Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 243 of 318
Found at i:77156246 original size:3 final size:3
Alignment explanation
Indices: 77156240--77156343 Score: 59
Period size: 3 Copynumber: 34.0 Consensus size: 3
77156230 TAAAAAAGGA
** * * * *
77156240 AAT AAT AAT -AT GTT AAT AAG AAT AAT AGT AGT AGT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * *
77156285 AAT GAT AAT AAA AAT ACATT AGAT AAT AAT AGT AA- AAC AAT AAT AGT
1 AAT AAT AAT AAT AAT A-A-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT
77156332 AAT AAT AAT AAT
1 AAT AAT AAT AAT
77156344 TGTTAATAAC
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.05
3 66 0.84
4 6 0.08
5 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:77156328 original size:14 final size:15
Alignment explanation
Indices: 77156309--77156355 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
77156299 TACATTAGAT
77156309 AATAATAGTAA-AAC
1 AATAATAGTAATAAC
*
77156323 AATAATAGTAATAAT
1 AATAATAGTAATAAC
*
77156338 AATAATTGTTAATAAC
1 AATAATAG-TAATAAC
77156354 AA
1 AA
77156356 CGATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 11 0.39
15 9 0.32
16 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (15 bp):
AATAATAGTAATAAC
Found at i:77156436 original size:21 final size:22
Alignment explanation
Indices: 77156393--77156472 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
77156383 GTACACTAAT
*
77156393 AAGAATAGTAATAAGT-TACTAA
1 AAGAATAGTAATAA-TATATTAA
77156415 AA-AATAGTAATAATATATTAA
1 AAGAATAGTAATAATATATTAA
* * *
77156436 AAGGATAATAATAATA-ATGAA
1 AAGAATAGTAATAATATATTAA
77156457 AATGAA-AGTAATAATA
1 AA-GAATAGTAATAATA
77156473 ATAATACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 1 0.02
21 33 0.67
22 15 0.31
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.28
Consensus pattern (22 bp):
AAGAATAGTAATAATATATTAA
Found at i:77156446 original size:3 final size:3
Alignment explanation
Indices: 77156440--77156564 Score: 53
Period size: 3 Copynumber: 41.0 Consensus size: 3
77156430 TATTAAAAGG
* *
77156440 ATA ATA ATA ATA ATGA A-A ATGA A-A GTA ATA ATA ATA ATA CATTA AGTT
1 ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA -A-TA A-TA
* * * * * * * *
77156488 ACA ATA GTA A-A GTA ATA ATA GTG ATA ATG ATA A-C ATA TTA GATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
77156532 ATA ATA GTA A-A ATAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
77156565 GATTAAATTA
Statistics
Matches: 88, Mismatches: 23, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
2 7 0.08
3 66 0.75
4 13 0.15
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:77158009 original size:45 final size:45
Alignment explanation
Indices: 77157958--77158475 Score: 312
Period size: 45 Copynumber: 11.4 Consensus size: 45
77157948 CTATTCTACG
* * *
77157958 GCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
* ** * *
77158003 GCAACTTCAGGGAGATAAGGTGTT--T-T-TTTTATCTACTCTACT
1 GCAACTTCAGGGAGATAAGAT-TTGCTATCTTCAATCTGCTCCACT
* * *
77158045 GCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCTGTTCCACT
1 GCAACTTCAGGGAGATAAGAT-T-TG--CTAT--CTTCAATCTGCTCCACT
* * * * *
77158096 GCAACTTCAGGGAAATAAGATTAGCGA-CTTCAACCTACTCCACT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
* * * *
77158140 GCAACTTCAGGGAG--AAGGTTTG-T-T-TT-GATCTGCTCTAAT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
* * * * *
77158179 GCAACTTCAGAGAGATAAGATCAGTGATTTATAGCTTTAATCTGTTCCACT
1 GCAACTTCAGGGAGATAAGAT--TTG--CTAT--CTTCAATCTGCTCCACT
* * * *
77158230 GTAACTTCAGGGAAATAAGATTTTCTATCTTCAGTCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
* * * * **
77158275 GTAACTTCAGGGAGATAAGACTAGCTA-CTTCAACCTGCTCGTCT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
* * ** * *
77158319 GTAACTTCAGGGAGATAAGGTTT-CT-T-TT-GGTCTACTCTACT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
* * *
77158360 GCAACTTCAGAGAGATAAGATTAGTGATTTATAGCTTCAATCTGTTCCACT
1 GCAACTTCAGGGAGATAAGATT--TG--CTAT--CTTCAATCTGCTCCACT
* * * * *
77158411 GCGACTTCAGGGAAATAAGATTTGTTATCTTCAGTATGCTCCACT
1 GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
77158456 GCAACTTCAGGGAGATAAGA
1 GCAACTTCAGGGAGATAAGA
77158476 CTAGTGACTC
Statistics
Matches: 356, Mismatches: 83, Indels: 68
0.70 0.16 0.13
Matches are distributed among these distances:
39 21 0.06
40 2 0.01
41 30 0.08
42 39 0.11
43 7 0.02
44 61 0.17
45 87 0.24
46 4 0.01
47 11 0.03
48 1 0.00
49 4 0.01
50 5 0.01
51 84 0.24
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (45 bp):
GCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACT
Found at i:77158207 original size:134 final size:136
Alignment explanation
Indices: 77157884--77158289 Score: 546
Period size: 134 Copynumber: 3.0 Consensus size: 136
77157874 CACTGCATCT
* * * * * * *
77157884 TGTTGCTTTGATCCACTCCACTGCAACTTCAGAGAAATAAGATCTGTTTATTCATAGCTTCAATC
1 TGTTGTTTTGATCTACTCTAATGCAACTTCAGAGAGATAAGATCTG-TGATTTATAGCTTCAATC
* * * *
77157949 TATTCTACGGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
65 TGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
77158014 GAGATAAGG
130 GAG--AAGG
* * *
77158023 TGTTTTTTTTATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCT
1 TGTTGTTTTGATCTACTCTAATGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCT
* * ** *
77158088 GTTCCACTGCAACTTCAGGGAAATAAGATTAGCGA-CTTCAACCTACTCCACTGCAACTTCAGGG
66 GTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGG
77158152 AGAAGG
131 AGAAGG
* * *
77158158 T-TTGTTTTGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCAGTGATTTATAGCTTTAATCT
1 TGTTGTTTTGATCTACTCTAATGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCT
* * *
77158222 GTTCCACTGTAACTTCAGGGAAATAAGATTTTCTATCTTCAGTCTGCTCCACTGTAACTTCAGGG
66 GTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGG
77158287 AGA
131 AGA
77158290 TAAGACTAGC
Statistics
Matches: 235, Mismatches: 31, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
134 88 0.37
135 33 0.14
137 28 0.12
138 46 0.20
139 40 0.17
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (136 bp):
TGTTGTTTTGATCTACTCTAATGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCT
GTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGG
AGAAGG
Found at i:77158321 original size:44 final size:45
Alignment explanation
Indices: 77158224--77158337 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 45
77158214 TTTAATCTGT
* * ** **
77158224 TCCACTGTAACTTCAGGGAAATAAGATTTTCTATCTTCAGTCTGC
1 TCCACTGTAACTTCAGGGAGATAAGACTAGCTATCTTCAACCTGC
77158269 TCCACTGTAACTTCAGGGAGATAAGACTAGCTA-CTTCAACCTGC
1 TCCACTGTAACTTCAGGGAGATAAGACTAGCTATCTTCAACCTGC
**
77158313 TCGTCTGTAACTTCAGGGAGATAAG
1 TCCACTGTAACTTCAGGGAGATAAG
77158338 GTTTCTTTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
44 32 0.52
45 29 0.48
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
TCCACTGTAACTTCAGGGAGATAAGACTAGCTATCTTCAACCTGC
Found at i:77158393 original size:181 final size:179
Alignment explanation
Indices: 77158042--77158514 Score: 615
Period size: 181 Copynumber: 2.6 Consensus size: 179
77158032 TATCTACTCT
* * * *
77158042 ACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGG
1 ACTGCAACTTCAGGGAAATAAGAT-T-TG--TTAT--CTTCAGTCTGCTCCACTGCAACTTCAGG
* * * *
77158107 GAAATAAGATTAGCGACTTCAACCTACTCCACTGCAACTTCAGGGAGAAGGTTTGTTTTGATCTG
60 GAGATAAGACTAGCGACTTCAACCTACTCCACTGCAACTTCAGGGAGAAGGTTTCTTTTGATCTA
*
77158172 CTCTAATGCAACTTCAGAGAGATAAGATCAGTGATTTATAGCTTTAATCTGTTCC
125 CTCTAATGCAACTTCAGAGAGATAAGATCAGTGATTTATAGCTTCAATCTGTTCC
* *
77158227 ACTGTAACTTCAGGGAAATAAGATTT-TCTATCTTCAGTCTGCTCCACTGTAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAAATAAGATTTGT-TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * ** * *
77158291 AAGACTAGCTACTTCAACCTGCTCGTCTGTAACTTCAGGGAGATAAGGTTTCTTTTGGTCTACTC
65 AAGACTAGCGACTTCAACCTACTCCACTGCAACTTCAGGGAG--AAGGTTTCTTTTGATCTACTC
* *
77158356 TACTGCAACTTCAGAGAGATAAGATTAGTGATTTATAGCTTCAATCTGTTCC
128 TAATGCAACTTCAGAGAGATAAGATCAGTGATTTATAGCTTCAATCTGTTCC
* *
77158408 ACTGCGACTTCAGGGAAATAAGATTTGTTATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * * * *
77158473 AGACTAGTGACTCCAATCTACTCCGCTGAAACTTCAAGGAGA
66 AGACTAGCGACTTCAACCTACTCCACTGCAACTTCAGGGAGA
77158515 TCTGCTGTAG
Statistics
Matches: 252, Mismatches: 32, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
179 66 0.26
180 1 0.00
181 161 0.64
182 1 0.00
183 1 0.00
184 1 0.00
185 21 0.08
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (179 bp):
ACTGCAACTTCAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGCGACTTCAACCTACTCCACTGCAACTTCAGGGAGAAGGTTTCTTTTGATCTACTCTAA
TGCAACTTCAGAGAGATAAGATCAGTGATTTATAGCTTCAATCTGTTCC
Found at i:77158481 original size:96 final size:95
Alignment explanation
Indices: 77158168--77158482 Score: 337
Period size: 96 Copynumber: 3.4 Consensus size: 95
77158158 TTTGTTTTGA
* * *
77158168 TCTGCTCTAATGCAACTTCAGAGAGATAAGA-TCAGTGATTTATAGCTTTAATCTGTTCCACTGT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-AGTGATTTATAGCTTCAATCTGTTCCACTGT
77158232 AACTTCAGGGAAATAAGATTTTCTATCTTCAG
65 AACTTCAGGGAAATAAGATTTT-TATCTTCAG
* * * * * **
77158264 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTA--G----CTA-CTTCAACCTGCTCGTCTGTA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTGATTTATAGCTTCAATCTGTTCCACTGTA
* * * *
77158322 ACTTCAGGGAGATAAGGTTTCT-T-TT-GG
66 ACTTCAGGGAAATAAGATTTTTATCTTCAG
* * * **
77158349 TCTACTCTACTGCAACTTCAGAGAGATAAGATTAGTGATTTATAGCTTCAATCTGTTCCACTGCG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTGATTTATAGCTTCAATCTGTTCCACTGTA
77158414 ACTTCAGGGAAATAAGATTTGTTATCTTCAG
66 ACTTCAGGGAAATAAGATTT-TTATCTTCAG
* *
77158445 TATGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTGA
77158483 CTCCAATCTA
Statistics
Matches: 172, Mismatches: 35, Indels: 24
0.74 0.15 0.10
Matches are distributed among these distances:
85 30 0.17
86 2 0.01
87 2 0.01
88 1 0.01
89 33 0.19
90 2 0.01
91 2 0.01
92 32 0.19
93 1 0.01
94 2 0.01
95 2 0.01
96 62 0.36
97 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (95 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGTGATTTATAGCTTCAATCTGTTCCACTGTA
ACTTCAGGGAAATAAGATTTTTATCTTCAG
Found at i:77158603 original size:68 final size:68
Alignment explanation
Indices: 77158494--77158902 Score: 507
Period size: 68 Copynumber: 6.0 Consensus size: 68
77158484 TCCAATCTAC
* *
77158494 TCCGCTGAAACTTCAAGGAGATCTGCTGTAGCTT-TGAGCCGCTCCAACGTCATTTCAGGGAGAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCT-AGCCGCTCCAACGCCATTTCAGGGAGAA
*
77158558 GAGA
65 AAGA
* * * * *
77158562 TCCGCTGAAACTTCAAGGAGATCTACTGTAGCTTCTAGCCGCTTCAACGCCATTTTAGGGAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
77158627 AGA
66 AGA
* * * * *
77158630 TCCGCTGACACTTCAAGGAGATCTGCTGTGGCTTCGAGTCACTCCAACGCCATTCCAGGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
77158695 AGA
66 AGA
* ** * * * * *
77158698 TCTGCTGAAACTTTGAGGAGATCTGCTGTGTCTT-TGGGCCACTCCAACGCTATTTCAGGGGGAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCT-AGCCGCTCCAACGCCATTTCAGGGAGAA
*
77158762 AAAA
65 AAGA
** * * * * *
77158766 TTTGCTGAAACTTCAAGGAGATCTGCTGTGGTTTCTAGCCGTTTCAACGCCATTTTAGGGAGAAT
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
77158831 AGA
66 AGA
* *
