Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 102 of 199
Found at i:34690245 original size:44 final size:44
Alignment explanation
Indices: 34690192--34690527 Score: 238
Period size: 44 Copynumber: 7.7 Consensus size: 44
34690182 TCACCATTTT
* * *
34690192 AATCCGCTCCACTGCAACTTTAGGGAAATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * *
34690236 AATCTGCTCCACTGTAACTTCAGGGAGATAAGG-TTTGATATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTAG-TAGCTTC
* * * * * *
34690281 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAGCTTC
* * * *
34690325 AATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGACT-TCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-AGTAGCTTC
** * * * * *
34690369 TGTCTGCTCCACTACAACTTCAGGGAGATAAGACT-G--GATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
* * * * * *
34690410 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTA-TGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAGCTTC
* * * * *
34690454 AATCCGTTCCACTGCAACTTCAGGGAGATTGGATTGACT-TCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-AGTAGCTTC
* *
34690498 TATCTGCTCCACTGTAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
34690528 AGACTGGATG
Statistics
Matches: 223, Mismatches: 57, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
41 30 0.13
42 1 0.00
43 2 0.01
44 150 0.67
45 39 0.17
46 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
Found at i:34690428 original size:41 final size:41
Alignment explanation
Indices: 34690235--34690571 Score: 165
Period size: 44 Copynumber: 7.8 Consensus size: 41
34690225 TTAGTAGCTT
* ** * *
34690235 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGATATCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAA-GACTG-GA--TG
* * * *
34690280 CAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATG
* * * ** *
34690324 TAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGACT-TCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATA--A--GACTGGATG
** *
34690368 CTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATG
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATG
* * * *
34690409 CAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATG
* * * * ** *
34690453 TAATCCGTTCCACTGCAACTTCAGGGAGATTGGATTGACT-TCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGA-T--A-AGACTGGATG
* *
34690497 CTATCTGCTCCACTGTAACTTCAGGGAGATAAGACTGGATG
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATG
** * * * *
34690538 CGGTCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
34690572 TCTGTGGTTT
Statistics
Matches: 224, Mismatches: 52, Indels: 36
0.72 0.17 0.12
Matches are distributed among these distances:
40 8 0.04
41 61 0.27
42 2 0.01
43 1 0.00
44 110 0.49
45 32 0.14
46 1 0.00
47 5 0.02
48 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (41 bp):
CAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATG
Found at i:34690469 original size:129 final size:129
Alignment explanation
Indices: 34690188--34690592 Score: 560
Period size: 129 Copynumber: 3.1 Consensus size: 129
34690178 GGATTCACCA
* * * * *
34690188 TTTTAATCCGCTCCACTGCAACTTTAGGGAAATAGGATT-AGTAGCTTCAATCTGCTCCACTGTA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACT-TCTTCTATCTGCTCCACTGTA
** * * *
34690252 ACTTCAGGGAGATAAGGTTTGATATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
65 ACTTCAGGGAGATAA-GACTG-GA--TGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
34690317 GTGG
126 GTGG
* * **
34690321 TTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGACTTCTTCTGTCTGCTCCACTACAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGTAA
* *
34690386 CTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGG
66 CTTCAGGGAGATAAGACTGGATGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* *
34690450 TTTTAATCCGTTCCACTGCAACTTCAGGGAGATTGGATTGACTTCTTCTATCTGCTCCACTGTAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGTAA
* * *
34690515 CTTCAGGGAGATAAGACTGGATGCGGTCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGG
66 CTTCAGGGAGATAAGACTGGATGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
34690579 TTTTAAATCCGCTC
1 TTTT-AATCCGCTC
34690593 ACCACGGAAG
Statistics
Matches: 242, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
129 161 0.67
130 8 0.03
131 1 0.00
132 3 0.01
133 67 0.28
134 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGTAA
CTTCAGGGAGATAAGACTGGATGCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
Found at i:34690686 original size:50 final size:50
Alignment explanation
Indices: 34690598--34691331 Score: 511
Period size: 50 Copynumber: 14.7 Consensus size: 50
34690588 CGCTCACCAC
* * * ** *
34690598 GGAAGTAAGATTCGCTGTTGTAGCTTCAATATACTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * ** *
34690648 GGAAACAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAACACCTG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * *
34690698 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * ** * * * *
34690748 GGAAGCAAGATTCGCTGTTGTAGCTTCAATTTGTTCCACTGTACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * * * *
34690798 GGAAGTAAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * ** * *
34690848 GGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCACCG-CTAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTC-GG
* * * * * * * *
34690898 GGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTACAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * ** * * *
34690948 GGAAACAAGATTCGCCATTGTAGTTTCAATCTGTTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
** * * * * * * *
34690998 AAAAGTAAGATTAGCCGTTGTGGCTTCAAT-TTTTTAATTACAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * ** * * *
34691047 GGAAGCAAGATTCACCGTTATAGTTTCAATCTGTTCCACTGCACCGCCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * * * * * *
34691097 AGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
** * * ** *
34691147 GGAAGCAAGATTTACCGTTGTAGCTTCAATCTGTTTCACTGCACCACCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
* * * ** * *
34691197 GAAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCG-CTTG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTC-GG
* * * * * * *
34691247 GGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGA
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
**
34691297 GGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTT
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTT
34691332 CCACTACACC
Statistics
Matches: 511, Mismatches: 168, Indels: 10
0.74 0.24 0.01
Matches are distributed among these distances:
49 34 0.07
50 475 0.93
51 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTTAACTGCAACGTCGG
Found at i:34690771 original size:100 final size:100
Alignment explanation
Indices: 34690598--34691228 Score: 850
Period size: 100 Copynumber: 6.3 Consensus size: 100
34690588 CGCTCACCAC
* * * ** * * *
34690598 GGAAGTAAGATTCGCTGTTGTAGCTTCAATATACTTAACTGCAATGTCGGGGAAACAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * ** * * *
34690663 TGTTGTAGCTTCAATCTATTTAACTGCAACACCTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
*
34690698 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * *
34690763 TGTTGTAGCTTCAATTTGTTCCACTGTACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* *
34690798 GGAAGTAAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34690863 CATTGTAGCTTCAATCTGTTCCACTGCACCGCTAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * * *
34690898 GGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34690963 CATTGTAGTTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
** * *
34690998 AAAAGTAAGATTAGCCGTTGTGGCTTCAAT-TTTTTAATTACAATGTCGGGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34691062 CGTTATAGTTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * *
34691097 AGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34691162 CGTTGTAGCTTCAATCTGTTTCACTGCACCACCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * *
34691197 GAAAGTAAGATTCGTCGTTGTAGCTTCAATCT
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCT
34691229 GTTCCACTGC
Statistics
Matches: 473, Mismatches: 57, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
99 91 0.19
100 382 0.81
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
Found at i:34690874 original size:150 final size:150
Alignment explanation
Indices: 34690654--34691331 Score: 597
Period size: 150 Copynumber: 4.5 Consensus size: 150
34690644 TCGGGGAAAC
* * * * *** * * *
34690654 AAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAACACCTGGGAAGTAAGATTCGCCGTTGT
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGT
* * * * * * * * *
34690719 GGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATTTGTTC
66 AGCTTCAATCTGTTTAACTGCAACGTCAGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTTC
*
34690784 CACTGTACCGCCAGGGAAGT
131 CACTGCACCGCCAGGGAAGT
* * *
34690804 AAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCATTGT
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGT
** * * * *
34690869 AGCTTCAATCTGTTCCACTGCACCG-CTAGGGAAGTAAGATTCACCGTTATGGCTTCAATCTTTT
66 AGCTTCAATCTGTTTAACTGCAACGTC-AGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTT
** * * ** * * **
34690933 TAATTACAATGTCGGGGAAAC
130 CCACTGCACCGCCAGGGAAGT
* * * * ** * ** * * ** *
34690954 AAGATTCGCCATTGTAGTTTCAATCTGTTCCACTGCACCGCCAGAAAAGTAAGATT-AGCCGTTG
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA-CCGTTG
* * * * * * *
34691018 TGGCTTCAAT-TTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGTTTCAATCTGTT
65 TAGCTTCAATCTGTTTAACTGCAACGTCAGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTT
*
34691082 CCACTGCACCGCCAGAGAAGT
130 CCACTGCACCGCCAGGGAAGT
* * *
34691103 AAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTACCGTTGT
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGT
* * ** * * ** *
34691168 AGCTTCAATCTGTTTCACTGCACCACCAGGAAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTC
66 AGCTTCAATCTGTTTAACTGCAACGTCAGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTTC
**
34691233 CACTGCACCGCTTGGGAAGT
131 CACTGCACCGCCAGGGAAGT
* * ***
34691253 AAGATTCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGAGGAAGCAAGATTCGTTGTTGT
1 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGT
34691318 AGCTTCAATCTGTT
66 AGCTTCAATCTGTT
34691332 CCACTACACC
Statistics
Matches: 402, Mismatches: 121, Indels: 10
0.75 0.23 0.02
Matches are distributed among these distances:
149 107 0.27
150 295 0.73
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (150 bp):
AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGT
AGCTTCAATCTGTTTAACTGCAACGTCAGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTTC
CACTGCACCGCCAGGGAAGT
Found at i:34691259 original size:299 final size:300
Alignment explanation
Indices: 34690592--34691276 Score: 838
Period size: 299 Copynumber: 2.3 Consensus size: 300
34690582 TAAATCCGCT
* * * * * * *
34690592 CACCACGG-AAGTAAGATTCGCTGTTGTAGCTTCAATATACTT-AACTGCAATGTCGGGGAAACA
1 CACCA-GGAAAGTAAGATTCACCGTTATAGCTTCAATCT-GTTCAACTACAACGTCGGGGAAACA
** * ** * * * ** *
34690655 AGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAACACCTGGGAAGTAAGATTCGCCGTTGTG
64 AGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGAAAAGTAAGATTAGCCGTTGTG
* * * * *
34690720 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATTTGTTCC
129 GCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTTCC
* * * * * *
