Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 184 of 356
Found at i:59510118 original size:13 final size:13
Alignment explanation
Indices: 59510100--59510124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59510090 TATAAGTTCA
59510100 ATTATTAATATAC
1 ATTATTAATATAC
59510113 ATTATTAATATA
1 ATTATTAATATA
59510125 TATAACTATT
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTATTAATATAC
Found at i:59516806 original size:26 final size:26
Alignment explanation
Indices: 59516775--59516882 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
59516765 TGAAATGCCC
*
59516775 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
59516801 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
59516827 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
59516853 ATCATGGAACATTTTCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59516879 ATCA
1 ATCA
59516883 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:59520037 original size:16 final size:16
Alignment explanation
Indices: 59520016--59520049 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
59520006 AGGTGTATAA
59520016 AAATATATAAATAAAT
1 AAATATATAAATAAAT
*
59520032 AAATATATAATTAAAT
1 AAATATATAAATAAAT
59520048 AA
1 AA
59520050 CAATAATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATATAAATAAAT
Found at i:59520079 original size:5 final size:5
Alignment explanation
Indices: 59520063--59520102 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
59520053 TAATGAGGAC
*
59520063 AAAAT AACAT AAAAT AAAAT -AAAT AAAAT -AAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
59520103 TAAAAAGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 8 0.26
5 23 0.74
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:59520088 original size:14 final size:14
Alignment explanation
Indices: 59520063--59520107 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
59520053 TAATGAGGAC
59520063 AAAATAACATAAAAT
1 AAAATAA-ATAAAAT
59520078 AAAATAAATAAAAT
1 AAAATAAATAAAAT
*
59520092 -AAATAAA-ATAAT
1 AAAATAAATAAAAT
59520104 AAAA
1 AAAA
59520108 AGGAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 10 0.36
14 7 0.25
15 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:59520108 original size:9 final size:9
Alignment explanation
Indices: 59520064--59520107 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
59520054 AATGAGGACA
*
59520064 AAATAACAT
1 AAATAAAAT
59520073 AAAATAAAAT
1 -AAATAAAAT
59520083 AAATAAAAT
1 AAATAAAAT
59520092 AAATAAAAT
1 AAATAAAAT
59520101 -AATAAAA
1 AAATAAAA
59520108 AGGAATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
8 7 0.21
9 18 0.55
10 8 0.24
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:59522014 original size:44 final size:44
Alignment explanation
Indices: 59521728--59522429 Score: 469
Period size: 44 Copynumber: 15.8 Consensus size: 44
59521718 TACAATCTGT
* * ** * * *
59521728 TCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTCAATCTAC
* ** * **
59521773 TCCACTGCAACTTCAGGGAGATAAGACTAATAACTTCAACCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* * * * *
59521817 TCTATTGCAACTTCAGGGAGATAAGGTTTG---CTAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACT-TCAATCTAC
* * * *
59521858 TCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAGA--T-T--TGTA-A-CTTCAATCTAC
** * * ** * *
59521909 TCCACTATAACTTCAGGGAAATAAGATTCGCTATTTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTAC
* * * * * *
59521954 TTCACTGCAATTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* * * * * *
59521998 TCCACTACAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* * * * * * * *
59522042 TCTACTACAACTTCAGAGAGATAAAATTTTCTATCTTCGATCTTC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTTGTAACTTCAATCTAC
* * * *
59522087 TCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* * * * *
59522131 TCCACTACAACTTTAGGGAGATAA-AGTTTATAGCTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTTGTAACTTCAATCTAC
* * * * * *
59522175 TCTAATGCAACTTCAGAGAGATAAGATTTTCTATCTTCGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTTGTAACTTCAATCTAC
* * * *
59522220 TCCACTGCAACTTCAGGGAGATAGGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* * * * * *
59522264 TCCACAGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* * ** *
59522308 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATGTTCATTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTAC
* * * *
59522353 TCCACTACAATTTTAGGGAGATAAGACTTGTAACTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
* *
59522397 TTCATTGCAACTTCAGGGAGATAAGATTTGTAA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAA
59522430 TTTGTAGCTT
Statistics
Matches: 499, Mismatches: 141, Indels: 35
0.74 0.21 0.05
Matches are distributed among these distances:
41 29 0.06
42 1 0.00
43 2 0.00
44 276 0.55
45 158 0.32
46 1 0.00
47 2 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 27 0.05
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTAC
Found at i:59522016 original size:89 final size:88
Alignment explanation
Indices: 59521724--59522518 Score: 330
Period size: 89 Copynumber: 8.8 Consensus size: 88
59521714 TAGCTACAAT
* *
59521724 CTGTTCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT-TTCAGTCTGCTTCACTGCAACTTCAG
*
59521789 GGAGATAAGACTAATAACTTCAAC
65 GGAGATAAGACTTATAACTTCAAC
* * * * * * *
59521813 CTGTTCTATTGCAACTTCAGGGAGATAAGGTTTGCTA--TGA-TCTGC-TCTACTGCAACTTCAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATTTCAGTCTGCTTC-ACTGCAACTTCAG
* *
59521874 AGAGATAAGATCTATAATTTATAGCTTCAAT
65 GGAGATAAGA-CT-T-A--TA-A-CTTCAAC
* * * *
59521905 CTATTCCACTATAACTTCAGGGAAATAAGATTCGCTATTTTCAGTCTGCTTCACTGCAATTTTAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTA-TTTCAGTCTGCTTCACTGCAACTTCAG
*
59521970 GGAGATAAGACTTGTAACTTCAAC
65 GGAGATAAGACTTATAACTTCAAC
* * * * ** * * *
59521994 CTGCTCCACTACAACTTTAGGGAGATAAGGTT-TATAGCTTT-AATCTAC-TCTACTACAACTTC
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTA--TTTCAGTCTGCTTC-ACTGCAACTTC
* * * * * * *
59522056 AGAGAGATAAAATTTTCTATCTTCGAT
63 AGGGAGATAAGA-CTTATAACTTCAAC
** * * ** * * *
59522083 CT-TCTCCACCGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGCTCCACTACAACTTT
1 CTGT-TCCACTACAACTTCAGGGAAATAAGA-TTCGCT-ATTTCAGTCTGCTTCACTGCAACTTC
* * * *
59522145 AGGGAGATAA-AGTTTATAGCTTTAAT
63 AGGGAGATAAGA-CTTATAACTTCAAC
** * * * * * ** * *
59522171 CTACTCTAATGCAACTTCAGAGAGATAAGATTTTCTATCTTC-GATCTACTCCACTGCAACTTCA
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT-TTCAG-TCTGCTTCACTGCAACTTCA
* *
59522235 GGGAGATAGGACTTGTAACTTCAAC
64 GGGAGATAAGACTTATAACTTCAAC
* * * ** *
59522260 CTGCTCCAC-AGCAACTTCAGGGAGATAAGGTT-TATAGCTTT-AATCTGC-TCTACTGCAACTT
1 CTGTTCCACTA-CAACTTCAGGGAAATAAGATTCGCTA--TTTCAGTCTGCTTC-ACTGCAACTT
* * * ** **
59522321 CAGAGAGATAAGATTTGCTATGTTCATT
62 CAGGGAGATAAGACTT-ATAACTTCAAC
** * * * * * * *
59522349 CTACTCCACTACAATTTTAGGGAGATAAGACTT-G-TAACTTCAATCTACTTCATTGCAACTTCA
1 CTGTTCCACTACAACTTCAGGGAAATAAGA-TTCGCT-ATTTCAGTCTGCTTCACTGCAACTTCA
* * * *
59522412 GGGAGATAAGATTTGTAATTTGTAGCTTTAAT
64 GGGAGATAAGA-CT-T-A----TAACTTCAAC
* * * * *
59522444 CTGTTCCACTATAGCTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTTCAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT-TTCAGTCTGCTTCACTGCAACTTCAG
*
59522509 AGAGATAAGA
65 GGAGATAAGA
59522519 TTCGCCATGA
Statistics
Matches: 529, Mismatches: 130, Indels: 87
0.71 0.17 0.12
Matches are distributed among these distances:
84 1 0.00
85 27 0.05
86 4 0.01
87 5 0.01
88 96 0.18
89 245 0.46
90 17 0.03
91 4 0.01
92 35 0.07
94 3 0.01
95 34 0.06
96 56 0.11
97 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (88 bp):
CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATTTCAGTCTGCTTCACTGCAACTTCAGG
GAGATAAGACTTATAACTTCAAC
Found at i:59522018 original size:181 final size:184
Alignment explanation
Indices: 59521669--59522518 Score: 546
Period size: 177 Copynumber: 4.7 Consensus size: 184
59521659 TCTATGTCTT
* * * * * * *
59521669 TAATTTGCTCCACTGTAACTTTAGGGAGATAAGATATCTAATTTATAGCTACAATCTGTTCCACT
1 TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATATATAATTTATAGCTACAATCTATTCCACT
59521734 ACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
66 ACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
59521799 CTAATAACTTCAACCTGTTCTATTGCAACTTCAGGGAGATAAGG-TT-T-GCTA
131 CTAATAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTATAGCTA
* * *
59521850 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTATTCCACT
1 TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATATATAATTTATAGCTACAATCTATTCCACT
* * * * * *
59521915 ATAACTTCAGGGAAATAAGATTCGCTATTTTCAGTCTGCTTCACTGCAATTTTAGGGAGATAAGA
66 ACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * *
59521980 CTTGTAACTTCAACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTATAGCTT
131 CTAATAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTATAGCTA
* * * *
59522034 TAATCTACTCTACTACAACTTCAGAGAGATAA-A-AT-T--TTCTAT--CTTCGATCT-TCTCCA
1 TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATATATAATT-TATAGCTACAATCTAT-TCCA
** * * * ** * *
59522091 CCGCAACTTCAGGGAGATAAGACTT--GTAACTTCAACCTGCTCCACTACAACTTTAGGGAGATA
64 CTACAACTTCAGGGAAATAAGA-TTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * * * * * * * * * * *
59522154 A-AGTTTATAGCTTTAATCTACTCTAATGCAACTTCAGAGAGATAAGATTTTCTATCT-
128 AGA-CTAATAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAG-GTTTATAGCTA
* * * * * * * * * **
59522211 TCGATCTACTCCACTGCAACTTCAGGGAGAT-AG-GA-CT--TGTA-A-CTTCAACCTGCTCCAC
1 T-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATATATAATTTATAGCTACAATCTATTCCAC
* * * * * * * *
59522269 -AGCAACTTCAGGGAGATAAGGTTTA-TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAA
65 TA-CAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA
* ** ** ** * * * ** * *
59522332 GATTTGCTATGTTCATTCTACTCCACTACAATTTTAGGGAGATAAGACTTGTAACT-
129 GA-CTAATAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTATAGCTA
* * * * * * ** *
59522388 TCAATCTACT-TCATTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTGTTCCA
1 T-AATCTGCTCT-ACTGCAACTTCAGAGAGATAAGATATATAATTTATAGCTACAATCTATTCCA
* * * * * *