77158834 TCCGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCGCTCCAACGCCATTTCAGGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
77158899 AGA
66 AGA
77158902 T
1 T
77158903 TTGTAATTCC
Statistics
Matches: 289, Mismatches: 49, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
68 287 0.99
69 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (68 bp):
TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
AGA
Found at i:77158849 original size:204 final size:204
Alignment explanation
Indices: 77158497--77158902 Score: 609
Period size: 204 Copynumber: 2.0 Consensus size: 204
77158487 AATCTACTCC
* * *
77158497 GCTGAAACTTCAAGGAGATCTGCTGTAGCTTTGAGCCGCTCCAACGTCATTTCAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTAGCTTTGAGCCACTCCAACGTCATTTCAGGGAGAAAAAA
77158562 TCCGCTGAAACTTCAAGGAGATCTACTGTAGCTTCTAGCCGCTTCAACGCCATTTTAGGGAGAAG
66 TCCGCTGAAACTTCAAGGAGATCTACTGTAGCTTCTAGCCGCTTCAACGCCATTTTAGGGAGAAG
* * *
77158627 AGATCCGCTGACACTTCAAGGAGATCTGCTGTGGCTTCGAGTCACTCCAACGCCATTCCAGGGAG
131 AGATCCGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCACTCCAACGCCATTCCAGGGAG
77158692 AAAAGATCT
196 AAAAGATCT
** * *
77158701 GCTGAAACTTTGAGGAGATCTGCTGT-GTCTTTGGGCCACTCCAACG-CTATTTCAGGGGGAAAA
1 GCTGAAACTTCAAGGAGATCTGCTGTAG-CTTTGAGCCACTCCAACGTC-ATTTCAGGGAGAAAA
** * * * *
77158764 AATTTGCTGAAACTTCAAGGAGATCTGCTGTGGTTTCTAGCCGTTTCAACGCCATTTTAGGGAGA
64 AATCCGCTGAAACTTCAAGGAGATCTACTGTAGCTTCTAGCCGCTTCAACGCCATTTTAGGGAGA
* * *
77158829 ATAGATCCGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCGCTCCAACGCCATTTCAGGG
129 AGAGATCCGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCACTCCAACGCCATTCCAGGG
77158894 AGAAAAGAT
194 AGAAAAGAT
77158903 TTGTAATTCC
Statistics
Matches: 181, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
203 2 0.01
204 179 0.99
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (204 bp):
GCTGAAACTTCAAGGAGATCTGCTGTAGCTTTGAGCCACTCCAACGTCATTTCAGGGAGAAAAAA
TCCGCTGAAACTTCAAGGAGATCTACTGTAGCTTCTAGCCGCTTCAACGCCATTTTAGGGAGAAG
AGATCCGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCACTCCAACGCCATTCCAGGGAG
AAAAGATCT
Found at i:77159190 original size:86 final size:86
Alignment explanation
Indices: 77159041--77159422 Score: 496
Period size: 86 Copynumber: 4.4 Consensus size: 86
77159031 GGCTCATTGT
* * * * * *
77159041 CTCCACTATTGCTTAGGGAGACAAGTTCTGTAATTCAGCCTGTTACCTTATTGTTTAGGGGGTTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTA
* *
77159106 AGACTCATCATCTTCGATCTG
66 AGGCTCACCATCTTCGATCTG
* * * *
77159127 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTAGCCTGTTACCTTACTACTTAGAGGGTTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTA
*
77159192 AGGCTCACCGTCTTCGATCTG
66 AGGCTCACCATCTTCGATCTG
* * * *
77159213 CTCCACTACTGCTCAGGGAGACAAGATTTGTAA-TTCGACCTGTTGCCCTACTGCTTAGGGGGTT
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTAG-CCTGTTACCCTACTGCTTAGGGGGTT
* *
77159277 AAGGCTCATCATCTTCGATTTG
65 AAGGCTCACCATCTTCGATCTG
* * *
77159299 CTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTTGGGGGT
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAA-TTT-AGCCTGTTACCCTACTGCTTAGGGGGT
* * *
77159364 TAAGGCTCGCCGTCTTTGATCTG
64 TAAGGCTCACCATCTTCGATCTG
*
77159387 CTCCACTACTGCTTAGTGAGACAAGATCTGTAATTT
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTT
77159423 CCCGATGTTG
Statistics
Matches: 255, Mismatches: 37, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
85 3 0.01
86 175 0.69
87 3 0.01
88 73 0.29
89 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (86 bp):
CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTA
AGGCTCACCATCTTCGATCTG
Found at i:77159273 original size:172 final size:174
Alignment explanation
Indices: 77159041--77159421 Score: 563
Period size: 172 Copynumber: 2.2 Consensus size: 174
77159031 GGCTCATTGT
* * * *
77159041 CTCCACTATTGCTTAGGGAGACAAG-TTCTGTAATTCAGCCTGTTACCTTATTGTTTAGGGGGTT
1 CTCCACTACTGCTTAGGGAGACAAGATT-TGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
*
77159105 AAGACTCATCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTT-AGCCT
65 AAGACTCATCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCT
*
77159168 GTTACCTTACTACTTAGAGGGTTAAGGCTCACCGTCTTCGATCTG
130 GTTACCCTACTACTTAGAGGGTTAAGGCTCACCGTCTTCGATCTG
* *
77159213 CTCCACTACTGCTCAGGGAGACAAGATTTGTAATTC-GACCTGTTGCCCTACTGCTTAGGGGGTT
1 CTCCACTACTGCTTAGGGAGACAAGATTTGTAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTT
* *
77159277 AAGGCTCATCATCTTCGATTTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCT
65 AAGACTCATCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCT
* * * * *
77159342 GTTACCCTACTGCTTTGGGGGTTAAGGCTCGCCGTCTTTGATCTG
130 GTTACCCTACTACTTAGAGGGTTAAGGCTCACCGTCTTCGATCTG
* *
77159387 CTCCACTACTGCTTAGTGAGACAAGATCTGTAATT
1 CTCCACTACTGCTTAGGGAGACAAGATTTGTAATT
77159422 TCCCGATGTT
Statistics
Matches: 187, Mismatches: 18, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
171 1 0.01
172 105 0.56
173 5 0.03
174 76 0.41
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (174 bp):
CTCCACTACTGCTTAGGGAGACAAGATTTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
AGACTCATCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTG
TTACCCTACTACTTAGAGGGTTAAGGCTCACCGTCTTCGATCTG
Found at i:77164766 original size:3 final size:3
Alignment explanation
Indices: 77164760--77164863 Score: 59
Period size: 3 Copynumber: 34.0 Consensus size: 3
77164750 TAAAAAAGGA
** * * * *
77164760 AAT AAT AAT -AT GTT AAT AAG AAT AAT AGT AGT AGT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * *
77164805 AAT GAT AAT AAA AAT ACATT AGAT AAT AAT AGT AA- AAC AAT AAT AGT
1 AAT AAT AAT AAT AAT A-A-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT
77164852 AAT AAT AAT AAT
1 AAT AAT AAT AAT
77164864 TGTTAATAAC
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.05
3 66 0.84
4 6 0.08
5 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:77164848 original size:14 final size:15
Alignment explanation
Indices: 77164829--77164875 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
77164819 TACATTAGAT
77164829 AATAATAGTAA-AAC
1 AATAATAGTAATAAC
*
77164843 AATAATAGTAATAAT
1 AATAATAGTAATAAC
*
77164858 AATAATTGTTAATAAC
1 AATAATAG-TAATAAC
77164874 AA
1 AA
77164876 CGATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 11 0.39
15 9 0.32
16 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (15 bp):
AATAATAGTAATAAC
Found at i:77164967 original size:3 final size:3
Alignment explanation
Indices: 77164937--77165085 Score: 58
Period size: 3 Copynumber: 49.3 Consensus size: 3
77164927 GTTACTAAAA
* * * *
77164937 AAT AGT AAT AAT -AT ATT AAT AAG GAT AAT AAT AAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * *
77164981 GAA- AGT AAT AAT AAT AAT ACATT AAGT TAC AAT AGT AA- AGT AAT AAT
1 -AAT AAT AAT AAT AAT AAT A-A-T AA-T AAT AAT AAT AAT AAT AAT AAT
* * * * * *
77165028 AGT GAT AAT GAT AA- CAT ATT AGAT AAT AAT AGT AAT -AT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT
77165073 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
77165086 GATTAAATTA
Statistics
Matches: 103, Mismatches: 31, Indels: 24
0.65 0.20 0.15
Matches are distributed among these distances:
2 9 0.09
3 80 0.78
4 12 0.12
5 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:77170987 original size:50 final size:50
Alignment explanation
Indices: 77170912--77171021 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
77170902 GTGGCTTGCC
* * *
77170912 CGTGTGACCCAAATCTGAAATCAGTGAGCTACACGGCCTCGACACACGCT
1 CGTGTGACCCAAATCTCAAATCAGTGAGCTACACAGCCTCGACACACACT
* * * *
77170962 CGTGTAACCCAAATC-CAAAGTCAGTGAGTTACACAGCCTGGGCACACACT
1 CGTGTGACCCAAATCTCAAA-TCAGTGAGCTACACAGCCTCGACACACACT
77171012 CGTGTGACCC
1 CGTGTGACCC
77171022 CTGCACCGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 3 0.06
50 48 0.94
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (50 bp):
CGTGTGACCCAAATCTCAAATCAGTGAGCTACACAGCCTCGACACACACT
Found at i:77174848 original size:41 final size:40
Alignment explanation
Indices: 77174707--77174897 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
77174697 TTGACGATAA
** *
77174707 TTCGGCTATGTATGGCACTTAGTGTTTGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAATCGAGATAGC
* * * *
77174747 TTCGGCTATGTATGGCACTTAGTGTGTGATTTGGGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAATCGAGATAGC
* * * *
77174787 TTCAGCTATATATGGAACTTAGTGTGCGAGATCGAGTTAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGA-ATCGAGATAGC
* * ** *
77174828 TTCGGCTATGTAAGGCACTTAATGTGCGAGATTAAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGA-ATCGAGATAGC
**
77174869 TTCAACTATGTATTGGCACTTAGTGTGCG
1 TTCGGCTATGTA-TGGCACTTAGTGTGCG
77174898 TGATATCGAG
Statistics
Matches: 125, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 62 0.50
41 49 0.39
42 14 0.11
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGAATCGAGATAGC
Found at i:77181044 original size:18 final size:20
Alignment explanation
Indices: 77181000--77181044 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
77180990 AATACTTATT
77181000 AAAAATATTATATTTAAAAA
1 AAAAATATTATATTTAAAAA
*
77181020 AATAAATATT-T-TTTAAAAG
1 AA-AAATATTATATTTAAAAA
77181039 AAAAAT
1 AAAAAT
77181045 GCTACTTGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 3 0.13
21 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATATTATATTTAAAAA
Found at i:77181593 original size:29 final size:29
Alignment explanation
Indices: 77181567--77181631 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
77181557 TTAAAAAAGG
*
77181567 ACTATATA-TTTTTTTAAAGTTGTAAAAC
1 ACTATAAATTTTTTTTAAAGTTGTAAAAC
*
77181595 ATTATAAATTTTTTTTAAAGTTGTAAAAC
1 ACTATAAATTTTTTTTAAAGTTGTAAAAC
*
77181624 ATTATAAA
1 ACTATAAA
77181632 AAAGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (29 bp):
ACTATAAATTTTTTTTAAAGTTGTAAAAC
Found at i:77181600 original size:28 final size:29
Alignment explanation
Indices: 77181575--77181631 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
77181565 GGACTATATA
77181575 TTTTTTTAAAGTTGTAAAACATTATAAAT
1 TTTTTTTAAAGTTGTAAAACATTATAAAT
77181604 TTTTTTTAAAGTTGTAAAACATTATAAA
1 TTTTTTTAAAGTTGTAAAACATTATAAA
77181632 AAAGAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (29 bp):
TTTTTTTAAAGTTGTAAAACATTATAAAT
Found at i:77182002 original size:10 final size:9
Alignment explanation
Indices: 77181979--77182021 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
77181969 ATTTCTCTCT
77181979 TTTTTATAA
1 TTTTTATAA
77181988 TTTTTATAA
1 TTTTTATAA
77181997 TGTTTTATAAA
1 T-TTTTAT-AA
* *
77182008 ATTTAATAA
1 TTTTTATAA
77182017 TTTTT
1 TTTTT
77182022 TTAAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 15 0.54
10 11 0.39
11 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:77182012 original size:19 final size:18
Alignment explanation
Indices: 77181979--77182037 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
77181969 ATTTCTCTCT
**
77181979 TTTTTATAATTTTTATAA
1 TTTTTATAAAATTTATAA
77181997 TGTTTTATAAAATTTAATAA
1 T-TTTTATAAAATTT-ATAA
* *
77182017 TTTTTTTAAATATATATAA
1 TTTTTATAAA-ATTTATAA
77182036 TT
1 TT
77182038 AGTTTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.03
19 25 0.74
20 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTATAAAATTTATAA
Found at i:77185663 original size:21 final size:22
Alignment explanation