34690785 ACTGTACCGCCAGGGAAGTAAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGG
194 ACTGCACCGCCAGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGG
34690850 AAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAC
259 AAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * * * *
34690892 CGCTAGGGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTACAATGTCGGGGAAACAAG
1 CACCAGGAAAGTAAGATTCACCGTTATAGCTTCAATCTGTTCAACTACAACGTCGGGGAAACAAG
*
34690957 ATTCGCCATTGTAGTTTCAATCTGTTCCACTGCACCGCCAGAAAAGTAAGATTAGCCGTTGTGGC
66 ATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGAAAAGTAAGATTAGCCGTTGTGGC
*
34691022 TTCAAT-TTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGTTTCAATCTGTTCCAC
131 TTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTTCCAC
34691086 TGCACCGCCAGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
196 TGCACCGCCAGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
* * *
34691151 GCAAGATTTACCGTTGTAGCTTCAATCTGTTTCACTGCAC
261 GCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAC
** * * * * * **
34691191 CACCAGGAAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCG-CTTGGGAAGTAA
1 CACCAGGAAAGTAAGATTCACCGTTATAGCTTCAATCTGTTCAACTACAACGTC-GGGGAAACAA
* *
34691255 GATTCGCCGTTGTGGCTTCAAT
65 GATTCGCCATTGTAGCTTCAAT
34691277 TTTTTTAATT
Statistics
Matches: 325, Mismatches: 57, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
298 1 0.00
299 216 0.66
300 108 0.33
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (300 bp):
CACCAGGAAAGTAAGATTCACCGTTATAGCTTCAATCTGTTCAACTACAACGTCGGGGAAACAAG
ATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGAAAAGTAAGATTAGCCGTTGTGGC
TTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTGTTCCAC
TGCACCGCCAGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
GCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:34691649 original size:132 final size:132
Alignment explanation
Indices: 34691345--34691908 Score: 850
Period size: 132 Copynumber: 4.3 Consensus size: 132
34691335 CTACACCACC
* ** *
34691345 TGGGAAG-TAAAATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGTAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
** * * *
34691409 CTTTGACCTACTCCATTACTGCTTAGGGAGATA-GA--AGTGGTTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
34691471 CT
131 CT
* * * * *
34691473 TGGGAATATAAGATTCACCATATTCGATATGCTCCACTACTGCTTAGGAAGACA-ATATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATATGCAA
* *
34691537 TCTTCAACCTGCTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTA
65 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
34691602 TCT
130 TCT
* * * * *
34691605 TGGGAAGATAAGATTCACTATCTTTGATTTGCTCTACTACTGCTTAGGGAGACAGAATCTGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
*
34691670 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
34691735 CT
131 CT
*
34691737 TGGGAAGATAATATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
*
34691802 CTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
34691867 CT
131 CT
* *
34691869 TGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTAC
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTAC
34691909 AACTTCAGGG
Statistics
Matches: 393, Mismatches: 37, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
128 7 0.02
129 76 0.19
130 2 0.01
132 307 0.78
133 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATATGCAAT
CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
CT
Found at i:34691690 original size:44 final size:44
Alignment explanation
Indices: 34691502--34691832 Score: 170
Period size: 44 Copynumber: 7.5 Consensus size: 44
34691492 ATATTCGATA
*
34691502 TGCTCCACTACTGCTTAGGAAGACA-ATATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAATCTTCAACC
* * *
34691546 TGCTCCACTACTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTAC
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--CTTCAA-C--C
* * * * * ** **
34691592 TTCTCCACTA-T-CTT-GGGAAGATAAGATTC-ACTATCTTTGATT
1 TGCTCCACTACTGCTTAGGG-AGA-CAGAATCTGCAATCTTCAACC
*
34691634 TGCTCTACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
* * * *
34691678 TACTCCACTACTGCTTAGGGAGATAGGA-CT--AATGACTTAAATCTGC
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--CTTCAA-C--C
* * * * * * *
34691724 TTCTCCACTA-T-CTT-GGGA-AGATAATATTCACCATCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCA--ATCTTCAACC
* *
34691766 TGCTCCACTACTGCTTAGGGAGACAGAATATGCAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
*
34691810 TACTCCACTACTGCTTAGGGAGA
1 TGCTCCACTACTGCTTAGGGAGA
34691833 TAGGACTAAT
Statistics
Matches: 214, Mismatches: 44, Indels: 58
0.68 0.14 0.18
Matches are distributed among these distances:
41 6 0.03
42 21 0.10
43 29 0.14
44 104 0.49
45 20 0.09
46 30 0.14
47 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
Found at i:34692296 original size:100 final size:100
Alignment explanation
Indices: 34692123--34693135 Score: 1378
Period size: 100 Copynumber: 10.1 Consensus size: 100
34692113 CGCTCACCAC
** * * ** * * *
34692123 GGAAGTAAGATTCGTTGTTGTAGCTTCAATATACTTAACTGCAATGTCAGGGAAACAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * ** * *
34692188 TGTTGTAGCTTCAATCTATTTAACTGCAACGCCTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* *
34692223 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * *
34692288 TGTTGTAGCTTCAATCTGTTCCATTGTACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* *
34692323 GGAAGTAAGATTCGCTGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
*
34692388 CATTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * *
34692423 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
34692488 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * * *
34692523 AGAAGTAAGATTAGCCGTTGTGGCTTCAATTTTTTTAATTACAATATCGGGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34692588 CGTTATAGTTTCAATCTGTTCCACTGCACCGCCAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * * **
34692623 AGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTTGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34692688 CGTTGTAGCTTCAATCTGTTCCACTACACCGCAAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * ** *
34692723 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGATGTCGGGAAAATAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* *
34692788 CATTGTAGCTTCAATCTGTTCCACTGCACCGCAAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * *
34692823 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCGATGTCGGGGAAACAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * *
34692888 TGTTGTAGCTTCAATCTGTTCCACTGCACTGCAAG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
** * * * *
34692923 GGAAGTAAGATTCGTTGTTATGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * * **
34692988 CGCTATAGCTTTAATCTGTTCCACTGCACCGCTTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
* * **
34693023 GGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTTTTAATTGCAATGTCGAGGAAGCAAGATTCGT
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
* * * *
34693088 TGTTGTAGCTTCAATCTGTTCCACTACACCACCTG
66 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
34693123 GGAAGTAAGATTC
1 GGAAGTAAGATTC
34693136 ACTGTCTTCG
Statistics
Matches: 815, Mismatches: 98, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 815 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCAC
CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG
Found at i:34693326 original size:44 final size:43
Alignment explanation
Indices: 34693278--34693742 Score: 167
Period size: 44 Copynumber: 10.6 Consensus size: 43
34693268 ATATTCGATA
*
34693278 TGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCT-CAATCTTCAACC
* * *
34693322 TGCTCCACCACTGCTTAGGGAGATAGGA-CT-AATGGCTTAAATCTAC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
** * ** **
34693368 TTATCCACTA-T-CTTAGGAAGATAAGAT-TCACTATCTTTGATT
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCA--ATCTTCAACC
* * *
34693410 TGCTCTACTACTGCTGAGGGAGA-CAGAATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAG-ATCT-CAATCTTCAACC
* * *
34693454 TACTCCACTACTGCTTAGGGAGATAGGA-CT-AATGACTTAAATCTGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
* * * *
34693500 TTCTCCACTA-T-CTT-GGGAAGATAATAT-TCACCATCTTCGATC
1 TGCTCCACTACTGCTTAGGG-AGATAAGATCTCA--ATCTTCAACC
* * * *
34693542 TGCTCCACTGCTGCTTAGGGAGA-CAGAATATGCAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAG-ATCT-CAATCTTCAACC
* * * * *
34693586 TACTCTACTACTGCTTAGGAAGATAGGA-CT-AATGGCTTAAATCTGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTCAAT--CTTCAA-C--C
* * * ** *
34693632 TTCTCCACTA-T-CTT-GAGAAGATAAGAT-TCACCGTCTTTGATC
1 TGCTCCACTACTGCTTAG-GGAGATAAGATCTCA--ATCTTCAACC
* * *
34693674 TGCTCCACTACTGCTTAGAGAGACAATATCTGCAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCT-CAATCTTCAACC
* *
34693718 TACTCTACTACTGCTTAGGGAGATA
1 TGCTCCACTACTGCTTAGGGAGATA
34693743 GGACTAGTGG
Statistics
Matches: 303, Mismatches: 71, Indels: 94
0.65 0.15 0.20
Matches are distributed among these distances:
41 9 0.03
42 26 0.09
43 29 0.10
44 174 0.57
45 27 0.09
46 33 0.11
47 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTCAATCTTCAACC
Found at i:34693431 original size:132 final size:132
Alignment explanation
Indices: 34693121--34693755 Score: 913
Period size: 132 Copynumber: 4.8 Consensus size: 132
34693111 CTACACCACC
** *
34693121 TGGGAAG-TAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* * * *
34693185 CTTCGACCTACTCCATTACTGCTTAGGGAGATAGG---AGTGGTTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
34693247 CT
131 CT
* * *
34693249 TGGGAATATAAGATTCACCATATTCGATATGCTCCACTACTGCTTAGGGAGACA-AGATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAA
* * * *
34693313 TCTTCAACCTGCTCCACCACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTATCCACTA
65 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
34693378 TCT
130 TCT
* * * * * *
34693381 TAGGAAGATAAGATTCACTATCTTTGATTTGCTCTACTACTGCTGAGGGAGACAGAATCTGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
*
34693446 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
34693511 CT
131 CT
* * *
34693513 TGGGAAGATAATATTCACCATCTTCGATCTGCTCCACTGCTGCTTAGGGAGACAGAATATGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* * *
34693578 CTTCAGCCTACTCTACTACTGCTTAGGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
66 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
34693643 CT
131 CT
* * * *
34693645 TGAGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGACA-ATATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAA
* *
34693709 TCTTCAACCTACTCTACTACTGCTTAGGGAGATAGGACTAGTGGCTT
65 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTT
34693756 CATCGATCTG
Statistics
Matches: 450, Mismatches: 50, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
128 7 0.02
129 81 0.18
131 1 0.00
132 360 0.80
133 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
CT
Found at i:34695015 original size:4 final size:4
Alignment explanation
Indices: 34695006--34695051 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
34694996 TTTCTTATGC
*
34695006 TCTT TCTT TCTT CCTT TCTT TCTT TCTT TCTT TC-T TCTT T-TT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
34695052 ATTTTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 6 0.16
4 32 0.84
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TCTT
Found at i:34695022 original size:12 final size:11
Alignment explanation
