTTTCATGCTT
47865525 TCTAAACTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACTACTTTCATGCTTG
Found at i:47868799 original size:18 final size:19
Alignment explanation
Indices: 47868778--47868814 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
47868768 CTTGAAAAGT
*
47868778 ATATTGTGTGA-TGTGATG
1 ATATTATGTGATTGTGATG
47868796 ATATTATGTGATTGTGATG
1 ATATTATGTGATTGTGATG
47868815 TTTGTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (19 bp):
ATATTATGTGATTGTGATG
Found at i:47872593 original size:40 final size:40
Alignment explanation
Indices: 47872534--47872806 Score: 329
Period size: 40 Copynumber: 6.8 Consensus size: 40
47872524 TAATTATTGA
* * *
47872534 ATGTTTGCACATGCATGCCCCTATTTGTACTTCGGTACCC
1 ATGTTTGCACATACGTGCCCCTATTTGTACTTCAGTACCC
* * *
47872574 ATGGTTGCACATACGTGCCCTTGA-TTGTACTTTAGTACCC
1 ATGTTTGCACATACGTGCCCCT-ATTTGTACTTCAGTACCC
47872614 ATGTTTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
1 ATGTTTGCACATACGTGCCCCTATTTGTACTTCAGTA-CCC
*
47872655 AT-TTTGCACATATGTGCCCCTATTTGTACTTCAGTACCC
1 ATGTTTGCACATACGTGCCCCTATTTGTACTTCAGTACCC
* *
47872694 TTGTTTGCACATACGTGCCCCTGA-TTGTACTTCAGAACCC
1 ATGTTTGCACATACGTGCCCCT-ATTTGTACTTCAGTACCC
* * * * * *
47872734 CTATTTGCACCTACGTACCCCTAATTGTACTTC-GATATCC
1 ATGTTTGCACATACGTGCCCCTATTTGTACTTCAG-TACCC
* *
47872774 TTGTTTGCACATATGTGCCCCTATTTGTACTTC
1 ATGTTTGCACATACGTGCCCCTATTTGTACTTC
47872807 GATACCTTTG
Statistics
Matches: 201, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 7 0.03
40 187 0.93
41 7 0.03
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (40 bp):
ATGTTTGCACATACGTGCCCCTATTTGTACTTCAGTACCC
Found at i:47872654 original size:20 final size:21
Alignment explanation
Indices: 47872626--47872766 Score: 82
Period size: 20 Copynumber: 7.0 Consensus size: 21
47872616 GTTTGCACAT
*
47872626 ACGTGCCCCTATTTGTACTTC
1 ACGTACCCCTATTTGTACTTC
* *
47872647 A-GTACCCC-ATTTTGCACAT-
1 ACGTACCCCTA-TTTGTACTTC
* *
47872666 ATGTGCCCCTATTTGTACTTC
1 ACGTACCCCTATTTGTACTTC
* * * *
47872687 A-GTACCCTTGTTTGCACAT-
1 ACGTACCCCTATTTGTACTTC
*
47872706 ACGTGCCCCTGA-TTGTACTTC
1 ACGTACCCCT-ATTTGTACTTC
* * *
47872727 A-GAACCCCTATTTGCACCT-
1 ACGTACCCCTATTTGTACTTC
*
47872746 ACGTACCCCTAATTGTACTTC
1 ACGTACCCCTATTTGTACTTC
47872767 GATATCCTTG
Statistics
Matches: 86, Mismatches: 24, Indels: 20
0.66 0.18 0.15
Matches are distributed among these distances:
19 5 0.06
20 77 0.90
21 4 0.05
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (21 bp):
ACGTACCCCTATTTGTACTTC
Found at i:47872755 original size:120 final size:120
Alignment explanation
Indices: 47872534--47872806 Score: 370
Period size: 120 Copynumber: 2.3 Consensus size: 120
47872524 TAATTATTGA
*** * *
47872534 ATGTTTGCACATGCATGCCCCTATTTGTACTTCGGTACCCATGGTTGCACATACGTGCCCTTGAT
1 ATGTTTGCACATATGTGCCCCTATTTGTACTTCAGTACCCATGGTTGCACATACGTGCCCCTGAT
* * * * *
47872599 TGTACTTTAGTACCCATGTTTGCACATACGTGCCCCTATTTGTACTTC-AGTACCCC
66 TGTACTTCAGAACCCATATTTGCACATACGTACCCCTAATTGTACTTCGA-TA-CCC
* *
47872655 AT-TTTGCACATATGTGCCCCTATTTGTACTTCAGTACCCTTGTTTGCACATACGTGCCCCTGAT
1 ATGTTTGCACATATGTGCCCCTATTTGTACTTCAGTACCCATGGTTGCACATACGTGCCCCTGAT
* * *
47872719 TGTACTTCAGAACCCCTATTTGCACCTACGTACCCCTAATTGTACTTCGATATCC
66 TGTACTTCAGAACCCATATTTGCACATACGTACCCCTAATTGTACTTCGATACCC
*
47872774 TTGTTTGCACATATGTGCCCCTATTTGTACTTC
1 ATGTTTGCACATATGTGCCCCTATTTGTACTTC
47872807 GATACCTTTG
Statistics
Matches: 134, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
119 3 0.02
120 128 0.96
121 3 0.02
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (120 bp):
ATGTTTGCACATATGTGCCCCTATTTGTACTTCAGTACCCATGGTTGCACATACGTGCCCCTGAT
TGTACTTCAGAACCCATATTTGCACATACGTACCCCTAATTGTACTTCGATACCC
Found at i:47873648 original size:25 final size:25
Alignment explanation
Indices: 47873601--47873654 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
47873591 TAGAGAGTTT
*
47873601 CACGGCCAGGCACACGAGTGTGTAA
1 CACGGCCAGGCACACGAGCGTGTAA
* * *
47873626 CACGGCCTGGCACACGGGCGTGTGA
1 CACGGCCAGGCACACGAGCGTGTAA
47873651 CACG
1 CACG
47873655 ACCGTGTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.31, G:0.35, T:0.11
Consensus pattern (25 bp):
CACGGCCAGGCACACGAGCGTGTAA
Found at i:47873660 original size:13 final size:13
Alignment explanation
Indices: 47873644--47873676 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
47873634 GGCACACGGG
47873644 CGTGTGACACGAC
1 CGTGTGACACGAC
47873657 CGTGTGACACGAC
1 CGTGTGACACGAC
47873670 CGTGTGA
1 CGTGTGA
47873677 TCATACTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.18
Consensus pattern (13 bp):
CGTGTGACACGAC
Found at i:47882796 original size:87 final size:87
Alignment explanation
Indices: 47882649--47883004 Score: 577
Period size: 87 Copynumber: 4.1 Consensus size: 87
47882639 AGATCAGTGA
* *
47882649 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
47882714 CTTCCTGCATTGACAACGAAGC
66 CTTCCTGCATTGACAGCGAAGC
* * * *
47882736 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTAGAGTTGGTTAAAGATAGTAGATCTTAC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
47882801 ATTCCTGCATTGACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
47882823 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
47882888 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTGACAGCGAAGC
*
47882910 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
47882975 CCTCCTGCGTCGACAGTGAAGC
66 CTTCCTGCATTGACAGCGAAGC
47882997 AGATCGAA
1 AGATCGAA
47883005 GATTACAAGT
Statistics
Matches: 249, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 249 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTGACAGCGAAGC
Found at i:47883274 original size:227 final size:227
Alignment explanation
Indices: 47882879--47883331 Score: 888
Period size: 227 Copynumber: 2.0 Consensus size: 227
47882869 TAAAGATAGC