Indices: 77185639--77185679 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
77185629 ATATTATTAC
*
77185639 TTTAATATTT-AATAAGAATAT
1 TTTAACATTTGAATAAGAATAT
77185660 TTTAACATTTGAATAAGAAT
1 TTTAACATTTGAATAAGAAT
77185680 TGGAGGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTAACATTTGAATAAGAATAT
Found at i:77204037 original size:46 final size:46
Alignment explanation
Indices: 77203917--77204042 Score: 182
Period size: 48 Copynumber: 2.7 Consensus size: 46
77203907 CACATTACGG
* *
77203917 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAGAT
*
77203963 GCAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA-
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA-GAT
*
77204011 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT
77204043 TTGGGACATG
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
46 31 0.42
48 41 0.56
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAGAT
Found at i:77204128 original size:49 final size:49
Alignment explanation
Indices: 77204072--77204244 Score: 163
Period size: 49 Copynumber: 3.6 Consensus size: 49
77204062 TGTTGTGTGT
* * * * *
77204072 CAGTGTAAGACTTGTCTGGGGCATGGCATTGACAC-CTATAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAAATGAAAGC
* * * *
77204121 CAGTGTAAGACCTGTCTTGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
* * * * ** *
77204170 CAATGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT--GTGCTATC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
77204217 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
77204245 GTCGGCATCT
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
47 14 0.14
48 16 0.16
49 72 0.71
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
Found at i:77208223 original size:28 final size:27
Alignment explanation
Indices: 77208183--77208235 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
77208173 ATACTGTAAG
*
77208183 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAG-TTAATATTGATAT
77208211 GGGCTAAGGCCCAGTTAATATTGAT
1 GGGCTAAGGCCCAGTTAATATTGAT
77208236 TTCTGAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAATATTGATAT
Found at i:77208919 original size:16 final size:17
Alignment explanation
Indices: 77208887--77208919 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
77208877 CATCAAGAAG
77208887 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
77208905 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
77208920 CTTCAATGTG
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:77213336 original size:16 final size:16
Alignment explanation
Indices: 77213317--77213347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77213307 ACTCATACCT
*
77213317 ACATACATTCATAAAC
1 ACATACATACATAAAC
77213333 ACATACATACATAAA
1 ACATACATACATAAA
77213348 GAAAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATACATACATAAAC
Found at i:77215677 original size:10 final size:10
Alignment explanation
Indices: 77215662--77215686 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
77215652 TAAATTATAA
77215662 TTTAAGCATT
1 TTTAAGCATT
77215672 TTTAAGCATT
1 TTTAAGCATT
77215682 TTTAA
1 TTTAA
77215687 CATATTCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (10 bp):
TTTAAGCATT
Found at i:77215878 original size:6 final size:6
Alignment explanation
Indices: 77215866--77215922 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
77215856 TTTTTAACTA
* * * **
77215866 ATAATT GTAATT GTAATT ATAATT ATAATT ATAATT ATTTATT ATAACC
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT A-TAATT ATAATT
77215915 ATAATT AT
1 ATAATT AT
77215923 CAGAATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:77221400 original size:6 final size:6
Alignment explanation
Indices: 77221389--77221417 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
77221379 AGGGAGGAAT
77221389 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
77221418 TCATGAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:77222023 original size:12 final size:12
Alignment explanation
Indices: 77222024--77222057 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
77222014 TAAATTAAAT
77222024 ATTAAATATTAA
1 ATTAAATATTAA
*
77222036 A-TAAAAATTAA
1 ATTAAATATTAA
77222047 ATTAAATATTA
1 ATTAAATATTA
77222058 TATTTCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTAAATATTAA
Found at i:77222045 original size:18 final size:19
Alignment explanation
Indices: 77222008--77222048 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
77221998 ATTTATATAA
* *
77222008 AAATTTTAAATTAAATATT
1 AAATATTAAATTAAAAATT
77222027 AAATATTAAA-TAAAAATT
1 AAATATTAAATTAAAAATT
77222045 AAAT
1 AAAT
77222049 TAAATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATTAAATTAAAAATT
Found at i:77222153 original size:20 final size:20
Alignment explanation
Indices: 77222114--77222154 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
77222104 ATTCCTTCGT
*
77222114 TTTCATCTTCTCGCTCCCTC
1 TTTCATCTTCACGCTCCCTC
77222134 TTTCATCTTCAC-CTCTCCTC
1 TTTCATCTTCACGCTC-CCTC
77222154 T
1 T
77222155 CCTCCCTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.07, C:0.44, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTCATCTTCACGCTCCCTC
Found at i:77229325 original size:15 final size:16
Alignment explanation
Indices: 77229290--77229328 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
77229280 CTACCTCATT
77229290 TAAGTGATAAGTGAAC
1 TAAGTGATAAGTGAAC
*
77229306 T-AGTGA-AAGTGTAC
1 TAAGTGATAAGTGAAC
77229320 TAAGTGATA
1 TAAGTGATA
77229329 CTTGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.41, C:0.05, G:0.26, T:0.28
Consensus pattern (16 bp):
TAAGTGATAAGTGAAC
Found at i:77231043 original size:13 final size:13
Alignment explanation
Indices: 77231027--77231051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77231017 GGGAAAACGT
77231027 GAAAGAAAAAAGG
1 GAAAGAAAAAAGG
77231040 GAAAGAAAAAAG
1 GAAAGAAAAAAG
77231052 TCAAAAAATT
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAAGG
Found at i:77233774 original size:155 final size:155
Alignment explanation
Indices: 77233565--77233873 Score: 591
Period size: 155 Copynumber: 2.0 Consensus size: 155
77233555 GAATTATGAA
* *
77233565 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGGATTTTAGTGACTACTATGTG
1 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAGTGACTAATATGTG
77233630 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
66 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
77233695 TCAAAACTTAACTTAATGAATTTAC
131 TCAAAACTTAACTTAATGAATTTAC
77233720 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAGTGACTAATATGTG
1 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAGTGACTAATATGTG
*
77233785 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAACTA
66 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
77233850 TCAAAACTTAACTTAATGAATTTA
131 TCAAAACTTAACTTAATGAATTTA
77233874 ACAATTATCA
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 151 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (155 bp):
ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAGTGACTAATATGTG
GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
TCAAAACTTAACTTAATGAATTTAC
Found at i:77248660 original size:36 final size:36
Alignment explanation
Indices: 77248608--77248683 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
77248598 TCCCTGAGCT
*
77248608 CACAGTAGCTTCGATATCTATAAAACAATGAAAACA
1 CACAATAGCTTCGATATCTATAAAACAATGAAAACA
77248644 CACAATAGCTTCGATATCTATAAAACAATGAAAACA
1 CACAATAGCTTCGATATCTATAAAACAATGAAAACA
77248680 CACA
1 CACA
77248684 CAAAGTAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (36 bp):
CACAATAGCTTCGATATCTATAAAACAATGAAAACA
Found at i:77255395 original size:21 final size:20
Alignment explanation
Indices: 77255367--77255405 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
77255357 CAAAACTTGT
77255367 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
77255387 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
77255406 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:77257282 original size:43 final size:43
Alignment explanation
Indices: 77257119--77257285 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
77257109 TAGCTCATAA
* * * * * *
77257119 AATGCC-ATATCCCAGATATGGTCTTACATGTTATTAC-ATATC
1 AATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATA-C
* * * * *
77257161 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATC-GATTAAC
1 AATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAAT-AC
** *
77257204 GCTGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATAC
1 AATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATAC
* **
77257247 AATGCCAATGTCCCAGACATGGTCTTACTTGTAATCACA
1 AATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACA
77257286 TCTCGATAAC
Statistics
Matches: 98, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
42 5 0.05
43 90 0.92
44 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAATAC
Found at i:77259052 original size:30 final size:31
Alignment explanation
Indices: 77259018--77259094 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
77259008 ATGGTTAACC
* * *
77259018 TATCCCTTTTCGTAATTCGATAACCGAAG-T
1 TATCCCTTTTCATAATTCAATAACCAAAGCT
* * *
77259048 TATCCATTTTCATAGTTCAATAGCCAAAGCT
1 TATCCCTTTTCATAATTCAATAACCAAAGCT
77259079 T-TCCCTTTTCATAATT
1 TATCCCTTTTCATAATT
77259095 TTATGGTCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (31 bp):
TATCCCTTTTCATAATTCAATAACCAAAGCT
Found at i:77259174 original size:90 final size:90
Alignment explanation
Indices: 77259080--77259315 Score: 221
Period size: 90 Copynumber: 2.6 Consensus size: 90
77259070 GCCAAAGCTT
*** * * *
77259080 TCCCTTTTCATAATTTTATGGTCATCACCATCCCTTTTCATTGTTCGATGGTC-ATTA-CCATCT
1 TCCCTTTTCATAATTTTATGGTCATCACCATCCCTTTTCATAAATCGATAGCCGA--AGCCATCG
* *
77259143 CCTTTCATTGTTCGATGGCTGTCACCA
64 ACTTTCATAGTTCGATGGCTGTCACCA
* * * ** * * *
77259170 TCCCTTTTCATAATTTGATAGCCAAAACTATCCCTTTTCATAAATCGATAGCCGAAGCTATCGAT
1 TCCCTTTTCATAATTTTATGGTCATCACCATCCCTTTTCATAAATCGATAGCCGAAGCCATCGAC
* *
77259235 TTTCATAGTTTGATGGTTGTCACCA
66 TTTCATAGTTCGATGGCTGTCACCA
* * *
77259260 TCCCTTTTCAT--TGTTTATGGTCGTCACCATCCCTTTTCAT-AATTGATAGTCGAAGC
1 TCCCTTTTCATAAT-TTTATGGTCATCACCATCCCTTTTCATAAATCGATAGCCGAAGC
77259316 TATCCCTTTT
Statistics
Matches: 116, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
88 15 0.13
89 21 0.18
90 79 0.68
91 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (90 bp):
TCCCTTTTCATAATTTTATGGTCATCACCATCCCTTTTCATAAATCGATAGCCGAAGCCATCGAC
TTTCATAGTTCGATGGCTGTCACCA
Found at i:77259285 original size:29 final size:30
Alignment explanation
Indices: 77259080--77259300 Score: 144
Period size: 30 Copynumber: 7.4 Consensus size: 30
77259070 GCCAAAGCTT
* * *
77259080 TCCCTTTTCATAATTTTATGGTCATCACCA
1 TCCCTTTTCATAGTTTGATGGTCGTCACCA
* * * *
77259110 TCCCTTTTCATTGTTCGATGGTCATTACCA
1 TCCCTTTTCATAGTTTGATGGTCGTCACCA
* *
77259140 TCTCC-TTTCATTGTTCGATGG-CTGTCACCA
1 TC-CCTTTTCATAGTTTGATGGTC-GTCACCA
* * * *** *
77259170 TCCCTTTTCATAATTTGATAGCCAAAACTA
1 TCCCTTTTCATAGTTTGATGGTCGTCACCA
** * * * * *
77259200 TCCCTTTTCATAAATCGATAGCCG-AAGCTA
1 TCCCTTTTCATAGTTTGATGGTCGTCA-CCA
** *
77259230 TCGATTTTCATAGTTTGATGGTTGTCACCA
1 TCCCTTTTCATAGTTTGATGGTCGTCACCA
*