Indices: 34695006--34695070 Score: 75
Period size: 12 Copynumber: 6.1 Consensus size: 11
34694996 TTTCTTATGC
34695006 TCTTTCTTTCT
1 TCTTTCTTTCT
34695017 TCCTTTCTTTCTT
1 T-CTTTCTTTC-T
34695030 TCTTTCTTTCT
1 TCTTTCTTTCT
34695041 TCTTT-TTTCT
1 TCTTTCTTTCT
*
34695051 TATTT-TTTCT
1 TCTTTCTTTCT
34695061 T-TTT-TTTCT
1 TCTTTCTTTCT
34695070 T
1 T
34695071 TTTTAAATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
9 9 0.18
10 15 0.29
11 7 0.14
12 18 0.35
13 2 0.04
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTCTTTCT
Found at i:34695059 original size:24 final size:24
Alignment explanation
Indices: 34694985--34695062 Score: 83
Period size: 24 Copynumber: 3.2 Consensus size: 24
34694975 CATTGGCCTC
34694985 TTCTTT-TTC-TTTTTCTTATGCTCT
1 TTCTTTCTTCTTTTTTCTTAT--TCT
34695009 TTCTTTCTTCCTTTCTTTC-T-TTCT
1 TTCTTTCTT-CTTT-TTTCTTATTCT
*
34695033 TTCTTTCTTCTTTTTTCTTATTTT
1 TTCTTTCTTCTTTTTTCTTATTCT
34695057 TTCTTT
1 TTCTTT
34695063 TTTTTCTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 27 0.57
25 2 0.04
26 2 0.04
27 3 0.06
28 4 0.09
ACGTcount: A:0.03, C:0.22, G:0.01, T:0.74
Consensus pattern (24 bp):
TTCTTTCTTCTTTTTTCTTATTCT
Found at i:34695065 original size:9 final size:10
Alignment explanation
Indices: 34695036--34695074 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
34695026 TCTTTCTTTC
*
34695036 TTTCTTCTTT
1 TTTCTTATTT
34695046 TTTCTTATTT
1 TTTCTTATTT
34695056 TTTCTT-TTT
1 TTTCTTATTT
34695065 TTTCTT-TTT
1 TTTCTTATTT
34695074 T
1 T
34695075 AAATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTATTT
Found at i:34695083 original size:26 final size:28
Alignment explanation
Indices: 34695028--34695085 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
34695018 CCTTTCTTTC
**
34695028 TTTCTTTCTTTCTTCTTTTTTCTTATTT
1 TTTCTTTCTTTCTTCTTTTTTAATATTT
34695056 TTTCTTT-TTT-TTCTTTTTTAAATATTT
1 TTTCTTTCTTTCTTCTTTTTT-AATATTT
34695083 TTT
1 TTT
34695086 TATTGAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 9 0.33
27 11 0.41
28 7 0.26
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTCTTTCTTTCTTCTTTTTTAATATTT
Found at i:34695084 original size:28 final size:27
Alignment explanation
Indices: 34695032--34695086 Score: 51
Period size: 26 Copynumber: 2.0 Consensus size: 27
34695022 TCTTTCTTTC
**
34695032 TTTCTTTCTTCTTTTTTCTTATTTTTTCT
1 TTTC-TTCTTCTTTTTTAATATTTTTT-T
34695061 TTT-TT-TTCTTTTTTAAATATTTTTTT
1 TTTCTTCTTCTTTTTT-AATATTTTTTT
34695087 ATTGAATCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
26 10 0.43
27 10 0.43
29 3 0.13
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTCTTCTTCTTTTTTAATATTTTTTT
Found at i:34700300 original size:3 final size:3
Alignment explanation
Indices: 34700294--34700322 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34700284 TAATAACACT
34700294 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
34700323 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:34702483 original size:12 final size:12
Alignment explanation
Indices: 34702463--34702492 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34702453 AAACAAGAAC
*
34702463 AGAACAAAATAA
1 AGAAGAAAATAA
34702475 AGAAGAAAATAA
1 AGAAGAAAATAA
34702487 AGAAGA
1 AGAAGA
34702493 TATATGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (12 bp):
AGAAGAAAATAA
Found at i:34704957 original size:17 final size:17
Alignment explanation
Indices: 34704932--34704965 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34704922 AACTCACTAT
*
34704932 TTTGGAATTAGAGTCAC
1 TTTGAAATTAGAGTCAC
34704949 TTTGAAATTAGAGTCAC
1 TTTGAAATTAGAGTCAC
34704966 ACGGGCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (17 bp):
TTTGAAATTAGAGTCAC
Found at i:34705244 original size:108 final size:108
Alignment explanation
Indices: 34705110--34705320 Score: 323
Period size: 108 Copynumber: 2.0 Consensus size: 108
34705100 TGTTGAGTTG
*
34705110 TGTGCTAGACCGTGTAACTTACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
1 TGTGCTAGACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
* *
34705175 GTGTGCGACATTGAGGTAGGCCACGCAGGTGTGTGCTACGCCT
66 ATGTGCGACATTGAGGTAGGCCACACAGGTGTGTGCTACGCCT
* * * * * * *
34705218 TGTGCTAGACCGTGTAACTCATTGTTTTGAGCCACATGGGTGTGTGTTAGGCCGTGTGATAGGTC
1 TGTGCTAGACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
*
34705283 ATGTGCGACATTGAGGTAGGCCACACGGGTGTGTGCTA
66 ATGTGCGACATTGAGGTAGGCCACACAGGTGTGTGCTA
34705321 GGCCGTGTAG
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (108 bp):
TGTGCTAGACCGTGTAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACATGTGACAGGCC
ATGTGCGACATTGAGGTAGGCCACACAGGTGTGTGCTACGCCT
Found at i:34706592 original size:19 final size:19
Alignment explanation
Indices: 34706570--34706609 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34706560 AAACTAAATC
34706570 AGAAAAAAAAAAAGAAAAA
1 AGAAAAAAAAAAAGAAAAA
* * *
34706589 AGAAAAAGAAGAAGAAGAA
1 AGAAAAAAAAAAAGAAAAA
34706608 AG
1 AG
34706610 TGTTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAAAGAAAAA
Found at i:34707561 original size:19 final size:19
Alignment explanation
Indices: 34707537--34707649 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
34707527 AATTTTTGAG
34707537 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34707556 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
34707575 GATATATGCAATCTTAGATAA
1 G--ATATGCAATCTTAGATAT
34707596 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
34707615 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34707634 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34707650 ATATATGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 67 0.80
21 17 0.20
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34707582 original size:40 final size:40
Alignment explanation
Indices: 34707538--34707649 Score: 192
Period size: 40 Copynumber: 2.9 Consensus size: 40
34707528 ATTTTTGAGG
*
34707538 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
*
34707578 ATATGCAATCTTAGATAAGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
34707618 ATAT--AATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATCTTAGA
34707650 ATATATGATT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 27 0.39
40 42 0.61
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:34707609 original size:59 final size:57
Alignment explanation
Indices: 34707537--34707649 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 57
34707527 AATTTTTGAG
*
34707537 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATATGATATACAATCCTAGATATG--ATATGCAATCTTAGATAA
* *
34707596 GATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGA
1 GATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGA
34707650 ATATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
57 15 0.29
59 36 0.71
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATAA
Found at i:34709256 original size:98 final size:98
Alignment explanation
Indices: 34709128--34709322 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
34709118 AAAAATCATG
*
34709128 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
34709193 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTATTTTAAAGTA
* *
34709226 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
34709291 AAATCTTGGATGAGTGGATGTTATTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTATTTTAAAGT
34709323 TTTATTGTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTATTTTAAAGTA
Found at i:34720107 original size:19 final size:20
Alignment explanation
Indices: 34720071--34720109 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34720061 CTGAGTTTTG
*
34720071 GTAAAATTAATTTTGATCAA
1 GTAAAATTAATATTGATCAA
34720091 GTAAAATTAA-ATTGATCAA
1 GTAAAATTAATATTGATCAA
34720110 ATCAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
GTAAAATTAATATTGATCAA
Found at i:34729035 original size:18 final size:19
Alignment explanation
Indices: 34729008--34729052 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
34728998 GATGTCATAA
34729008 TTTATTTTTCTATTTCACT
1 TTTATTTTTCTATTTCACT
* *
34729027 TTT-TTTTTCTTTTTCCCT
1 TTTATTTTTCTATTTCACT
34729045 TTTATTTT
1 TTTATTTT
34729053 ATTCTTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTTCTATTTCACT
Found at i:34729052 original size:19 final size:19
Alignment explanation
Indices: 34729008--34729065 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
34728998 GATGTCATAA
*
34729008 TTTATTTTTCTATTTCACT
1 TTTATTTTTCTATTTCCCT
*
34729027 TTT-TTTTTCTTTTTCCCT
1 TTTATTTTTCTATTTCCCT
*
34729045 TTTATTTTAT-TCTTTCCCT
1 TTTATTTT-TCTATTTCCCT
34729064 TT
1 TT
34729066 CCCTTTCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 16 0.47
19 17 0.50
20 1 0.03
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTTCTATTTCCCT
Found at i:34729097 original size:12 final size:12
Alignment explanation
Indices: 34729088--34729124 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
34729078 CCAGTTTCCA
34729088 TTTTCTTTTCTC
1 TTTTCTTTTCTC
34729100 TTTTCTCTTTTCTC
1 -TTT-TCTTTTCTC
34729114 TTTTCTTTTCT
1 TTTTCTTTTCT
34729125 TCTAATTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.35
13 6 0.26
14 9 0.39
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:34729101 original size:7 final size:7
Alignment explanation
Indices: 34729091--34729119 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
34729081 GTTTCCATTT
34729091 TCTTTTC
1 TCTTTTC
34729098 TCTTTTC
1 TCTTTTC
34729105 TCTTTTC
1 TCTTTTC
34729112 TCTTTTC
1 TCTTTTC
34729119 T
1 T
34729120 TTTCTTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:34729730 original size:28 final size:30
Alignment explanation
Indices: 34729660--34729716 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
34729650 TTATAGATTG
*
34729660 ATGGATTTTTGTTTGTTATGTTAATTTTTA
1 ATGGATTTTTGTTTGTGATGTTAATTTTTA
34729690 ATGGA-TTTTGTTTGTGATGTTAATTTT
1 ATGGATTTTTGTTTGTGATGTTAATTTT
34729717 CGTGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (30 bp):
ATGGATTTTTGTTTGTGATGTTAATTTTTA
Found at i:34731054 original size:18 final size:18
Alignment explanation
Indices: 34731031--34731076 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
34731021 AAATTAAATG
*
34731031 TAAAAATGTGATTTTTAA
1 TAAAAATGTGATTTTAAA
34731049 TAAAAAT-T-ATTTTAAA
1 TAAAAATGTGATTTTAAA
*
34731065 GATAAAATGTGA
1 TA-AAAATGTGA
34731077 AATTGATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAAAATGTGATTTTAAA
Found at i:34732518 original size:12 final size:13
Alignment explanation
Indices: 34732503--34732534 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
34732493 ATTTTTTTAA
34732503 TTTTAAAAATA-T
1 TTTTAAAAATACT
34732515 TTTT-AAAATACT
1 TTTTAAAAATACT
34732527 TTTTAAAA
1 TTTTAAAA
34732535 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 9 0.50
13 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAAATACT
Found at i:34732530 original size:30 final size:29
Alignment explanation
Indices: 34732466--34732532 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
34732456 ATATTTTTAT
** *
34732466 TTTTTAATTTTAAAATACTTTTTTTTAATT
1 TTTTTAATTTTAAAATAC-TTTTTAAAATC
34732496 TTTTTAATTTTAAAAATA-TTTTTAAAATAC
1 TTTTTAATTTT-AAAATACTTTTTAAAAT-C
34732526 TTTTTAA
1 TTTTTAA
34732533 AATTTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 18 0.56
31 6 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTAATTTTAAAATACTTTTTAAAATC
Found at i:34732535 original size:12 final size:11
Alignment explanation
