Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 152 of 167
Found at i:50198880 original size:175 final size:175
Alignment explanation
Indices: 50198589--50200196 Score: 2823
Period size: 175 Copynumber: 9.2 Consensus size: 175
50198579 GAAGCGAGAA
* * * *
50198589 ATCTTATCTCCTTGAGATTACAGCGGAGCAAATTGAAACCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
* *
50198654 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
50198719 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
50198764 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
50198829 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
50198894 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
50198939 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
50199004 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
50199069 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
50199114 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
50199179 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
50199244 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
50199289 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
50199354 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
50199419 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
50199464 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
* *
50199529 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
* * *
50199594 TCTTATCTCCCTGAGATTACAGTGGAATAAATCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
50199639 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
* *
50199704 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
* * *
50199769 TCTTATCTCTCTGAGATTACAGTGGAATAGACTGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
* * *
50199814 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCT-A-ATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
* * * * * *
50199877 AGTGGAGCGGATTAAAATAAAGGATCTTATCCCTTTGAAGTTACAGTAGAGTAGATTGCATCAGG
66 AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
*
50199942 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
* *
50199987 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATTTTAC-T--GATTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTT-CTTGAGATTA
* * *
50200049 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
65 CAGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAG
* * * *
50200114 GTATTATCTCCCTGAGATTACAGTGGAATAAATCGAAGAATTACAG
130 GTCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
* *
50200160 ATCTTATCTCCCTGA-AGTTACAGTGGACCAGATTGAA
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAA
50200197 GTCAGGTCTT
Statistics
Matches: 1396, Mismatches: 34, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
172 1 0.00
173 304 0.22
174 2 0.00
175 1089 0.78
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACCAGTAATCCTATTTTCTTGAGATTAC
AGTGGAGCGGAGTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGG
TCTTATCTCCCTGAGATTATAGTGGAATAGACCGAAGAATTACAG
Found at i:50200281 original size:88 final size:88
Alignment explanation
Indices: 50198676--50200253 Score: 405
Period size: 87 Copynumber: 18.1 Consensus size: 88
50198666 TAAAATAAAG
* * * * * * * * *
50198676 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATCTCCCTGAGATTATA
1 GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTACA
* *
50198740 GTGGAATAGACCGAAGAATTACA
66 GTAGAATAAACCGAAGAATTACA
* * * ** * * *
50198763 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAACCA-GTAATCCTATTTTCTTGAGAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** *
50198826 TACAGTGGAGCGGA--GTAA-AA-TAAA
62 TACAGTAGAATAAACCG-AAGAATTACA
* * * * * * * * *
50198850 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATCTCCCTGAGATTAT
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* *
50198914 AGTGGAATAGACCGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * * ** * * *
50198938 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAACCA-GTAATCCTATTTTCTTGAGAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** *
50199001 TACAGTGGAGCGGA--GTAA-AA-TAAA
62 TACAGTAGAATAAACCG-AAGAATTACA
* * * * * * * * *
50199025 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATCTCCCTGAGATTAT
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* *
50199089 AGTGGAATAGACCGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * * ** * * *
50199113 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAACCA-GTAATCCTATTTTCTTGAGAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** *
50199176 TACAGTGGAGCGGA--GTAA-AA-TAAA
62 TACAGTAGAATAAACCG-AAGAATTACA
* * * * * * * * *
50199200 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATCTCCCTGAGATTAT
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* *
50199264 AGTGGAATAGACCGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * * ** * * *
50199288 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAACCA-GTAATCCTATTTTCTTGAGAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** *
50199351 TACAGTGGAGCGGA--GTAA-AA-TAAA
62 TACAGTAGAATAAACCG-AAGAATTACA
* * * * * * * * *
50199375 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATCTCCCTGAGATTAT
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* *
50199439 AGTGGAATAGACCGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * * ** * * *
50199463 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAACCA-GTAATCCTATTTTCTTGAGAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** *
50199526 TACAGTGGAGCGGA--GTAA-AA-TAAA
62 TACAGTAGAATAAACCG-AAGAATTACA
* * * ** * * *
50199550 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAGGTCTTATCTCCCTGAGATTAC
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* *
50199614 AGTGGAATAAATCGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * * ** * * *
50199638 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAACCA-GTAATCCTATTTTCTTGAGAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** *
50199701 TACAGTGGAGCGGA--GTAA-AA-TAAA
62 TACAGTAGAATAAACCG-AAGAATTACA
* * * ** * * * *
50199725 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAGGTCTTATCTCTCTGAGATTAC
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* * *
50199789 AGTGGAATAGACTGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * * * *
50199813 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCCA-GTAATCCTATTTCCCT-A-AT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** ** *
50199874 TACAGTGGAGCGGA-TTAA-AA-TAAA
62 TACAGTAGAATAAACCGAAGAATTACA
* * * ** * *
50199898 GGATCTTATC-CCTTTGAAGTTACAGTAGAGTAGATTGCA-TCAGGTCTTATCTCCCTGAGATTA
1 -GATCTTATCTCC-CTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTA
* *
50199961 CAGTGGAATAGACCGAAGAATTACA
64 CAGTAGAATAAACCGAAGAATTACA
* * * * * * **
50199986 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCCA-ATAATCCTATTTTACT--GAT
1 GATCTTATCTCCCTGAAG-GTACAGTGGAACAGATTGAAGTCAGGT-AT--TATCTCCCTGAGAT
* **** ** *
50200047 TACAGTGGAGCGGA-TTAA-AA-TAAA
62 TACAGTAGAATAAACCGAAGAATTACA
* * * ** * *
50200071 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAGGTATTATCTCCCTGAGATTAC
1 -GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTAC
* *
50200135 AGTGGAATAAATCGAAGAATTACA
65 AGTAGAATAAACCGAAGAATTACA
* * *
50200159 GATCTTATCTCCCTGAAGTTACAGTGGACCAGATTGAAGTCAGGTCTTATCTCCCTGAGATTACA
1 GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTACA
*
50200224 GTAGAATAGACCGAAGAATTACA
66 GTAGAATAAACCGAAGAATTACA
50200247 GATCTTA
1 GATCTTA
50200254 CTTTCTAGGC