77259260 TCCCTTTTCATTGTTT-ATGGTCGTCACCA
1 TCCCTTTTCATAGTTTGATGGTCGTCACCA
77259289 TCCCTTTTCATA
1 TCCCTTTTCATA
77259301 ATTGATAGTC
Statistics
Matches: 152, Mismatches: 33, Indels: 13
0.77 0.17 0.07
Matches are distributed among these distances:
29 28 0.18
30 120 0.79
31 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATAGTTTGATGGTCGTCACCA
Found at i:77259320 original size:29 final size:28
Alignment explanation
Indices: 77259169--77259326 Score: 91
Period size: 30 Copynumber: 5.4 Consensus size: 28
77259159 GGCTGTCACC
* *
77259169 ATCCCTTTTCATAATTTGATAGCCAAAACT
1 ATCCCTTTTCATAA-TTGATAGTC-GAACT
* *
77259199 ATCCCTTTTCATAAATCGATAGCCGAAGCT
1 ATCCCTTTTCAT-AATTGATAGTCGAA-CT
** * * * * *
77259229 ATCGATTTTCATAGTTTGATGGTTGTCACC
1 ATCCCTTTTCATA-ATTGATAGTCG-AACT
** * * * *
77259259 ATCCCTTTTCATTGTTTATGGTCGTCACC
1 ATCCCTTTTCATAATTGATAGTCG-AACT
77259288 ATCCCTTTTCATAATTGATAGTCGAAGCT
1 ATCCCTTTTCATAATTGATAGTCGAA-CT
77259317 ATCCCTTTTC
1 ATCCCTTTTC
77259327 CTATTCGTTA
Statistics
Matches: 100, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 47 0.47
30 49 0.49
31 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (28 bp):
ATCCCTTTTCATAATTGATAGTCGAACT
Found at i:77282583 original size:23 final size:22
Alignment explanation
Indices: 77282531--77282583 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
77282521 TCCACATCTT
*
77282531 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
77282553 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
77282576 TTTCTTTT
1 TTTCTTTT
77282584 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:77287105 original size:56 final size:56
Alignment explanation
Indices: 77287017--77287130 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 56
77287007 TATTTCCTCT
** *
77287017 ATTTATTTTCCTGCCACTTTAGGTATGCAATCTAC-ATAAAGTATAATTGAACATGG
1 ATTTATTTTCCCACCACTTTAGGTATGAAATCT-CGATAAAGTATAATTGAACATGG
* * * *
77287073 ATTTATTTTCCCACCACTTTATGTTTGAAATCTCGATATAGTATCATTGAACATGG
1 ATTTATTTTCCCACCACTTTAGGTATGAAATCTCGATAAAGTATAATTGAACATGG
77287129 AT
1 AT
77287131 CATAGTCTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (56 bp):
ATTTATTTTCCCACCACTTTAGGTATGAAATCTCGATAAAGTATAATTGAACATGG
Found at i:77297528 original size:3 final size:3
Alignment explanation
Indices: 77297520--77297553 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
77297510 ATGAAAAAAT
77297520 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
77297554 CCAGAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:77297624 original size:41 final size:42
Alignment explanation
Indices: 77297577--77297655 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
77297567 ATATAATCAT
77297577 AGTATAAAAAA-AAT-AATAGTAGTAATAATAT-TAATAAAAAG
1 AGTATAAAAAATAATGAATA-TA-TAATAATATGTAATAAAAAG
*
77297618 AGTATAAAAAATAATGAATATATAGTAATATGTAATAA
1 AGTATAAAAAATAATGAATATATAATAATATGTAATAA
77297656 TTATGAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
41 19 0.56
42 11 0.32
43 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (42 bp):
AGTATAAAAAATAATGAATATATAATAATATGTAATAAAAAG
Found at i:77300861 original size:17 final size:17
Alignment explanation
Indices: 77300839--77300874 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
77300829 ATTAGATTAT
77300839 ATTTAAAATAA-ATTAAA
1 ATTTAAAA-AATATTAAA
77300856 ATTTAAAAAATATTAAA
1 ATTTAAAAAATATTAAA
77300873 AT
1 AT
77300875 AAACATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAAAATATTAAA
Found at i:77301608 original size:21 final size:21
Alignment explanation
Indices: 77301578--77301629 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
77301568 TAAAAGTTAT
77301578 CGATACTTTTTCTACAGGTAC
1 CGATACTTTTTCTACAGGTAC
* * *
77301599 CGATAATTTTTTTATAGGTAC
1 CGATACTTTTTCTACAGGTAC
77301620 CGATACTTTT
1 CGATACTTTT
77301630 AGCATTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (21 bp):
CGATACTTTTTCTACAGGTAC
Found at i:77301736 original size:21 final size:22
Alignment explanation
Indices: 77301703--77301745 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
77301693 TTGATACCTG
77301703 GTAAAAGGTATCGATACTTTTT
1 GTAAAAGGTATCGATACTTTTT
*
77301725 GTAAAA-GTATCGATATTTTTT
1 GTAAAAGGTATCGATACTTTTT
77301746 ATCCTGGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (22 bp):
GTAAAAGGTATCGATACTTTTT
Found at i:77304595 original size:25 final size:23
Alignment explanation
Indices: 77304550--77304596 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
77304540 TATTTTATTT
*
77304550 TGGGCTAATAATTTGCTTGTAAG
1 TGGGCTAATAATTGGCTTGTAAG
77304573 TGGGCTAGATAATTAGGCTTGTAA
1 TGGGCTA-ATAATT-GGCTTGTAA
77304597 CAGCGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (23 bp):
TGGGCTAATAATTGGCTTGTAAG
Found at i:77307800 original size:42 final size:42
Alignment explanation
Indices: 77307753--77307844 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
77307743 GGGCTCCCAT
*
77307753 GGCCGTGGGGCCAACCTGTGGGCAGA-TCTGACTTT-CTCACAC
1 GGCCGTGGGACCAACCTGTGGGCA-ATTCTGACTTTGC-CACAC
* *
77307795 GGCCGTAGGACTAACCTGTGGGCAATTCTGACTTTGCCACAC
1 GGCCGTGGGACCAACCTGTGGGCAATTCTGACTTTGCCACAC
77307837 GGCC-TGGG
1 GGCCGTGGG
77307845 CACACGCCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
41 4 0.09
42 39 0.89
43 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.32, T:0.22
Consensus pattern (42 bp):
GGCCGTGGGACCAACCTGTGGGCAATTCTGACTTTGCCACAC
Found at i:77309515 original size:21 final size:22
Alignment explanation
Indices: 77309447--77309510 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
77309437 CAATCATTTA
77309447 ATCAATTTAAATCAAAATTTTT
1 ATCAATTTAAATCAAAATTTTT
77309469 ATCAATTTAAATCAAAATTTTT
1 ATCAATTTAAATCAAAATTTTT
* *
77309491 ATCAATTAAAATCATAATTT
1 ATCAATTTAAATCAAAATTT
77309511 CATCATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (22 bp):
ATCAATTTAAATCAAAATTTTT
Found at i:77309921 original size:3 final size:3
Alignment explanation
Indices: 77309913--77309955 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
77309903 TTGATAAAAT
77309913 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
77309956 GTAAATAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:77310645 original size:188 final size:186
Alignment explanation
Indices: 77310307--77310745 Score: 551
Period size: 188 Copynumber: 2.3 Consensus size: 186
77310297 GGTCATTACA
* * * *
77310307 TTTTTAGTACTTTTGCTTACAGTGCATCCTGCTTGGAGCGTTTTGTCGTCTAGAAACCTCAAACC
1 TTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGGAGCGTTTT-TCCTCTAAAAACCTC-AACC
*
77310372 CCACTATCCAGGGTATTTTTCACAAACTTCATCCCGGGAATCCCGATATATTTTTTAGAACCATC
64 CCACTATCCAGGGTATTTTTCACAAACCTCATCCCGGGAATCCCGATATATTTTTTAGAACCATC
* * * **
77310437 TCATGAAATTTTTTTTCACAGAAGAAACAGTATTGAAAAGGGCATTTAATTGGAAGCG
129 TCATCAAATTTATTTTCACAGAAGAAACAGTACTGAAAAGGGCATCCAATTGGAAGCG
* * *
77310495 TTTTCAGTATTTTTACTAACAGTGCATCCTGCTTGGAACGTTTTTCCTCTAAAAACCTCAACCCC
1 TTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGGAGCGTTTTTCCTCTAAAAACCTCAACCCC
* * *
77310560 TACTATTCGGGGTATTTTTCACAAACCTCATCCTGGGAATCCCG-TGATATTTTTTTAGAACCAT
66 -ACTATCCAGGGTATTTTTCACAAACCTCATCCCGGGAATCCCGAT-ATA-TTTTTTAGAACCAT
* * ** * *
77310624 CTCGTCAAATTTATTTTCACAGAAGCATTAGTACTGAAAAGGGCGTCCAATTGGAAGTG
128 CTCATCAAATTTATTTTCACAGAAGAAACAGTACTGAAAAGGGCATCCAATTGGAAGCG
* * * * * *
77310683 TTTTCAGTACTTTTGCTGATAATACATTCTACTTGGAGCGTTTTT-CTCTACAAAA-CTCAACCC
1 TTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGGAGCGTTTTTCCTCTA-AAAACCTCAACCC
77310746 ATCTCGTCAA
Statistics
Matches: 216, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
186 7 0.03
187 68 0.31
188 141 0.65
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (186 bp):
TTTTCAGTACTTTTGCTAACAGTGCATCCTGCTTGGAGCGTTTTTCCTCTAAAAACCTCAACCCC
ACTATCCAGGGTATTTTTCACAAACCTCATCCCGGGAATCCCGATATATTTTTTAGAACCATCTC
ATCAAATTTATTTTCACAGAAGAAACAGTACTGAAAAGGGCATCCAATTGGAAGCG
Found at i:77310784 original size:29 final size:29
Alignment explanation
Indices: 77310741--77310806 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
77310731 TACAAAACTC
* *
77310741 AACCCATCTCGTCAAAACTATTTCTTCAG
1 AACCCATCCCCTCAAAACTATTTCTTCAG
* *
77310770 AACCCATCCCCTCAAAACTATTTTTTCAT
1 AACCCATCCCCTCAAAACTATTTCTTCAG
*
77310799 AATCCATC
1 AACCCATC
77310807 TATACAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.33, G:0.03, T:0.32
Consensus pattern (29 bp):
AACCCATCCCCTCAAAACTATTTCTTCAG
Found at i:77312068 original size:21 final size:21
Alignment explanation
Indices: 77312029--77312068 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77312019 ATTTAATCTC
*
77312029 TCTACTTTTTAGATTTATAAA
1 TCTACTTTTTAAATTTATAAA
77312050 TCTAC-TTTTAAATTATATA
1 TCTACTTTTTAAATT-TATA
77312069 TAACAACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCTACTTTTTAAATTTATAAA
Found at i:77315586 original size:41 final size:40
Alignment explanation
Indices: 77315524--77315905 Score: 453
Period size: 41 Copynumber: 9.3 Consensus size: 40
77315514 AGTCGTGAAA
*
77315524 TAGCGGCG-TTTTCGGAAAAACGCCGCCAAAAGTCTGAGAAT
1 TAGCGGCGTTTTTC--AAAAACGCCGCCAAAAGTCTGAGCAT
*
77315565 TAGCGGCGTTTTTCAAGAAACGCCGCCAAAAGTCTGAGAAT
1 TAGCGGCGTTTTTCAA-AAACGCCGCCAAAAGTCTGAGCAT
* * *
77315606 TCGCGGCATTTTTCCAAAAATGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTT-CAAAAACGCCGCCAAAAGTCTGAGCAT
* *
77315647 TAGCGGCATTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTT-CAAAAACGCCGCCAAAAGTCTGAGCAT
** * *
77315688 TAGCGGCGTTGTTGGAAAAGCGCCGCTAAAAGTCTGAGCAT
1 TAGCGGCGTT-TTTCAAAAACGCCGCCAAAAGTCTGAGCAT
** * * *
77315729 TAGCGGCGTTGTTGGAAAAACGCCGCTAAAAGTTTGAGAAT
1 TAGCGGCGTT-TTTCAAAAACGCCGCCAAAAGTCTGAGCAT
77315770 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAA-TACTGAGCAT
1 TAGCGGCGTTTTTC-AAAAACGCCGCCAAAAGT-CTGAGCAT
* **
77315811 TAGCAGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTT-CAAAAACGCCGCCAAAAGTCTGAGCAT
** *
77315852 TAGCGGCGCTTTTGGAAAAACGCCGCCGAAAGTCTGAGCAT
1 TAGCGGCG-TTTTTCAAAAACGCCGCCAAAAGTCTGAGCAT
77315893 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
77315906 TATTCGCGGC
Statistics
Matches: 304, Mismatches: 28, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
40 9 0.03
41 280 0.92
42 15 0.05
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
TAGCGGCGTTTTTCAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:77315640 original size:82 final size:81
Alignment explanation
Indices: 77315524--77315905 Score: 507
Period size: 82 Copynumber: 4.7 Consensus size: 81
77315514 AGTCGTGAAA
* *
77315524 TAGCGGCG-TTTTCGGAAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCGTTTTTCAAGAAACGC
1 TAGCGGCGTTTTTC-GAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGAA-AAACGC
77315588 CGCCAAAAGTCTGAGAAT
64 CGCCAAAAGTCTGAGAAT
* * * * *
77315606 TCGCGGCATTTTTCCAAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCATTTTTGGAAAAACGCC
1 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTT-GAAAAACGCC
*
77315671 GCCAAAAGTCTGAGCAT
65 GCCAAAAGTCTGAGAAT
* * * * *
77315688 TAGCGGCGTTGTTGGAAAAGCGCCGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGGAAAAACGCC
1 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTT-TTTGAAAAACGCC
* *
77315753 GCTAAAAGTTTGAGAAT
65 GCCAAAAGTCTGAGAAT
* *
77315770 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAA-TACTGAGCATTAGCAGCGTTTTTGGGAAAACGC