59522452 CTATAGCTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGAGAGATAA
64 CTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA
59522517 GA
129 GA
59522519 TTCGCCATGA
Statistics
Matches: 529, Mismatches: 112, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
176 3 0.01
177 162 0.31
178 99 0.19
179 4 0.01
180 4 0.01
181 152 0.29
182 5 0.01
183 3 0.01
184 61 0.12
185 36 0.07
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (184 bp):
TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATATATAATTTATAGCTACAATCTATTCCACT
ACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
CTAATAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTATAGCTA
Found at i:59522054 original size:133 final size:133
Alignment explanation
Indices: 59521891--59522518 Score: 731
Period size: 133 Copynumber: 4.7 Consensus size: 133
59521881 AGATCTATAA
* * * * * * * * * *
59521891 TTTATAGCTTCAATCTATTCCACTATAACTTCAGGGAAATAAGATTCGCTATTTTCAGTCTGCTT
1 TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTC
* * *
59521956 CACTGCAATTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTTAGGGAGATA
66 CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATA
59522021 AGG
131 AGG
* * *
59522024 TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAAATTTTCTATCTTC-GATCTTCT
1 TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAG-TCTACT
* *
59522088 CCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTTAGGGAGAT
65 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGAT
*
59522153 AAAG
130 AAGG
* * *
59522157 TTTATAGCTTTAATCTACTCTAATGCAACTTCAGAGAGATAAGATTTTCTATCTTC-GATCTACT
1 TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAG-TCTACT
*
59522221 CCACTGCAACTTCAGGGAGATAGGACTTGTAACTTCAACCTGCTCCAC-AGCAACTTCAGGGAGA
65 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTA-CAACTTCAGGGAGA
59522285 TAAGG
129 TAAGG
* * * *
59522290 TTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATGTTCATTCTACTC
1 TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTC
* * * * * * * *
59522355 CACTACAATTTTAGGGAGATAAGACTTGTAACTTCAATCTACTTCATTGCAACTTCAGGGAGATA
66 CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATA
59522420 AGATTTG
131 AG----G
* ** * * * * * *
59522427 TAATTTGTAGCTTTAATCTGTTCCACTATAGCTTCAGAGAAATAAGATTCGCTATCTTCAGTCTG
1 ---TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTA
* *
59522492 CTCCACTACAACTTCAGAGAGATAAGA
63 CTCCACTGCAACTTCAGGGAGATAAGA
59522519 TTCGCCATGA
Statistics
Matches: 432, Mismatches: 52, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
132 2 0.00
133 354 0.82
137 1 0.00
140 75 0.17
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (133 bp):
TTTATAGCTTTAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTC
CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATA
AGG
Found at i:59525033 original size:34 final size:34
Alignment explanation
Indices: 59524985--59525082 Score: 178
Period size: 34 Copynumber: 2.9 Consensus size: 34
59524975 GACTTTATAG
59524985 ATCTTCTCTGTTGACCCCTCTTCTGAGGCGATAA
1 ATCTTCTCTGTTGACCCCTCTTCTGAGGCGATAA
* *
59525019 ATCTTCTCTATTGACCCCTCTTCTGAGGCGATAG
1 ATCTTCTCTGTTGACCCCTCTTCTGAGGCGATAA
59525053 ATCTTCTCTGTTGACCCCTCTTCTGAGGCG
1 ATCTTCTCTGTTGACCCCTCTTCTGAGGCG
59525083 CATACGTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (34 bp):
ATCTTCTCTGTTGACCCCTCTTCTGAGGCGATAA
Found at i:59534580 original size:16 final size:16
Alignment explanation
Indices: 59534559--59534593 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
59534549 AGGTGTGTAA
59534559 AAATATATAAATAAAT
1 AAATATATAAATAAAT
*
59534575 AAATATATAATTAAAT
1 AAATATATAAATAAAT
59534591 AAA
1 AAA
59534594 AATAATGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATATAAATAAAT
Found at i:59547943 original size:21 final size:21
Alignment explanation
Indices: 59547911--59548023 Score: 145
Period size: 21 Copynumber: 5.4 Consensus size: 21
59547901 GTACATCATT
*
59547911 AACAGAAACTCGTAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
* * * *
59547932 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAACTCATAAGAGTTG
59547953 AACAGAAACTCATAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
59547974 AACAGAAACTCATAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
* * * *
59547995 AACAGAAGCTCATGAGAGCTA
1 AACAGAAACTCATAAGAGTTG
59548016 AACAGAAA
1 AACAGAAA
59548024 GTAAAACATG
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGTTG
Found at i:59549154 original size:16 final size:16
Alignment explanation
Indices: 59549117--59549159 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
59549107 AGCAAGTGCA
**
59549117 CCTTTTTTAATTTGGT
1 CCTTTTTTAATTCAGT
*
59549133 CTTTTTTTAATTCAGT
1 CCTTTTTTAATTCAGT
59549149 CC-TTTTTAATT
1 CCTTTTTTAATT
59549160 AATTAACTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.16, C:0.14, G:0.07, T:0.63
Consensus pattern (16 bp):
CCTTTTTTAATTCAGT
Found at i:59560390 original size:22 final size:22
Alignment explanation
Indices: 59560338--59560382 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
59560328 AATAAGTGAT
*
59560338 AAAAGTAACATATTTTAATCTC
1 AAAAGTAATATATTTTAATCTC
59560360 AAAAGTAATATATTTTAATCTC
1 AAAAGTAATATATTTTAATCTC
59560382 A
1 A
59560383 TTCTTAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAAGTAATATATTTTAATCTC
Found at i:59570216 original size:25 final size:25
Alignment explanation
Indices: 59570170--59570248 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
59570160 CACTACAGTC
* * *
59570170 TCAGTATACACTATCTAGAGTATTT
1 TCAGAATATACTATCTACAGTATTT
* * * *
59570195 TCATAGTATACTACCTACAGTAGTT
1 TCAGAATATACTATCTACAGTATTT
59570220 TCAGAATATACTATCTACAGTATTT
1 TCAGAATATACTATCTACAGTATTT
59570245 TCAG
1 TCAG
59570249 TTTAAACTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (25 bp):
TCAGAATATACTATCTACAGTATTT
Found at i:59580055 original size:17 final size:17
Alignment explanation
Indices: 59580033--59580068 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
59580023 GTTTTTGTGT
*
59580033 TGTGCAAATGAGAAAGA
1 TGTGCAAATAAGAAAGA
59580050 TGTGCAAATAAGAAAGA
1 TGTGCAAATAAGAAAGA
59580067 TG
1 TG
59580069 ATGATTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (17 bp):
TGTGCAAATAAGAAAGA
Found at i:59580549 original size:15 final size:15
Alignment explanation
Indices: 59580529--59580561 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
59580519 TATTACTTGA
59580529 TAGGTGCAGTTGCCT
1 TAGGTGCAGTTGCCT
*
59580544 TAGGTGCGGTTGCCT
1 TAGGTGCAGTTGCCT
59580559 TAG
1 TAG
59580562 TCAGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.36, T:0.33
Consensus pattern (15 bp):
TAGGTGCAGTTGCCT
Found at i:59581957 original size:25 final size:23
Alignment explanation
Indices: 59581908--59581959 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
59581898 TTGGTCATTA
*
59581908 AATAACTTACTAAATTAAGTATC
1 AATAACTTACTAAAATAAGTATC
*
59581931 AATAACTTACTAAAAATAATTACTC
1 AATAACTTACT-AAAATAAGTA-TC
59581956 AATA
1 AATA
59581960 TCAATAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 8 0.32
25 6 0.24
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAACTTACTAAAATAAGTATC
Found at i:59586991 original size:79 final size:79
Alignment explanation
Indices: 59586860--59587017 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
59586850 TTTAGCCGAA
59586860 AATGTTGAAAATGACTTGGAGGAGCTTCTCTTATAAGATTCTTTATTTCTTCTTTCCCTTGCATT
1 AATGTTGAAAATGACTTGGAGGAGCTTCTCTTATAAGATTCTTTATTTCTTCTTTCCCTTGCATT
59586925 TTTCTATTGTACAC
66 TTTCTATTGTACAC
59586939 AATGTTGAAAATGACTTGGAGGAGCTTCTCTTATAAGATTCTTTATTTCTTCTTTCCCTTGCATT
1 AATGTTGAAAATGACTTGGAGGAGCTTCTCTTATAAGATTCTTTATTTCTTCTTTCCCTTGCATT
59587004 TTTCTATTGTACAC
66 TTTCTATTGTACAC
59587018 CTCTTCCATT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.46
Consensus pattern (79 bp):
AATGTTGAAAATGACTTGGAGGAGCTTCTCTTATAAGATTCTTTATTTCTTCTTTCCCTTGCATT
TTTCTATTGTACAC
Found at i:59592235 original size:33 final size:33
Alignment explanation
Indices: 59592198--59592275 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
59592188 TGGCCCTGCC
* *
59592198 ATGGTCTTA-CACTCAT-AGTGCCATAACCTAGTT
1 ATGGTCTTATCA-TCATGA-TGCCATAACCCAGCT
*
59592231 ATGGTCTTATCATCATGATGCCATAGCCCAGCT
1 ATGGTCTTATCATCATGATGCCATAACCCAGCT
59592264 ATGGTCTT-TCAT
1 ATGGTCTTATCAT
59592276 GAATAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
32 4 0.10
33 33 0.82
34 3 0.08
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (33 bp):
ATGGTCTTATCATCATGATGCCATAACCCAGCT
Found at i:59592326 original size:103 final size:101
Alignment explanation
Indices: 59592178--59592410 Score: 270
Period size: 103 Copynumber: 2.3 Consensus size: 101
59592168 GTCTTACACG
* ** * *
59592178 AATATTGCCATGGCCCTGCCATGGTCTTACACTCATAGTGCCATAACCTAGTTATGGTCTTATCA
1 AATATTGCCATGGTCCAACCATGGTCTTACACTCACAGTGCCATAACCTAATTATGGTCTTATCA
** *
59592243 -TCATGATGCCATAGCCCAGCTATGGTCTTTCATGAATA
66 CT-AAAATGCCATAGCCCAGCTATGGTCTTACAT--ATA
* ** * * * *
59592281 ATTATTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGTCATAACTTAATTATGGTCTTTTCA
1 AATATTGCCATGGTCCAACCATGGTCTTACACTCACAGTGCCATAACCTAATTATGGTCTTATCA
*
59592346 CTAAAATGCCATAGCCCAGCTATGGTCTTACATTTA
66 CTAAAATGCCATAGCCCAGCTATGGTCTTACATATA
**
59592382 AACGTTGCCATGGTCCAACCATGGTCTTA
1 AATATTGCCATGGTCCAACCATGGTCTTA
59592411 TCTATCAACT
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
101 28 0.25
103 81 0.74
104 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (101 bp):
AATATTGCCATGGTCCAACCATGGTCTTACACTCACAGTGCCATAACCTAATTATGGTCTTATCA
CTAAAATGCCATAGCCCAGCTATGGTCTTACATATA
Found at i:59598572 original size:13 final size:13
Alignment explanation
Indices: 59598554--59598583 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
59598544 AAAAATAATT
59598554 CACACGGTTTGGA
1 CACACGGTTTGGA
59598567 CACACGGTTTGGA
1 CACACGGTTTGGA
59598580 CACA
1 CACA
59598584 TGAGTGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (13 bp):
CACACGGTTTGGA
Found at i:59599250 original size:17 final size:17
Alignment explanation
Indices: 59599197--59599243 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
59599187 TTTTGAATTA
* *
59599197 TTTATATTTTATTTGGT