Statistics
Matches: 1136, Mismatches: 248, Indels: 213
0.71 0.16 0.13
Matches are distributed among these distances:
83 14 0.01
84 1 0.00
85 167 0.15
86 95 0.08
87 353 0.31
88 342 0.30
89 25 0.02
90 139 0.12
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (88 bp):
GATCTTATCTCCCTGAAGGTACAGTGGAACAGATTGAAGTCAGGTATTATCTCCCTGAGATTACA
GTAGAATAAACCGAAGAATTACA
Found at i:50200499 original size:51 final size:50
Alignment explanation
Indices: 50200269--50200515 Score: 219
Period size: 50 Copynumber: 4.9 Consensus size: 50
50200259 TAGGCGGTAT
* * * ** * * *
50200269 AGTGGAACAGATTAAAGCCACAACGGCGAATCTCGCTTCCCCGACATTAC
1 AGTGGAAAAGATTAAAGCTACAACGACGAATCTTACTTCCCAGACAGTGC
** * *
50200319 AGTTAAAAAGATTAAAGCTACAA-TAGCGAATCTTACTTCCCAGACGGTGC
1 AGTGGAAAAGATTAAAGCTACAACGA-CGAATCTTACTTCCCAGACAGTGC
* *
50200369 AGTGGAAAAGATTAAAGCCACAACGACGAATCTTACTTCCCCA-ACATTGC
1 AGTGGAAAAGATTAAAGCTACAACGACGAATCTTACTT-CCCAGACAGTGC
* ** * * ** *
50200419 AATTAAAAAGATTAAAACTACAACAACGAATCTTACTTTCCTTGGCAGTGC
1 AGTGGAAAAGATTAAAGCTACAACGACGAATCTTAC-TTCCCAGACAGTGC
* * * *
50200470 AGTGGAATAGATTGAAGCTACAATGACGAATCTTACTTCCCCGACA
1 AGTGGAAAAGATTAAAGCTACAACGACGAATCTTACTTCCCAGACA
50200516 TCACAGTTAA
Statistics
Matches: 153, Mismatches: 39, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
50 113 0.74
51 40 0.26
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (50 bp):
AGTGGAAAAGATTAAAGCTACAACGACGAATCTTACTTCCCAGACAGTGC
Found at i:50200532 original size:101 final size:100
Alignment explanation
Indices: 50200269--50200535 Score: 336
Period size: 100 Copynumber: 2.7 Consensus size: 100
50200259 TAGGCGGTAT
* * **
50200269 AGTGGAACAGATTAAAGCCACAACGGCGAATCTCGCTTCCCCGACATTACAGTTAAAAAGATTAA
1 AGTGGAAAAGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTACAGTTAAAAAGATTAA
* * * *
50200334 AGCTACAATAGCGAATCTTACTTCCCAGACGGTGC
66 AACTACAACAACGAATCTTACTTCCCAGACAGTGC
* * *
50200369 AGTGGAAAAGATTAAAGCCACAACGACGAATCTTACTTCCCCAACATTGCAATTAAAAAGATTAA
1 AGTGGAAAAGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTACAGTTAAAAAGATTAA
** *
50200434 AACTACAACAACGAATCTTACTTTCCTTGGCAGTGC
66 AACTACAACAACGAATCTTAC-TTCCCAGACAGTGC
* * * * * **
50200470 AGTGGAATAGATTGAAGCTACAATGACGAATCTTACTTCCCCGACATCACAGTTAAGCAGATTAA
1 AGTGGAAAAGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTACAGTTAAAAAGATTAA
50200535 A
66 A
50200536 GTTACGAGTT
Statistics
Matches: 142, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 76 0.54
101 66 0.46
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (100 bp):
AGTGGAAAAGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTACAGTTAAAAAGATTAA
AACTACAACAACGAATCTTACTTCCCAGACAGTGC
Found at i:50201821 original size:93 final size:94
Alignment explanation
Indices: 50201644--50201830 Score: 340
Period size: 93 Copynumber: 2.0 Consensus size: 94
50201634 CCACTTTTGC
* *
50201644 GCCTTGGTTCAGTCCAGTTTCTATTGTTTCTTTAAATTGGGCCGCCTATTTTCCTACAGATTTCA
1 GCCTTGGTTCAGTCCAGTTTCTATTGTTTCTTTAAATTGGACCGCCTATTTTCCTACAAATTTCA
50201709 TTTTAGTCCATTTTACAACACAGCGTTCT
66 TTTTAGTCCATTTTACAACACAGCGTTCT
50201738 GCCTTGGTTCAGTCCAGTTTCTATTGTTTCTTTAAATT-GACCGCCTATTTTCCTACAAATTTCA
1 GCCTTGGTTCAGTCCAGTTTCTATTGTTTCTTTAAATTGGACCGCCTATTTTCCTACAAATTTCA
*
50201802 TTTTAGTCCATTTTGCAACACAGCGTTCT
66 TTTTAGTCCATTTTACAACACAGCGTTCT
50201831 AGAGGGTTGG
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
93 52 0.58
94 38 0.42
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.43
Consensus pattern (94 bp):
GCCTTGGTTCAGTCCAGTTTCTATTGTTTCTTTAAATTGGACCGCCTATTTTCCTACAAATTTCA
TTTTAGTCCATTTTACAACACAGCGTTCT
Found at i:50202850 original size:227 final size:228
Alignment explanation
Indices: 50202454--50202908 Score: 903
Period size: 227 Copynumber: 2.0 Consensus size: 228