1 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAAGT-CTGAGCATTAGCGGCGTTTTT-GAAAAACGC
*
77315834 CGCCAAAAGTCTGAGCAT
64 CGCCAAAAGTCTGAGAAT
* * *
77315852 TAGCGGCGCTTTTGGAAAAACGCCGCCGAAAGTCTGAGCATTAGCGGCGTTTTT
1 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTT
77315906 TATTCGCGGC
Statistics
Matches: 259, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
81 3 0.01
82 246 0.95
83 10 0.04
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (81 bp):
TAGCGGCGTTTTTCGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGAAAAACGCCG
CCAAAAGTCTGAGAAT
Found at i:77315671 original size:123 final size:122
Alignment explanation
Indices: 77315524--77315905 Score: 507
Period size: 123 Copynumber: 3.1 Consensus size: 122
77315514 AGTCGTGAAA
* *
77315524 TAGCGGCGTTTTCGGAAAAACGCCGCCAAAAGTCTGAGAATTAGCGGCGTTTTTCAAGAAACGCC
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTT-AAGAAACGCC
* * * ** *
77315589 GCCAAAAGTCTGAGAATTCGCGGCATTTTTCCAAAAATGCCGCCAAAAGTCTGAGCAT
65 GCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
77315647 TAGCGGCATTTTTGGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTGTTGGAA-AAGCGC
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTT-TT-TAAGAAACGC
* * * * *
77315711 CGCTAAAAGTCTGAGCATTAGCGGCGTTGTTGGAAAAACGCCGCTAAAAGTTTGAGAAT
64 CGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * **
77315770 TAGCGGCGTTTTTCGAAAAACGCCGCCAAAA-TACTGAGCATTAGCAGCGTTTTTGGGAAAACGC
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGT-CTGAGCATTAGCGGCGTTTTTAAG-AAACGC
* *
77315834 CGCCAAAAGTCTGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCCGAAAGTCTGAGCAT
64 CGCCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
77315893 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
77315906 TATTCGCGGC
Statistics
Matches: 224, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
122 3 0.01
123 217 0.97
124 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (122 bp):
TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTAAGAAACGCCG
CCAAAAGTCTGAGCATTAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:77315942 original size:57 final size:57
Alignment explanation
Indices: 77315854--77315962 Score: 191
Period size: 57 Copynumber: 1.9 Consensus size: 57
77315844 CTGAGCATTA
* *
77315854 GCGGCGCTTTTGGAAAAACGCCGCCGAAAGTCTGAGCATTAGCGGCGTTTTTTATTC
1 GCGGCGCTTTTGGAAAAACGCCGCCAAAAGTCTAAGCATTAGCGGCGTTTTTTATTC
*
77315911 GCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTAAGCATTAGCGGCGTTTTT
1 GCGGCGCTTTTGGAAAAACGCCGCCAAAAGTCTAAGCATTAGCGGCGTTTTT
77315963 GGAGAAACGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (57 bp):
GCGGCGCTTTTGGAAAAACGCCGCCAAAAGTCTAAGCATTAGCGGCGTTTTTTATTC
Found at i:77317539 original size:22 final size:22
Alignment explanation
Indices: 77317509--77317585 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
77317499 TTTAGTATTA
77317509 AGAATTTAGGGTTTAAT-GTTT
1 AGAATTTAGGGTTTAATGGTTT
*
77317530 ATAATGTTAGGAGTTT-ATGGTTT
1 AGAAT-TTAGG-GTTTAATGGTTT
* *
77317553 AGAGTTTAGGGTTTAA-GATTT
1 AGAATTTAGGGTTTAATGGTTT
**
77317574 AGGGTTTAGGGT
1 AGAATTTAGGGT
77317586 CTGATTTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
21 23 0.49
22 13 0.28
23 11 0.23
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (22 bp):
AGAATTTAGGGTTTAATGGTTT
Found at i:77317559 original size:14 final size:14
Alignment explanation
Indices: 77317540--77317582 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
77317530 ATAATGTTAG
*
77317540 GAGTTTATGGTTTA
1 GAGTTTAGGGTTTA
77317554 GAGTTTAGGGTTTA
1 GAGTTTAGGGTTTA
77317568 -AGATTTAGGGTTTA
1 GAG-TTTAGGGTTTA
77317582 G
1 G
77317583 GGTCTGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 24 0.92
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GAGTTTAGGGTTTA
Found at i:77317583 original size:7 final size:7
Alignment explanation
Indices: 77317536--77317585 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
77317526 GTTTATAATG
77317536 TTAGGAGT
1 TTAGG-GT
*
77317544 TTATGGT
1 TTAGGGT
*
77317551 TTAGAGT
1 TTAGGGT
77317558 TTAGGGT
1 TTAGGGT
* *
77317565 TTAAGAT
1 TTAGGGT
77317572 TTAGGGT
1 TTAGGGT
77317579 TTAGGGT
1 TTAGGGT
77317586 CTGATTTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:77320985 original size:9 final size:9
Alignment explanation
Indices: 77320944--77321080 Score: 112
Period size: 9 Copynumber: 14.6 Consensus size: 9
77320934 ATTGATCATT
*
77320944 ACTTAAATA
1 ACTTACATA
*
77320953 AGTTACATA
1 ACTTACATA
* *
77320962 ACTCACGTA
1 ACTTACATA
77320971 ACTTACATA
1 ACTTACATA
*
77320980 ATTTACATAACA
1 ACTTACAT---A
*
77320992 ACCTACATA
1 ACTTACATA
77321001 ACTTACATA
1 ACTTACATA
77321010 ACTTACATA
1 ACTTACATA
* *
77321019 ATTTATATA
1 ACTTACATA
*
77321028 ACTCACATA
1 ACTTACATA
* *
77321037 ACGTATATAACA
1 AC-T-TA-CATA
77321049 ACTTACATA
1 ACTTACATA
*
77321058 ACTCACATA
1 ACTTACATA
77321067 ACTTACATA
1 ACTTACATA
77321076 ACTTA
1 ACTTA
77321081 ACTAATACAT
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
9 83 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:77321018 original size:57 final size:57
Alignment explanation
Indices: 77320944--77321078 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 57
77320934 ATTGATCATT
* * * * **
77320944 ACTTAAATAAGTTACATAACTCACGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
* * * * *
77321001 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
*
77321058 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
77321079 TAACTAATAC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
Found at i:77321036 original size:48 final size:48
Alignment explanation
Indices: 77320949--77321078 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
77320939 TCATTACTTA
* * * * *
77320949 AATAAGTTACATAACTCACGTAACTTACATAATTTACATAAC-AACCT
1 AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
* * * * *
77320996 ACATAACTTACATAACTTACATAATTTATATAACTCACATAACGTATAT
1 A-ATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
*
77321045 AACAACTTACATAACTCACATAACTTACATAACT
1 AATAACTTACATAACTCACATAACTTACATAACT
77321079 TAACTAATAC
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
47 1 0.01
48 63 0.94
49 3 0.04
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (48 bp):
AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
Found at i:77326703 original size:21 final size:21
Alignment explanation
Indices: 77326651--77326709 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
77326641 TCTAGCCGAT
77326651 GCAGCAGA-GAGGGAGGCAGCG
1 GCAGCA-ACGAGGGAGGCAGCG
* *
77326672 GCAGCAGCGAGGGAGGTAGCG
1 GCAGCAACGAGGGAGGCAGCG
*
77326693 GCAGCAACGAGAGAGGC
1 GCAGCAACGAGGGAGGC
77326710 GGAGCAGAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGCAACGAGGGAGGCAGCG
Found at i:77326708 original size:25 final size:21
Alignment explanation
Indices: 77326651--77326698 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
77326641 TCTAGCCGAT
77326651 GCAGCAGAGAGGGAGGCAGCG
1 GCAGCAGAGAGGGAGGCAGCG
* *
77326672 GCAGCAGCGAGGGAGGTAGCG
1 GCAGCAGAGAGGGAGGCAGCG
77326693 GCAGCA
1 GCAGCA
77326699 ACGAGAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.50, T:0.02
Consensus pattern (21 bp):
GCAGCAGAGAGGGAGGCAGCG
Found at i:77327308 original size:43 final size:42
Alignment explanation
Indices: 77327148--77327435 Score: 163
Period size: 43 Copynumber: 6.7 Consensus size: 42
77327138 GGCAAAAGCT
* * *
77327148 CCGCTAAAGGTCTGTACTTTTAGCGGCGCTTTG-CAAACAAACG
1 CCGCTAAAGGTATGTACTTTTAGCGGCG-TTTGTGATA-AAACG
* * * *** *
77327191 CCGCTAAAGGTCTGCACTTTTAGCTGCGCTTT-TCCCAGAAACA
1 CCGCTAAAGGTATGTACTTTTAGCGGCG-TTTGTGATA-AAACG
* * ** * * *
77327234 CCGCGAAAGGTCTACACCTTTAGTGGCGTTTGTGGGTAAAACG
1 CCGCTAAAGGTATGTACTTTTAGCGGCGTTTGT-GATAAAACG
* * *
77327277 CCGCTAAAGGTATGTACTTTTAGCGGTGTTTGTTTGCT-AAGCG
1 CCGCTAAAGGTATGTACTTTTAGCGGCGTTTG--TGATAAAACG
* * * * * **
77327320 CCGCTAAAGTTCTATACTATTAGCGGCGTTTATGATAAAGTG
1 CCGCTAAAGGTATGTACTTTTAGCGGCGTTTGTGATAAAACG
* * *
77327362 CCGCTAAAGGTATCTACTTTTAGCGGCGTTT-TCCGTTCAAACG
1 CCGCTAAAGGTATGTACTTTTAGCGGCGTTTGT--GATAAAACG
* *
77327405 CCGCTAAAAGTGATG-ACTTTTAGTGGCGTTT
1 CCGCTAAAGGT-ATGTACTTTTAGCGGCGTTT
77327436 TTTTCACATA
Statistics
Matches: 193, Mismatches: 43, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
41 4 0.02
42 34 0.18
43 149 0.77
44 5 0.03
45 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (42 bp):
CCGCTAAAGGTATGTACTTTTAGCGGCGTTTGTGATAAAACG
Found at i:77327385 original size:42 final size:41
Alignment explanation
Indices: 77327275--77327392 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 41
77327265 GTGGGTAAAA
* * * *
77327275 CGCCGCTAAAGGTATGTACTTTTAGCGGTGTTTGTTTGCTAAG
1 CGCCGCTAAAGGTATATACTTTTAGCGGCG-TT-TATGATAAG
* * *
77327318 CGCCGCTAAAGTTCTATACTATTAGCGGCGTTTATGATAAAG
1 CGCCGCTAAAGGTATATACTTTTAGCGGCGTTTATGAT-AAG
* *
77327360 TGCCGCTAAAGGTATCTACTTTTAGCGGCGTTT
1 CGCCGCTAAAGGTATATACTTTTAGCGGCGTTT
77327393 TCCGTTCAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
41 4 0.06
42 33 0.53
43 25 0.40
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (41 bp):
CGCCGCTAAAGGTATATACTTTTAGCGGCGTTTATGATAAG
Found at i:77327433 original size:85 final size:86
Alignment explanation
Indices: 77327186--77327435 Score: 199
Period size: 85 Copynumber: 2.9 Consensus size: 86
77327176 CTTTGCAAAC
* * * * * * *
77327186 AAACGCCGCTAAAGGTCTGC-ACTTTTAGCTGCGCTTT-TCC-CAGAAACACCGCGAAAGGTCTA
1 AAACGCCGCTAAAGGTAT-CTACTTTTAGCGGCG-TTTGTCCGC-TAAACGCCGCTAAAGTTCGA
* * * *
77327248 CACCTTTAGTGGCGTTTGTGGGTA
63 TACTTTTAGTGGCGTTTATGGATA
* * ** * *
77327272 AAACGCCGCTAAAGGTATGTACTTTTAGCGGTGTTTGTTTGCTAAGCGCCGCTAAAGTTCTATAC
1 AAACGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTGTCCGCTAAACGCCGCTAAAGTTCGATAC
* *
77327337 TATTAGCGGCGTTTAT-GATA
66 TTTTAGTGGCGTTTATGGATA
** *
77327357 AAGTGCCGCTAAAGGTATCTACTTTTAGCGGCGTTT-TCCGTTCAAACGCCGCTAAAAG-T-GAT
1 AAACGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTGTCCGCT-AAACGCCGCT-AAAGTTCGAT
77327419 GACTTTTAGTGGCGTTT
64 -ACTTTTAGTGGCGTTT
77327436 TTTTCACATA
Statistics
Matches: 130, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
84 5 0.04
85 62 0.48
86 62 0.48
87 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTGTCCGCTAAACGCCGCTAAAGTTCGATAC
TTTTAGTGGCGTTTATGGATA
Found at i:77328375 original size:18 final size:18
Alignment explanation
Indices: 77328337--77328375 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
77328327 ATGAAGCATT
**
77328337 AAATTTTAAAATTAATCA
1 AAATTTTAAAATTAAGAA
*
77328355 AAATTTTTAAATTAAGAA
1 AAATTTTAAAATTAAGAA
77328373 AAA
1 AAA
77328376 AAGGCAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
AAATTTTAAAATTAAGAA
Found at i:77330390 original size:25 final size:23
Alignment explanation
Indices: 77330338--77330392 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
77330328 TATAAATAGT
77330338 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
77330361 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
77330386 AATAGTG
1 AATAGTG
77330393 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:77330473 original size:22 final size:22
Alignment explanation
Indices: 77330448--77330522 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
77330438 TATGAAATAG
*