1 TTTATGTTTTATTTAGT
59599214 TTTATGTTTTATTTAGT
1 TTTATGTTTTATTTAGT
59599231 TTTAT-TTTTATTT
1 TTTATGTTTTATTT
59599244 TTATTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTATGTTTTATTTAGT
Found at i:59602511 original size:16 final size:16
Alignment explanation
Indices: 59602474--59602515 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
59602464 ATCAATAAAA
*
59602474 AATAT-AATTTTAATT
1 AATATAAATATTAATT
* *
59602489 AACATAAATATTATTT
1 AATATAAATATTAATT
59602505 AATATAAATAT
1 AATATAAATAT
59602516 AAATAACTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATAAATATTAATT
Found at i:59604056 original size:24 final size:24
Alignment explanation
Indices: 59604028--59604077 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59604018 ATCATGTAAG
59604028 ATTAAAAAAATAAAGAGCCTTTTT
1 ATTAAAAAAATAAAGAGCCTTTTT
59604052 ATTAAAAAAATAAAGAGCCTTTTT
1 ATTAAAAAAATAAAGAGCCTTTTT
59604076 AT
1 AT
59604078 CATTCATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (24 bp):
ATTAAAAAAATAAAGAGCCTTTTT
Found at i:59606727 original size:18 final size:18
Alignment explanation
Indices: 59606706--59606745 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59606696 ATTCAGGTAA
59606706 AATCGAAAAAATTCAGTT
1 AATCGAAAAAATTCAGTT
** *
59606724 AATCGACCAAATTCGGTT
1 AATCGAAAAAATTCAGTT
59606742 AATC
1 AATC
59606746 AGTCGGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (18 bp):
AATCGAAAAAATTCAGTT
Found at i:59606933 original size:16 final size:16
Alignment explanation
Indices: 59606912--59606964 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
59606902 ATCCACCCAG
*
59606912 ACCCAATCTAATATAA
1 ACCCAATATAATATAA
*
59606928 ACCCAATATAA-ACTCA
1 ACCCAATATAATA-TAA
*
59606944 ATCCAATAT-ATATAA
1 ACCCAATATAATATAA
59606959 ACCCAA
1 ACCCAA
59606965 GTACCCAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (16 bp):
ACCCAATATAATATAA
Found at i:59612139 original size:23 final size:22
Alignment explanation
Indices: 59612088--59612139 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
59612078 CCTCGTCTTT
*
59612088 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
59612110 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
59612133 TTCTTTT
1 TTCTTTT
59612140 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:59612154 original size:18 final size:18
Alignment explanation
Indices: 59612133--59612171 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
59612123 TTTCTTCAAC
* *
59612133 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
59612151 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
59612169 TTC
1 TTC
59612172 ACTCTCAATC
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:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:59615224 original size:23 final size:23
Alignment explanation
Indices: 59615164--59615226 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
59615154 GGACTCACCA
* * *
59615164 CAGCTCGTAAGAGCTTACTATTT
1 CAGCTCGAAAGAGCTTACCAATT
**
59615187 CAGCTC-ATTGAAGCTTACCAATT
1 CAGCTCGAAAG-AGCTTACCAATT
59615210 CAGCTCGAAAGAGCTTA
1 CAGCTCGAAAGAGCTTA
59615227 TGTTCATTAG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (23 bp):
CAGCTCGAAAGAGCTTACCAATT
Found at i:59616282 original size:29 final size:27
Alignment explanation
Indices: 59616232--59616292 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
59616222 TCTATTTGTC
**
59616232 GTGTGTGTCACATGGATTCACACATGG
1 GTGTGTGTCACACAGATTCACACATGG
59616259 GTGTGTGTCACACAGATTCACACATGG
1 GTGTGTGTCACACAGATTCACACATGG
59616286 GTGTGTG
1 GTGTGTG
59616293 ATTGACCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (27 bp):
GTGTGTGTCACACAGATTCACACATGG
Found at i:59616826 original size:45 final size:45
Alignment explanation
Indices: 59616761--59616870 Score: 202
Period size: 45 Copynumber: 2.4 Consensus size: 45
59616751 GTTACAATTC
*
59616761 AGACCACAACTCAATAAGTTCGGATGTCACATATATCATGAACTT
1 AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
59616806 AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
1 AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
*
59616851 AGACCACAACTTAATGAGTT
1 AGACCACAACTCAATGAGTT
59616871 TAGATTACTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (45 bp):
AGACCACAACTCAATGAGTTCGGATGTCACATATATCATGAACTT
Found at i:59627604 original size:44 final size:45
Alignment explanation
Indices: 59627491--59627621 Score: 219
Period size: 44 Copynumber: 2.9 Consensus size: 45
59627481 GCCAAACATG
* *
59627491 TGTCACATATATCACGAACTCAGACCACAAATCAATGAGTTCGGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
*
59627536 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC-GC
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
*
59627580 TGTCCCATATATCATGAACTCAGACCACAACTCAATGAGTTC
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC
59627622 AGATTACTCA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 42 0.51
45 40 0.49
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (45 bp):
TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:59633288 original size:49 final size:47
Alignment explanation
Indices: 59633141--59633306 Score: 167
Period size: 49 Copynumber: 3.5 Consensus size: 47
59633131 TATGTGTGCT
* * * *
59633141 AGTGTAAGACATGTCTGGGACATGCATTGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGATATATGAAAG-C
* * *
59633187 AGTGTAAGACATGTCTAGGACATACATCGACCTCGAGATAT-ACAAGC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGATATATGA-AAGC
* *
59633234 TAGTGTAAGACTTGTCTGGGACACAACATCGGCCTCGATATATGAAAGTC
1 -AGTGTAAGACATGTCTGGGACA-TACATCGGCCTCGATATATGAAAG-C
* *
59633284 AGTGTAAGACCTATCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
59633307 GGCATTGACT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
46 29 0.30
47 3 0.03
48 25 0.26
49 39 0.40
50 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCTCGATATATGAAAGC
Found at i:59659092 original size:44 final size:44
Alignment explanation
Indices: 59659042--59659130 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
59659032 TTACATGGTC
*
59659042 TATATTATGATAGGAAAGACGTATGAAAATTTCGATAAGAAAAT
1 TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
59659086 TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
1 TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
59659130 T
1 T
59659131 TTATCGATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.30
Consensus pattern (44 bp):
TATATTATGATAGGAAAGACGTATAAAAATTTCGATAAGAAAAT
Found at i:59662612 original size:36 final size:36
Alignment explanation
Indices: 59662565--59662638 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
59662555 CGGCACTCGG
59662565 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
1 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
59662601 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
1 TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
59662637 TT
1 TT
59662639 ACTTAGCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (36 bp):
TTTGCAAAATGTACTCGACTAGTCGGTTTAGTCGAC
Found at i:59664070 original size:26 final size:26
Alignment explanation
Indices: 59664041--59664122 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
59664031 TGATACAAAT
*
59664041 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59664067 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59664093 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59664119 TGAT
1 TGAT
59664123 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59666831 original size:40 final size:40
Alignment explanation
Indices: 59666760--59666973 Score: 229
Period size: 40 Copynumber: 5.4 Consensus size: 40
59666750 AAGCCAAGTA
* * *
59666760 CCTTCGGGATTTAACC-GGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCTGGATATAG-TAACTCGCACGAATG
* * *
59666799 CCTTTGGGACATAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
59666839 CCTTCGGGACTTAG-CTCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCT-GGATATAGTAACTCGCACGAATG
* * * * *
59666879 CCTTCGGAACTTAGCCCGGATATAGTAACTAGTACAAATG
1 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
* * * * *
59666919 CCTTCGGAACTTAGCCTGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCTGGATA-TAGTAACTCGCACGAATG
59666959 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
59666974 TCGGTTATCA
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 16 0.11
40 134 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
Found at i:59668263 original size:11 final size:10
Alignment explanation
Indices: 59668233--59668267 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
59668223 ACATGAGAGC
59668233 CTTTCTTTTT
1 CTTTCTTTTT
*
59668243 TTTTCTTTTT
1 CTTTCTTTTT
59668253 CTTTCTCTTTT
1 CTTTCT-TTTT
59668264 CTTT
1 CTTT
59668268 TTTCATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:59674855 original size:40 final size:40
Alignment explanation
Indices: 59674793--59675010 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
59674783 AAGCCAAGTA
* * * *
59674793 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
59674832 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59674872 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59674912 CCTTTGGGACTTAGCCCGGATATAGTAACTC-CAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGC-ACAAATG
* * * *
59674952 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59674992 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59675011 TTATCATCCA
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.09
40 142 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59676284 original size:10 final size:10
Alignment explanation
Indices: 59676269--59676303 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
59676259 CATGAGAGCC
59676269 TTTCTTTTTT
1 TTTCTTTTTT
59676279 TTTCTTTTTT
1 TTTCTTTTTT
59676289 TTCTCTTTTCTT
1 TT-TCTTTT-TT
59676301 TTT
1 TTT
59676304 TCATCATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 12 0.52
11 7 0.30
12 4 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:59677074 original size:27 final size:27
Alignment explanation
Indices: 59677034--59677192 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