* *
47882879 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGC
1 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGC
47882944 AGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATCGAAGATT
66 AGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATCGAAGATT
47883009 ACAAGTCCTATATCCCTTGCTAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGC
131 ACAAGTCCTATATCCCTTGCTAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGC
47883074 AGTAGCGGAGCAGATCAAAGACGGCGAGTCTT
196 AGTAGCGGAGCAGATCAAAGACGGCGAGTCTT
47883106 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGC
1 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGC
47883171 AGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATCGAAGATT
66 AGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATCGAAGATT
47883236 ACAAGTCCTATATCCCTTGCTAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGC
131 ACAAGTCCTATATCCCTTGCTAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGC
47883301 AGTAGCGGAGCAGATCAAAGACGGCGAGTCT
196 AGTAGCGGAGCAGATCAAAGACGGCGAGTCT
47883332 CCTGCGTCGA
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 224 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (227 bp):
AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGC
AGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTGCGTCGACAGTGAAGCAGATCGAAGATT
ACAAGTCCTATATCCCTTGCTAGCAGTGGAATAGGTTGGAAACTACAGATCTTGTCTCCCTAAGC
AGTAGCGGAGCAGATCAAAGACGGCGAGTCTT
Found at i:47883429 original size:127 final size:127
Alignment explanation
Indices: 47883203--47883458 Score: 512
Period size: 127 Copynumber: 2.0 Consensus size: 127
47883193 AGATCTTGCC
47883203 CTCCTGCGTCGACAGTGAAGCAGATCGAAGATTACAAGTCCTATATCCCTTGCTAGCAGTGGAAT
1 CTCCTGCGTCGACAGTGAAGCAGATCGAAGATTACAAGTCCTATATCCCTTGCTAGCAGTGGAAT
47883268 AGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAGT
66 AGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAGT
47883330 CTCCTGCGTCGACAGTGAAGCAGATCGAAGATTACAAGTCCTATATCCCTTGCTAGCAGTGGAAT
1 CTCCTGCGTCGACAGTGAAGCAGATCGAAGATTACAAGTCCTATATCCCTTGCTAGCAGTGGAAT
47883395 AGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAGT
66 AGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAGT
47883457 CT
1 CT
47883459 TATCTTCAAG
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (127 bp):
CTCCTGCGTCGACAGTGAAGCAGATCGAAGATTACAAGTCCTATATCCCTTGCTAGCAGTGGAAT
AGGTTGGAAACTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAGT
Found at i:47883746 original size:14 final size:13
Alignment explanation
Indices: 47883723--47883752 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
47883713 TATATTTTAG
47883723 AAAAAAATAAATA
1 AAAAAAATAAATA
47883736 AAAATAAATAAATA
1 AAAA-AAATAAATA
47883750 AAA
1 AAA
47883753 TAACAGTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:47888650 original size:24 final size:21
Alignment explanation
Indices: 47888617--47888663 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
47888607 TCAAATGAGT
*
47888617 GATTTAAGGAGTGGATCATGGAG
1 GATTTAAGGAGAGGAT--TGGAG
47888640 GATTTCAAGGAGAGGATTGGAG
1 GATTT-AAGGAGAGGATTGGAG
47888662 GA
1 GA
47888664 GTGATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (21 bp):
GATTTAAGGAGAGGATTGGAG
Found at i:47890033 original size:27 final size:27
Alignment explanation
Indices: 47889992--47890242 Score: 121
Period size: 27 Copynumber: 9.3 Consensus size: 27
47889982 GAAATGTTGT
* * *
47889992 TAAAATGATCGAATTACCCCTAAAGGG
1 TAAAATGACCAAATTACCCCTGAAGGG
*
47890019 TAAAATGACCAAATTA-CCTTCGAAGGG
1 TAAAATGACCAAATTACCCCT-GAAGGG
* * * *
47890046 TAAAATTATCGAAA-TA-CCCTCGGAGGT
1 TAAAATGA-CCAAATTACCCCT-GAAGGG
* * *
47890073 TAAAATG-CTCGAATTA-TCCTCGACA-TG
1 TAAAATGAC-CAAATTACCCCT-GA-AGGG
* *
47890100 TAAAATGACTAAATTACCATCT-AAGGG
1 TAAAATGACCAAATTACC-CCTGAAGGG
* *
47890127 TAAAATAACCAAATTA-CCTTCGAAGGG
1 TAAAATGACCAAATTACCCCT-GAAGGG
*
47890154 TAAAATGACTGAAA-TA-CCCTCGAAGGG
1 TAAAATGAC-CAAATTACCCCT-GAAGGG
* * *
47890181 TAAAATTATCGAAA-TACCCCCGAAGGG
1 TAAAATGA-CCAAATTACCCCTGAAGGG
* *
47890208 TAAAATGAACAAAATACCCCT-ATAGGG
1 TAAAATGACCAAATTACCCCTGA-AGGG
47890235 TAAAATGA
1 TAAAATGA
47890243 TTATTTTACC
Statistics
Matches: 174, Mismatches: 34, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
25 2 0.01
26 11 0.06
27 146 0.84
28 13 0.07
29 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAAATGACCAAATTACCCCTGAAGGG
Found at i:47890064 original size:54 final size:53
Alignment explanation
Indices: 47889992--47890242 Score: 192
Period size: 54 Copynumber: 4.6 Consensus size: 53
47889982 GAAATGTTGT
*
47889992 TAAAATGATCGAATTACCCCTAAAGGGTAAAATGACCAAATTACCTTCGAAGGG
1 TAAAATGA-CGAAATACCCCTAAAGGGTAAAATGACCAAATTACCTTCGAAGGG
* ** * * *
47890046 TAAAATTATCGAAATA-CCCTCGGAGGTTAAAATG-CTCGAATTATCC-TCGACA-TG
1 TAAAATGA-CGAAATACCCCT-AAAGGGTAAAATGAC-CAAATTA-CCTTCGA-AGGG
* * *
47890100 TAAAATGACTAAATTACCATCT-AAGGGTAAAATAACCAAATTACCTTCGAAGGG
1 TAAAATGACGAAA-TACC-CCTAAAGGGTAAAATGACCAAATTACCTTCGAAGGG
* * * **
47890154 TAAAATGACTGAAATA-CCCTCGAAGGGTAAAATTATCGAAA-TACCCCCGAAGGG
1 TAAAATGAC-GAAATACCCCT-AAAGGGTAAAATGA-CCAAATTACCTTCGAAGGG
* *
47890208 TAAAATGAACAAAATACCCCTATAGGGTAAAATGA
1 TAAAATG-ACGAAATACCCCTAAAGGGTAAAATGA
47890243 TTATTTTACC
Statistics
Matches: 156, Mismatches: 25, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
52 2 0.01
53 13 0.08
54 121 0.78
55 18 0.12
56 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (53 bp):
TAAAATGACGAAATACCCCTAAAGGGTAAAATGACCAAATTACCTTCGAAGGG
Found at i:47890175 original size:81 final size:81
Alignment explanation
Indices: 47890018--47890241 Score: 206
Period size: 81 Copynumber: 2.8 Consensus size: 81
47890008 CCCCTAAAGG
* * * * *
47890018 GTAAAATGACCAAATTACCTTCGAAGGGTAAAATTATCGAAATACCCTCGGAGGTTAAAATGCTC
1 GTAAAATGACCAAATTACCATCGAAGGGTAAAATTAACCAAATACCCTCGAAGGGTAAAATGCTC