Indices: 34732502--34732539 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
34732492 AATTTTTTTA
*
34732502 ATTTTAAAAAT
1 ATTTTTAAAAT
34732513 ATTTTTAAAAT
1 ATTTTTAAAAT
34732524 ACTTTTTAAAAT
1 A-TTTTTAAAAT
34732536 -TTTT
1 ATTTT
34732540 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 4 0.16
11 11 0.44
12 10 0.40
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:34733999 original size:7 final size:7
Alignment explanation
Indices: 34733989--34734042 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
34733979 GATTTAAAAT
34733989 TTAGGGG
1 TTAGGGG
*
34733996 TTAGGTG
1 TTAGGGG
* **
34734003 TTATGTT
1 TTAGGGG
34734010 TTAGGGG
1 TTAGGGG
34734017 TTAGGGG
1 TTAGGGG
34734024 TTAGGGG
1 TTAGGGG
34734031 ATTTAGGGG
1 --TTAGGGG
34734040 TTA
1 TTA
34734043 CAGTTAGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 32 0.82
9 7 0.18
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (7 bp):
TTAGGGG
Found at i:34734224 original size:20 final size:21
Alignment explanation
Indices: 34734201--34734250 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
34734191 GTGTTAGAGA
34734201 TTGAGTTT-GGGGTTTAAGGT
1 TTGAGTTTAGGGGTTTAAGGT
* *
34734221 TTGAGTTTAGGGTTTTAGGGT
1 TTGAGTTTAGGGGTTTAAGGT
34734242 TT-AGTTTAG
1 TTGAGTTTAG
34734251 AAATTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (21 bp):
TTGAGTTTAGGGGTTTAAGGT
Found at i:34734398 original size:7 final size:7
Alignment explanation
Indices: 34734380--34734412 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
34734370 TAAAAAATAT
34734380 GGTTTA-
1 GGTTTAC
34734386 GGTTTAC
1 GGTTTAC
*
34734393 GGTTTAG
1 GGTTTAC
34734400 GGTTTAC
1 GGTTTAC
34734407 GGTTTA
1 GGTTTA
34734413 AAGTTTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.15, C:0.06, G:0.33, T:0.45
Consensus pattern (7 bp):
GGTTTAC
Found at i:34734398 original size:13 final size:14
Alignment explanation
Indices: 34734380--34734412 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
34734370 TAAAAAATAT
34734380 GGTTTA-GGTTTAC
1 GGTTTAGGGTTTAC
34734393 GGTTTAGGGTTTAC
1 GGTTTAGGGTTTAC
34734407 GGTTTA
1 GGTTTA
34734413 AAGTTTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.15, C:0.06, G:0.33, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAC
Found at i:34734448 original size:35 final size:35
Alignment explanation
Indices: 34734382--34734453 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
34734372 AAAAATATGG
* *
34734382 TTTAGGTTTACGGTTTAGGGTTTACGGTTTAAAGT
1 TTTAGGTTTACGGTTTAGGATTTACGATTTAAAGT
** * *
34734417 TTTAGGTTTGGGGTTTAGGATTTATGATTTAAGGT
1 TTTAGGTTTACGGTTTAGGATTTACGATTTAAAGT
34734452 TT
1 TT
34734454 ATGGTATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.03, G:0.29, T:0.49
Consensus pattern (35 bp):
TTTAGGTTTACGGTTTAGGATTTACGATTTAAAGT
Found at i:34735108 original size:115 final size:115
Alignment explanation
Indices: 34734904--34735138 Score: 366
Period size: 115 Copynumber: 2.0 Consensus size: 115
34734894 GCGCTTCAGA
* *
34734904 AAAAACGCCGCTAAAGGTGATATATTACCGGCGTTTTGTGAAGAAACGCCGCAAATTTCCTTTAA
1 AAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTGTGAAGAAACGCCACAAATTTCCTTTAA
34734969 CTATAAAAAAGACGGTGCCATTTTGTTGTTTTCTTTTAGTGGCGCATTTG
66 CTATAAAAAAGACGGTGCCATTTTGTTGTTTTCTTTTAGTGGCGCATTTG
*
34735019 AAAAACGCCGCTAAAAATTG-TATATTACCGGCGTTTT-TCGAAGAAACGCCACAAATTTCCTTT
1 AAAAACGCCGCT-AAAAGTGATATATTACCGGCGTTTTGT-GAAGAAACGCCACAAATTTCCTTT
* * * * *
34735082 AACTGTAACAAAGACGGTGTCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
64 AACTATAAAAAAGACGGTGCCATTTTGTTGTTTTCTTTTAGTGGCGCATTTG
34735134 AAAAA
1 AAAAA
34735139 AGCCAGAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 1 0.01
115 104 0.95
116 5 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (115 bp):
AAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTGTGAAGAAACGCCACAAATTTCCTTTAA
CTATAAAAAAGACGGTGCCATTTTGTTGTTTTCTTTTAGTGGCGCATTTG
Found at i:34735944 original size:172 final size:169
Alignment explanation
Indices: 34735655--34735996 Score: 541
Period size: 172 Copynumber: 2.0 Consensus size: 169
34735645 TCGTTTTTTT
*
34735655 CCCATACATTTTACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCTCCC
1 CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCTCCC
* *
34735720 AAATCCTTAAATTTCCCCTAATCCAGATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCGTTTCC
66 AAATCATTAAATTTCCCCTAATCCACATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCGTTTCC
34735785 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
131 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
*
34735824 CCCATACATTTAACCGAAACTTAAACCCCAACTATTGTGACTTAT-CCCCAAAAT-CCATT-TCT
1 CCCATACATTTAACCGAAACTTAAA-CCC--CTATCGTGACTTATCCCCCAAAATCCCATTCTCT
34735886 CCCTGAAAT-ATTGAGAAATTTCCCCTAATCCACATTTCCCCAAA-CCGACCTCTTGCAACGTTG
63 CCC--AAATCATT---AAATTTCCCCTAATCCACATTTCCCCAAAGCCGACCTCTTGCAACGTTG
34735949 CCGTTTCCTCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
123 CCGTTTCCTCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
34735996 C
1 C
34735997 GCAACAATCG
Statistics
Matches: 161, Mismatches: 4, Indels: 13
0.90 0.02 0.07
Matches are distributed among these distances:
169 30 0.19
170 10 0.06
171 13 0.08
172 80 0.50
173 28 0.17
ACGTcount: A:0.23, C:0.38, G:0.11, T:0.28
Consensus pattern (169 bp):
CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCTCCC
AAATCATTAAATTTCCCCTAATCCACATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCGTTTCC
TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
Found at i:34736774 original size:21 final size:21
Alignment explanation
Indices: 34736733--34736774 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
34736723 AATGGTTAAG
*
34736733 AAAAAAATATGGCCTACTGTTA
1 AAAAAAAGATGGCCTA-TGTTA
34736755 AAAAAAAGATGAGCCT-TGTT
1 AAAAAAAGATG-GCCTATGTT
34736775 TGTTGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAAAAGATGGCCTATGTTA
Found at i:34736946 original size:66 final size:66
Alignment explanation
Indices: 34736840--34736973 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
34736830 CATTGTTATG
34736840 TAATGACACAGTTGAGCTTATAGGTAATGGCTTATTTTAAGAGAACCCAAATGGACTGTCATGTA
1 TAATGACACAGTTGAGCTTATAGGTAATGGCTTATTTTAAGAGAACCCAAATGGACTGTCATGTA
34736905 T
66 T
34736906 TAATGACACAGTTGAGCTTATAGGTAATGGCTTATTTTAAGAGAACCCAAATGGACTGTCATGTA
1 TAATGACACAGTTGAGCTTATAGGTAATGGCTTATTTTAAGAGAACCCAAATGGACTGTCATGTA
34736971 T
66 T
34736972 TA
1 TA
34736974 TCAAATTGCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (66 bp):
TAATGACACAGTTGAGCTTATAGGTAATGGCTTATTTTAAGAGAACCCAAATGGACTGTCATGTA
T
Found at i:34737787 original size:9 final size:9
Alignment explanation
Indices: 34737700--34738063 Score: 177
Period size: 9 Copynumber: 40.6 Consensus size: 9
34737690 TTTAATTTAA
*
34737700 TACATAATT
1 TACATAACT
34737709 TACATAACT
1 TACATAACT
*
34737718 CACATAACT
1 TACATAACT
* * *
34737727 TAAAAAAGT
1 TACATAACT
* *
34737736 CACAT-ACA
1 TACATAACT
34737744 TACATAACT
1 TACATAACT
*
34737753 TA-ATAAAT
1 TACATAACT
*
34737761 GGTACATAGCT
1 --TACATAACT
*
34737772 TATATAACT
1 TACATAACT
34737781 TACATAA--
1 TACATAACT
34737788 TACATAACT
1 TACATAACT
* *
34737797 TAAATAA-A
1 TACATAACT
34737805 TACATAACT
1 TACATAACT
* *
34737814 TA-TTTA-T
1 TACATAACT
*
34737821 TACATTACT
1 TACATAACT
34737830 TACATAATAACT
1 TAC---ATAACT
*
34737842 TACATAGCT
1 TACATAACT
*
34737851 TATATAACT
1 TACATAACT
34737860 TACATAACT
1 TACATAACT
*
34737869 TATATAACT
1 TACATAACT
34737878 TACAT-AC-
1 TACATAACT
*
34737885 TCCATAACT
1 TACATAACT
*
34737894 TACATAATT
1 TACATAACT
*
34737903 TACTTAA--
1 TACATAACT
34737910 TACATAA-T
1 TACATAACT
* *
34737918 CAACATATATT
1 -TACATA-ACT
*
34737929 ATATCTTAACT
1 -TA-CATAACT
34737940 TACATAATAACT
1 TAC---ATAACT
*
34737952 TACATAGCT
1 TACATAACT
* *
34737961 TATAATAACC
1 TA-CATAACT
34737971 TACATAACT
1 TACATAACT
34737980 TACATAACT
1 TACATAACT
34737989 TACATAA--
1 TACATAACT
34737996 TACATAACT
1 TACATAACT
*
34738005 TACATATCT
1 TACATAACT
**
34738014 TTTAT-ACTAT
1 TACATAAC--T
34738024 ATACATAACT
1 -TACATAACT
*
34738034 TACATAATT
1 TACATAACT
*
34738043 TACTTAA--
1 TACATAACT
34738050 TACATAACT
1 TACATAACT
34738059 TACAT
1 TACAT
34738064 TGAGAAAAAT
Statistics
Matches: 265, Mismatches: 59, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
7 33 0.12
8 26 0.10
9 161 0.61
10 13 0.05
11 11 0.04
12 21 0.08
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:34737859 original size:18 final size:18
Alignment explanation
Indices: 34737770--34738063 Score: 125
Period size: 16 Copynumber: 16.4 Consensus size: 18
34737760 TGGTACATAG
* *
34737770 CTTATATAACTTACATAA
1 CTTACATAACTTATATAA
*
34737788 --TACATAACTTAAATAA
1 CTTACATAACTTATATAA
* *
34737804 -ATACATAACTTAT-TTA
1 CTTACATAACTTATATAA
*
34737820 -TTACATTACTTACATAATAA
1 CTTACATAACTT--AT-ATAA
*
34737840 CTTACATAGCTTATATAA
1 CTTACATAACTTATATAA
34737858 CTTACATAACTTATATAA
1 CTTACATAACTTATATAA
**
34737876 CTTACAT-AC-TCCATAA
1 CTTACATAACTTATATAA
*
34737892 CTTACATAATTTACT-TAA
1 CTTACATAACTTA-TATAA
* *
34737910 --TACATAA-TCAACATATA
1 CTTACATAACT-TATATA-A
* *
34737927 TTATATCTTAACTTACATAATAA
1 CT-TA-CATAACTT--AT-ATAA
*
34737950 CTTACATAGCTTATAATAA
1 CTTACATAACTTAT-ATAA
* *
34737969 CCTACATAACTTACATAA
1 CTTACATAACTTATATAA
*
34737987 CTTACATAA--TACATAA
1 CTTACATAACTTATATAA
* *
34738003 CTTACATATCTTTTAT-A
1 CTTACATAACTTATATAA
*
34738020 CTATATACATAACTTACATAA
1 C--T-TACATAACTTATATAA
* * *
34738041 TTTACTTAA--TACATAA
1 CTTACATAACTTATATAA
34738057 CTTACAT
1 CTTACAT
34738064 TGAGAAAAAT
Statistics
Matches: 213, Mismatches: 37, Indels: 54
0.70 0.12 0.18
Matches are distributed among these distances:
15 1 0.00
16 74 0.35
17 17 0.08
18 55 0.26
19 22 0.10
20 15 0.07
21 20 0.09
22 3 0.01
23 3 0.01
24 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.38
Consensus pattern (18 bp):
CTTACATAACTTATATAA
Found at i:34737967 original size:19 final size:19
Alignment explanation
Indices: 34737943--34737995 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
34737933 CTTAACTTAC
*
34737943 ATAATAACTTACATAGCTT
1 ATAATAACTTACATAACTT
*
34737962 ATAATAACCTACATAACTT
1 ATAATAACTTACATAACTT
*
34737981 A-CATAACTTACATAA
1 ATAATAACTTACATAA
34737996 TACATAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAACTTACATAACTT
Found at i:34738005 original size:25 final size:25
Alignment explanation
Indices: 34737700--34738063 Score: 130
Period size: 25 Copynumber: 14.2 Consensus size: 25
34737690 TTTAATTTAA
*
34737700 TACATAATTTACATAACTCACATAACT
1 TACATAACTTACATAA-T-ACATAACT
* * * *
34737727 TAAAAAAGTCACATACATACATAACT
1 TACATAACTTACATA-ATACATAACT
* * *
34737753 TA-ATAAATGGTACATAGCTTATATAACT
1 TACATAACT--TACATA--ATACATAACT
* *
34737781 TACATAA--TACATAACTTAAATAA-A
1 TACATAACTTACATAA--TACATAACT
** * *
34737805 TACATAACTTATTTATTACATTACT
1 TACATAACTTACATAATACATAACT
* *
34737830 TACATAA-TAAC-T--TACATAGCT
1 TACATAACTTACATAATACATAACT
* *
34737851 TATATAACTTACATAACTTATATAACT
1 TACATAACTTACATAA--TACATAACT
* *
34737878 TACAT-AC-TCCATAACTTACATAATT
1 TACATAACTTACATAA--TACATAACT
*
34737903 TACTTAA--TACATAATCAACATATA-T
1 TACATAACTTACATAAT--ACATA-ACT
* *
34737928 T--ATATCTTAACTTACATA-ATAACT
1 TACATAACTT-ACATA-ATACATAACT
* *
34737952 TACATAGCTTATAATAACCTACATAACT
1 TACATAACTTA-CATAA--TACATAACT
34737980 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
* *
34738005 TACATATCTTTTATACTATATACATAACT
1 TACATAAC--TTACA-TA-ATACATAACT
* *
34738034 TACATAATTTACTTAATACATAACT
1 TACATAACTTACATAATACATAACT