59677024 AGGAAGCGTC
*
59677034 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
59677061 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
59677087 CCTGGTGGCTATGCCACAATTATTTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
59677115 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
59677142 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
59677169 TTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
59677193 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.10
27 97 0.87
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:59677115 original size:54 final size:54
Alignment explanation
Indices: 59677031--59677192 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
59677021 TGGAGGAAGC
59677031 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
59677085 GTCCTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * * * *
59677139 GTTCTGGTGGCTCTACCACAA-TATCTGTATTTGGTGACTTTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
59677192 G
1 G
59677193 GCAGCCTCGC
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.12
54 86 0.88
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:59681287 original size:48 final size:48
Alignment explanation
Indices: 59681211--59681302 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
59681201 CATTAGGGGA
* * *
59681211 TTCACTGATTTTGCTTCAAGCCATGATATTGGCACTTCGGGTGCAAGC
1 TTCACTGATTTGGCTTCAAGCCATGATATTAGCACTTAGGGTGCAAGC
* *
59681259 TTCATTGATTTGGCTTCGAGCCATGATATTAGCACTTAGGGTGC
1 TTCACTGATTTGGCTTCAAGCCATGATATTAGCACTTAGGGTGC
59681303 GAGACTCCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (48 bp):
TTCACTGATTTGGCTTCAAGCCATGATATTAGCACTTAGGGTGCAAGC
Found at i:59691356 original size:33 final size:33
Alignment explanation
Indices: 59691301--59691556 Score: 84
Period size: 33 Copynumber: 7.6 Consensus size: 33
59691291 AATTGACGGA
* ***
59691301 TAAGACCATAACTGGGTTATGACACTATGAACG
1 TAAGACCATAGCTGGACCATGACACTATGAACG
* * * * * *
59691334 TAAGACCATGGTTGGACCATGACAGTGTTTATATG
1 TAAGACCATAGCTGGACCATGACACT-ATGA-ACG
* * * * *
59691369 TAAGACCATAGCTGGGCTATGACA-TTTTAATG
1 TAAGACCATAGCTGGACCATGACACTATGAACG
* * ***
59691401 AAAAGACCATAACTGGGTTATGACACTATGAACG
1 -TAAGACCATAGCTGGACCATGACACTATGAACG
* * * * * *
59691435 TAAGACCATGGTTGGACCATGACAGTGTTTATATG
1 TAAGACCATAGCTGGACCATGACACT-ATGA-ACG
* * * * *
59691470 TAAGACCATAGCTGGGCTATGACA-TTTTAATG
1 TAAGACCATAGCTGGACCATGACACTATGAACG
* * *** * *
59691502 AAAAGACCATAACTGGGTTATGGCACTTTGAACG
1 -TAAGACCATAGCTGGACCATGACACTATGAACG
* *
59691536 TAAGACCATGGTTGGACCATG
1 TAAGACCATAGCTGGACCATG
59691557 GTGATATATA
Statistics
Matches: 167, Mismatches: 48, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
32 6 0.04
33 100 0.60
34 17 0.10
35 44 0.26
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (33 bp):
TAAGACCATAGCTGGACCATGACACTATGAACG
Found at i:59691375 original size:35 final size:33
Alignment explanation
Indices: 59691333--59691517 Score: 131
Period size: 33 Copynumber: 5.5 Consensus size: 33
59691323 CACTATGAAC
* *
59691333 GTAAGACCATGGTTGGACCATGACAGTGTTTATAT
1 GTAAGACCATAGCTGGACCATGACAGT-TTTA-AT
* *
59691368 GTAAGACCATAGCTGGGCTATGACA-TTTTAAT
1 GTAAGACCATAGCTGGACCATGACAGTTTTAAT
* * *** * * * *
59691400 GAAAAGACCATAACTGGGTTATGACACTATGAAC
1 G-TAAGACCATAGCTGGACCATGACAGTTTTAAT
* *
59691434 GTAAGACCATGGTTGGACCATGACAGTGTTTATAT
1 GTAAGACCATAGCTGGACCATGACAGT-TTTA-AT
* *
59691469 GTAAGACCATAGCTGGGCTATGACA-TTTTAAT
1 GTAAGACCATAGCTGGACCATGACAGTTTTAAT
* *
59691501 GAAAAGACCATAACTGG
1 G-TAAGACCATAGCTGG
59691518 GTTATGGCAC
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
32 6 0.05
33 60 0.51
34 9 0.08
35 43 0.36
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (33 bp):
GTAAGACCATAGCTGGACCATGACAGTTTTAAT
Found at i:59691477 original size:101 final size:101
Alignment explanation
Indices: 59691302--59691649 Score: 544
Period size: 101 Copynumber: 3.4 Consensus size: 101
59691292 ATTGACGGAT
59691302 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATA
1 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATA
59691367 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAA
66 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAA
59691403 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATA
1 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATA
59691468 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAA
66 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAA
* *
59691504 AAGACCATAACTGGGTTATGGCACTTTGAACGTAAGACCATGGTTGGACCATG---GTGATATAT
1 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTG-T-T-T
*
59691566 ATATGTGTAAGACCATAGCTGGGCTATGGA-ATTTTGAT-AA
63 ATA--TGTAAGACCATAGCTGGGCTAT-GACATTTTAATGAA
* * *
59691606 TAAGACCATAACTGGGTTATGGCACTACGAATGTAAGACCATGG
1 -AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGG
59691650 CAGGGCTATG
Statistics
Matches: 234, Mismatches: 6, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
98 3 0.01
99 1 0.00
100 1 0.00
101 156 0.67
102 2 0.01
103 69 0.29
104 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATA
TGTAAGACCATAGCTGGGCTATGACATTTTAATGAA
Found at i:59691676 original size:202 final size:200
Alignment explanation
Indices: 59691302--59691692 Score: 522
Period size: 202 Copynumber: 1.9 Consensus size: 200
59691292 ATTGACGGAT
59691302 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTATA
1 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATG--AGTGTTTATA
*
59691367 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACTATGA
64 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACTACGA
** ** *
59691432 ACGTAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTATGACATTT
129 ACGTAAGACCATGGCAGGACCATGACAGTGTGCATATGTAAGACCATAGCTGGACTATGACATTT
59691497 TAATGAA
194 TAATGAA
* *
59691504 AAGACCATAACTGGGTTATGGCACTTTGAACGTAAGACCATGGTTGGACCATG-GTGATATATAT
1 AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGAGTG-T-T-TAT
* *
59691568 ATGTGTAAGACCATAGCTGGGCTATGGA-ATTTTGAT-AATAAGACCATAACTGGGTTATGGCAC
63 A--TGTAAGACCATAGCTGGGCTAT-GACATTTTAATGAA-AAGACCATAACTGGGTTATGACAC
* * * * * *
59691631 TACGAATGTAAGACCATGGCAGGGCTATGGCA-T-TGCATGTGTAAGACCATAGTTGGACTATG
124 TACGAACGTAAGACCATGGCAGGACCATGACAGTGTGCATATGTAAGACCATAGCTGGACTATG
59691693 GCACAAAGAA
Statistics
Matches: 166, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
199 3 0.02
200 1 0.01
201 1 0.01
202 79 0.48
203 3 0.02
204 77 0.46
205 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (200 bp):
AAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGAGTGTTTATATG
TAAGACCATAGCTGGGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACTACGAAC
GTAAGACCATGGCAGGACCATGACAGTGTGCATATGTAAGACCATAGCTGGACTATGACATTTTA
ATGAA
Found at i:59691783 original size:2 final size:2
Alignment explanation
Indices: 59691778--59691897 Score: 240
Period size: 2 Copynumber: 60.0 Consensus size: 2
59691768 TACATATATA
59691778 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59691820 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59691862 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59691898 AAGGAATAGT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 118 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59693314 original size:14 final size:14
Alignment explanation
Indices: 59693295--59693321 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59693285 TTATGTATTG
59693295 AAATATCTTAAATA
1 AAATATCTTAAATA
59693309 AAATATCTTAAAT
1 AAATATCTTAAAT
59693322 GTTATTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATATCTTAAATA
Found at i:59699405 original size:27 final size:28
Alignment explanation
Indices: 59699375--59699435 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
59699365 CATTAGATTG
59699375 AAAATGAAATTTAATAAAAATTTTA-TT
1 AAAATGAAATTTAATAAAAATTTTATTT
* * **
59699402 AAAATTAAATTTATTTTAAATTTTATTT
1 AAAATGAAATTTAATAAAAATTTTATTT
59699430 AAAATG
1 AAAATG
59699436 TATTTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
AAAATGAAATTTAATAAAAATTTTATTT
Found at i:59699440 original size:27 final size:26
Alignment explanation
Indices: 59699392--59699449 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
59699382 AATTTAATAA
59699392 AAATTTTATTAAAATTAAATTTATTTT
1 AAATTTTATTAAAATT-AATTTATTTT
*
59699419 AAATTTTATTTAAAATGT-ATTTCTTTT
1 AAATTTTA-TTAAAAT-TAATTTATTTT
59699446 AAAT
1 AAAT
59699450 AATAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 20 0.71
28 7 0.25
29 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
AAATTTTATTAAAATTAATTTATTTT
Found at i:59700430 original size:13 final size:13
Alignment explanation
Indices: 59700380--59700430 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
59700370 TTTGGTAATA
59700380 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
59700393 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
59700406 CTTTT-AAGAAGTG
1 CTTTTGAA-AAGTG
*
59700419 TTTTTGAAAAGT
1 CTTTTGAAAAGT
59700431 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:59700658 original size:24 final size:24
Alignment explanation
Indices: 59700624--59700669 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
59700614 TATATGAAAT
* *
59700624 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
59700648 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
59700670 ATTTAACTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:59703021 original size:47 final size:45
Alignment explanation
Indices: 59702953--59703077 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 45
59702943 TGTGTGAGCT
59702953 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGAGAACC
*
59702999 AGTGTAAGACCATGTCTGGGACATGACATCGG--CATTGA-GACGAGTACT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCACATT-ATGA-GA--ACC
59703047 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
59703078 TACAAGATGT
Statistics
Matches: 71, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
45 6 0.08
46 18 0.25
47 30 0.42
48 17 0.24
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGAGAACC
Found at i:59703147 original size:94 final size:93
Alignment explanation