* *
47890083 GAATTATCCTCGACAT
66 GAAATACCCTCGACAT
* * *
47890099 GTAAAATGACTAAATTACCATCTAAGGGTAAAA-TAACCAAATTACCTTCGAAGGGTAAAATGAC
1 GTAAAATGACCAAATTACCATCGAAGGGTAAAATTAACCAAA-TACCCTCGAAGGGTAAAATG-C
*
47890163 T-GAAATACCCTCGA-AGG
64 TCGAAATACCCTCGACA-T
* * ** * * *
47890180 GTAAAATTATCGAAA-TACCCCCGAAGGGTAAAATGAACAAAATACCC-CTATAGGGTAAAATG
1 GTAAAATGA-CCAAATTACCATCGAAGGGTAAAATTAACCAAATACCCTCGA-AGGGTAAAATG
47890242 ATTATTTTAC
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
80 9 0.08
81 96 0.82
82 12 0.10
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (81 bp):
GTAAAATGACCAAATTACCATCGAAGGGTAAAATTAACCAAATACCCTCGAAGGGTAAAATGCTC
GAAATACCCTCGACAT
Found at i:47890211 original size:108 final size:107
Alignment explanation
Indices: 47889992--47890240 Score: 288
Period size: 108 Copynumber: 2.3 Consensus size: 107
47889982 GAAATGTTGT
* * * * *
47889992 TAAAATGATCGAATTACCCCTAAAGGGTAAAATGACCAAATTACCTTCGAAGGGTAAAATTATCG
1 TAAAATGAACAAAATACCCCT-AAGGGTAAAATAACCAAATTACCTTCGAAGGGTAAAATGATCG
* * * * * * *
47890057 AAATACCCTCGGAGGTTAAAATGCTCGAATTATCCTCGACATG
65 AAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGACAGG
* *
47890100 TAAAATG-ACTAAATTACCATCTAAGGGTAAAATAACCAAATTACCTTCGAAGGGTAAAATGA-C
1 TAAAATGAAC-AAAATACC-CCTAAGGGTAAAATAACCAAATTACCTTCGAAGGGTAAAATGATC
*
47890163 TGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCCGA-AGGG
64 -GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGACA-GG
47890208 TAAAATGAACAAAATACCCCTATAGGGTAAAAT
1 TAAAATGAACAAAATACCCCTA-AGGGTAAAAT
47890241 GATTATTTTA
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
107 6 0.05
108 110 0.92
109 4 0.03
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (107 bp):
TAAAATGAACAAAATACCCCTAAGGGTAAAATAACCAAATTACCTTCGAAGGGTAAAATGATCGA
AATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGACAGG
Found at i:47891321 original size:16 final size:17
Alignment explanation
Indices: 47891289--47891321 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47891279 TTTCAAGAAG
47891289 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
47891307 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
47891322 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:47895015 original size:40 final size:40
Alignment explanation
Indices: 47894947--47895056 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 40
47894937 AATTGAATAT
** ** * *
47894947 CTATTTGCACATACATGCCATTGGTTGTACTTCGGTACCC
1 CTATTTGCACATATGTGCCCCTGATTGTACTTCGATACCC
* *
47894987 CTGTTTGCACATATGTGCCCCTGATTGTACTTCGATATCC
1 CTATTTGCACATATGTGCCCCTGATTGTACTTCGATACCC
* * *
47895027 CTATTTGTACATATGTGCTCCTGTTTGTAC
1 CTATTTGCACATATGTGCCCCTGATTGTAC
47895057 ATACGTGTGC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (40 bp):
CTATTTGCACATATGTGCCCCTGATTGTACTTCGATACCC
Found at i:47895053 original size:20 final size:19
Alignment explanation
Indices: 47894985--47895059 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
47894975 ACTTCGGTAC
*
47894985 CCCTGTTTGCACATATGTG
1 CCCTGTTTGTACATATGTG
* * *
47895004 CCCCTGATTGTACTTCGATAT-
1 -CCCTGTTTGTACAT--ATGTG
*
47895025 CCCTATTTGTACATATGTG
1 CCCTGTTTGTACATATGTG
47895044 CTCCTGTTTGTACATA
1 C-CCTGTTTGTACATA
47895060 CGTGTGCCTG
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
20 35 0.83
22 3 0.07
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (19 bp):
CCCTGTTTGTACATATGTG
Found at i:47895146 original size:20 final size:20
Alignment explanation
Indices: 47895123--47895192 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
47895113 GTACTTGGTA
*
47895123 CCCCTGTTTGCACCTACATG
1 CCCCTGTTTGCACCTACGTG
* * * *
47895143 CCCCTCTTTGTA-CTTCGGTA
1 CCCCTGTTTGCACCTAC-GTG
*
47895163 CCCCTGTTTGCACATACGTG
1 CCCCTGTTTGCACCTACGTG
*
47895183 CCCCTATTTG
1 CCCCTGTTTG
47895193 TACTTCAGTA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 3 0.08
20 32 0.86
21 2 0.05
ACGTcount: A:0.13, C:0.37, G:0.16, T:0.34
Consensus pattern (20 bp):
CCCCTGTTTGCACCTACGTG
Found at i:47895174 original size:40 final size:40
Alignment explanation
Indices: 47895082--47895208 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 40
47895072 TCTACCTCAA
** * *
47895082 TACCCCTGTTTGCATGTACATGCCCTTAATTGTACTT-GG
1 TACCCCTGTTTGCACATACATGCCCCTATTTGTACTTCGG
* *
47895121 TACCCCTGTTTGCACCTACATGCCCCTCTTTGTACTTCGG
1 TACCCCTGTTTGCACATACATGCCCCTATTTGTACTTCGG
* *
47895161 TACCCCTGTTTGCACATACGTGCCCCTATTTGTACTTCAG
1 TACCCCTGTTTGCACATACATGCCCCTATTTGTACTTCGG
47895201 TACCCCTG
1 TACCCCTG
47895209 AACGCATTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.41
40 46 0.59
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.35
Consensus pattern (40 bp):
TACCCCTGTTTGCACATACATGCCCCTATTTGTACTTCGG
Found at i:47895206 original size:20 final size:20
Alignment explanation
Indices: 47895143--47895207 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
47895133 CACCTACATG
* *
47895143 CCCCTCTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCAGTA
* * * *
47895163 CCCCTGTTTGCACAT-ACGTG
1 CCCCTATTTGTACTTCA-GTA
47895183 CCCCTATTTGTACTTCAGTA
1 CCCCTATTTGTACTTCAGTA
47895203 CCCCT
1 CCCCT
47895208 GAACGCATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.14, C:0.37, G:0.14, T:0.35
Consensus pattern (20 bp):
CCCCTATTTGTACTTCAGTA
Found at i:47896269 original size:93 final size:93
Alignment explanation
Indices: 47896100--47896270 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
47896090 TTTAATGGAA
* * * *
47896100 TGTATTAAACCTTTTAACGCAAAGAGAGATGACAACCCAAGCACCCCACCCCGGTTACTCAGCTC
1 TGTATTAAACCTTCTAACACAAAGAGAGATGACAACCCAAGCACCCCACCCCGATTACTCAGCCC
* *
47896165 AATATACTCTTAATTTATTTCTTAAGAT
66 AACACACTCTTAATTTATTTCTTAAGAT
* * * *
47896193 TGTATTGAACCTTCTAACACGAAGAGGGATGACAACCCAAGCACCCCACCCCGATTACTTAGCCC