34738059 TACAT
1 TACAT
34738064 TGAGAAAAAT
Statistics
Matches: 256, Mismatches: 46, Indels: 72
0.68 0.12 0.19
Matches are distributed among these distances:
21 13 0.05
22 3 0.01
23 6 0.02
24 19 0.07
25 90 0.35
26 32 0.12
27 43 0.17
28 30 0.12
29 20 0.08
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.36
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:34743580 original size:21 final size:21
Alignment explanation
Indices: 34743554--34743622 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
34743544 CAACAACTTA
* * *
34743554 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGAG
* *
34743575 AAGCAGAGGCTACAACAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
34743596 AAGCAGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
34743617 AAGCAG
1 AAGCAG
34743623 CGAGAGAAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.39, C:0.19, G:0.39, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGAG
Found at i:34743636 original size:12 final size:12
Alignment explanation
Indices: 34743607--34743646 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
34743597 AGCAGAGGCT
*
34743607 GCAGCAAGAGAA
1 GCAGCGAGAGAA
34743619 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
34743631 GCAGCGTTAGAA
1 GCAGCGAGAGAA
34743643 GCAG
1 GCAG
34743647 AGGTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:34744182 original size:43 final size:43
Alignment explanation
Indices: 34744080--34744203 Score: 146
Period size: 42 Copynumber: 2.9 Consensus size: 43
34744070 GTTTGTGAAA
* * *
34744080 TAAGCACCGCTAAAGAACACTACTTTTAGCGGCATTTTTGACC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTGACC
* * *
34744123 -AAGCGCCGCTATAGAACATTACTTTTAGCGACGTTTTCT-TCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TGACC
*
34744165 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTT
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTT
34744204 TTCTGTAAGC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 36 0.52
43 33 0.48
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTGACC
Found at i:34747210 original size:53 final size:53
Alignment explanation
Indices: 34747134--34747314 Score: 194
Period size: 53 Copynumber: 3.7 Consensus size: 53
34747124 TTAGATTTTG
34747134 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* * * *
34747186 TTACTAACAATTAATACAATTAACAATTAATAGTTT--TACTAA---AAAAATG
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATT
*
34747235 TTAGTAACAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
*
34747279 TTAGTAACAATTAATACAATTAACAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
34747315 TACTAGTAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
40 11 0.11
41 3 0.03
42 2 0.02
43 1 0.01
44 16 0.15
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 15 0.14
50 1 0.01
51 2 0.02
52 7 0.07
53 42 0.40
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (53 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
Found at i:34747256 original size:93 final size:93
Alignment explanation
Indices: 34747148--34747331 Score: 323
Period size: 93 Copynumber: 2.0 Consensus size: 93
34747138 AACAATTAAT
34747148 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
34747213 TAATAGTTTTACTAAAAAAATGTTAGTA
66 TAATAATTTTACTAAAAAAATGTTAGTA
* *
34747241 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
**
34747306 TAATAATTTTACTAGTAAAATGTTAG
66 TAATAATTTTACTAAAAAAATGTTAG
34747332 ATTTTACAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.40
Consensus pattern (93 bp):
ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAAAAAAATGTTAGTA
Found at i:34748139 original size:43 final size:42
Alignment explanation
Indices: 34748074--34748210 Score: 152
Period size: 42 Copynumber: 3.2 Consensus size: 42
34748064 AAAGGCATTT
* * *
34748074 GCGGCGCTTGGGAAAAAACGCCGCT-AAAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAAG-TAATGTTCTGTA
34748116 GCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTGTA
1 GCGGCGCTTAGGAA-AAAACGCCGCTAAAAGTAATGTTCTGTA
* * * * *
34748159 GCGGCGCTT-GGTCAAAAATGCCACTAAAAGTAGTGTTCTTTA
1 GCGGCGCTTAGG-AAAAAACGCCGCTAAAAGTAATGTTCTGTA
*
34748201 GCGGTGCTTA
1 GCGGCGCTTA
34748211 TTTCACAAAC
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 47 0.57
43 31 0.38
44 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (42 bp):
GCGGCGCTTAGGAAAAAACGCCGCTAAAAGTAATGTTCTGTA
Found at i:34748683 original size:21 final size:21
Alignment explanation
Indices: 34748657--34748724 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
34748647 CTTCTATCGT
*
34748657 TGCTTCTCTCGCTGCGGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
*
34748678 TGCTTCTCTCGCTGTAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
34748699 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
34748720 TGCTT
1 TGCTT
34748725 TAAGTTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.01, C:0.43, G:0.21, T:0.35
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:34754306 original size:22 final size:22
Alignment explanation
Indices: 34754281--34754451 Score: 76
Period size: 22 Copynumber: 8.1 Consensus size: 22
34754271 TAATTTAGTT
*
34754281 ATGTATGTTACGTATCATATTA
1 ATGTAAGTTACGTATCATATTA
* * *
34754303 ATGTAAGTTATGTATTATATAAGTT
1 ATGTAAGTTACGTATCATAT---TA
* * *
34754328 ATTTAAGTTATGTA--A-GTT-
1 ATGTAAGTTACGTATCATATTA
* *
34754346 GTGTAAGTTATGTAT-ACTATTA
1 ATGTAAGTTACGTATCA-TATTA
* *
34754368 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTACGTATCATATTA
*
34754390 ATGTAAG-T---TAT-GTATT-
1 ATGTAAGTTACGTATCATATTA
* *
34754406 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTACGTATCATATTA
* * *
34754428 ATGTAAGTTATGTATTATGTTA
1 ATGTAAGTTACGTATCATATTA
34754450 AT
1 AT
34754452 ATTTAGAAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
16 7 0.06
17 5 0.04
18 15 0.12
19 2 0.02
20 3 0.02
21 7 0.06
22 66 0.55
23 2 0.02
25 14 0.12
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTACGTATCATATTA
Found at i:34754329 original size:9 final size:9
Alignment explanation
Indices: 34754303--34754419 Score: 89
Period size: 9 Copynumber: 12.6 Consensus size: 9
34754293 TATCATATTA
34754303 ATGTAAGTT
1 ATGTAAGTT
34754312 ATGT-A-TT
1 ATGTAAGTT
*
34754319 ATATAAGTT
1 ATGTAAGTT
*
34754328 ATTTAAGTT
1 ATGTAAGTT
34754337 ATGTAAGTT
1 ATGTAAGTT
*
34754346 GTGTAAGTT
1 ATGTAAGTT
*
34754355 ATGTATACTATT
1 ATGTA-A--GTT
34754367 AATGTAAGTT
1 -ATGTAAGTT
*
34754377 ATGTATAATATT
1 ATG--TAA-GTT
34754389 AATGTAAGTT
1 -ATGTAAGTT
34754399 ATGT-A-TT
1 ATGTAAGTT
34754406 ATGTAAGTT
1 ATGTAAGTT
34754415 ATGTA
1 ATGTA
34754420 TAATATTAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 24
0.73 0.08 0.20
Matches are distributed among these distances:
7 11 0.13
8 4 0.05
9 48 0.55
10 5 0.06
11 6 0.07
12 5 0.06
13 8 0.09
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:34754343 original size:18 final size:18
Alignment explanation
Indices: 34754303--34754419 Score: 89
Period size: 22 Copynumber: 6.3 Consensus size: 18
34754293 TATCATATTA
34754303 ATGTAAGTTATGT-A-TT
1 ATGTAAGTTATGTAAGTT
* *
34754319 ATATAAGTTATTTAAGTT
1 ATGTAAGTTATGTAAGTT
*
34754337 ATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTT
*
34754355 ATGTATACTATTAATGTAAGTT
1 ATGTA-A--GTT-ATGTAAGTT
*
34754377 ATGTATAATATTAATGTAAGTT
1 ATG--TAA-GTT-ATGTAAGTT
34754399 ATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTT
34754415 ATGTA
1 ATGTA
34754420 TAATATTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
16 24 0.28
17 3 0.04
18 22 0.26
19 2 0.02
20 1 0.01
21 2 0.02
22 28 0.33
23 1 0.01
24 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (18 bp):
ATGTAAGTTATGTAAGTT
Found at i:34754416 original size:38 final size:38
Alignment explanation
Indices: 34754363--34754447 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
34754353 TTATGTATAC
34754363 TATTAATGTAAGTTATGTATAATATTAATGTAAGTTATG
1 TATT-ATGTAAGTTATGTATAATATTAATGTAAGTTATG
34754402 TATTATGTAAGTTATGTATAATATTAATGTAAGTTATG
1 TATTATGTAAGTTATGTATAATATTAATGTAAGTTATG
34754440 TATTATGT
1 TATTATGT
34754448 TAATATTTAG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 42 0.91
39 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (38 bp):
TATTATGTAAGTTATGTATAATATTAATGTAAGTTATG
Found at i:34754491 original size:69 final size:68
Alignment explanation
Indices: 34754444--34754638 Score: 259
Period size: 69 Copynumber: 2.9 Consensus size: 68
34754434 GTTATGTATT
* * *
34754444 ATGTTAATATTTAGAAAATAGCATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
1 ATGTTAATATATAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTAATTATT-AAAAT
34754509 ATAG
65 ATAG
34754513 ATGTTAATATATAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATT-ATTATTGAAAA
1 ATGTTAATATATAGAAAATAACATTTACAATTATTTCTAAAATTAT-AAAATTAATTATT-AAAA
34754577 TATAG
64 TATAG
* * * * * * *
34754582 GTTTTATTATTTAAAAAATAACATTTACAATTATTTTTAAAATTA-AAAATTTATTAT
1 ATGTTAATATATAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTAATTAT
34754639 CAATAAAATT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
67 6 0.05
68 5 0.04
69 99 0.85
70 6 0.05
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (68 bp):
ATGTTAATATATAGAAAATAACATTTACAATTATTTCTAAAATTATAAAATTAATTATTAAAATA
TAG
Found at i:34755347 original size:16 final size:16
Alignment explanation
Indices: 34755326--34755356 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34755316 TATGGAACCA
34755326 TATTAAATAATACTAG
1 TATTAAATAATACTAG
34755342 TATTAAATAATACTA
1 TATTAAATAATACTA
34755357 TTTGCATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
TATTAAATAATACTAG
Found at i:34755850 original size:26 final size:26
Alignment explanation
Indices: 34755821--34755878 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
34755811 TTAGATTTAT
*
34755821 ATTATTTTATAAGCTATAGAGTAAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
*
34755847 ATTATTTGATAAGCTATAGAGTGAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
34755873 ATTATT
1 ATTATT
34755879 ATGCAACGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (26 bp):
ATTATTTGATAAGCTATAGAGTAAGA
Found at i:34756998 original size:24 final size:22
Alignment explanation
Indices: 34756962--34757005 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
34756952 AGGGTTCTAG
34756962 ATTTGGGGGATTTTTGGGGAAA
1 ATTTGGGGGATTTTTGGGGAAA
34756984 ATTTGGGGGGAATTTTTGGGGA
1 ATTT-GGGGG-ATTTTTGGGGA
34757006 GAAAAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (22 bp):
ATTTGGGGGATTTTTGGGGAAA
Found at i:34757788 original size:19 final size:20
Alignment explanation
Indices: 34757761--34757801 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
34757751 AAAATTTTAA
34757761 TTAAATAAT-TATTAAAA-TT
1 TTAAATAATAT-TTAAAAGTT
*
34757780 TTAAGTAATATTTAAAAGTT
1 TTAAATAATATTTAAAAGTT
34757800 TT
1 TT
34757802 TGATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAATAATATTTAAAAGTT
Found at i:34758536 original size:7 final size:7
Alignment explanation
Indices: 34758524--34758615 Score: 76
Period size: 7 Copynumber: 12.3 Consensus size: 7
34758514 ACCCTTGACA
34758524 CCCTAAC
1 CCCTAAC
34758531 CCCTAAC
1 CCCTAAC
34758538 CCCTAAATC
1 CCCT-AA-C
*
34758547 CCTCTAAA
1 CC-CTAAC
34758555 CCCTAAC
1 CCCTAAC
*
34758562 CCCTTAAAT
1 CCC-T-AAC
*
34758571 CACTAAC
1 CCCTAAC
*
34758578 CCTTAAC
1 CCCTAAC
34758585 CCCTAAC
1 CCCTAAC
*
34758592 CCCTAAAT
1 CCCT-AAC
*
34758600 TCCTAAC
1 CCCTAAC
34758607 CCCTAAC