77330448 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
77330470 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
77330495 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
77330517 AGATAA
1 ATATAA
77330523 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:77330492 original size:25 final size:25
Alignment explanation
Indices: 77330454--77330661 Score: 110
Period size: 25 Copynumber: 8.4 Consensus size: 25
77330444 ATAGATATAA
* *
77330454 AAAAAATATGTACATAATATAGTGT
1 AAAAAATATATACATAATATAGTAT
*
77330479 AAAAAATACATACATAATATA--AT
1 AAAAAATATATACATAATATAGTAT
* * *
77330502 -TAAAATATATACATAAGATAACATGTAGA
1 AAAAAATATATACAT-A-AT-ATA-GTA-T
* *
77330531 AAAAAAAATATAAATAATATAGTAT
1 AAAAAATATATACATAATATAGTAT
* * *
77330556 TAAAGATATATACATAAAATAGTAT
1 AAAAAATATATACATAATATAGTAT
* * * *
77330581 AATATATATATACGTAATATAGAAT
1 AAAAAATATATACATAATATAGTAT
** * *
77330606 -TTAGA-ATATACCTAATATA-T-T
1 AAAAAATATATACATAATATAGTAT
*
77330627 AAAAGAATATAT--ATAATATAATATT
1 AAAA-AATATATACATAATATAGTA-T
77330652 AAAAAATATA
1 AAAAAATATA
77330662 ATAATAACAA
Statistics
Matches: 138, Mismatches: 31, Indels: 29
0.70 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 20 0.14
23 17 0.12
24 15 0.11
25 65 0.47
26 3 0.02
27 2 0.01
28 3 0.02
29 1 0.01
30 11 0.08
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (25 bp):
AAAAAATATATACATAATATAGTAT
Found at i:77331183 original size:30 final size:30
Alignment explanation
Indices: 77331147--77331270 Score: 202
Period size: 30 Copynumber: 4.3 Consensus size: 30
77331137 AGGTACAAGT
*
77331147 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
77331177 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
77331207 ---GGT-GAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
77331233 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
77331263 GGTGGTGG
1 GGTGGTGG
77331271 CAAAGGCTAG
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
26 23 0.26
27 3 0.03
29 3 0.03
30 59 0.67
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:77331230 original size:56 final size:56
Alignment explanation
Indices: 77331154--77331266 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
77331144 AGTGGTGGTG
77331154 GAGCAAGTGTGGCTAATGGAGTAGGTGGTGGAGCAAGTGTGGCTAGTGGAGTAGGT
1 GAGCAAGTGTGGCTAATGGAGTAGGTGGTGGAGCAAGTGTGGCTAGTGGAGTAGGT
* *
77331210 GAGCAAGTGTGGCTAGTGGAGTAGGTGGTGGAGCAAGTGTGGCTAGTGGAGTTGGT
1 GAGCAAGTGTGGCTAATGGAGTAGGTGGTGGAGCAAGTGTGGCTAGTGGAGTAGGT
77331266 G
1 G
77331267 GTGGCAAAGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.21, C:0.07, G:0.48, T:0.24
Consensus pattern (56 bp):
GAGCAAGTGTGGCTAATGGAGTAGGTGGTGGAGCAAGTGTGGCTAGTGGAGTAGGT
Found at i:77332603 original size:13 final size:13
Alignment explanation
Indices: 77332587--77332658 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
77332577 TAAACTTTTT
77332587 AAAAGTACTTCTC
1 AAAAGTACTTCTC
* *
77332600 AAAA-TAATTTTTC
1 AAAAGT-ACTTCTC
77332613 AAAAGTACTTCTC
1 AAAAGTACTTCTC
*
77332626 AAAA-TAACTTTTC
1 AAAAGT-ACTTCTC
* * *
77332639 CACAGCACTTCTC
1 AAAAGTACTTCTC
77332652 AAAAGTA
1 AAAAGTA
77332659 ATGCTAAATT
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
12 2 0.05
13 40 0.93
14 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (13 bp):
AAAAGTACTTCTC
Found at i:77332616 original size:26 final size:26
Alignment explanation
Indices: 77332582--77332660 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
77332572 TAAACTAAAC
77332582 TTTTT-AAAAGTACTTCTCAAAATAA
1 TTTTTCAAAAGTACTTCTCAAAATAA
77332607 TTTTTCAAAAGTACTTCTCAAAATAA
1 TTTTTCAAAAGTACTTCTCAAAATAA
* * * *
77332633 CTTTTCCACAGCACTTCTCAAAAGTAA
1 TTTTTCAAAAGTACTTCTCAAAA-TAA
77332660 T
1 T
77332661 GCTAAATTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 5 0.11
26 39 0.83
27 3 0.06
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (26 bp):
TTTTTCAAAAGTACTTCTCAAAATAA
Found at i:77334121 original size:12 final size:12
Alignment explanation
Indices: 77334104--77334137 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
77334094 TTCCATTTAA
77334104 AATAGTAAAAAT
1 AATAGTAAAAAT
77334116 AATAGTAAAAAT
1 AATAGTAAAAAT
77334128 AATAGTAAAA
1 AATAGTAAAA
77334138 GGGAAGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:77335065 original size:10 final size:10
Alignment explanation
Indices: 77335046--77335105 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
77335036 TGAAATTCTA
77335046 AAAGATAAAT
1 AAAGATAAAT
77335056 ACAA-ATAAAT
1 A-AAGATAAAT
*
77335066 AAAGATAATT
1 AAAGATAAAT
77335076 AAAGATAAAT
1 AAAGATAAAT
77335086 AAAGATAAAT
1 AAAGATAAAT
77335096 GAAA-ATAAAT
1 -AAAGATAAAT
77335106 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77336692 original size:14 final size:14
Alignment explanation
Indices: 77336661--77336736 Score: 88
Period size: 14 Copynumber: 5.5 Consensus size: 14
77336651 AATAATAGAT
77336661 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
77336674 GATAAAATAAATAA
1 AATAAAATAAATAA
77336688 AATAAAATAAA-ATA
1 AATAAAATAAATA-A
77336702 AATAAAATAAAATAA
1 AATAAAAT-AAATAA
77336717 AATAAAA-ATAA-AA
1 AATAAAATA-AATAA
77336730 AATAAAA
1 AATAAAA
77336737 AATAGGTTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
13 18 0.32
14 26 0.46
15 11 0.20
16 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.20
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:77336736 original size:5 final size:5
Alignment explanation
Indices: 77336661--77336729 Score: 92
Period size: 5 Copynumber: 14.4 Consensus size: 5
77336651 AATAATAGAT
*
77336661 AATAA AAT-- AATAA GATAA AAT-A AATAA AATAA AATAA AAT-A AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
77336707 AATAA AATAA AATAAA AATAA AA
1 AATAA AATAA AAT-AA AATAA AA
77336730 AATAAAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
3 3 0.05
4 8 0.14
5 41 0.72
6 5 0.09
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:77336737 original size:19 final size:19
Alignment explanation
Indices: 77336669--77336736 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
77336659 ATAATAAAAT
*
77336669 AATAAGATAAAATAAATAA
1 AATAAAATAAAATAAATAA
77336688 AATAAAATAAAATAAATAA
1 AATAAAATAAAATAAATAA
77336707 AATAAAATAAAATAAA-AA
1 AATAAAATAAAATAAATAA
77336725 TAA-AAAATAAAA
1 -AATAAAATAAAA
77336737 AATAGGTTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
18 11 0.23
19 36 0.77
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (19 bp):
AATAAAATAAAATAAATAA
Found at i:77336739 original size:14 final size:14
Alignment explanation
Indices: 77336649--77336740 Score: 57
Period size: 14 Copynumber: 6.4 Consensus size: 14
77336639 TTAATATATG
* *
77336649 AAAATAATAGATAA
1 AAAATAAAAAATAA
*
77336663 TAAAATAATAAGATAA
1 -AAAATAA-AAAATAA
*
77336679 AATAA-ATAAAATAA
1 AA-AATAAAAAATAA
*
77336693 AATAA-AATAAATAA
1 AA-AATAAAAAATAA
77336707 AATAA-AATAAAAT-A
1 AA-AATAA-AAAATAA
77336721 AAAATAAAAAATAA
1 AAAATAAAAAATAA
77336735 AAAATA
1 AAAATA
77336741 GGTTGCCTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
13 7 0.11
14 37 0.56
15 14 0.21
16 8 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:77342161 original size:12 final size:12
Alignment explanation
Indices: 77342144--77342176 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
77342134 TTCCCTGTAA
77342144 AATAGTAAAAAT
1 AATAGTAAAAAT
77342156 AATAGTAAAAAT
1 AATAGTAAAAAT
77342168 AATAGTAAA
1 AATAGTAAA
77342177 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:77343104 original size:10 final size:10
Alignment explanation
Indices: 77343085--77343144 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
77343075 TGAAATTCTA
77343085 AAAGATAAAT
1 AAAGATAAAT
77343095 ACAA-ATAAAT
1 A-AAGATAAAT
*
77343105 AAAGATAATT
1 AAAGATAAAT
77343115 AAAGATAAAT
1 AAAGATAAAT
77343125 AAAGATAAAT
1 AAAGATAAAT
77343135 GAAA-ATAAAT
1 -AAAGATAAAT
77343145 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:77357072 original size:44 final size:43
Alignment explanation
Indices: 77356959--77357206 Score: 167
Period size: 44 Copynumber: 5.6 Consensus size: 43
77356949 GGCTTCGATT
* * * ** *
77356959 GCTCCACTGCAACTTCAGGGAGACAAGATCTGCTATTTTCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGAT-TGCTACTTT-AACCC
*
77357004 GCTCCACTACAACTT-AGGGAGATAATACTTGCTACTTTAACCC
1 GCTCCACTACAACTTCAGGGAGATAAGA-TTGCTACTTTAACCC
* * * * ** * *
77357047 GCTCTACTGCAACTTCAGAGAGATAAGGATTG-TGGCTTCGATCT
1 GCTCCACTACAACTTCAGGGAGATAA-GATTGCT-ACTTTAACCC
** ** ** *
77357091 TTTCCACTGTAACTTCAGGGAGATAAGATCTGCTACTTTCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGAT-TGCTACTTT-AACCC
* *
77357136 ACTCCACTACATCTTCAGGGAGATAAGACTTGCTACTTTAACCC
1 GCTCCACTACAACTTCAGGGAGATAAGA-TTGCTACTTTAACCC
* * *
77357180 GCTCTACTATAACTTCAGAGAGATAAG
1 GCTCCACTACAACTTCAGGGAGATAAG
77357207 GTTTGCTAAG
Statistics
Matches: 157, Mismatches: 38, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
43 19 0.12
44 85 0.54
45 52 0.33
46 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
GCTCCACTACAACTTCAGGGAGATAAGATTGCTACTTTAACCC
Found at i:77357170 original size:45 final size:44
Alignment explanation
Indices: 77356958--77357174 Score: 192
Period size: 44 Copynumber: 4.9 Consensus size: 44
77356948 TGGCTTCGAT
* *
77356958 TGCTCCACTGCAACTTCAGGGAGACAAGATCTGCTATTTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTACTTTCAGTC
* * **
77357003 TGCTCCACTACAACTT-AGGGAGATAATACTTGCTACTTT-AACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTACTTTCAGTC
* * * *
77357046 CGCTCTACTGCAACTTCAGAGAGATAAGGATTG-TGGC-TTC-GATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGCT-ACTTTCAG-TC
** *
77357090 TTTTCCACTGTAACTTCAGGGAGATAAGATCTGCTACTTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTACTTTCAGTC
* * *
77357135 TACTCCACTACATCTTCAGGGAGATAAGACTTGCTACTTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTACTTT
77357175 AACCCGCTCT
Statistics
Matches: 135, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
43 21 0.16
44 56 0.41
45 56 0.41
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGCTACTTTCAGTC
Found at i:77357199 original size:133 final size:131
Alignment explanation
Indices: 77356816--77357207 Score: 498
Period size: 133 Copynumber: 2.9 Consensus size: 131
77356806 AGATTTTTAA
* * * * *
77356816 CTTCGATCTACTCCGCTGGAACTTTAGGGAGAATAGATCTGCTAATTTCAGTTTGCTCCACTGCA
1 CTTCGATCTACTCCACTGCAACTTCAGGGAGAA-AGATCTGCTAATTTCAGTCTGCTCCACTACA
* * * * * * * *
77356881 ACTTTAGGGATATTAGACTTGGGTAATTTTATCCTGCTTTATTGTAACTTCAGAGAGATAAGGAT
65 AC-TTAGGGAGATAAGACTT-GCT-ACTTTAACCCGCTCTACTGTAACTTCAGAGAGATAAGGAT
77356946 TGTGG
127 TGTGG
* *
77356951 CTTCGAT-TGCTCCACTGCAACTTCAGGGAGACAAGATCTGCTATTTTCAGTCTGCTCCACTACA
1 CTTCGATCTACTCCACTGCAACTTCAGGGAGA-AAGATCTGCTAATTTCAGTCTGCTCCACTACA
* *
77357015 ACTTAGGGAGATAATACTTGCTACTTTAACCCGCTCTACTGCAACTTCAGAGAGATAAGGATTGT
65 ACTTAGGGAGATAAGACTTGCTACTTTAACCCGCTCTACTGTAACTTCAGAGAGATAAGGATTGT
77357080 GG
130 GG
** * * *
77357082 CTTCGATCTTTTCCACTGTAACTTCAGGGAGATAAGATCTGCTACTTTCAGTCTACTCCACTACA
1 CTTCGATCTACTCCACTGCAACTTCAGGGAGA-AAGATCTGCTAATTTCAGTCTGCTCCACTACA
* *
77357147 TCTTCAGGGAGATAAGACTTGCTACTTTAACCCGCTCTACTATAACTTCAGAGAGATAAGG
65 ACTT-AGGGAGATAAGACTTGCTACTTTAACCCGCTCTACTGTAACTTCAGAGAGATAAGG
77357208 TTTGCTAAGA
Statistics
Matches: 227, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