Indices: 59702951--59703164 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 93
59702941 CTTGTGTGAG
**
59702951 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAG-ACCAGTGTAAGACCATGTCT
* ** *
59703016 GGGACATGACATCGGCATTGAGACGAGTA
65 GGGACATGACATCGACACAGAGACGAGAA
* * * *
59703045 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTG-TCAGTGTAAGACCATGTTTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGACCAGTGTAAGACCATGTCTG
* * * *
59703109 GGACATGGCATTGACACAGATATACTAGAA
66 GGACATGACATCGACACAG--AGACGAGAA
*
59703139 CTTA-TGTAAGACCATGTCTGAGACAT
1 C-TAGTGTAAGA-CATGTCTGGGACAT
59703165 CACGTCAATG
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 32 0.32
94 54 0.53
95 15 0.15
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGACCAGTGTAAGACCATGTCTG
GGACATGACATCGACACAGAGACGAGAA
Found at i:59710250 original size:47 final size:45
Alignment explanation
Indices: 59710182--59710303 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 45
59710172 TTGTGTGAGA
* *
59710182 TAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATGA-GA-GC
1 TAGTGTAAGACATGTTTGGGACATGCATC-GACAT-TGA-GACGAGGC
* *
59710228 TAGTGTAAGACCATGTCTGGGACATGGTATCGACATTGAGACGAGGGC
1 TAGTGTAAGA-CATGTTTGGGACAT-GCATCGACATTGAGACGA-GGC
59710276 TAGTGTAAGACATGTTTGGGACATGCAT
1 TAGTGTAAGACATGTTTGGGACATGCAT
59710304 TAGGTACGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
45 2 0.03
46 17 0.26
47 30 0.46
48 16 0.25
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (45 bp):
TAGTGTAAGACATGTTTGGGACATGCATCGACATTGAGACGAGGC
Found at i:59710745 original size:119 final size:119
Alignment explanation
Indices: 59710611--59710848 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
59710601 TGCCACTTAT
59710611 GTATTATGATACTTGTTGATGAATGGTAAAGATATGTTGTATATTTATTTATGTGCAACTTACTA
1 GTATTATGATACTTGTTGATGAATGGTAAAGATATGTTGTATATTTATTTATGTGCAACTTACTA
59710676 AGCTTTATGCTTACTCACTCTCCTTTTCCATTTTCTTATAGTGCCGCCTATCTA
66 AGCTTTATGCTTACTCACTCTCCTTTTCCATTTTCTTATAGTGCCGCCTATCTA
59710730 GTATTATGATACTTGTTGATGAATGGTAAAGATATGTTGTATATTTATTTATGTGCAACTTACTA
1 GTATTATGATACTTGTTGATGAATGGTAAAGATATGTTGTATATTTATTTATGTGCAACTTACTA
59710795 AGCTTTATGCTTACTCACTCTCCTTTTCCATTTTCTTATAGTGCCGCCTATCTA
66 AGCTTTATGCTTACTCACTCTCCTTTTCCATTTTCTTATAGTGCCGCCTATCTA
59710849 ACTTAAGGAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (119 bp):
GTATTATGATACTTGTTGATGAATGGTAAAGATATGTTGTATATTTATTTATGTGCAACTTACTA
AGCTTTATGCTTACTCACTCTCCTTTTCCATTTTCTTATAGTGCCGCCTATCTA
Found at i:59715959 original size:108 final size:108
Alignment explanation
Indices: 59715592--59716082 Score: 574
Period size: 109 Copynumber: 4.5 Consensus size: 108
59715582 GTATGATTTG
* * * * ** * * * **
59715592 TTTGTTCTATTATTGTTTTTATGATATCTTATAACAGTTTTTTGTGTTTGAAAGAAAAA-AATTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTT-AAGGAAAAAGTTTTT
* * ** * * *
59715656 TGTTGTGTTTTATTAGACTTAAGTTTGTATTAA-ATATATGATTAG
65 TTTTCTGTTTTATTAGGTTTAAGTTTGTATTAAGGT-T-TCATTAA
*
59715701 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTGTTTCGTATTTAAGGAAAAAGTTATTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTT-TTT
59715766 TTTTCTGTTTTATTAGGTTTAAGTTTTGTATTAAGGTTTCATTAA
65 TTTTCTGTTTTATTAGGTTTAAG-TTTGTATTAAGGTTTCATTAA
* *
59715811 -TTGTTTAATTAATATTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTTTTTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTTTTTT
59715875 TTTCTGTTTTATTAGGTTTAAGTTTTGTATTAAGGTTTCATTAA
66 TTTCTGTTTTATTAGGTTTAAG-TTTGTATTAAGGTTTCATTAA
* * *
59715919 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTATTTTTTTGTATTTAAGGTAAAAAATATTT
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGG--AAAAA-GTTT
* *
59715984 TTGTTGTTGTGTTTTATTAGGTTTAAGTTTGTATTAAGGTTTGATTAA
63 TT-TT-TTCTGTTTTATTAGGTTTAAGTTTGTATTAAGGTTTCATTAA
* * ** * *
59716032 TATATTTTATTAATGTTTTTGAAGAATCTTATATCAGTTTTTCGTATTTAA
1 TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAA
59716083 CGTATGAGCG
Statistics
Matches: 335, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
108 56 0.17
109 145 0.43
110 27 0.08
111 16 0.05
112 6 0.02
113 65 0.19
114 20 0.06
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (108 bp):
TTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGTTTTTCGTATTTAAGGAAAAAGTTTTTT
TTTCTGTTTTATTAGGTTTAAGTTTGTATTAAGGTTTCATTAA
Found at i:59719699 original size:19 final size:17
Alignment explanation
Indices: 59719662--59719694 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59719652 CGCCTACACC
59719662 TCCCATTTTACAATCTT
1 TCCCATTTTACAATCTT
59719679 TCCCATTTTACAATCT
1 TCCCATTTTACAATCT
59719695 CTTTCTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (17 bp):
TCCCATTTTACAATCTT
Found at i:59721657 original size:20 final size:20
Alignment explanation
Indices: 59721605--59721657 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
59721595 AGATAAAGGC
* *
59721605 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCATGGA
* *
59721625 ACACGGCCGTGTGGCATGGA
1 ACATGCCCGTGTGGCATGGA
*
59721645 ACATGCCCATGTG
1 ACATGCCCGTGTG
59721658 CTGCAGCCGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCATGGA
Found at i:59722499 original size:46 final size:49
Alignment explanation
Indices: 59722449--59722562 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 49
59722439 TAGCCTTGCC
* *
59722449 ATGGTCTTGTACGGATCACA-TAT-CA-TACCGATGCCATATCCCAGAT
1 ATGGTCTTATACGGATCACATTATACATTACCGATGCCATAGCCCAGAT
*
59722495 ATGGTCTTATACGGAATCACATTATCACATTGTACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGG-ATCACATTAT-ACA-T-TACCGATGCCATAGCCCAGAT
59722548 ATGGTCTTATACGGA
1 ATGGTCTTATACGGA
59722563 AGTACATATC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
46 13 0.22
47 6 0.10
48 3 0.05
50 2 0.03
52 1 0.02
53 33 0.57
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGGTCTTATACGGATCACATTATACATTACCGATGCCATAGCCCAGAT
Found at i:59722545 original size:53 final size:52
Alignment explanation
Indices: 59722474--59722576 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 52
59722464 TCACATATCA
*
59722474 TACCGATGCCATATCCCAGATATGGTCTTATACGGAA-TCACATTATCACATTG
1 TACCGATGCCATAGCCCAGATATGGTCTTATACGGAAGT-ACA-TATCACATTG
*
59722527 TACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGTACATATCACAT
1 TACCGATGCCATAGCCCAGATATGGTCTTATACGGAAGTACATATCACAT
59722577 CTTTTCCGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 8 0.17
53 38 0.81
54 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (52 bp):
TACCGATGCCATAGCCCAGATATGGTCTTATACGGAAGTACATATCACATTG
Found at i:59743596 original size:27 final size:27
Alignment explanation
Indices: 59743566--59743641 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
59743556 TTCCAGTAGA
*
59743566 CTTGACGA-TGGGGTGTTCACCAAATGG
1 CTTGACGAGT-GGGTGTTCACCAAAAGG
*
59743593 CTTGACGAGTTGGTGTTCACCAAAAGG
1 CTTGACGAGTGGGTGTTCACCAAAAGG
* * *
59743620 TTTGACGAGTTGGTATTCACCA
1 CTTGACGAGTGGGTGTTCACCA
59743642 GTGGGCCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
CTTGACGAGTGGGTGTTCACCAAAAGG
Found at i:59746556 original size:39 final size:39
Alignment explanation
Indices: 59746493--59746617 Score: 169
Period size: 39 Copynumber: 3.2 Consensus size: 39
59746483 GGACTTTTGC
* * * *
59746493 CCGGACATATTTCCTGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
59746532 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
* * *
59746571 CCGGATATAATTCCAGCATATAGCCTGCGGGACTTTAAGC
1 CCGGATATAATTCCAGCACATAGCCTGC-GGACCTTAAGT
59746611 CCGGATA
1 CCGGATA
59746618 CACATCAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 60 0.79
40 16 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:59752200 original size:25 final size:23
Alignment explanation
Indices: 59752158--59752283 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 23
59752148 GTCATGGTCG
*
59752158 GTAAGCTCCTCTTAAGCTGATGAACA
1 GTAAGCT-CTATTAAGCTGA--AACA
* *
59752184 GTAAGCTTTATTAAGCTGAAACG
1 GTAAGCTCTATTAAGCTGAAACA
*
59752207 GTAAGCTCTATTGAGCTG-AACA
1 GTAAGCTCTATTAAGCTGAAACA
* * *
59752229 GTAAGCTCT-TTCGAGCTGAATCG
1 GTAAGCTCTATT-AAGCTGAAACA
* * *
59752252 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTAAGCTGAAACA
59752275 GTAAGCTCT
1 GTAAGCTCT
59752284 TACGAGCTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 46 0.55
24 1 0.01
25 10 0.12
26 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTAAGCTGAAACA
Found at i:59752218 original size:23 final size:23
Alignment explanation
Indices: 59752180--59752283 Score: 122
Period size: 23 Copynumber: 4.6 Consensus size: 23
59752170 TAAGCTGATG
* *
59752180 AACAGTAAGCTTTATTAAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
59752203 AACGGTAAGCTCTATTGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
59752225 AACAGTAAGCTCT-TTCGAGCTGA
1 AACAGTAAGCTCTATT-GAGCTGA
* * * *
59752248 ATCGGTAAGCTCCAATGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
59752271 AACAGTAAGCTCT
1 AACAGTAAGCTCT
59752284 TACGAGCTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.03
22 18 0.27
23 46 0.69
24 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:59752232 original size:45 final size:45
Alignment explanation
Indices: 59752178--59752284 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
59752168 CTTAAGCTGA
* * *
59752178 TGAACAGTAAGCT-TTATTAAGCTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTT-TCAAGCTGAAACGGTAAGCTCCAATGAGC
* *
59752223 TGAACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTTTCAAGCTGAAACGGTAAGCTCCAATGAGC
59752268 TGAAACAGTAAGCTCTT
1 TG-AACAGTAAGCTCTT
59752285 ACGAGCTGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 39 0.71
46 16 0.29
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TGAACAGTAAGCTCTTTCAAGCTGAAACGGTAAGCTCCAATGAGC
Found at i:59754144 original size:17 final size:17
Alignment explanation
Indices: 59754118--59754150 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59754108 TGACCTTTTA
*
59754118 AAAATTAAAATATTAAT
1 AAAATCAAAATATTAAT
59754135 AAAATCAAAATATTAA
1 AAAATCAAAATATTAA
59754151 AATCAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATCAAAATATTAAT
Found at i:59756730 original size:25 final size:23
Alignment explanation
Indices: 59756688--59756813 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 23