1 CCCTAAC
34758614 CC
1 CC
34758616 TTAAACCTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
7 45 0.67
8 11 0.16
9 9 0.13
10 2 0.03
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:34758549 original size:15 final size:15
Alignment explanation
Indices: 34758524--34758612 Score: 76
Period size: 15 Copynumber: 5.9 Consensus size: 15
34758514 ACCCTTGACA
34758524 CCCTAACCCCT-AAC
1 CCCTAACCCCTAAAC
34758538 CCCTAAATCCCTCTAAA-
1 CCCT-AA-CCC-CTAAAC
*
34758555 CCCTAACCCCTTAAAT
1 CCCTAACCCC-TAAAC
* *
34758571 CACTAA-CCCTTAAC
1 CCCTAACCCCTAAAC
*
34758585 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAC
*
34758600 TCCTAACCCCTAA
1 CCCTAACCCCTAA
34758613 CCCTTAAACC
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
14 13 0.21
15 30 0.49
16 10 0.16
17 6 0.10
18 2 0.03
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAACCCCTAAAC
Found at i:34758598 original size:29 final size:27
Alignment explanation
Indices: 34758523--34758615 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 27
34758513 TACCCTTGAC
34758523 ACCCTAACCCCTAACCCCTAAATCC--
1 ACCCTAACCCCTAACCCCTAAATCCTA
* *
34758548 -CTCTAAACCCTAACCCCTTAAATCACTA
1 ACCCTAACCCCTAACCCC-TAAATC-CTA
34758576 ACCCTTAACCCCTAACCCCTAAATTCCTA
1 ACCC-TAACCCCTAACCCCTAAA-TCCTA
34758605 ACCCCTAACCC
1 A-CCCTAACCC
34758616 TTAAACCTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
24 15 0.27
25 6 0.11
26 1 0.02
29 16 0.29
30 18 0.32
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.20
Consensus pattern (27 bp):
ACCCTAACCCCTAACCCCTAAATCCTA
Found at i:34758622 original size:15 final size:15
Alignment explanation
Indices: 34758524--34758626 Score: 61
Period size: 14 Copynumber: 6.9 Consensus size: 15
34758514 ACCCTTGACA
*
34758524 CCCTAACCCCT-AAC
1 CCCTAACCCTTAAAC
34758538 CCCTAAATCCCTCTAAA-
1 CCCT-AA-CCCT-TAAAC
*
34758555 CCCTAACCCCTTAAAT
1 CCCTAA-CCCTTAAAC
*
34758571 CACTAACCCTT-AAC
1 CCCTAACCCTTAAAC
* *
34758585 CCCTAACCCCTAAAT
1 CCCTAACCCTTAAAC
* *
34758600 TCCTAACCCCT-AAC
1 CCCTAACCCTTAAAC
* *
34758614 CCTTAAACCTTAA
1 CCCTAACCCTTAA
34758627 TCACAAACCC
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
14 24 0.35
15 24 0.35
16 14 0.20
17 5 0.07
18 2 0.03
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (15 bp):
CCCTAACCCTTAAAC
Found at i:34759507 original size:39 final size:39
Alignment explanation
Indices: 34759461--34759590 Score: 145
Period size: 39 Copynumber: 3.3 Consensus size: 39
34759451 GTTTTAGCAA
34759461 AAGCGCCGCTAATGCATATTATTAGCGGTGTGTTTTTAT
1 AAGCGCCGCTAATGCATATTATTAGCGGTGTGTTTTTAT
* * * * * * ** *
34759500 AAGCGCCGCTAAAGGCCTATTTTTTGTGGCGT-TTTAGCAA
1 AAGCGCCGCT-AATGCATATTATTAGCGGTGTGTTT-TTAT
*
34759540 AAGCGCCGCTAATGCATATTATTAGCGGTGCGTTTTTAT
1 AAGCGCCGCTAATGCATATTATTAGCGGTGTGTTTTTAT
34759579 AAGCGCCGCTAA
1 AAGCGCCGCTAA
34759591 AGGCCTATTT
Statistics
Matches: 69, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
39 40 0.58
40 29 0.42
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (39 bp):
AAGCGCCGCTAATGCATATTATTAGCGGTGTGTTTTTAT
Found at i:34759550 original size:40 final size:38
Alignment explanation
Indices: 34759441--34759609 Score: 124
Period size: 39 Copynumber: 4.3 Consensus size: 38
34759431 GGGTTTGGAG
*
34759441 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATAT
1 TTTTTGTGGCGTTTT-GCAAAAGCGCCGCTAAGGCATAT
* * * * ** * *
34759480 TATTAGCGGTGTGTTTTTATAAGCGCCGCTAAAGGCCTAT
1 TTTTTGTGGCGT-TTTGCAAAAGCGCCGCT-AAGGCATAT
*
34759520 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATAT
1 TTTTTGTGGCGTTTT-GCAAAAGCGCCGCTAAGGCATAT
* * * * * *
34759559 TATTAGCGGTGCGTTTT-TATAAGCGCCGCTAAAGGCCTAT
1 TTTTTG-TG-GCGTTTTGCAAAAGCGCCGCT-AAGGCATAT
34759599 TTTTTGTGGCG
1 TTTTTGTGGCG
34759610 CTTTCTCACA
Statistics
Matches: 96, Mismatches: 28, Indels: 13
0.70 0.20 0.09
Matches are distributed among these distances:
38 3 0.03
39 45 0.47
40 41 0.43
41 7 0.07
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (38 bp):
TTTTTGTGGCGTTTTGCAAAAGCGCCGCTAAGGCATAT
Found at i:34759633 original size:79 final size:79
Alignment explanation
Indices: 34759441--34759609 Score: 329
Period size: 79 Copynumber: 2.1 Consensus size: 79
34759431 GGGTTTGGAG
*
34759441 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATATTATTAGCGGTGTGTTTTTATAAGCGC
1 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATATTATTAGCGGTGCGTTTTTATAAGCGC
34759506 CGCTAAAGGCCTAT
66 CGCTAAAGGCCTAT
34759520 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATATTATTAGCGGTGCGTTTTTATAAGCGC
1 TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATATTATTAGCGGTGCGTTTTTATAAGCGC
34759585 CGCTAAAGGCCTAT
66 CGCTAAAGGCCTAT
34759599 TTTTTGTGGCG
1 TTTTTGTGGCG
34759610 CTTTCTCACA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 89 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (79 bp):
TTTTTGTGGCGTTTTAGCAAAAGCGCCGCTAATGCATATTATTAGCGGTGCGTTTTTATAAGCGC
CGCTAAAGGCCTAT
Found at i:34763511 original size:23 final size:23
Alignment explanation
Indices: 34763485--34763555 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
34763475 AAATTTAGCT
34763485 AAATTTGAAGAATAATGTAAAAA
1 AAATTTGAAGAATAATGTAAAAA
* *
34763508 AAATTAGTATGAA-AATTGT----A
1 AAATTTG-AAGAATAA-TGTAAAAA
34763528 AAATTTGAAGAATAATGTAAAAA
1 AAATTTGAAGAATAATGTAAAAA
34763551 AAATT
1 AAATT
34763556 AGTATTGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 7 0.19
20 9 0.24
23 14 0.38
24 7 0.19
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.30
Consensus pattern (23 bp):
AAATTTGAAGAATAATGTAAAAA
Found at i:34763538 original size:43 final size:44
Alignment explanation
Indices: 34763485--34763574 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 44
34763475 AAATTTAGCT
34763485 AAATTTGAAGAATAATGTAAAAAAAATTAGTA-TG-AAAATTGTA
1 AAATTTGAAGAATAATGTAAAAAAAATTAGTATTGTAAAATT-TA
34763528 AAATTTGAAGAATAATGTAAAAAAAATTAGTATTGTAAAATTTA
1 AAATTTGAAGAATAATGTAAAAAAAATTAGTATTGTAAAATTTA
34763572 AAA
1 AAA
34763575 AACACACACG
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
43 32 0.71
44 7 0.16
45 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (44 bp):
AAATTTGAAGAATAATGTAAAAAAAATTAGTATTGTAAAATTTA
Found at i:34763550 original size:20 final size:20
Alignment explanation
Indices: 34763485--34763550 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 20
34763475 AAATTTAGCT
34763485 AAATTTGAAGAATAATGTAAAAA
1 AAATTTGAAGAATAATGT---AA
* *
34763508 AAATTAGTATGAA-AATTGT-A
1 AAATTTG-AAGAATAA-TGTAA
34763528 AAATTTGAAGAATAATGTAA
1 AAATTTGAAGAATAATGTAA
34763548 AAA
1 AAA
34763551 AAATTAGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
19 7 0.20
20 13 0.37
23 8 0.23
24 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.29
Consensus pattern (20 bp):
AAATTTGAAGAATAATGTAA
Found at i:34768797 original size:41 final size:40
Alignment explanation
Indices: 34768739--34768821 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 40
34768729 GTTACTCCCT
*
34768739 TATTCTTTTTTTAATGAAAAAGAAATTACATGACACAACC
1 TATTCTTTTTTTAATGAAAAAGAAATTACAAGACACAACC
*
34768779 TATT-TTTTTTTATGATGAAAAAGAAATTATAAGACACAACC
1 TATTCTTTTTTTA--ATGAAAAAGAAATTACAAGACACAACC
34768820 TA
1 TA
34768822 CATAGGTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
39 8 0.21
40 4 0.10
41 27 0.69
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (40 bp):
TATTCTTTTTTTAATGAAAAAGAAATTACAAGACACAACC
Found at i:34777356 original size:56 final size:50
Alignment explanation
Indices: 34777294--34777536 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
34777284 GGGAATGAGA
* *
34777294 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
34777350 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
34777400 TCTCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
34777450 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAAA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
34777500 TCCCATGTAAGACCATGTCTAGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34777537 GTATAGAAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 128 0.77
53 3 0.02
55 1 0.01
56 35 0.21
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:34787091 original size:4 final size:4
Alignment explanation
Indices: 34787082--34787120 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
34787072 TTTTCCTTTA
** *
34787082 TATT TATT TATT TATT TATT TATT TCCT TATT TTTT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
34787121 ATTTAAAAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:34787878 original size:21 final size:21
Alignment explanation
Indices: 34787849--34787894 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
34787839 TTCGACACTT
* *
34787849 AGTATGATCTATGATAAGATA
1 AGTACGATCTATAATAAGATA
*
34787870 AGTACGATCTATAATATGATA
1 AGTACGATCTATAATAAGATA
34787891 AGTA
1 AGTA
34787895 AGATTCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (21 bp):
AGTACGATCTATAATAAGATA
Found at i:34799586 original size:40 final size:40
Alignment explanation
Indices: 34799482--34799590 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
34799472 TGTGTGCTTA
* *
34799482 TCTTATTAGCACTACGGTGCTCCTGATAGTACCTTCGTAC
1 TCTTGTTAGCACTACAGTGCTCCTGATAGTACCTTCGTAC
* * ** *
34799522 TCCTGTTAGCATTATTGTGCTCCTGATAGTA-CTTATGTAC
1 TCTTGTTAGCACTACAGTGCTCCTGATAGTACCTT-CGTAC
* *
34799562 TCTTGTTAGCACGACAGTGTTCCTGATAG
1 TCTTGTTAGCACTACAGTGCTCCTGATAG
34799591 CATGTTCATG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
39 3 0.05
40 53 0.95
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (40 bp):
TCTTGTTAGCACTACAGTGCTCCTGATAGTACCTTCGTAC
Found at i:34805091 original size:11 final size:10
Alignment explanation
Indices: 34805075--34805124 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
34805065 ACCTGCAGTT
34805075 TTTTTTATTTG
1 TTTTTT-TTTG
34805086 TTTTTTTTAT-
1 TTTTTTTT-TG
*
34805096 TGTTTTTTTG
1 TTTTTTTTTG
34805106 TGTTTTTTTTG
1 T-TTTTTTTTG
34805117 TTTTTTTT
1 TTTTTTTT
34805125 ACTATTTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 1 0.03
10 17 0.50
11 16 0.47
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:34805091 original size:12 final size:12
Alignment explanation
Indices: 34805072--34805124 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
34805062 AAAACCTGCA
34805072 GTTTTTTTTATTT
1 GTTTTTTTTA-TT
34805085 GTTTTTTTTATT
1 GTTTTTTTTATT
*
34805097 G-TTTTTTT-GT
1 GTTTTTTTTATT
*
34805107 GTTTTTTTTGTT
1 GTTTTTTTTATT
34805119 -TTTTTT
1 GTTTTTT
34805125 ACTATTTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 2 0.06
11 20 0.56
12 4 0.11
13 10 0.28
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (12 bp):
GTTTTTTTTATT
Found at i:34805101 original size:10 final size:9
Alignment explanation
Indices: 34805072--34805124 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
34805062 AAAACCTGCA
34805072 GTTTTTTTT
1 GTTTTTTTT
* *
34805081 -ATTTGTTT
1 GTTTTTTTT
*
34805089 -TTTTTATT
1 GTTTTTTTT
34805097 GTTTTTTTGT
1 GTTTTTTT-T
34805107 GTTTTTTTT
1 GTTTTTTTT
34805116 GTTTTTTTT
1 GTTTTTTTT
34805125 ACTATTTTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 11 0.31
9 16 0.44
10 9 0.25
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:34805371 original size:13 final size:13
Alignment explanation
Indices: 34805346--34805383 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
34805336 TTATATTTTT
34805346 TAAAAAATT-ATA
1 TAAAAAATTAATA
*
34805358 TAAAAATTTAATA
1 TAAAAAATTAATA
34805371 TAAAAAATTAATA
1 TAAAAAATTAATA