1 TGTATTAAACCTTCTAACACAAAGAGAGATGACAACCCAAGCACCCCACCCCGATTACTCAGCCC
*
47896258 AACACATTCTTAA
66 AACACACTCTTAA
47896271 AAAAATTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (93 bp):
TGTATTAAACCTTCTAACACAAAGAGAGATGACAACCCAAGCACCCCACCCCGATTACTCAGCCC
AACACACTCTTAATTTATTTCTTAAGAT
Found at i:47898712 original size:5 final size:5
Alignment explanation
Indices: 47898702--47898739 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
47898692 ATTAAGATGC
47898702 AAATA AAATA AAATA AAAT- AAATA ATAATAA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA A-AAT-A AAATA AA
47898740 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.13
5 18 0.60
6 6 0.20
7 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:47898722 original size:15 final size:17
Alignment explanation
Indices: 47898702--47898743 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
47898692 ATTAAGATGC
47898702 AAATAAAATAA-AAT-A
1 AAATAAAATAATAATAA
47898717 AAAT-AAATAATAATAA
1 AAATAAAATAATAATAA
47898733 AAAT-AAATAAT
1 AAATAAAATAAT
47898744 TTTTTACGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
16 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAATAATAA
Found at i:47899612 original size:21 final size:21
Alignment explanation
Indices: 47899588--47899635 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
47899578 CCACTTAAAA
47899588 ACATAGTCTACCGTAAGAATT
1 ACATAGTCTACCGTAAGAATT
47899609 ACATAGTCTACCGTAAGAATT
1 ACATAGTCTACCGTAAGAATT
47899630 ACATAG
1 ACATAG
47899636 ACATTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (21 bp):
ACATAGTCTACCGTAAGAATT
Found at i:47905167 original size:102 final size:102
Alignment explanation
Indices: 47905054--47905590 Score: 939
Period size: 102 Copynumber: 5.3 Consensus size: 102
47905044 CCAGTGATTT
* * *
47905054 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
47905119 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* *
47905156 GGGGAATCAGCACTTAGCAGCCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
47905221 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
*
47905258 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCATTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
47905323 CCAATGATTCGGGGAATCAGCACTGAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* *
47905360 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCATTTAGCAACCT
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
47905425 CCAATGATTCGGGGAATCAGCACTGAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
47905462 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATAAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
47905527 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
*
47905564 GGGGAATCAGCACTTAACAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
47905591 TATATTCAAT
Statistics
Matches: 417, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 417 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:47908075 original size:12 final size:12
Alignment explanation
Indices: 47908058--47908088 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
47908048 TAATAATATC
47908058 ATAATAATCCTA
1 ATAATAATCCTA
47908070 ATAATAATCCTA
1 ATAATAATCCTA
47908082 ATAATAA
1 ATAATAA
47908089 AATTCGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATCCTA
Found at i:47911088 original size:26 final size:26
Alignment explanation
Indices: 47911008--47911088 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
47910998 TATAAACACG
*
47911008 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
47911034 CGTGTA-T-CGATAGAT-AATGGTTAC-A
1 TGTGTAGTACTAT-G-TGCA-GGCTACTA
47911059 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
47911085 TGTG
1 TGTG
47911089 CACCGGAAGG
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 2 0.05
25 15 0.38
26 19 0.49
27 3 0.08
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:47911184 original size:50 final size:51
Alignment explanation
Indices: 47911008--47911189 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 51
47910998 TATAAACACG
* * * * * * * *
47911008 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGTTACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCT-TTGATCACA
* * * * * *
47911059 TGTGTAGTACTATGTGCAGGCTACTATGTGCACCGGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGATCACA
*
47911110 TGTGTAGTACTATGTGCAGCCTACTACGTGAACCAGAAAG-TTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGATCACA
*
47911160 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGCAGGCTACTACGTG
47911190 TATTGAATGA
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
50 36 0.32
51 71 0.64
52 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGATCACA
Found at i:47924536 original size:18 final size:20
Alignment explanation
Indices: 47924504--47924545 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
47924494 AAAAAATTAA
*
47924504 TTTTCCTATTATTA-TTTAT
1 TTTTACTATTATTATTTTAT
47924523 TTTTACTATT-TTATTTTAT
1 TTTTACTATTATTATTTTAT
47924542 TTTT
1 TTTT
47924546 GTAGGAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTACTATTATTATTTTAT
Found at i:47934276 original size:30 final size:30
Alignment explanation
Indices: 47934240--47934306 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
47934230 GTGCGGGAAG
47934240 TGGCTGACCATCTGCAAACCTTAGCGGTTC
1 TGGCTGACCATCTGCAAACCTTAGCGGTTC
*
47934270 TGGCTGACCATCTGTAAACCTTAGCGGTTC
1 TGGCTGACCATCTGCAAACCTTAGCGGTTC
*
47934300 AGGCTGA
1 TGGCTGA
47934307 TATACTGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (30 bp):
TGGCTGACCATCTGCAAACCTTAGCGGTTC
Found at i:47936591 original size:25 final size:25
Alignment explanation
Indices: 47936557--47936604 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
47936547 CAAAAATCTA
47936557 TATCCTTTCCCTACAAGGATAGCTG