131 46 0.20
132 56 0.25
133 67 0.30
134 50 0.22
135 8 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (131 bp):
CTTCGATCTACTCCACTGCAACTTCAGGGAGAAAGATCTGCTAATTTCAGTCTGCTCCACTACAA
CTTAGGGAGATAAGACTTGCTACTTTAACCCGCTCTACTGTAACTTCAGAGAGATAAGGATTGTG
G
Found at i:77362866 original size:19 final size:19
Alignment explanation
Indices: 77362842--77362880 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
77362832 GCATTTATCG
77362842 TTATCAACCGACCCTCTGA
1 TTATCAACCGACCCTCTGA
*
77362861 TTATCAACCGACTCTCTGA
1 TTATCAACCGACCCTCTGA
77362880 T
1 T
77362881 ACTAACTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (19 bp):
TTATCAACCGACCCTCTGA
Found at i:77372940 original size:11 final size:11
Alignment explanation
Indices: 77372926--77372967 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
77372916 TAAATATTAC
77372926 TTTATTAATAT
1 TTTATTAATAT
*
77372937 TTTAATGAGATAT
1 TTT-ATTA-ATAT
77372950 TTTATTAATAT
1 TTTATTAATAT
77372961 TTTATTA
1 TTTATTA
77372968 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:77374030 original size:44 final size:44
Alignment explanation
Indices: 77373974--77374062 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
77373964 CTCACGATAT
77373974 AAATAATTTAGTGACTATGACTTAAGTGGACAGCTTTGATATAA
1 AAATAATTTAGTGACTATGACTTAAGTGGACAGCTTTGATATAA
* *
77374018 AAATAATTTAGTGACTATGACTTAAGTTGATAGCTTTGATATAA
1 AAATAATTTAGTGACTATGACTTAAGTGGACAGCTTTGATATAA
77374062 A
1 A
77374063 CATATAAGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (44 bp):
AAATAATTTAGTGACTATGACTTAAGTGGACAGCTTTGATATAA
Found at i:77379685 original size:201 final size:201
Alignment explanation
Indices: 77379340--77379738 Score: 755
Period size: 201 Copynumber: 2.0 Consensus size: 201
77379330 AGAGTTATGA
* *
77379340 TGTATCTTCAGAGAATAAAATATTACATGCTCACATATTGGAGGTTTGATAAGTTAAAGATATCA
1 TGTATCTTCAGAGAATAAAATATTACATGCTCACATATTGGAGGTCTGATAAATTAAAGATATCA
77379405 AGTATACAAACTTCGATTTTGATGGAATATGGATTCAAGATTTTGTCACTAAGGTGTAAATTGTG
66 AGTATACAAACTTCGATTTTGATGGAATATGGATTCAAGATTTTGTCACTAAGGTGTAAATTGTG
77379470 GAAACAAATTACAGCCTTTTATTCCAATAAATATAGGAGCACATCAAAGTCAAAGCACATAGACT
131 GAAACAAATTACAGCCTTTTATTCCAATAAATATAGGAGCACATCAAAGTCAAAGCACATAGACT
77379535 TTAAAT
196 TTAAAT
*
77379541 TGTATCTTCAGAGAATAAAATATTACATGCTCACATATTGGAGGTCTGATAAATTAAAGATAT-T
1 TGTATCTTCAGAGAATAAAATATTACATGCTCACATATTGGAGGTCTGATAAATTAAAGATATCA
77379605 AGATATACAAACTTCGATTTTGATGGAATATGGATTCAAGATTTTGTCACTAAGGTGTAAATTGT
66 AG-TATACAAACTTCGATTTTGATGGAATATGGATTCAAGATTTTGTCACTAAGGTGTAAATTGT
77379670 GGAAACAAATTACAGCCTTTTATTCCAATAAATATAGGAGCACATCAAAGTCAAAGCACATAGAC
130 GGAAACAAATTACAGCCTTTTATTCCAATAAATATAGGAGCACATCAAAGTCAAAGCACATAGAC
77379735 TTTA
195 TTTA
77379739 CATTCTTGGT
Statistics
Matches: 194, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
200 2 0.01
201 192 0.99
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (201 bp):
TGTATCTTCAGAGAATAAAATATTACATGCTCACATATTGGAGGTCTGATAAATTAAAGATATCA
AGTATACAAACTTCGATTTTGATGGAATATGGATTCAAGATTTTGTCACTAAGGTGTAAATTGTG
GAAACAAATTACAGCCTTTTATTCCAATAAATATAGGAGCACATCAAAGTCAAAGCACATAGACT
TTAAAT
Found at i:77382600 original size:12 final size:12
Alignment explanation
Indices: 77382583--77382608 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77382573 AAAACAGGTC
77382583 TTTAGCGGCGTT
1 TTTAGCGGCGTT
77382595 TTTAGCGGCGTT
1 TTTAGCGGCGTT
77382607 TT
1 TT
77382609 CTCAAAAAAG
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:77382737 original size:41 final size:41
Alignment explanation
Indices: 77382663--77382882 Score: 370
Period size: 41 Copynumber: 5.4 Consensus size: 41
77382653 TGTTTTACCA
* * * *
77382663 AAAACACCGCTAAAAA-CAGAGCAATAGCAGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
77382703 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
**
77382744 AAAACGCCGCTAAAAATTGGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
*
77382785 AAAGCGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
77382826 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
77382867 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
77382883 GTTTAGGGTT
Statistics
Matches: 169, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 15 0.09
41 154 0.91
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
Found at i:77382980 original size:21 final size:21
Alignment explanation
Indices: 77382956--77383003 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
77382946 GGTTTATGTA
77382956 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAAGGGTTAGGGG
*
77382976 TTTATGATTTAAGGGTTAGGGG
1 -TTATGGTTTAAGGGTTAGGGG
77382998 TTATGG
1 TTATGG
77383004 GGTTAATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGGG
Found at i:77383257 original size:21 final size:21
Alignment explanation
Indices: 77383231--77383274 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
77383221 TTATGGTTAG
* *
77383231 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
77383252 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
77383273 GG
1 GG
77383275 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:77383609 original size:15 final size:15
Alignment explanation
Indices: 77383589--77383637 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
77383579 TTCCCCGATT
77383589 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
*
77383604 TCCCCCAA---ATT-
1 TCCCCCAACTTCTTC
77383615 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
77383630 TCCCCCAA
1 TCCCCCAA
77383638 AATTTTTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
14 2 0.07
15 16 0.57
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (15 bp):
TCCCCCAACTTCTTC
Found at i:77383621 original size:26 final size:26
Alignment explanation
Indices: 77383586--77383638 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
77383576 AATTTCCCCG
77383586 ATTTCCCCCAACTTCTTCTCCCCCAA
1 ATTTCCCCCAACTTCTTCTCCCCCAA
77383612 ATTTCCCCCAACTTCTTCTCCCCCAA
1 ATTTCCCCCAACTTCTTCTCCCCCAA
77383638 A
1 A
77383639 ATTTTTACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (26 bp):
ATTTCCCCCAACTTCTTCTCCCCCAA
Found at i:77386867 original size:183 final size:183
Alignment explanation
Indices: 77386559--77387110 Score: 1014
Period size: 183 Copynumber: 3.0 Consensus size: 183
77386549 GATATAGTTC
* * * *
77386559 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
*
77386624 ACTATTGGTTCAACTGAAGCTGCCATTTAATATTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
77386689 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
*
77386742 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTACTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
*
77386807 ACTATTGGTTCAACTAAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
77386872 GTTTTTATATTTGCTTGAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
*
77386925 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTACA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
77386990 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
77387055 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
77387108 CAT
1 CAT
77387111 CTGTTCTAGG
Statistics
Matches: 356, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 356 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (183 bp):
CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:77387883 original size:40 final size:39
Alignment explanation
Indices: 77387830--77387965 Score: 117
Period size: 40 Copynumber: 3.6 Consensus size: 39
77387820 TTATATTCAA
*
77387830 ATTACTATT-TTTTTATATTAATAATGTTTGATTTTAAT
1 ATTACGATTCTTTTTATATTAATAATGTTTGATTTTAAT
* * * *
77387868 ATTTACGATTCTTTTTTTA-T-ATTAT-TAT-A-TTCAA-
1 A-TTACGATTCTTTTTATATTAATAATGTTTGATTTTAAT
* * *
77387902 ATTACTATTTTTTTTATATTAATAATGTTTGATTTT-TT
1 ATTACGATTCTTTTTATATTAATAATGTTTGATTTTAAT
77387940 ATTACGATTCTTTTTTTATATTAATA
1 ATTACGATTC--TTTTTATATTAATA
77387966 TGTACTTAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
33 14 0.19
34 2 0.03
35 8 0.11
36 3 0.04
37 3 0.04
38 15 0.20
39 8 0.11
40 21 0.28
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (39 bp):
ATTACGATTCTTTTTATATTAATAATGTTTGATTTTAAT
Found at i:77387917 original size:31 final size:31
Alignment explanation
Indices: 77387807--77387922 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
77387797 ACTACGATTC
77387807 TTTTTTTATATTATTATATTCAAATTACTAT
1 TTTTTTTATATTATTATATTCAAATTACTAT
* * * *
77387838 TTTTTTATATTAATAATGTTTGATTTTAATATTTACGATT
1 TTTTTT-TA-T-ATTAT-TAT-A-TTCAA-A-TTACTA-T
77387878 CTTTTTTTATATTATTATATTCAAATTACTAT
1 -TTTTTTTATATTATTATATTCAAATTACTAT
77387910 TTTTTTTATATTA
1 TTTTTTTATATTA
77387923 ATAATGTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
31 19 0.28
32 3 0.04
33 6 0.09
34 5 0.07
35 6 0.09
36 2 0.03
37 6 0.09
38 5 0.07
39 6 0.09
40 3 0.04
41 6 0.09
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTTTTATATTATTATATTCAAATTACTAT
Found at i:77387952 original size:71 final size:72
Alignment explanation
Indices: 77387799--77387962 Score: 296
Period size: 72 Copynumber: 2.3 Consensus size: 72
77387789 AAAATTAAAC
77387799 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
1 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
77387864 TAATATT
66 TAATATT
77387871 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTTATATTAATAATGTTTGATT
1 TACGATTCTTTTTTTATATTATTATATTCAAATTACTA-TTTTTTTATATTAATAATGTTTGATT
*
77387936 TT-TTA-T
65 TTAATATT
77387942 TACGATTCTTTTTTTATATTA
1 TACGATTCTTTTTTTATATTA
77387963 ATATGTACTT
Statistics
Matches: 90, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
71 22 0.24
72 40 0.44
73 28 0.31
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (72 bp):
TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
TAATATT
Found at i:77388108 original size:15 final size:15
Alignment explanation
Indices: 77388090--77388119 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
77388080 ATAATTTTTA
77388090 TAAATATTATTTAAT
1 TAAATATTATTTAAT
77388105 TAAATATTATTTAAT
1 TAAATATTATTTAAT
77388120 CCCGCTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATATTATTTAAT
Found at i:77388264 original size:9 final size:9
Alignment explanation
Indices: 77388225--77388618 Score: 126
Period size: 9 Copynumber: 43.4 Consensus size: 9
77388215 ATTTGATATC
*
77388225 ATAATTTAT
1 ATAACTTAT
*
77388234 ATAACTTAC
1 ATAACTTAT
* * *
77388243 AAAACGTAC
1 ATAACTTAT
77388252 ATAACTTAT
1 ATAACTTAT
*
77388261 ATAACTTAG
1 ATAACTTAT
*
77388270 ATAA-ATAT
1 ATAACTTAT
*
77388278 ATAACTTAC
1 ATAACTTAT
*
77388287 ATAACTTAC
1 ATAACTTAT
77388296 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
77388309 ATATTTTATAT
1 ATA-ACT-TAT
* *
77388320 CATAATTTAC
1 -ATAACTTAT
*
77388330 ATAACTTAC
1 ATAACTTAT
77388339 ATAACTTAT
1 ATAACTTAT
*
77388348 ATAACTTAG
1 ATAACTTAT
*
77388357 ATAA-ATAT
1 ATAACTTAT
* *
77388365 ATAATTTAC
1 ATAACTTAT
*
77388374 ATAAATATAT
1 ATAACT-TAT
* *
77388384 ATATCATAT
1 ATAACTTAT
*
77388393 CATAACTTAC
1 -ATAACTTAT
*
77388403 ATAACTTAC
1 ATAACTTAT
*
77388412 ATAAATATAT
1 ATAACT-TAT
* *
77388422 TTGA--TAT
1 ATAACTTAT
*
77388429 CATAATTTAT
1 -ATAACTTAT
*
77388439 ATAACTTAC
1 ATAACTTAT
* * *
77388448 AAAACGTAC
1 ATAACTTAT
77388457 ATAACTTAT
1 ATAACTTAT
*
77388466 ATAACTTAG
1 ATAACTTAT
*
77388475 ATAA-ATAT