34805384 CGGGTCGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:34806031 original size:35 final size:35
Alignment explanation
Indices: 34805992--34806092 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
34805982 GACAAAAGTG
*
34805992 ACCTTAAAGAGGTTGAGGTAGACTCGTCTAA-GACA
1 ACCTTAAAAAGGTTGAGGTAGACTCGTCTAAGGA-A
*
34806027 ACCTTAAAAAGGTTG-GGATATACTCGTCTAAGGAA
1 ACCTTAAAAAGGTTGAGG-TAGACTCGTCTAAGGAA
* *
34806062 ACCTTAAAAAGGTTGAGATAGACACGTCTAA
1 ACCTTAAAAAGGTTGAGGTAGACTCGTCTAA
34806093 TAGGGTAGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
34 2 0.03
35 53 0.91
36 3 0.05
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (35 bp):
ACCTTAAAAAGGTTGAGGTAGACTCGTCTAAGGAA
Found at i:34808245 original size:16 final size:16
Alignment explanation
Indices: 34808226--34808268 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
34808216 CCAAAATGAA
34808226 AGTGACCAAAAAGTTG
1 AGTGACCAAAAAGTTG
34808242 AGTGACCAAAAAGTTG
1 AGTGACCAAAAAGTTG
34808258 AGTGACCAAAA
1 AGTGACCAAAA
34808269 TAAAAGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.16
Consensus pattern (16 bp):
AGTGACCAAAAAGTTG
Found at i:34809560 original size:20 final size:20
Alignment explanation
Indices: 34809535--34809597 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
34809525 ATTATAAAAT
34809535 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
*
34809555 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTTTAAA
* * *
34809574 AATTACAATATATTTTTTTAA
1 AATT-CAAAATAATTTTTAAA
34809595 AAT
1 AAT
34809598 AAAAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 12 0.33
20 15 0.42
21 9 0.25
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:34809563 original size:39 final size:40
Alignment explanation
Indices: 34809519--34809618 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
34809509 GTCTCTCTCA
34809519 ACAAAAATTATAAAATAATT-CAAAATAATTTTTAAAAAT
1 ACAAAAATTATAAAATAATTACAAAATAATTTTTAAAAAT
* * * *
34809558 TCAAAATATT-TATAAA-AATTACAATATATTTTTTTAAAAT
1 ACAAAA-ATTATA-AAATAATTACAAAATAATTTTTAAAAAT
* *
34809598 AAAAAAATTAGAATAATAATT
1 ACAAAAATTATAA-AATAATT
34809619 TTGGGACTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
39 15 0.31
40 29 0.60
41 4 0.08
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (40 bp):
ACAAAAATTATAAAATAATTACAAAATAATTTTTAAAAAT
Found at i:34809837 original size:21 final size:21
Alignment explanation
Indices: 34809813--34809870 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
34809803 ATTTCACTCG
*
34809813 ATTCGACTCGACTCGAATTTC
1 ATTCCACTCGACTCGAATTTC
* *
34809834 ATTCTACTCGACTCAAATTTC
1 ATTCCACTCGACTCGAATTTC
34809855 ATTCCACTCGACTCGA
1 ATTCCACTCGACTCGA
34809871 TTTGAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTCCACTCGACTCGAATTTC
Found at i:34810810 original size:23 final size:20
Alignment explanation
Indices: 34810753--34810797 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
34810743 TTTCTCTCCA
34810753 CTTTTCAATCGATTGTTTCT
1 CTTTTCAATCGATTGTTTCT
* *
34810773 CTTTTCAATTGATTGCTTCT
1 CTTTTCAATCGATTGTTTCT
34810793 CTTTT
1 CTTTT
34810798 TTTTAATCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.58
Consensus pattern (20 bp):
CTTTTCAATCGATTGTTTCT
Found at i:34816270 original size:13 final size:13
Alignment explanation
Indices: 34816252--34816282 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34816242 TCACACGGCT
34816252 TGTGACACAGACG
1 TGTGACACAGACG
*
34816265 TGTGACACAGCCG
1 TGTGACACAGACG
34816278 TGTGA
1 TGTGA
34816283 GGCACACGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (13 bp):
TGTGACACAGACG
Found at i:34819881 original size:21 final size:21
Alignment explanation
Indices: 34819848--34819896 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
34819838 ACACTCTCTA
* *
34819848 AACTGCTCTTGCAGACTCC-AG
1 AACTGTTCCTGCA-ACTCCGAG
*
34819869 AATTGTTCCTGCAACTCCGAG
1 AACTGTTCCTGCAACTCCGAG
34819890 AACTGTT
1 AACTGTT
34819897 GAGAGCTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (21 bp):
AACTGTTCCTGCAACTCCGAG
Found at i:34821593 original size:10 final size:9
Alignment explanation
Indices: 34821578--34821616 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
34821568 AAACTAAACT
34821578 AATTATATAA
1 AATTATA-AA
34821588 AATTATAAA
1 AATTATAAA
34821597 AACTTATAAA
1 AA-TTATAAA
*
34821607 AATTCTAAA
1 AATTATAAA
34821616 A
1 A
34821617 CAATTCTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 11 0.41
10 16 0.59
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:34821617 original size:18 final size:20
Alignment explanation
Indices: 34821580--34821616 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
34821570 ACTAAACTAA
34821580 TTATATAAAATTATAAAAAC
1 TTATATAAAATTATAAAAAC
*
34821600 TTATA-AAAATTCTAAAA
1 TTATATAAAATTATAAAA
34821617 CAATTCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TTATATAAAATTATAAAAAC
Found at i:34822146 original size:22 final size:23
Alignment explanation
Indices: 34822120--34822168 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
34822110 AATTTGATAA
34822120 TTTATTCGAATTTTTAT-A-AATT
1 TTTATT-GAATTTTTATAATAATT
*
34822142 TTTA-TGAATTTTTTTAATAATT
1 TTTATTGAATTTTTATAATAATT
34822164 TTTAT
1 TTTAT
34822169 AAGTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTATTGAATTTTTATAATAATT
Found at i:34822154 original size:11 final size:10
Alignment explanation
Indices: 34822128--34822181 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
34822118 AATTTATTCG
34822128 AATTTTTATA
1 AATTTTTATA
*
34822138 AATTTTTATG
1 AATTTTTATA
*
34822148 AATTTTTTTAA
1 AATTTTTAT-A
34822159 TAATTTTTATA
1 -AATTTTTATA
* *
34822170 AGTTTATATA
1 AATTTTTATA
34822180 AA
1 AA
34822182 AATTTAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 26 0.74
11 1 0.03
12 8 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (10 bp):
AATTTTTATA
Found at i:34822185 original size:22 final size:22
Alignment explanation
Indices: 34822137--34822186 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
34822127 GAATTTTTAT
* *
34822137 AAATTTTTATGAATTTTTTTAA
1 AAATTTTTATGAATTTATATAA
*
34822159 TAATTTTTAT-AAGTTTATATAA
1 AAATTTTTATGAA-TTTATATAA
34822181 AAATTT
1 AAATTT
34822187 AAATATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AAATTTTTATGAATTTATATAA
Found at i:34822188 original size:30 final size:32
Alignment explanation
Indices: 34822167--34822230 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 32
34822157 AATAATTTTT
34822167 ATAAG-TTTATATAAAAATTTAAATATTATTA
1 ATAAGTTTTATATAAAAATTTAAATATTATTA
*
34822198 ATATGTTTTATATAAAAAACTTATAAATATTAT
1 ATAAGTTTTATAT-AAAAA-TT-TAAATATTAT
34822231 AAAAACCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.14
32 7 0.25
33 5 0.18
34 2 0.07
35 10 0.36
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (32 bp):
ATAAGTTTTATATAAAAATTTAAATATTATTA
Found at i:34822233 original size:20 final size:20
Alignment explanation
Indices: 34822208--34822271 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
34822198 ATATGTTTTA
34822208 TATAAAAAACTTATAAATAT
1 TATAAAAAACTTATAAATAT
*
34822228 TAT-AAAAACCTAT-AATAAT
1 TATAAAAAACTTATAAAT-AT
*
34822247 TATAATAAA-TTATAAATAT
1 TATAAAAAACTTATAAATAT
34822266 ATATAA
1 -TATAA
34822272 TTTTTTATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.08
19 19 0.51
20 15 0.41
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAAAAACTTATAAATAT
Found at i:34822272 original size:20 final size:21
Alignment explanation
Indices: 34822206--34822272 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
34822196 TAATATGTTT
*
34822206 TATATAAAAAACTTATAAATA
1 TATATAATAAACTTATAAATA
*
34822227 T-TATAA-AAACCTAT-AATA
1 TATATAATAAACTTATAAATA
34822245 -ATTATAATAAA-TTATAAATA
1 TA-TATAATAAACTTATAAATA
34822265 TATATAAT
1 TATATAAT
34822273 TTTTTATGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 4 0.10
19 15 0.38
20 18 0.46
21 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
TATATAATAAACTTATAAATA
Found at i:34823457 original size:13 final size:13
Alignment explanation
Indices: 34823441--34823465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34823431 TTAATTAAAA
34823441 TTTTAAAAAATAT
1 TTTTAAAAAATAT
34823454 TTTTAAAAAATA
1 TTTTAAAAAATA
34823466 CTAATTATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:34827762 original size:9 final size:9
Alignment explanation
Indices: 34827748--34827814 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
34827738 TTTGGTTAAA
34827748 AATTAACCG
1 AATTAACCG
34827757 AATTAACCG
1 AATTAACCG
*
34827766 AATTACCCG
1 AATTAACCG
34827775 AATTAACCG
1 AATTAACCG
* * *
34827784 GATTACCCA
1 AATTAACCG
*
34827793 AATTACCCG
1 AATTAACCG
34827802 AATTAACCG
1 AATTAACCG
34827811 AATT
1 AATT
34827815 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:34827788 original size:27 final size:27
Alignment explanation
Indices: 34827748--34827814 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
34827738 TTTGGTTAAA
*
34827748 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCAAATTACCCG
* *
34827775 AATTAACCGGATTACCCAAATTACCCG
1 AATTAACCGAATTAACCAAATTACCCG
34827802 AATTAACCGAATT
1 AATTAACCGAATT
34827815 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.24
Consensus pattern (27 bp):
AATTAACCGAATTAACCAAATTACCCG
Found at i:34827957 original size:18 final size:18
Alignment explanation
Indices: 34827917--34827960 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34827907 AATTTTTATG
**
34827917 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
34827935 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
34827953 CTTGGGTT
1 ATTGGGTT
34827961 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:34835715 original size:22 final size:20
Alignment explanation
Indices: 34835682--34835727 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
34835672 CTTTCAGTTC
34835682 TTTTATTTTTTTATTTCATT
1 TTTTATTTTTTTATTTCATT
*
34835702 TTTTATTATATTTTATTTTATT
1 TTTTATT-T-TTTTATTTCATT
34835724 TTTT
1 TTTT
34835728 TAGTTTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 1 0.04
22 15 0.65
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTTTATTTCATT
Found at i:34836769 original size:20 final size:20
Alignment explanation
Indices: 34836715--34836770 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
34836705 TTTATATTTT
*
34836715 CATATAGTTTTTATATACATA
1 CATATA-TTTTTATACACATA
* *
34836736 CATGT-TCTTATATACACATA
1 CATATAT-TTTTATACACATA
34836756 CATATATTTTTATAC
1 CATATATTTTTATAC
34836771 TTTATAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 5 0.18
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (20 bp):
CATATATTTTTATACACATA
Found at i:34838922 original size:19 final size:19
Alignment explanation
Indices: 34838898--34838944 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34838888 AACGTCTCTT
*
34838898 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
34838917 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
34838936 TATGCATTA
1 TTTGCATTA
34838945 GATTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:34841833 original size:12 final size:12
Alignment explanation
Indices: 34841816--34841870 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
34841806 CAATAAAATT
34841816 AAAAAAAAGAAA
1 AAAAAAAAGAAA
34841828 AAAAAAAAGAAA
1 AAAAAAAAGAAA
* *
34841840 AAAGAAAGAGAAG
1 AAA-AAAAAGAAA
34841853 AAAAAAAAGAAA
1 AAAAAAAAGAAA
34841865 GAAAAA
1 -AAAAA
34841871 GGAGAGGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 22 0.59