1 TATCCTTTCCCTACAAGGATAGCTG
47936582 TATCCTTTCCCTACAAGGATAGC
1 TATCCTTTCCCTACAAGGATAGC
47936605 AAAAAGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
TATCCTTTCCCTACAAGGATAGCTG
Found at i:47941310 original size:35 final size:35
Alignment explanation
Indices: 47941265--47941336 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
47941255 AGCAGCAAAC
*
47941265 AAAAATATCAAGAAGATTGTAGGGAAAATGACTGA
1 AAAAATATCAAGAAAATTGTAGGGAAAATGACTGA
47941300 AAAAATATCAAGAAAATTGTAGGGAAAATGACTGA
1 AAAAATATCAAGAAAATTGTAGGGAAAATGACTGA
47941335 AA
1 AA
47941337 CCTATAAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.54, C:0.06, G:0.21, T:0.19
Consensus pattern (35 bp):
AAAAATATCAAGAAAATTGTAGGGAAAATGACTGA
Found at i:47943315 original size:99 final size:99
Alignment explanation
Indices: 47943130--47943602 Score: 553
Period size: 99 Copynumber: 4.7 Consensus size: 99
47943120 TAACCATAGT
* * *
47943130 TTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAG
1 TTGCAA-TTAAAAGATTGAGGCCACAACGGCGAATCTTAC-TTCTCAGGCGATGCAGTGGAACAG
* *
47943195 ATTGAAGCTACAACGGTGGATCTCACTTCCCTGACA
64 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACA
* * * * * * *
47943231 TTGCAATCAAAAGATTGAAGCCACAACGGCAAACCTTACTTCCCAGGCGTTGCAGTGGAACAAAT
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGAT
*
47943296 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCGGATCTCACTTCCCTGACA
* * * * * ** *
47943330 TTGCAGTTTAAAGGATCGAAGCCACAACGGTGAATCTTACTT-TCAGGCGATGCAACGAAACAGA
1 TTGCA-ATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGA
*
47943394 TTGAAGCTACAACAGCGAATCTCACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTCACTTCCCTGACA
* * * *
47943429 TTGCAATTCAAAAGATTGAGGCCACAATGGCAAATCTTAATT-TCCTA-GC-ATTACAGTGGAAC
1 TTGCAATT-AAAAGATTGAGGCCACAACGGCGAATCTTACTTCT-C-AGGCGA-TGCAGTGGAAC
* *
47943491 AGATTGAAGCTACAA-AG-GTGAATCTCGCTTCCCCGACA
62 AGATTGAAGCTACAACAGCG-G-ATCTCACTTCCCTGACA
* *
47943529 TTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTCTCAGGCGATGCAGTAGAACAGAT
1 TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGAT
47943594 TGAAGCTAC
66 TGAAGCTAC
47943603 GATGGCGAAT
Statistics
Matches: 314, Mismatches: 48, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
98 4 0.01
99 195 0.62
100 108 0.34
101 7 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCGGATCTCACTTCCCTGACA
Found at i:47943319 original size:50 final size:50
Alignment explanation
Indices: 47943142--47943615 Score: 265
Period size: 50 Copynumber: 9.5 Consensus size: 50
47943132 GCAATTTAAA
* * * * *
47943142 AGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* * * * * * * * * *
47943193 AGATTGAAGCTACAACGGTGGATCTCACTTCCCTGACATTGCAAT-CAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* *
47943242 AGATTGAAGCCACAACGGCAAACCTTACTTCCCAGGCGTTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * * * **
47943292 AAATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTTAA-
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * ** *
47943341 AGGATCGAAGCCACAACGGTGAATCTTACTT-TCAGGCGATGCAACGAAAC
1 A-GATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * * * ** *
47943391 AGATTGAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * * *
47943441 AGATTGAGGCCACAATGGCAAATCTTAATTTCCTA-GCATTACAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTT-ACTTCCCAGGCGTTGCAGTGGAAC
* * * ** * * * * * *
47943491 AGATTGAAGCTACAAAGGTGAATCTCGCTTCCCCGACATTGCAAT-TAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * *
47943540 AGATTGAGGCCACAACGGTGAATCTTACTTCTCAGGCGATGCAGTAGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * *
47943590 AGATTGAAGCTACGATGGCGAATCTT
1 AGATTGAAGCCACAACGGCGAATCTT
47943616 GCTTTCCCGA
Statistics
Matches: 301, Mismatches: 115, Indels: 15
0.70 0.27 0.03
Matches are distributed among these distances:
49 111 0.37
50 162 0.54
51 28 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
Found at i:47943595 original size:149 final size:149
Alignment explanation
Indices: 47943142--47943622 Score: 425
Period size: 149 Copynumber: 3.2 Consensus size: 149
47943132 GCAATTTAAA
* * ** *
47943142 AGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGAATCTTACTTTC-CTAGCATTGCAGTGGAACAGATTGAAGCTACA
* * * *
47943207 ACGGTGGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAAGCCACAACGGCAAACCTTACTT
65 ACGGTGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGCGAATCTTACTT
* *
47943272 CCCAGGCGTTGCAGTGGAAC
130 CCCAGGCGATGCAGTAGAAC
* * * * * ** * *
47943292 AAATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAGTTTAA-AGGATCGAAGCCAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCCTAG-CATTGCAGTGGAACA-GATTGAAGCTAC
* * * * * *
47943355 AACGGTGAATCTTACTT-TCAGGCGA-TGCAA-CGAAACAGATTGAAGCTACAACAGCGAATCTC
64 AACGGTGAATCTCACTTCCCAGAC-ATTGCAATC-AAA-AGATTGAAGCCACAACGGCGAATCTT
* * * ** *
47943417 ACTTCCCTGAC-ATTGCAATTCAAA
126 ACTTCCCAGGCGA-TGCAGTAGAAC
* * * * *
47943441 AGATTGAGGCCACAATGGCAAATCTTAATTTCCTAGCATTACAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAA
* * * * * *
47943506 AGGTGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTC
66 CGGTGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
*
47943571 TCAGGCGATGCAGTAGAAC
131 CCAGGCGATGCAGTAGAAC
* * * *
47943590 AGATTGAAGCTACGATGGCGAATCTTGCTTTCC
1 AGATTGAAGCCACAACGGCGAATCTTACTTTCC
47943623 CGATATTACA
Statistics
Matches: 249, Mismatches: 70, Indels: 25
0.72 0.20 0.07
Matches are distributed among these distances:
147 1 0.00
148 13 0.05
149 195 0.78
150 40 0.16
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (149 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAA
CGGTGAATCTCACTTCCCAGACATTGCAATCAAAAGATTGAAGCCACAACGGCGAATCTTACTTC
CCAGGCGATGCAGTAGAAC
Found at i:47943613 original size:99 final size:99
Alignment explanation