59756678 GTCATGGTCG
*
59756688 GTAAGCTCCTCTTAAGCTGATGAACA
1 GTAAGCT-CTATTAAGCTGA--AACA
* *
59756714 GTAAGCTTTATTAAGCTGAAACG
1 GTAAGCTCTATTAAGCTGAAACA
*
59756737 GTAAGCTCTATTGAGCTG-AACA
1 GTAAGCTCTATTAAGCTGAAACA
* * *
59756759 GTAAGCTCT-TTCGAGCTGAATCG
1 GTAAGCTCTATT-AAGCTGAAACA
* * *
59756782 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTAAGCTGAAACA
59756805 GTAAGCTCT
1 GTAAGCTCT
59756814 TACGAGCTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 46 0.55
24 1 0.01
25 10 0.12
26 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (23 bp):
GTAAGCTCTATTAAGCTGAAACA
Found at i:59756748 original size:23 final size:23
Alignment explanation
Indices: 59756710--59756813 Score: 122
Period size: 23 Copynumber: 4.6 Consensus size: 23
59756700 TAAGCTGATG
* *
59756710 AACAGTAAGCTTTATTAAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
59756733 AACGGTAAGCTCTATTGAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
59756755 AACAGTAAGCTCT-TTCGAGCTGA
1 AACAGTAAGCTCTATT-GAGCTGA
* * * *
59756778 ATCGGTAAGCTCCAATGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
59756801 AACAGTAAGCTCT
1 AACAGTAAGCTCT
59756814 TACGAGCTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.03
22 18 0.27
23 46 0.69
24 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:59756762 original size:45 final size:45
Alignment explanation
Indices: 59756708--59756814 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
59756698 CTTAAGCTGA
* * *
59756708 TGAACAGTAAGCT-TTATTAAGCTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTT-TCAAGCTGAAACGGTAAGCTCCAATGAGC
* *
59756753 TGAACAGTAAGCTCTTTCGAGCTGAATCGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTTTCAAGCTGAAACGGTAAGCTCCAATGAGC
59756798 TGAAACAGTAAGCTCTT
1 TG-AACAGTAAGCTCTT
59756815 ACGAGCTGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 39 0.71
46 16 0.29
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TGAACAGTAAGCTCTTTCAAGCTGAAACGGTAAGCTCCAATGAGC
Found at i:59758673 original size:17 final size:17
Alignment explanation
Indices: 59758647--59758679 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59758637 TGACCTTTTA
*
59758647 AAAATTAAAATATTAAT
1 AAAATCAAAATATTAAT
59758664 AAAATCAAAATATTAA
1 AAAATCAAAATATTAA
59758680 AATCAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATCAAAATATTAAT
Found at i:59763138 original size:25 final size:25
Alignment explanation
Indices: 59763091--59763138 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
59763081 CAAAGTAGAC
*
59763091 TGACATCAATGAAACTTATTAATAT
1 TGACATCAATGAAACTTAATAATAT
*
59763116 TGACATCCATGAAGA-TTAATAAT
1 TGACATCAATGAA-ACTTAATAAT
59763139 GATTTCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (25 bp):
TGACATCAATGAAACTTAATAATAT
Found at i:59769158 original size:20 final size:20
Alignment explanation
Indices: 59769133--59769187 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
59769123 GACAAAATAG
*
59769133 TCACTCAAATTTTAATTCAA
1 TCACTCAAATTTCAATTCAA
*
59769153 TCACTCAAATTTCAATTCAG
1 TCACTCAAATTTCAATTCAA
* *
59769173 TCACTGAACTTTCAA
1 TCACTCAAATTTCAA
59769188 AAAATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (20 bp):
TCACTCAAATTTCAATTCAA
Found at i:59770950 original size:15 final size:16
Alignment explanation
Indices: 59770919--59770982 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 16
59770909 ATTAAAATTG
59770919 TTTTAAAAATATTTAA
1 TTTTAAAAATATTTAA
59770935 TTTT-AAAAT-TTCTAA
1 TTTTAAAAATATT-TAA
*
59770950 TTTTTAAGAAATACTTTTATT
1 -TTTTAA-AAATA--TTTA-A
59770971 TTTTAAAAATAT
1 TTTTAAAAATAT
59770983 GTAACCATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
14 2 0.05
15 8 0.21
16 8 0.21
17 2 0.05
18 4 0.10
19 5 0.13
20 8 0.21
21 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTAAAAATATTTAA
Found at i:59774608 original size:43 final size:44
Alignment explanation
Indices: 59774537--59774671 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
59774527 TATCGAAATG
* *
59774537 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
59774581 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
59774624 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
59774669 TGA
1 TGA
59774672 AATGTTATGT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 8 0.10
45 31 0.40
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:59774653 original size:45 final size:43
Alignment explanation
Indices: 59774554--59774671 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 43
59774544 CGGGCTTCGG
*
59774554 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
59774597 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
*
59774642 GCCTAGCAGGCTATAATGTCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
59774672 AATGTTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.43
44 3 0.05
45 31 0.49
46 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:59774983 original size:38 final size:38
Alignment explanation
Indices: 59774941--59775138 Score: 247
Period size: 38 Copynumber: 5.2 Consensus size: 38
59774931 ATGATATTTG
* * * *
59774941 TATCCGGCTTAAATACCGCAGGCTAT-ATGTTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
*
59774979 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
59775017 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
59775055 TATCCGGGTTAATTCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
59775093 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
59775131 TATTCGGG
1 TATCCGGG
59775139 CCTTTAAGCC
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 141 0.98
39 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:59775256 original size:45 final size:45
Alignment explanation
Indices: 59775131--59775303 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 45
59775121 GCTAGTATTA
* * * * *
59775131 TATTCGGGCCTTTAAGCCTAACAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
59775176 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
59775221 TATTCGGG-CTTTCGAGCCTAGTAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* * * *
59775266 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
59775304 TTTGAGAAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
43 10 0.09
44 16 0.15
45 81 0.74
46 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:59775512 original size:10 final size:10
Alignment explanation
Indices: 59775497--59775527 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
59775487 CGGGTCAGGG
59775497 TGTGAAAGTA
1 TGTGAAAGTA
59775507 TGTGAAAGTA
1 TGTGAAAGTA
59775517 TGTGAAAGTA
1 TGTGAAAGTA
59775527 T
1 T
59775528 TTGAGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:59776539 original size:34 final size:33
Alignment explanation
Indices: 59776448--59776549 Score: 141
Period size: 34 Copynumber: 3.0 Consensus size: 33
59776438 TTCTTTTTTT
* ** *
59776448 AAAATTAATTAAATTAGGGTTTAAAGATTTTAA
1 AAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
59776481 ATAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
1 A-AAATTAATTAAATTTGGGTTTAGTGTTTTTAA
*
59776515 GAAAATTAATTAAATTTGGGTTTAGTTTTTTTAA
1 -AAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
59776549 A
1 A
59776550 TAATATTGTG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
33 2 0.03
34 59 0.95
35 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (33 bp):
AAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
Found at i:59779869 original size:24 final size:24
Alignment explanation
Indices: 59779823--59779870 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59779813 ATTTTATAAA
* *
59779823 AAAATATAAAAATAATTTATTATT
1 AAAATATAAAAACAACTTATTATT
59779847 AAAATATTAAAAACAACTT-TTATT
1 AAAATA-TAAAAACAACTTATTATT
59779871 TTATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATATAAAAACAACTTATTATT
Found at i:59782118 original size:30 final size:30
Alignment explanation
Indices: 59782082--59782145 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
59782072 TTAATTAAAT
59782082 AGAGCTTTAAGAAATTTA-AGGAGAAATTTG
1 AGAGCTTTAAGAAATTTAGA-GAGAAATTTG
*
59782112 AGAGCTTTGAGAAATTTAGAGAGAAATTTG
1 AGAGCTTTAAGAAATTTAGAGAGAAATTTG
59782142 AGAG
1 AGAG
59782146 TTTTTTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (30 bp):
AGAGCTTTAAGAAATTTAGAGAGAAATTTG
Found at i:59786133 original size:16 final size:17
Alignment explanation
Indices: 59786112--59786144 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59786102 TAATTTTAAA
*
59786112 TTAAAT-TATAATAATT
1 TTAAATGTATAACAATT
59786128 TTAAATGTATAACAATT
1 TTAAATGTATAACAATT
59786145 ATCACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATGTATAACAATT
Found at i:59787247 original size:14 final size:15
Alignment explanation
Indices: 59787222--59787250 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59787212 TTTATTTTAA
59787222 GTTAATTTAATTTTT
1 GTTAATTTAATTTTT
59787237 GTTAA-TTAATTTTT
1 GTTAATTTAATTTTT
59787251 AAATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
GTTAATTTAATTTTT
Found at i:59789069 original size:24 final size:24
Alignment explanation
Indices: 59789025--59789070 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
59789015 TTTGGACCTT
**
59789025 AAGGGGAAAAGGGAGGGGAAGGGG
1 AAGGGGAAAAGGGAGAAGAAGGGG
59789049 AAGGGG-AAAGAGGAGAAGAAGG
1 AAGGGGAAAAG-GGAGAAGAAGG
59789071 CGTCATGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (24 bp):
AAGGGGAAAAGGGAGAAGAAGGGG
Found at i:59793742 original size:47 final size:47
Alignment explanation
Indices: 59793633--59793743 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
59793623 CCGGGATAAG
*
59793633 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
59793680 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
59793727 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
59793744 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:59794512 original size:4 final size:4
Alignment explanation
Indices: 59794503--59794534 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
59794493 CCCTTTTCTA
59794503 TTTC TTTC TTTC -TTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