1 ATAACTTAT
*
77388483 ATAACTTAC
1 ATAACTTAT
*
77388492 ATAACTTAC
1 ATAACTTAT
77388501 ATAA--TAT
1 ATAACTTAT
* *
77388508 TTAA-ATAT
1 ATAACTTAT
**
77388516 AT-TTTATAT
1 ATAACT-TAT
* *
77388525 CATAATTTAC
1 -ATAACTTAT
*
77388535 ATAACTTAC
1 ATAACTTAT
77388544 ATAACTTAT
1 ATAACTTAT
*
77388553 ATAACTTAG
1 ATAACTTAT
*
77388562 ATAA-ATAT
1 ATAACTTAT
* *
77388570 ATAATTTAC
1 ATAACTTAT
*
77388579 ATAA-ATAT
1 ATAACTTAT
* *
77388587 ATATCATAT
1 ATAACTTAT
*
77388596 CATAACTTAC
1 -ATAACTTAT
*
77388606 ATAACTTAC
1 ATAACTTAT
77388615 ATAA
1 ATAA
77388619 TACTTAAATA
Statistics
Matches: 292, Mismatches: 70, Indels: 46
0.72 0.17 0.11
Matches are distributed among these distances:
7 8 0.03
8 35 0.12
9 198 0.68
10 31 0.11
11 10 0.03
12 6 0.02
13 4 0.01
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (9 bp):
ATAACTTAT
Found at i:77388435 original size:109 final size:104
Alignment explanation
Indices: 77388258--77388618 Score: 423
Period size: 109 Copynumber: 3.5 Consensus size: 104
77388248 GTACATAACT
* * * *
77388258 TATATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCAT
1 TATATAACTTACATAAATATATAACATACATAACTTACATAATACATAAATATATTTGATATCAT
* * *
77388323 AATTTACATAACTTACATAACTTATATAACTTAGATAAA
66 AATTTACATAACTTACAAAACGTACATAACTTAGATAAA
*
77388362 TATATAATTTACATAAATATATATATCATATCATAACTTACATAACTTACATAAATATATTTGAT
1 TATATAACTTACATAAATATATA-A-CATA-CATAACTTACATAA--TACATAAATATATTTGAT
*
77388427 ATCATAATTTATATAACTTACAAAACGTACATAAC-----T---
61 ATCATAATTTACATAACTTACAAAACGTACATAACTTAGATAAA
* * ** *
77388463 TATATAACTTAGATAAATATATAACTTACATAACTTACATAATATTTAAATATATTTTATATCAT
1 TATATAACTTACATAAATATATAACATACATAACTTACATAATACATAAATATATTTGATATCAT
* * *
77388528 AATTTACATAACTTACATAACTTATATAACTTAGATAAA
66 AATTTACATAACTTACAAAACGTACATAACTTAGATAAA
* *
77388567 TATATAATTTACATAAATATATATCATATCATAACTTACATAACTTACATAA
1 TATATAACTTACATAAATATATAACATA-CATAACTTACATAA--TACATAA
77388619 TACTTAAATA
Statistics
Matches: 216, Mismatches: 25, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
96 46 0.21
98 14 0.06
99 3 0.01
100 1 0.00
101 22 0.10
104 46 0.21
105 15 0.07
106 3 0.01
107 19 0.09
109 47 0.22
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (104 bp):
TATATAACTTACATAAATATATAACATACATAACTTACATAATACATAAATATATTTGATATCAT
AATTTACATAACTTACAAAACGTACATAACTTAGATAAA
Found at i:77388470 original size:118 final size:115
Alignment explanation
Indices: 77388274--77388495 Score: 313
Period size: 118 Copynumber: 1.9 Consensus size: 115
77388264 ACTTAGATAA
* * * * *
77388274 ATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTAC
1 ATATATAACTTACATAACTTACATAATAATTAAATATATATTATATCATAACTTACAAAACGTAC
*
77388339 ATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATATATC
66 ATAACTTATATAACTTAGATAAATATATAACTTACATAAATATATATATC
**
77388389 ATATCATAACTTACATAACTTACATAAATATATTTGATATCATAATT-TAT-ATAACTTACAAAA
1 ATAT-ATAACTTACATAACTTACAT-AATA-ATTAAATAT-AT-ATTATATCATAACTTACAAAA
77388452 CGTACATAACTTATATAACTTAGATAAATATATAACTTACATAA
61 CGTACATAACTTATATAACTTAGATAAATATATAACTTACATAA
77388496 CTTACATAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
115 4 0.04
116 20 0.21
117 4 0.04
118 59 0.63
119 5 0.05
120 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (115 bp):
ATATATAACTTACATAACTTACATAATAATTAAATATATATTATATCATAACTTACAAAACGTAC
ATAACTTATATAACTTAGATAAATATATAACTTACATAAATATATATATC
Found at i:77388499 original size:205 final size:203
Alignment explanation
Indices: 77388193--77388618 Score: 811
Period size: 205 Copynumber: 2.1 Consensus size: 203
77388183 TGAAATAAAA
77388193 AACTTACATAA--TACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAA
1 AACTTACATAACTTACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAA
77388256 CTTATATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATC
66 CTTATATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATC
77388321 ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATAT
131 ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACAT-AA-ATATAT
77388386 ATCATATCAT
194 ATCATATCAT
77388396 AACTTACATAACTTACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAA
1 AACTTACATAACTTACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAA
*
77388461 CTTATATAACTTAGATAAATATATAACTTACATAACTTACATAATATTTAAATATATTTTATATC
66 CTTATATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATC
77388526 ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATAT
131 ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATAT
77388591 CATATCAT
196 CATATCAT
77388599 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
77388619 TACTTAAATA
Statistics
Matches: 220, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
203 47 0.21
204 2 0.01
205 171 0.78
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (203 bp):
AACTTACATAACTTACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAA
CTTATATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATC
ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATAT
CATATCAT
Found at i:77388557 original size:87 final size:89
Alignment explanation
Indices: 77388389--77388582 Score: 270
Period size: 87 Copynumber: 2.2 Consensus size: 89
77388379 TATATATATC
**
77388389 ATATCATAACTTACATAACTTACATAAATATATTTGATATCATAATTTATATAACTTACAAAACG
1 ATAT-ATAACTTACATAACTTACATAAATATATTAAATATCATAATTTATATAACTTACAAAACG
77388454 TACATAACTTATATAACTTAGATAA
65 TACATAACTTATATAACTTAGATAA
* * *
77388479 ATATATAACTTACATAACTTACAT-AATAT-TTAAATAT-AT-TTTATATCATAATTTACATAAC
1 ATATATAACTTACATAACTTACATAAATATATTAAATATCATAATT-TAT-ATAACTTACAAAAC
*
77388540 TTACATAACTTATATAACTTAGATAA
64 GTACATAACTTATATAACTTAGATAA
*
77388566 ATATATAATTTACATAA
1 ATATATAACTTACATAA
77388583 ATATATATCA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
85 2 0.02
86 5 0.05
87 59 0.62
88 5 0.05
89 20 0.21
90 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (89 bp):
ATATATAACTTACATAACTTACATAAATATATTAAATATCATAATTTATATAACTTACAAAACGT
ACATAACTTATATAACTTAGATAA
Found at i:77394771 original size:42 final size:42
Alignment explanation
Indices: 77394676--77394844 Score: 257
Period size: 43 Copynumber: 4.0 Consensus size: 42
77394666 GTAAAAAAAG
* *
77394676 CGCCGCTAAACGCCTTGACCTTTAGCAGCGCTTTTGCCCCAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCCCAAA
* *
77394719 CGCCGCTAAAAGCCCTAACCTTTAGCGGCGCTTTTCCCCAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCCAAA
*
77394761 TGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC-CAAA
* *
77394804 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTCCCAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCCAA
77394845 TAAACGCCAA
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
42 45 0.39
43 70 0.61
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCCAAA
Found at i:77394825 original size:85 final size:85
Alignment explanation
Indices: 77394677--77394844 Score: 266
Period size: 85 Copynumber: 2.0 Consensus size: 85
77394667 TAAAAAAAGC
*
77394677 GCCGCTAAACGCCTTGACCTTTAGCAGCGCTTTTGCCCCAAACGCCGCTAAAAGCCCTAACCTTT
1 GCCGCTAAAAGCCTTGACCTTTAGCAGCGCTTTTGCCCCAAACGCCGCTAAAAGCCCTAACCTTT
77394742 AGCGGCGCTTTTCCCCAAAT
66 AGCGGCGCTTTTCCCCAAAT
* * *
77394762 GCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCCACAAACGCCGCTAAAAGCCTTGACCTT
1 GCCGCTAAAAGCCTTGACCTTTAGCAGCGCTTTTGCCC-CAAACGCCGCTAAAAGCCCTAACCTT
* *
77394826 TAGCGGCGTTTTTTCCCAA
65 TAGCGGCGCTTTTCCCCAA
77394845 TAAACGCCAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
84 3 0.04
85 73 0.96
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (85 bp):
GCCGCTAAAAGCCTTGACCTTTAGCAGCGCTTTTGCCCCAAACGCCGCTAAAAGCCCTAACCTTT
AGCGGCGCTTTTCCCCAAAT
Found at i:77395306 original size:19 final size:18
Alignment explanation
Indices: 77395264--77395308 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
77395254 TTATGTTTTG
77395264 TCATGTA-TTTTTTTATA
1 TCATGTATTTTTTTTATA
77395281 TCA--TATTTTTTTTATTA
1 TCATGTATTTTTTTTA-TA
77395298 TCATGTATTTT
1 TCATGTATTTT
77395309 GTTAACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 8 0.33
17 8 0.33
19 6 0.25
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (18 bp):
TCATGTATTTTTTTTATA
Found at i:77395308 original size:17 final size:17
Alignment explanation
Indices: 77395264--77395308 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
77395254 TTATGTTTTG
77395264 TCATGTATTTTTTTATA
1 TCATGTATTTTTTTATA
*
77395281 TCATAT-TTTTTTTATTA
1 TCATGTATTTTTTTA-TA
77395298 TCATGTATTTT
1 TCATGTATTTT
77395309 GTTAACTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 12 0.50
18 4 0.17
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (17 bp):
TCATGTATTTTTTTATA
Found at i:77396158 original size:132 final size:131
Alignment explanation
Indices: 77395854--77396191 Score: 482
Period size: 132 Copynumber: 2.6 Consensus size: 131
77395844 TAAGTATTCA
* * * * *
77395854 TTTAAAAATTCTCTAAAACGAAGACGAGATTCGATATTTGGCAATTCACGGAATAGTTCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCGATATT-GATATTTGGCAATTCACGGAATAATGCCCTAAC
77395919 GTGTTGGGTTGCAATTTCGCGGTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGC
65 GTGTTGGGTTGCAATTTCGCGGTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGC
77395984 CT
130 CT
* * * *
77395986 TTTAAAAATTCTTTTAAACGAAGGCGATGTGCGATATTTGGCAATTCGCGGAATAATGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCGATAT-TGATATTTGGCAATTCACGGAATAATGCCCTAAC
*
77396051 GTGTTGGGTTGCAATCTT-GCGGTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATG
65 GTGTTGGGTTGCAAT-TTCGCGGTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATG
77396115 CCT
129 CCT
* * ** *
77396118 TTTAAAAATTCTTTAAAACGAAGGCGATACTTGATGTTTGGCAATTCA-AGAATTGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCGATA-TTGATATTTGGCAATTCACGGAATAATGCCCTAAC
*
77396182 GTGCTGGGTT
65 GTGTTGGGTT
77396192 AAAAATTCTT
Statistics
Matches: 183, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
131 21 0.11
132 159 0.87
133 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCGATATTGATATTTGGCAATTCACGGAATAATGCCCTAACG
TGTTGGGTTGCAATTTCGCGGTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCC
T
Found at i:77396235 original size:71 final size:71
Alignment explanation
Indices: 77396119--77396262 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
77396109 TTCATGCCTT
77396119 TTAAAAATTCTTTAAAACGAAGGCGATACTTGATGTTTGGCAATTCAAGAATTGTGCCCTATCGT
1 TTAAAAATTCTTTAAAACGAAGGCGATACTTGATGTTTGGCAATTCAAGAATTGTGCCCTATCGT
77396184 GCTGGG
66 GCTGGG
77396190 TTAAAAATTCTTTAAAACGAAGGCGATACTTGATGTTTGGCAATTCAAGAATTGTGCCCTATCGT
1 TTAAAAATTCTTTAAAACGAAGGCGATACTTGATGTTTGGCAATTCAAGAATTGTGCCCTATCGT
77396255 GCTGGG
66 GCTGGG
77396261 TT
1 TT
77396263 GCGATTTCTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (71 bp):
TTAAAAATTCTTTAAAACGAAGGCGATACTTGATGTTTGGCAATTCAAGAATTGTGCCCTATCGT
GCTGGG
Found at i:77397198 original size:19 final size:19
Alignment explanation
Indices: 77397174--77397229 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
77397164 AGAAAAAAAC
77397174 CTCAAATATCGATA-TTTT
1 CTCAAATATCGATACTTTT
*
77397192 GCTCAAATATCTATACTTTT
1 -CTCAAATATCGATACTTTT
*
77397212 TTCAAAGTATCGATACTT
1 CTCAAA-TATCGATACTT
77397230 GACCTTTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (19 bp):
CTCAAATATCGATACTTTT
Done.