Indices: 47943130--47943673 Score: 551
Period size: 99 Copynumber: 5.5 Consensus size: 99
47943120 TAACCATAGT
* * * *
47943130 TTGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCTCAAGCGGTGCAGCGGAACAG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCTCAGGCGATGCAGTGGAACAG
* *
47943195 ATTGAAGCTACAACGGTGGATCTCACTTCCCTGACA
64 ATTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * * * * *
47943231 TTGCAATCAAAAGATTGAAGCCACAACGGCAAACCTTACTTCCCAGGCGTTGCAGTGGAACAAAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGAT
* * *
47943296 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * * * ** *
47943330 TTGCAGTTTAAAGGATCGAAGCCACAACGGTGAATCTTACTT-TCAGGCGATGCAACGAAACAGA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGA
*
47943394 TTGAAGCTACAACAGCGAATCTCACTTCCCTGACA
65 TTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * * * *
47943429 TTGCAATTCAAAAGATTGAGGCCACAATGGCAAATCTTAATT-TCCTA-GC-ATTACAGTGGAAC
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCT-C-AGGCGA-TGCAGTGGAAC
* * * *
47943491 AGATTGAAGCTACAAAGGTGAATCTCGCTTCCCCGACA
62 AGATTGAAGCTACAACGGCGAATCTCACTTCCCTGACA
* * *
47943529 TTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTCTCAGGCGATGCAGTAGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGAT
* * ** *
47943594 TGAAGCTACGATGGCGAATCTTGCTTTCCC-GATA
66 TGAAGCTACAACGGCGAATCTCAC-TTCCCTGACA
* * * * * *
47943628 TTACAACT-AAAGATTAAAGCCGCAACGGTGAATCTTATTTCCTCAG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CTCAG
47943674 CGAGACCGGG
Statistics
Matches: 372, Mismatches: 61, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
98 31 0.08
99 218 0.59
100 116 0.31
101 7 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACGGCGAATCTCACTTCCCTGACA
Found at i:47959728 original size:14 final size:14
Alignment explanation
Indices: 47959711--47959745 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47959701 AAATCTATGG
47959711 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
*
47959725 AAAAAAGAAAAGGA
1 AAAAAAGAAAAAGA
*
47959739 AGAAAAG
1 AAAAAAG
47959746 GTAAAACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:47961782 original size:42 final size:41
Alignment explanation
Indices: 47961724--47962084 Score: 281
Period size: 42 Copynumber: 8.5 Consensus size: 41
47961714 AACACATGGT
*
47961724 GGAATCAGCACT-TAGCAACCACCTTTATATTCAGTGATACAG
1 GGAATCAGCA-TATAGCAACC-CCTTTATATTCAGTGATACGG
* * * *
47961766 GGAATCAACATATAGCAACCCCTTTCACAATCAAAT-ATACGG
1 GGAATCAGCATATAGCAACCCCTTT-ATATTC-AGTGATACGG
* *
47961808 TGGAATCAGCACT-TAGCAACCACCTTTATATTCAGCGATACAG
1 -GGAATCAGCA-TATAGCAACC-CCTTTATATTCAGTGATACGG
* * * *
47961851 GGAATCAACATATAGCAACCCCTTTCACAATCAAAT-ATACGG
1 GGAATCAGCATATAGCAACCCCTTT-ATATTC-AGTGATACGG
*
47961893 TGGAATCAGCACT-TAGCAACCACTTTTATATTCAGTGATACGG
1 -GGAATCAGCA-TATAGCAACC-CCTTTATATTCAGTGATACGG
* * * *
47961936 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAT-ATACGG
1 GGAATCAGCATATAGCAACCCCTTT-ATATTC-AGTGATACGG
*
47961978 TGGAATCAGCACT-TAGCAACCACTTTTATATTCAGTGATACGG
1 -GGAATCAGCA-TATAGCAACC-CCTTTATATTCAGTGATACGG
* * * *
47962021 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAT-ATACGG
1 GGAATCAGCATATAGCAACCCCTTT-ATATTC-AGTGATACGG
47962063 TGGAATCAGCACT-TAGCAACCC
1 -GGAATCAGCA-TATAGCAACCC
47962085 ATCGGGGAAT
Statistics
Matches: 255, Mismatches: 38, Indels: 51
0.74 0.11 0.15
Matches are distributed among these distances:
41 20 0.08
42 113 0.44
43 107 0.42
44 15 0.06
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
GGAATCAGCATATAGCAACCCCTTTATATTCAGTGATACGG
Found at i:47961823 original size:85 final size:85
Alignment explanation
Indices: 47961680--47962083 Score: 673
Period size: 85 Copynumber: 4.8 Consensus size: 85
47961670 TTGGTCGGCG
* * * * * *
47961680 GGGAATCAACACACAACAACCCCTTTCACAATGAAACACATGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAACACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
47961745 CCTTTATATTCAGTGATACA
66 CCTTTATATTCAGTGATACA
*
47961765 GGGAATCAACATATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAACACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
*
47961830 CCTTTATATTCAGCGATACA
66 CCTTTATATTCAGTGATACA
*
47961850 GGGAATCAACATATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAACACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
* *
47961915 CTTTTATATTCAGTGATACG
66 CCTTTATATTCAGTGATACA
*
47961935 GGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAACACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
* *
47962000 CTTTTATATTCAGTGATACG
66 CCTTTATATTCAGTGATACA
*
47962020 GGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACC
1 GGGAATCAACACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACC
47962084 CATCGGGGAA
Statistics
Matches: 306, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 306 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (85 bp):
GGGAATCAACACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGCAACCA
CCTTTATATTCAGTGATACA
Found at i:47963193 original size:57 final size:58
Alignment explanation
Indices: 47963065--47963266 Score: 282
Period size: 57 Copynumber: 3.4 Consensus size: 58
47963055 GTCTCAAGGT
47963065 GCCCTTTGCGGGTTTTCACCTTGGCCCTCTCCATTTTCTTTTTTTATTTTTTTTCAAAGCA
1 GCCCTTTGCGGGTTTTCACCTTGG-CCTCTCCATTTTCTTTTTTTA-TTTTTTTCAAAG-A
47963126 G-CCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTC-TTTTTTATTTTTTTCAAAGA
1 GCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTCTTTTTTTATTTTTTTCAAAGA
* * *
47963182 GCCCTTTGCGGGTTTTCACCTTGGCCTCTCAATTTTCTTTTTTTTCTTTTTCTTTTCAAAGC
1 GCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTC--TTTTTT-TATTT-TTTTCAAAGA
* *
47963244 GCCCTTTGCAGGTTTTTACCTTG
1 GCCCTTTGCGGGTTTTCACCTTG
47963267 TTCCCTTCTC
Statistics
Matches: 130, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