50202444 TTATTTTAAA
50202454 ATTTAAATTTATATATTATTTTTTATTTCTTAAATTATGTTTAAATTTGTATATTTCAAACATTA
1 ATTTAAATTTATATATTATTTTTTATTTCTTAAATTATGTTTAAATTTGTATATTTCAAACATTA
50202519 GTGTTATATAAATTTGTTTGATTTTTGATTAGTTTCCTCTTATTAGCTAATGTTGATATTTACAT
66 GTGTTATATAAATTTGTTTGATTTTTGATTAGTTTCCTCTTATTAGCTAATGTTGATATTTACAT
50202584 AATGTGTGATTGAAATTATTGTCACTATGCTTGTTCATATTATTTGATTATTCGTCATTTATTAG
131 AATGTGTGATTGAAATTATTGTCACTATGCTTGTTCATATTATTTGATTATTCGTCATTTATTAG
50202649 TATATATATTGTGGCTTATGAACTATCAATTTG
196 TATATATATTGTGGCTTATGAACTATCAATTTG
50202682 ATTTAAATTTATATATTA-TTTTTATTTCTTAAATTATGTTTAAATTTGTATATTTCAAACATTA
1 ATTTAAATTTATATATTATTTTTTATTTCTTAAATTATGTTTAAATTTGTATATTTCAAACATTA
50202746 GTGTTATATAAATTTGTTTGATTTTTGATTAGTTTCCTCTTATTAGCTAATGTTGATATTTACAT
66 GTGTTATATAAATTTGTTTGATTTTTGATTAGTTTCCTCTTATTAGCTAATGTTGATATTTACAT
50202811 AATGTGTGATTGAAATTATTGTCACTATGCTTGTTCATATTATTTGATTATTCGTCATTTATTAG
131 AATGTGTGATTGAAATTATTGTCACTATGCTTGTTCATATTATTTGATTATTCGTCATTTATTAG
50202876 TATATATATTGTGGCTTATGAACTATCAATTTG
196 TATATATATTGTGGCTTATGAACTATCAATTTG
50202909 CGTCATCCAC
Statistics
Matches: 227, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
227 209 0.92
228 18 0.08
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.52
Consensus pattern (228 bp):
ATTTAAATTTATATATTATTTTTTATTTCTTAAATTATGTTTAAATTTGTATATTTCAAACATTA
GTGTTATATAAATTTGTTTGATTTTTGATTAGTTTCCTCTTATTAGCTAATGTTGATATTTACAT
AATGTGTGATTGAAATTATTGTCACTATGCTTGTTCATATTATTTGATTATTCGTCATTTATTAG
TATATATATTGTGGCTTATGAACTATCAATTTG
Found at i:50205523 original size:34 final size:34
Alignment explanation
Indices: 50205453--50205547 Score: 127
Period size: 34 Copynumber: 2.7 Consensus size: 34
50205443 GAAAGTTTGG
**
50205453 ATTTTAGGGACTAAATTGTAAAAACTACAAAAATGAA
1 ATTTTAGGGACTATTTTGT-AAAA--ACAAAAATGAA
*
50205490 ATTTTAGGGACTATTTTGTAAAAACAAAGATGAA
1 ATTTTAGGGACTATTTTGTAAAAACAAAAATGAA
*
50205524 ATTTTAGGGACTGTTTTGTAAAAA
1 ATTTTAGGGACTATTTTGTAAAAA
50205548 TTGTAAAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
34 33 0.61
36 4 0.07
37 17 0.31
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (34 bp):
ATTTTAGGGACTATTTTGTAAAAACAAAAATGAA
Found at i:50207238 original size:13 final size:13
Alignment explanation
Indices: 50207217--50207248 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50207207 ACAACCATTA
*
50207217 TAATAATCGTAAT
1 TAATTATCGTAAT
50207230 TAATTATCGTAAT
1 TAATTATCGTAAT
50207243 TAATTA
1 TAATTA
50207249 ATTTCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
TAATTATCGTAAT
Found at i:50207582 original size:16 final size:16
Alignment explanation
Indices: 50207561--50207594 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
50207551 GAGGTAAGTA
50207561 TATTTTATACCAAATT
1 TATTTTATACCAAATT
50207577 TATTTTATACCAAATT
1 TATTTTATACCAAATT
50207593 TA
1 TA
50207595 AGGGATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTTATACCAAATT
Found at i:50210817 original size:22 final size:23
Alignment explanation
Indices: 50210792--50210844 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
50210782 ATTGTTTCAG
50210792 TACAGTTTT-AGAAAATACTATC
1 TACAGTTTTCAGAAAATACTATC
*
50210814 TACAATGTTTTCAGAATATACTATC
1 TAC-A-GTTTTCAGAAAATACTATC
50210839 TA-AGTT
1 TACAGTT
50210845 CAGAAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 6 0.22
23 2 0.07
24 5 0.19
25 14 0.52
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
TACAGTTTTCAGAAAATACTATC
Found at i:50217647 original size:16 final size:17
Alignment explanation
Indices: 50217626--50217664 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
50217616 GAAAAATTAT
* *
50217626 ATTTTCTATGA-TTCTA
1 ATTTTCTATCACTTCAA
50217642 ATTTTCTATCACTTCAA
1 ATTTTCTATCACTTCAA
50217659 ATTTTC
1 ATTTTC