59794535 CACGTTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:59794521 original size:15 final size:15
Alignment explanation
Indices: 59794503--59794531 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59794493 CCCTTTTCTA
59794503 TTTCTTTCTTTCTTC
1 TTTCTTTCTTTCTTC
59794518 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
59794532 TCTCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:59800996 original size:47 final size:47
Alignment explanation
Indices: 59800887--59800997 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
59800877 CCGGGATAAG
*
59800887 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
59800934 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
59800981 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
59800998 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:59803492 original size:14 final size:14
Alignment explanation
Indices: 59803473--59803501 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59803463 CTCGATTTAT
59803473 GGATTGCCCTATTA
1 GGATTGCCCTATTA
59803487 GGATTGCCCTATTA
1 GGATTGCCCTATTA
59803501 G
1 G
59803502 ATTTTACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (14 bp):
GGATTGCCCTATTA
Found at i:59814078 original size:33 final size:33
Alignment explanation
Indices: 59814036--59814103 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
59814026 TAAGAATGAG
*
59814036 ATTAAAATATGTTACTTTTATGGCTTATCCGGT
1 ATTAAAATATGTTACTTTTATGGCTTATCCAGT
59814069 ATTAAAATATGTTACTTTTATGGCTTATCCAGT
1 ATTAAAATATGTTACTTTTATGGCTTATCCAGT
59814102 AT
1 AT
59814104 CCTAGTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (33 bp):
ATTAAAATATGTTACTTTTATGGCTTATCCAGT
Found at i:59816369 original size:17 final size:18
Alignment explanation
Indices: 59816349--59816385 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
59816339 TATTGATCAA
59816349 ATTTTATTTA-TTTAAAT
1 ATTTTATTTAGTTTAAAT
*
59816366 ATTTTATTTAGTTTTAAT
1 ATTTTATTTAGTTTAAAT
59816384 AT
1 AT
59816386 AATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTATTTAGTTTAAAT
Found at i:59819641 original size:16 final size:16
Alignment explanation
Indices: 59819620--59819657 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
59819610 TATGATTAGT
*
59819620 CTATACATCATTCACC
1 CTATACATCATCCACC
*
59819636 CTATACATCATCCACG
1 CTATACATCATCCACC
59819652 CTATAC
1 CTATAC
59819658 CAACCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.37, G:0.03, T:0.29
Consensus pattern (16 bp):
CTATACATCATCCACC
Found at i:59819648 original size:202 final size:203
Alignment explanation
Indices: 59819302--59819702 Score: 707
Period size: 202 Copynumber: 2.0 Consensus size: 203
59819292 AGTTTAGCTT
* *
59819302 AATAAATAATGTAGTGACAATAAACATAAGACTAAAAGGCCAAATTTGATCATTTAAGCATATGA
1 AATAAATAATGGAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATGA
*
59819367 TTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGTTTAGTCTATACACCATTCA
66 TTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGATTAGTCTATACACCATTCA
*
59819432 CCCTATACATCATCCACGCTATACCAGCCAAAAACCAAAATGTGAGTGAGCTATACATGAACCA-
131 CCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCAG
59819496 AAAAGGAC
196 AAAAGGAC
59819504 AATAAATAATGCGA-TGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATG
1 AATAAATAATG-GAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATG
* * * *
59819568 ATTTCCCCATTGCAATTTGTATATATGTACTTTATAAAAGCATATGATTAGTCTATACATCATTC
65 ATTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGATTAGTCTATACACCATTC
59819633 ACCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCA
130 ACCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCA
59819698 GAAAA
195 GAAAA
59819703 AAAACCAACA
Statistics
Matches: 189, Mismatches: 8, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
202 184 0.97
203 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (203 bp):
AATAAATAATGGAGTGACAATAAACATAAGACTAAAAGGACAAATTTGATCATTTAAGCATATGA
TTTCCCCATTGCAATTTGGATAAATGTACTTTATAAAAACATATGATTAGTCTATACACCATTCA
CCCTATACATCATCCACGCTATACCAACCAAAAACCAAAATGTGAGTGAGCTATACATGAACCAG
AAAAGGAC
Found at i:59822463 original size:51 final size:51
Alignment explanation
Indices: 59822386--59822533 Score: 215
Period size: 51 Copynumber: 2.9 Consensus size: 51
59822376 TAGCAACAAC
* * * *
59822386 ATTATCTAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGTAAT
1 ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGCAAT
* * *
59822437 CTTATCCACTCCATCTAATGTTGCAAAATCACTAGCATATTCATTAGCAAT
1 ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGCAAT
**
59822488 ATTATCCACTCCATCTGATACTGCAAAATCACTAGCATATTCATCA
1 ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCA
59822534 ACAACAACTT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (51 bp):
ATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGCAAT
Found at i:59823783 original size:17 final size:16
Alignment explanation
Indices: 59823743--59823787 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
59823733 GAATGCTAAT
*
59823743 GATTTATGGATTTCAA
1 GATTTAGGGATTTCAA
*
59823759 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
59823775 GATTTTAGGGATT
1 GA-TTTAGGGATT
59823788 CAATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:59823873 original size:12 final size:12
Alignment explanation
Indices: 59823851--59823877 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59823841 TAAAAGTTGG
59823851 GAAAAAAGTTTT
1 GAAAAAAGTTTT
59823863 GAAAAAAGTTTT
1 GAAAAAAGTTTT
59823875 GAA
1 GAA
59823878 TTTGGGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (12 bp):
GAAAAAAGTTTT
Found at i:59825483 original size:31 final size:28
Alignment explanation
Indices: 59825438--59825505 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
59825428 CATGTGTGTG
*
59825438 TATAATAT-ACATATATTTATACTTAAGT-A
1 TATAATATAACATATATTAATA--TAA-TAA
59825467 TATAATATAACAATATATTAATATAATAA
1 TATAATATAAC-ATATATTAATATAATAA
59825496 TATAATATAA
1 TATAATATAA
59825506 TAAAACATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 1 0.03
29 22 0.63
30 2 0.06
31 10 0.29
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (28 bp):
TATAATATAACATATATTAATATAATAA
Found at i:59825494 original size:13 final size:13
Alignment explanation
Indices: 59825466--59825508 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
59825456 ATACTTAAGT
*
59825466 ATATAATATAACAA
1 ATATAATATAA-TA
59825480 TATATTAATATAATA
1 -ATA-TAATATAATA
59825495 ATATAATATAATA
1 ATATAATATAATA
59825508 A
1 A
59825509 AACATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 11 0.42
14 3 0.12
15 4 0.15
16 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:59825508 original size:8 final size:8
Alignment explanation
Indices: 59825468--59825502 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
59825458 ACTTAAGTAT
59825468 ATAATATA
1 ATAATATA
*
59825476 ACAATATA
1 ATAATATA
*
59825484 TTAATATA
1 ATAATATA
59825492 ATAATATA
1 ATAATATA
59825500 ATA
1 ATA
59825503 TAATAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:59825523 original size:21 final size:22
Alignment explanation
Indices: 59825489--59825542 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
59825479 ATATATTAAT
* *
59825489 ATAATAATATAATATAATAAAAC
1 ATAAGAATA-AATAAAATAAAAC
59825512 ATAA-AATAAATAAAATAAAAC
1 ATAAGAATAAATAAAATAAAAC
*
59825533 AAAAGAATAA
1 ATAAGAATAA
59825543 GAACAGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.54
22 9 0.32
23 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAAGAATAAATAAAATAAAAC
Found at i:59830266 original size:18 final size:19
Alignment explanation
Indices: 59830245--59830288 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
59830235 AAAAGGACCT
* *
59830245 TAAAAAG-ATAAATAAAGA
1 TAAAAAGTAAAAATAAAAA
59830263 T-AAAAGTAAAAATAAAAA
1 TAAAAAGTAAAAATAAAAA
59830281 TAAAAAGT
1 TAAAAAGT
59830289 CTTCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (19 bp):
TAAAAAGTAAAAATAAAAA
Found at i:59841302 original size:88 final size:83
Alignment explanation
Indices: 59840761--59841657 Score: 591
Period size: 84 Copynumber: 10.7 Consensus size: 83
59840751 ATTATATCAA
* ** * * * * * * *
59840761 AATAGAATCTGTTAAACGACGTGAATGAATCCCAAAACATA-ATTATTTGA-TTAAGTCTTTGTT
1 AATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTC-TAGTT
* * *
59840824 TGGAAACAAAACAATACTG
65 TGGAAACAAAATAAAAATG
* * * *
59840843 AATAAAATCTTGTTAAACGGCGAGAATAAATCCTGAAACAGATTTTATTTAATTTAATTCTAATT
1 AATAAAATC-TGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTAGTT
*
59840908 TGGAAACAAAAT-AAAATCA
65 TGGAAACAAAATAAAAAT-G
* * *
59840927 AATAAAATCTTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTTATTTAATTTTAATT
1 AATAAAATC-TGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTAGTT
59840992 TGGAAACAAAAT-AAAATCG
65 TGGAAACAAAATAAAAAT-G
* * * ** * * *
59841011 AATAAAATCTTGTTAAATGGCAGGAATAAATCCTAAAACAAATTTAATTTAATTTAATTCTAATT
1 AATAAAATC-TGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTAGTT
59841076 TGGAAACAAAATAAAAATCG
65 TGGAAACAAAATAAAAAT-G
* ** * *
59841096 AATAAAATTTTGTTAAACGACGGGAATAAATCTCG-AACAGATTTTATTTAATTTTAATTTCTCG
1 AATAAAA-TCTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAA-TTTAA-TTCTAG
* *
59841160 TTTTGGCAACAAAATCAAAATG
63 -TTTGGAAACAAAATAAAAATG
* * * * *
59841182 TAATAAAATATGTTGAATA-G-CGAGAATAAATCCCAAAATATATTTTATTTAACTTTAATTTCT
1 -AATAAAATCTGTT-AA-ACGACAAGAATAAATCCCGAAACAGATTTTATTTAA-TTTAA-TTCT
* *
59841245 CGTTTGGAAATAAAATAGAAAAAATG
61 AGTTTGGAAACAAAAT---AAAAATG
* * *
59841271 AATAAAATCTGTTGAACGACAAGAATAAATCCCGAAACAGATTTTATTTTAATTTTAATACTCGT
1 AATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTA-TTTAA-TTTAATTCTAG-
* *
59841336 TTTGGAAATAAAATCAAAATTGG
63 TTTGGAAACAAAAT-AAAAAT-G
* * ** * * *
59841359 AATAAAATCTGTTGAACAACGGGAATAAATCTCGAAACAAATTTTATTTTAATTCTAATTCTTGT
1 AATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTA-TTTAATT-TAATTCTAGT
* ***
59841424 TTAGAAATGGAATAAAAAATG
64 TTGGAAACAAAAT-AAAAATG
* * * * * *
59841445 CAATAAAAT-TCGTTGAACGGCAAGAATAAATCCCGAAGCAGATTTTA-TTCA-CT--TT-TAAT
1 -AATAAAATCT-GTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTAGT
59841504 TTGGAAA-AAAAT-----TG