56 2 0.02
57 46 0.35
58 7 0.05
59 13 0.10
60 27 0.21
61 5 0.04
62 30 0.23
ACGTcount: A:0.11, C:0.25, G:0.14, T:0.50
Consensus pattern (58 bp):
GCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTCTTTTTTTATTTTTTTCAAAGA
Found at i:47965881 original size:20 final size:20
Alignment explanation
Indices: 47965856--47965903 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
47965846 TTTCTTCTAA
47965856 TTGTTTTGACAATTCTTCTT
1 TTGTTTTGACAATTCTTCTT
*
47965876 TTGTTTTGGCAATTCTTCTT
1 TTGTTTTGACAATTCTTCTT
47965896 TTGTTTTG
1 TTGTTTTG
47965904 TCTTTCTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.10, C:0.12, G:0.15, T:0.62
Consensus pattern (20 bp):
TTGTTTTGACAATTCTTCTT
Found at i:47987199 original size:8 final size:8
Alignment explanation
Indices: 47987186--47987220 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
47987176 ACAAAATCAT
47987186 TTATGAAA
1 TTATGAAA
47987194 TTATGAAA
1 TTATGAAA
47987202 TTATGAAA
1 TTATGAAA
47987210 TTATGAAA
1 TTATGAAA
47987218 TTA
1 TTA
47987221 AACATCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (8 bp):
TTATGAAA
Found at i:47999979 original size:21 final size:22
Alignment explanation
Indices: 47999940--47999982 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
47999930 TATTTATTAT
*
47999940 GTTTTATTGTATTTTATTTTAA
1 GTTTTATTGTATTTAATTTTAA
47999962 GTTTTATT-TATTTAATTTTAA
1 GTTTTATTGTATTTAATTTTAA
47999983 CTTATAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
GTTTTATTGTATTTAATTTTAA
Found at i:48001920 original size:59 final size:55
Alignment explanation
Indices: 48001850--48001965 Score: 151
Period size: 59 Copynumber: 2.0 Consensus size: 55
48001840 ATCACTTTAA
* * *
48001850 TATTAAATTAATATAATATTTATCAACATAAATATTATATTAAATTTAATATTAAATAT
1 TATTAAATTAATAGAATATTTATCAACA-AAATA-AACATTAAATTTAAT-TT-AATAT
* *
48001909 TATTTAATTAATAGAATATTTATCTACAAAATAAACATTAAATTTAATTTAATAT
1 TATTAAATTAATAGAATATTTATCAACAAAATAAACATTAAATTTAATTTAATAT
48001964 TA
1 TA
48001966 AGATAATCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 7 0.13
56 2 0.04
57 13 0.25
58 5 0.10
59 25 0.48
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (55 bp):
TATTAAATTAATAGAATATTTATCAACAAAATAAACATTAAATTTAATTTAATAT
Found at i:48001966 original size:62 final size:59
Alignment explanation
Indices: 48001850--48001966 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
48001840 ATCACTTTAA
* * * *
48001850 TATTAAATTAATATAATATTTATCAACATAAATATTATATTAAATTTAATATTAAATAT
1 TATTAAATTAATAGAATATTTATCAAAATAAACATTAAATTAAATTTAATATTAAATAT
* *
48001909 TATTTAATTAATAGAATATTTATCTACAAAATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA--T-CAAAATAAACATTAAATTAAATTTAATATTAA
48001967 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAAATAAACATTAAATTAAATTTAATATTAAATAT
Found at i:48002005 original size:25 final size:25
Alignment explanation
Indices: 48001951--48002005 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
48001941 AAACATTAAA
*
48001951 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
48001976 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
48002000 TATTAA
1 T-TTAA
48002006 GATAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:48008981 original size:61 final size:60
Alignment explanation
Indices: 48008913--48009056 Score: 164
Period size: 61 Copynumber: 2.4 Consensus size: 60
48008903 AACTGTGCCT
* *
48008913 CTGTTCGCACTTTGGTGCCCCTGTATACACTTCATTGTCTC-TAATTTGCACCTATGTGATC
1 CTGTTCGCACTTTGGTGCCCCTGTATACACTTCAGTGTC-CAT-ATTTGCACCTATGTGACC
* * * * * * * *
48008974 CTGTTCGCACTTCGATGCCCTTGTATACACTTCGGTGTCCATGTTTGCACGTTTGTGCCC
1 CTGTTCGCACTTTGGTGCCCCTGTATACACTTCAGTGTCCATATTTGCACCTATGTGACC
*
48009034 CTGTTCACACTTTGGTGCCCCTG
1 CTGTTCGCACTTTGGTGCCCCTG
48009057 ACTGGACGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
60 33 0.49
61 35 0.51
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.38
Consensus pattern (60 bp):
CTGTTCGCACTTTGGTGCCCCTGTATACACTTCAGTGTCCATATTTGCACCTATGTGACC
Found at i:48017890 original size:5 final size:5
Alignment explanation
Indices: 48017841--48017873 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
48017831 TTCTATATGG
48017841 ATTTT ACTTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT AT
48017874 CACTGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:48021640 original size:30 final size:30
Alignment explanation
Indices: 48021606--48021669 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
48021596 GGTGTTGCTT
*
48021606 CATATGTAACTTCCTAGTTAGAGTTTTCAA
1 CATATGTAACTTCCTAGTTAAAGTTTTCAA
48021636 CATATGTAACTTCCTAGTTAAAGTTTTCAA
1 CATATGTAACTTCCTAGTTAAAGTTTTCAA
48021666 CATA
1 CATA
48021670 CATATTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (30 bp):
CATATGTAACTTCCTAGTTAAAGTTTTCAA
Found at i:48022406 original size:17 final size:17
Alignment explanation
Indices: 48022384--48022420 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
48022374 ATTATTATTA
48022384 TTATTATTATGAAAAGT
1 TTATTATTATGAAAAGT
*
48022401 TTATTATTATGAATAGT
1 TTATTATTATGAAAAGT
48022418 TTA
1 TTA
48022421 CTACTACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
TTATTATTATGAAAAGT
Found at i:48025445 original size:13 final size:13
Alignment explanation
Indices: 48025427--48025452 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48025417 ACCTATAAAA
48025427 CATATCTCAATTT
1 CATATCTCAATTT
48025440 CATATCTCAATTT
1 CATATCTCAATTT
48025453 TTATTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CATATCTCAATTT
Found at i:48026425 original size:51 final size:50
Alignment explanation
Indices: 48026350--48026517 Score: 255
Period size: 51 Copynumber: 3.3 Consensus size: 50
48026340 CAGATCACAT
* * *
48026350 TTATCACTTGTCCCTTGTCCCTGATCAAATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CAC