13 15 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:34841834 original size:13 final size:13
Alignment explanation
Indices: 34841816--34841870 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 13
34841806 CAATAAAATT
34841816 AAAAAAAAG-AAA
1 AAAAAAAAGAAAA
34841828 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
34841841 AAGAAAGAGAAGAAAA
1 AA-AAA-A-AAGAAAA
*
34841857 AAAAGAAAGAAAA
1 AAAAAAAAGAAAA
34841870 A
1 A
34841871 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 9 0.24
13 13 0.34
14 4 0.11
15 3 0.08
16 9 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:34841857 original size:25 final size:22
Alignment explanation
Indices: 34841816--34841871 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 22
34841806 CAATAAAATT
34841816 AAAAAAAAGAAAAAAAAAAAGA
1 AAAAAAAAGAAAAAAAAAAAGA
34841838 AAAAAGAAAGAGAAGAAAAAAAAGA
1 AAAAA-AAAGA-AA-AAAAAAAAGA
*
34841863 AAGAAAAAG
1 AAAAAAAAG
34841872 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 6 0.20
25 14 0.47
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAAAGA
Found at i:34843369 original size:49 final size:50
Alignment explanation
Indices: 34843242--34843440 Score: 188
Period size: 51 Copynumber: 4.0 Consensus size: 50
34843232 ATTGCAGTCA
* * * * ** *
34843242 AAAAGATTGAAGCCACAACGGCGAATCTTACTCTCTCAGGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTCCT-TCCCCGACATTGCAATGG
* * *
34843293 AACAGATTGAAGCCACAACGGCAAATC-TCGCTTCCCCGACATTGCAAT-T
1 AAAAGATTGAAGCCACAACGGCGAATCTTC-CTTCCCCGACATTGCAATGG
* * * * *
34843342 AAAAGATTGAGGCCACAACAGCGAATCTTACCTTCCCAGGCGA-TGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTT-CCTTCCCCGAC-ATTGCAATGG
* *
34843393 AATAGATTGAAGCTACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
1 AAAAGATTGAAGCCACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
34843441 CTCATTTTCC
Statistics
Matches: 117, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
49 24 0.21
50 39 0.33
51 54 0.46
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTCCTTCCCCGACATTGCAATGG
Found at i:34843389 original size:100 final size:100
Alignment explanation
Indices: 34843242--34843440 Score: 303
Period size: 100 Copynumber: 2.0 Consensus size: 100
34843232 ATTGCAGTCA
* * *
34843242 AAAAGATTGAAGCCACAACGGCGAATCTTACTCTCTCAGGCGGTGCAGTGGAACAGATTGAAGCC
1 AAAAGATTGAAGCCACAACAGCGAATCTTACTCTCCCAGGCGATGCAGTGGAACAGATTGAAGCC
34843307 ACAACGGCAAATC-TCGCTTCCCCGACATTGCAATT
66 ACAACGGCAAATCTTC-CTTCCCCGACATTGCAATT
* *
34843342 AAAAGATTGAGGCCACAACAGCGAATCTTAC-CTTCCCAGGCGATGCAGTGGAATAGATTGAAGC
1 AAAAGATTGAAGCCACAACAGCGAATCTTACTC-TCCCAGGCGATGCAGTGGAACAGATTGAAGC
* *
34843406 TACAACGGCGAATCTTCCTTCCCCGACATTGCAAT
65 CACAACGGCAAATCTTCCTTCCCCGACATTGCAAT
34843441 CTCATTTTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 1 0.01
100 87 0.97
101 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACAGCGAATCTTACTCTCCCAGGCGATGCAGTGGAACAGATTGAAGCC
ACAACGGCAAATCTTCCTTCCCCGACATTGCAATT
Found at i:34843574 original size:172 final size:172
Alignment explanation
Indices: 34843283--34843612 Score: 468
Period size: 172 Copynumber: 1.9 Consensus size: 172
34843273 TCTCTCAGGC
*
34843283 GGTGCAGTGGAACAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATTAAAAGA
1 GGTGCAGTGGAAAAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATTAAAAGA
* * * * *
34843348 TTGAGGCCACAACAGCGAATCTTACCTTCCCAGGCGATGCAGTGGAATAGATTGAAGCTACAACG
66 TTGAAGCCACAACAGCGAACCTCACCTTCCCAGGCGATGCAATGGAACAGATTGAAGCTACAACG
34843413 GCGAATCTTC-CTTCCCCGACATTGCAATCTCATTTTCCTAGT
131 GCGAATC-TCGCTTCCCCGACATTGCAATCTCATTTTCCTAGT
* * * * * *
34843455 GGTGCAGTGGAAAATATTGAAGCTACGATGGCGAATCTCGCTTCCTCGACATTGC-ATTCAAATA
1 GGTGCAGTGGAAAAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATT-AAA-A
* * *
34843519 GATTGAAGCTACAACAGCGAACCTCA-CTTCCCTGGCGATGTAATGGAACAGATTGAAGCTACAA
64 GATTGAAGCCACAACAGCGAACCTCACCTTCCCAGGCGATGCAATGGAACAGATTGAAGCTACAA
*
34843583 CGGCGAATCTCGCTTCCCTGACATTGCAAT
129 CGGCGAATCTCGCTTCCCCGACATTGCAAT
34843613 TTAAAAGATT
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
171 5 0.04
172 111 0.80
173 23 0.17
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (172 bp):
GGTGCAGTGGAAAAGATTGAAGCCACAACGGCAAATCTCGCTTCCCCGACATTGCAATTAAAAGA
TTGAAGCCACAACAGCGAACCTCACCTTCCCAGGCGATGCAATGGAACAGATTGAAGCTACAACG
GCGAATCTCGCTTCCCCGACATTGCAATCTCATTTTCCTAGT
Found at i:34843648 original size:100 final size:100
Alignment explanation
Indices: 34843457--34843826 Score: 408
Period size: 100 Copynumber: 3.7 Consensus size: 100
34843447 TTCCTAGTGG
* * * *
34843457 TGCAGTGGAAAATATTGAAGCTACGATGGCGAATCTCGCTT-CCTCGACATTGC-ATTCAAATAG
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCT-GACATTGCAATTTAAA-AG
* * * *
34843520 ATTGAAGCTACAACAGCGAACCTCACTTCCCTGGCGA
64 ATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA
* * *
34843557 TGTAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAAAGAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAAAGAT
*
34843622 TGAAGCCACAACGGTGAATCTTACTT-CCTAGGC-A
66 TGAAGCCACAACGGCGAATCTTACTTCCCT-GGCGA
34843656 GTGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAAAGA
1 -TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAAAGA
* * * ** *
34843721 TTGAGGCCACAACGACAAATCTTACTTTCCCAAGCGG
65 TTGAAGCCACAACGGCGAATCTTAC-TTCCCTGGCGA
* * * * ** * * *
34843758 TGCAGTGGAATAGATTGAAGCTATGATGGAGAATCTTACTTCCCCGACATTAC-AGTTAAACAGA
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAA-AGA
34843822 TTGAA
65 TTGAA
34843827 TAAGCCATTC
Statistics
Matches: 230, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
99 4 0.02
100 159 0.69
101 65 0.28
102 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
TGCAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTTAAAAGAT
TGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA
Found at i:34843742 original size:50 final size:50
Alignment explanation
Indices: 34843465--34843734 Score: 233
Period size: 50 Copynumber: 5.4 Consensus size: 50
34843455 GGTGCAGTGG
* * * * *
34843465 AAAATATTGAAGCTACGATGGCGAATCTCGCTT-CCTCGACATTGC-ATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCT-GACATTGCAATTT
* * * * * * **
34843514 AAATAGATTGAAGCTACAACAGCGAACCTCACTTCCCTGGCGA-TGTAATGG
1 AAA-AGATTGAAGCCACAACGGCGAATCTCGCTTCCCTGAC-ATTGCAATTT
* *
34843565 AACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCTGACATTGCAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCTGACATTGCAATTT
* ** * * * **
34843615 AAAAGATTGAAGCCACAACGGTGAATCTTACTT-CCTAGGCAGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCT-GACATTGCAATTT
* * *
34843665 AACAGATTGAAGCTACGACGGCGAATCTCGCTTCCCTGACATTGCAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCTGACATTGCAATTT
*
34843715 AAAAGATTGAGGCCACAACG
1 AAAAGATTGAAGCCACAACG
34843735 ACAAATCTTA
Statistics
Matches: 171, Mismatches: 43, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
49 7 0.04
50 153 0.89
51 11 0.06
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCTGACATTGCAATTT
Found at i:34844103 original size:44 final size:44
Alignment explanation
Indices: 34843838--34844218 Score: 149
Period size: 44 Copynumber: 8.8 Consensus size: 44
34843828 AAGCCATTCC
* *
34843838 TATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
* * * ** ** * *
34843882 TATCTCTCTAAAGTTGCAGTAGAGTAGA-T--CGCATCTAG-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAAC-AGATCT
* * * * *
34843923 TATCTCCCTGAAGTTGCAGTGGAGTGGA-CAGAAGAAGCTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAA-C-AGATCT
* * ** *
34843967 TGTCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATGA-TGAAT-T
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAG-ATCT
* * * * ** * * * * *
34844010 CCATAC-CCCTGAAGTTGCTGCGAAGAAGATTGAAGCTACAAATCC
1 -TAT-CTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
34844055 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
* * ** *** * *
34844099 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATC--CAG-CCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
* ** * *** *
34844140 TATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGTTACTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAAC-AGATCT
* *
34844184 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAAC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
34844219 GATGAATCCA
Statistics
Matches: 239, Mismatches: 81, Indels: 34
0.68 0.23 0.10
Matches are distributed among these distances:
41 58 0.24
42 5 0.02
43 4 0.02
44 167 0.70
45 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCT
Found at i:34844194 original size:217 final size:217
Alignment explanation
Indices: 34843835--34844243 Score: 660
Period size: 217 Copynumber: 1.9 Consensus size: 217
34843825 AATAAGCCAT
*
34843835 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTAAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACAACAGATCTTATCTCTCTAAAGTTGCA
* * *
34843900 GTAGAGTAGATCGCATCTAGCCTTATCTCCCTGAAGTTGCAGTGGAGTGGACAGAAGAAGCTAAT
66 GTAGAGTAGATCGCATCCAGCCTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAGCTAAT
* * *
34843965 CCTGTCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATGATGAATTCC-ATACCCCTGAAGTTGCT
131 CCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAA-TCCAATACCCCTGAAGTTGCT
34844029 GCGAAGAAGATTGAAGCTACAAA
195 GCGAAGAAGATTGAAGCTACAAA
* *
34844052 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACAACAGATCTTATCTCTCTAAAGTTGCA
** *
34844117 GTAGAGTAGATCGCATCCAGCCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGTTA-CTAA
66 GTAGAGTAGATCGCATCCAGCCTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAG-AAGCTAA
**
34844181 TCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAATCCAATACCTTTGAAGTTG
130 TCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAATCCAATACCCCTGAAGTTG
34844244 TAGAGGGTCG
Statistics
Matches: 176, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
216 3 0.02
217 172 0.98
218 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
TCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACAACAGATCTTATCTCTCTAAAGTTGCA
GTAGAGTAGATCGCATCCAGCCTTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAGCTAAT
CCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACGATGAATCCAATACCCCTGAAGTTGCTG
CGAAGAAGATTGAAGCTACAAA
Found at i:34847667 original size:3 final size:3
Alignment explanation
Indices: 34847659--34847690 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
34847649 GAAATGTGGA
34847659 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
34847691 ATATGATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34849126 original size:35 final size:35
Alignment explanation
Indices: 34849087--34849223 Score: 150
Period size: 35 Copynumber: 3.9 Consensus size: 35
34849077 CAATTAAAGG
*
34849087 CAACCTTAAAAAGGTTGGGATAGACCCGTCTAAGA
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
* * *
34849122 CAACCTTAAAAAGGTTGAGATATACTCGTCTAAGA
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
* * * * *
34849157 CAACCTTAAAAA-GTTAGAACAGACAAGTCTAAGG
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
* ** *
34849191 CAACCTCAAAAAAATTGGGATAGACACATCTAA
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAA
34849224 TAGGGTAGAT
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 25 0.30
35 58 0.70
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (35 bp):
CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
Done.