64 TTGGAAACAAAATAAAAATG
* **** * * *
59841518 AATAAAATCTATTAAACGGTTGGAATAAATCCCAAAACAGATTTTATTTAATTTTAATAT-TTGA
1 AATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAA-TTTAAT-TCTAGT
* *
59841582 TTGGGAATAAAA-AATAAA-G
64 TTGGAAACAAAATAA-AAATG
* * * * *
59841601 AATAAAATCTTTTGAACTACAAAAAGTAATAT--TGAAACAGATTTTATTTTAATTTAA
1 AATAAAATCTGTTAAACGACAAGAA-TAA-ATCCCGAAACAGATTTTA-TTTAATTTAA
59841658 AAAATTATTT
Statistics
Matches: 661, Mismatches: 113, Indels: 81
0.77 0.13 0.09
Matches are distributed among these distances:
72 37 0.06
73 6 0.01
75 1 0.00
77 1 0.00
78 8 0.01
79 7 0.01
80 8 0.01
81 2 0.00
82 8 0.01
83 65 0.10
84 189 0.29
85 49 0.07
86 38 0.06
87 116 0.18
88 96 0.15
89 30 0.05
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (83 bp):
AATAAAATCTGTTAAACGACAAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTAGTTT
GGAAACAAAATAAAAATG
Found at i:59841314 original size:175 final size:170
Alignment explanation
Indices: 59840822--59841505 Score: 672
Period size: 168 Copynumber: 4.0 Consensus size: 170
59840812 TAAGTCTTTG
* * * ** ** *
59840822 TTTGGAAACAAAA-CAATACTGAATAAAATCTTGTTAAACGGCGAGAATAAATCCTGAAACAGAT
1 TTTGGAAACAAAATCAA-AATGAATAAAAT-ATGTTGAATAGCGAGAATAAATCCCAAAACAAAT
*
59840886 TTTATTTAATTTAATTCTAATTTGGAAACAAAAT--AAAATCAAATAAAATCTTGTTAAACGACA
64 TTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAAAAT-GAATAAAATC-TGTTAAACGACA
* **
59840949 AGAATAAATCCCGAAACAGATTTTATTTTA-TTTAATTT-T-AA
127 AGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTTCTCGT
* * * *
59840990 TTTGGAAACAAAAT-AAAATCGAATAAAATCTTGTTAAATGGC-AGGAATAAATCCTAAAACAAA
1 TTTGGAAACAAAATCAAAAT-GAATAAAAT-ATGTTGAATAGCGA-GAATAAATCCCAAAACAAA
* *
59841053 TTTAATTTAATTTAATTCTAATTTGGAAACAAAAT-AAAAATCGAATAAAATTTTGTTAAACGAC
63 TTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAAAAT-GAATAAAA-TCTGTTAAACGAC
** *
59841117 GGGAATAAATCTCG-AACAGATTTTATTTAATTTTAATTTCTCGT
126 AAGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTTCTCGT
* * *
59841161 TTTGGCAACAAAATCAAAATGTAATAAAATATGTTGAATAGCGAGAATAAATCCCAAAATATATT
1 TTTGGAAACAAAATCAAAATG-AATAAAATATGTTGAATAGCGAGAATAAATCCCAAAACAAATT
** * *
59841226 TTATTTAACTTTAATTTCTCGTTTGGAAATAAAATAGAAAAAATGAATAAAATCTGTTGAACGAC
65 TTATTTAA-TTTAA-TTCTAATTTGGAAACAAAAT--AAAAAATGAATAAAATCTGTTAAACGAC
*
59841291 AAGAATAAATCCCGAAACAGATTTTATTTTAATTTTAA-TACTCGT
126 AAGAATAAATCCCGAAACAGATTTTA-TTTAATTTTAATTTCTCGT
* * * * * * *
59841336 TTTGGAAATAAAATCAAAATTGGAATAAAATCTGTTGAACAACGGGAATAAATCTCGAAACAAAT
1 TTTGGAAACAAAATCAAAA-T-GAATAAAATATGTTGAATAGCGAGAATAAATCCCAAAACAAAT
** * *** * *
59841401 TTTATTTTAATTCTAATTCTTGTTTAGAAATGGAATAAAAAATGCAATAAAAT-TCGTTGAACGG
64 TTTA-TTTAATT-TAATTCTAATTTGGAAACAAAATAAAAAATG-AATAAAATCT-GTTAAACGA
* * *
59841465 CAAGAATAAATCCCGAAGCAGATTTTATTCACTTTTAATTT
125 CAAGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTT
59841506 GGAAAAAAAT
Statistics
Matches: 442, Mismatches: 49, Indels: 43
0.83 0.09 0.08
Matches are distributed among these distances:
167 3 0.01
168 102 0.23
169 43 0.10
170 2 0.00
171 48 0.11
172 19 0.04
173 17 0.04
174 40 0.09
175 85 0.19
176 74 0.17
177 9 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (170 bp):
TTTGGAAACAAAATCAAAATGAATAAAATATGTTGAATAGCGAGAATAAATCCCAAAACAAATTT
TATTTAATTTAATTCTAATTTGGAAACAAAATAAAAAATGAATAAAATCTGTTAAACGACAAGAA
TAAATCCCGAAACAGATTTTATTTAATTTTAATTTCTCGT
Found at i:59843126 original size:19 final size:22
Alignment explanation
Indices: 59843086--59843128 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
59843076 TAATTAGGAT
59843086 ATATATGAATGTGTTGGTAATA
1 ATATATGAATGTGTTGGTAATA
59843108 ATATATGAAT-T-TT-GTAATA
1 ATATATGAATGTGTTGGTAATA
59843127 AT
1 AT
59843129 TTTATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 1 0.05
22 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (22 bp):
ATATATGAATGTGTTGGTAATA
Found at i:59844837 original size:12 final size:12
Alignment explanation
Indices: 59844822--59844857 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
59844812 GTGAAGTGCA
59844822 GCGTGATTTGGG
1 GCGTGATTTGGG
**
59844834 GCGTGAGCTGGG
1 GCGTGATTTGGG
59844846 GCGTGATTTGGG
1 GCGTGATTTGGG
59844858 CCAGCGCCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.08, C:0.11, G:0.53, T:0.28
Consensus pattern (12 bp):
GCGTGATTTGGG
Found at i:59845730 original size:66 final size:66
Alignment explanation
Indices: 59845636--59845782 Score: 260
Period size: 66 Copynumber: 2.2 Consensus size: 66
59845626 ACGGTTATCA
*
59845636 GACACGCCCATGT-CATAGGCCGTAAGAAAACAGGGCATACATACTGACTTGTACCACACGGCCA
1 GACACGCCCGTGTGC-TAGGCCGTAAGAAAACAGGGCATACATACTGACTTGTACCACACGGCCA
59845700 CG
65 CG
*
59845702 GACACGCCTGTGTGCTAGGCCGTAAGAAAACAGGGCATACATACTGACTTGTACCACACGGCCAC
1 GACACGCCCGTGTGCTAGGCCGTAAGAAAACAGGGCATACATACTGACTTGTACCACACGGCCAC
59845767 G
66 G
59845768 GACACGCCCGTGTGC
1 GACACGCCCGTGTGC
59845783 CAGCCTGTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 76 0.99
67 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.16
Consensus pattern (66 bp):
GACACGCCCGTGTGCTAGGCCGTAAGAAAACAGGGCATACATACTGACTTGTACCACACGGCCAC
G
Found at i:59846964 original size:44 final size:44
Alignment explanation
Indices: 59846901--59847011 Score: 186
Period size: 44 Copynumber: 2.5 Consensus size: 44
59846891 TCACATTTAT
*
59846901 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* *
59846945 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
59846989 CACTTATCACTTGTCACTAATCA
1 CACTTATCACTTGTCACTGATCA
59847012 AAAGTACTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:59849765 original size:25 final size:23
Alignment explanation
Indices: 59849726--59849793 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 23
59849716 GCTATGATTG
*
59849726 GTAAGCTCTTCTTGAGCTGATGGACA
1 GTAAGCTC-TATTGAGCTGATGG--A
59849752 GTAAGCTCTATTGAGCTGAAATGGA
1 GTAAGCTCTATTGAGCTG--ATGGA
59849777 --AAGCTCTATTGAGCTGA
1 GTAAGCTCTATTGAGCTGA
59849794 ATAATAAGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 1 0.03
23 16 0.41
25 10 0.26
26 8 0.21
27 4 0.10
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGATGGA
Found at i:59849816 original size:22 final size:22
Alignment explanation
Indices: 59849777--59849838 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
59849767 CTGAAATGGA
* *
59849777 AAGCTCTATTGAGCTGAATAAT
1 AAGCTCTATCGAGCTGAACAAT
* * *
59849799 AAGCTTTATCGAGTTGAACAGT
1 AAGCTCTATCGAGCTGAACAAT
59849821 AAGCTC-ATACGAGCTGAA
1 AAGCTCTAT-CGAGCTGAA
59849839 ACGGTAACCT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (22 bp):
AAGCTCTATCGAGCTGAACAAT
Found at i:59861528 original size:17 final size:16
Alignment explanation
Indices: 59861493--59861540 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
59861483 AAGAGAATTG
* *
59861493 GAAAGA-TGAAAATTT
1 GAAAGACTGAAAAATA
*
59861508 GAAAGAGTGGAAAAATA
1 GAAAGACT-GAAAAATA
59861525 GAAAGACTGAAAAATA
1 GAAAGACTGAAAAATA
59861541 TAATTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (16 bp):
GAAAGACTGAAAAATA
Found at i:59861666 original size:15 final size:15
Alignment explanation
Indices: 59861626--59861668 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
59861616 ATTACTTGAT
59861626 AGAATTGAAAAATAAA
1 AGAATTG-AAAATAAA
**
59861642 AGAAAAGAAAATAAA
1 AGAATTGAAAATAAA
*
59861657 ATAATTGAAAAT
1 AGAATTGAAAAT
59861669 TACATAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.19
Consensus pattern (15 bp):
AGAATTGAAAATAAA
Found at i:59868300 original size:25 final size:25
Alignment explanation
Indices: 59868266--59868313 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
59868256 TACAAAATGA
59868266 AAGGATTT-AACCAAAGCCACACACT
1 AAGGATTTAAACC-AAGCCACACACT
59868291 AAGGATTTAAACCAAGCCACACA
1 AAGGATTTAAACCAAGCCACACA
59868314 TTTGGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.15
Consensus pattern (25 bp):
AAGGATTTAAACCAAGCCACACACT
Found at i:59868857 original size:46 final size:47
Alignment explanation
Indices: 59868778--59868948 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 47
59868768 GGGATAGGAT
*
59868778 GCCGATGCCATATCCCAGACATGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AG
* *
59868826 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCT-TACTTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAG
* * *
59868872 GCCGATG-CATGTCCCGGACATGTCTTACACT-AGC-ACTCGTCTCGAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAG
*
59868918 GCCGATGCCATGTCCCAAACATGATCTTACA
1 GCCGATGCCATGTCCCAGACATG-TCTTACA
59868949 TAGACTCTCA
Statistics
Matches: 107, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.02
46 64 0.60
47 27 0.25
48 14 0.13
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:59874460 original size:21 final size:22
Alignment explanation
Indices: 59874434--59874474 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
59874424 CACTTGACAT
59874434 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
59874455 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
59874475 ACCAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:59875758 original size:46 final size:46
Alignment explanation
Indices: 59875677--59875792 Score: 128
Period size: 46 Copynumber: 2.5 Consensus size: 46
59875667 GTAGTTGCAT
* *
59875677 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATG-
1 CATGTCCCAGACATATCTTACACTGGCTTA-GTCTCGAGGCCGATGC
* *
59875723 CATGTCCCGGACATATCTTACACTAGGACTT-GTCTCGATGCCGATGC
1 CATGTCCCAGACATATCTTACACT-GG-CTTAGTCTCGAGGCCGATGC
* *
59875770 CATATCCCATACATAGTCTTACA
1 CATGTCCCAGACATA-TCTTACA
59875793 TAGCTCTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 35 0.59
47 14 0.24
48 10 0.17
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATATCTTACACTGGCTTAGTCTCGAGGCCGATGC
Found at i:59877203 original size:25 final size:25
Alignment explanation
Indices: 59877175--59877226 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
59877165 GATGCTCTCG
59877175 TACATAACCTATACAAGCTTCATAA
1 TACATAACCTATACAAGCTTCATAA
59877200 TACATAACCTATACAAGCTTCATAA
1 TACATAACCTATACAAGCTTCATAA
59877225 TA
1 TA
59877227 TATTTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (25 bp):
TACATAACCTATACAAGCTTCATAA
Done.