* *
48026401 TTATCACTTGTTACTTGACACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CAC
*
48026452 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC-AC
48026503 TTATCACTTGTCACT
1 TTATCACTTGTCACT
48026518 AATCAAAAGT
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 106 0.99
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACAC
Found at i:48030361 original size:32 final size:32
Alignment explanation
Indices: 48030312--48030395 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
48030302 TTGAAATTTT
*
48030312 AGTTTGTTGGATTTTGAAATTATTATGTATTGA
1 AGTTTGTTGGATATTGAAATTATTATGT-TTGA
* * *
48030345 A-TTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTGGATATTGAAATTATTATGTTTGA
*
48030376 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
48030396 GATTGACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.09
32 38 0.88
33 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (32 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTGA
Found at i:48031677 original size:22 final size:22
Alignment explanation
Indices: 48031647--48031702 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
48031637 TAATTTAAAA
48031647 TATAAAAATTTATTAATATATG
1 TATAAAAATTTATTAATATATG
*
48031669 TATATAAATTTATTAATATATG
1 TATAAAAATTTATTAATATATG
*
48031691 TAAAAATAATTT
1 TATAAA-AATTT
48031703 TTCTAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TATAAAAATTTATTAATATATG
Found at i:48031743 original size:32 final size:32
Alignment explanation
Indices: 48031707--48031794 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
48031697 TAATTTTTCT
*
48031707 AGAAAATATTTTCAGGAAATC-TGCCAAACAAC
1 AGAAAATATTTTCAGCAAATCAT-CCAAACAAC
* *
48031739 AGAAAATATTTTACA-CAGATTCATCCAAACACC
1 AGAAAATATTTT-CAGCA-AATCATCCAAACAAC
*
48031772 AGAAAATATTTTCAGTAAATCAT
1 AGAAAATATTTTCAGCAAATCAT
48031795 TTTCCAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
32 20 0.43
33 26 0.55
34 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (32 bp):
AGAAAATATTTTCAGCAAATCATCCAAACAAC
Found at i:48031810 original size:20 final size:20
Alignment explanation
Indices: 48031785--48031824 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48031775 AAATATTTTC
48031785 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
48031805 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
48031825 TCATTTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:48031826 original size:34 final size:32
Alignment explanation
Indices: 48031775--48031838 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 32
48031765 AAACACCAGA
48031775 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCC-GAAAAGT
48031808 AAATCATTTTCCAG-AAATCATTTTCCGAAAA
1 AAAT-ATTTT-CAGTAAATCATTTTCCGAAAA
48031839 ATATTTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 9 0.31
34 17 0.59
35 3 0.10
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (32 bp):
AAATATTTTCAGTAAATCATTTTCCGAAAAGT
Found at i:48031844 original size:14 final size:14
Alignment explanation
Indices: 48031808--48031845 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48031798 CCAGAAAAGT
*
48031808 AAATCATTTTCCAG
1 AAATCATTTTCCAA
48031822 AAATCATTTTCCGAA
1 AAATCATTTTCC-AA
48031837 AAAT-ATTTT
1 AAATCATTTT
48031846 ACTGACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:48032134 original size:20 final size:19
Alignment explanation
Indices: 48032105--48032144 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
48032095 CGAAAAATGA
48032105 TTTCTGGAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
48032124 TTTCTTGGAAAATGATTTAC
1 TTTC-TGGAAAATGATTTAC
48032144 T
1 T
48032145 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (19 bp):
TTTCTGGAAAATGATTTAC
Found at i:48032220 original size:32 final size:31
Alignment explanation
Indices: 48032138--48032221 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 31
48032128 TTGGAAAATG
48032138 ATTTACTGAAAATATTTTCTGATGTTTGGATGA
1 ATTT-CTGAAAATATTTTCTGATGTTTGGA-GA
* * *
48032171 ATCTGTGTAAAATATTTTCTGTTGTTTGGCA-A
1 ATTTCTG-AAAATATTTTCTGATGTTTGG-AGA
48032203 ATTTCCTGAAAATATTTTC
1 ATTT-CTGAAAATATTTTC
48032222 CAAAAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 17 0.40
33 25 0.58
34 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (31 bp):
ATTTCTGAAAATATTTTCTGATGTTTGGAGA
Found at i:48032267 original size:20 final size:20
Alignment explanation
Indices: 48032242--48032280 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48032232 GTTTTTACAT
48032242 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
48032262 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
48032281 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:48033846 original size:13 final size:13
Alignment explanation
Indices: 48033830--48033854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48033820 GAGAAGGGAC
48033830 GATGGACAGAGAT
1 GATGGACAGAGAT
48033843 GATGGACAGAGA
1 GATGGACAGAGA
48033855 GGAAGGGAGA
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:0.40, C:0.08, G:0.40, T:0.12
Consensus pattern (13 bp):
GATGGACAGAGAT
Found at i:48052747 original size:12 final size:12
Alignment explanation
Indices: 48052730--48052762 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48052720 CCTGATTTCC
48052730 AAAAATTATTAA
1 AAAAATTATTAA
48052742 AAAAATTA-TAA
1 AAAAATTATTAA
48052753 AAATAATTAT
1 AAA-AATTAT
48052763 GGATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATTATTAA
Found at i:48062116 original size:14 final size:14
Alignment explanation
Indices: 48062097--48062124 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48062087 ATAATAATCC
48062097 ATTTCATATTATCA
1 ATTTCATATTATCA
48062111 ATTTCATATTATCA
1 ATTTCATATTATCA
48062125 GCTTTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTCATATTATCA
Done.