50217665 ATTTTTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTCTATCACTTCAA
Found at i:50218759 original size:9 final size:9
Alignment explanation
Indices: 50218739--50218773 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
50218729 AAAAAATTGA
50218739 ATTTTTTA-
1 ATTTTTTAT
50218747 ATTTTTTAT
1 ATTTTTTAT
*
50218756 ATTTTCTAT
1 ATTTTTTAT
50218765 ATTTTTTAT
1 ATTTTTTAT
50218774 TGCTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:50219529 original size:16 final size:16
Alignment explanation
Indices: 50219491--50219535 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
50219481 ATTGAAATTT
* *
50219491 TGAAAAATTGAAAGGG
1 TGAAAAATTAAAAGGA
*
50219507 TGGAAAATTAAAAGGA
1 TGAAAAATTAAAAGGA
50219523 TGAAAAATATAAA
1 TGAAAAAT-TAAA
50219536 TTTTCTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.20
Consensus pattern (16 bp):
TGAAAAATTAAAAGGA
Found at i:50234957 original size:44 final size:43
Alignment explanation
Indices: 50234869--50235398 Score: 279
Period size: 44 Copynumber: 12.3 Consensus size: 43
50234859 AAATCTCAGA
* * * * * *
50234869 TCTTATCTCGCTGAAGTTGCAG-AGAGCAGA-TCA-CATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
* * *
50234909 TCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * *
50234953 TCTTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CAAG
*
50234998 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AACCGACAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA--G-CAAG
* * * ** * * *
50235042 TCCTATCTCCCTGAAGTTACGGTGGAGTGGATTAA-AATCTTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG
** * * * * * *
50235085 ATCTTATCTTTCTGAAGTTGCAG-AGAGCATA-T-CGCATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
*
50235126 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * *
50235170 TCTTATCCTCCC-GAAGTTGCAGTGAAGCAGACTGAAGATGGCAAA
1 TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAG
* * ** *
50235215 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCTGACAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CAAG
* * * *
50235260 TC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AATCTCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG
* * * * * * *
50235302 ATATTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CG-CGTCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-CAAG
* *
50235343 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAGTAAGC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
50235386 ATCTTATCTCCCT
1 -TCTTATCTCCCT
50235399 AAGCAGTAAT
Statistics
Matches: 379, Mismatches: 75, Indels: 68
0.73 0.14 0.13
Matches are distributed among these distances:
40 59 0.16
41 27 0.07
42 12 0.03
43 21 0.06
44 176 0.46
45 81 0.21
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
Found at i:50235202 original size:217 final size:217
Alignment explanation
Indices: 50234824--50235397 Score: 900
Period size: 217 Copynumber: 2.6 Consensus size: 217
50234814 AGTGGCTGGG
* * * *
50234824 ATCCTATTTCCCTAAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTCGCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGC
*
50234889 AGAGAGCAGATCACATCTAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGT
** * *
50234954 CTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCCGAAGTTGCAGTGAAGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
50235019 GTGGAGCAGATTAAAACCGACA
196 GTGGAGCAGATTAAAACCGACA
* * * * *
50235041 ATCCTATCTCCCTGAAGTTACGGTGGAGTGGATTAAAATCTTAGATCTTATCTTTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGC
* * *
50235106 AGAGAGCATATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGT
*
50235171 CTTATCCTCCCGAAGTTGCAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTACA
131 CTTATCCTCCCGAAGTTGCAGTGAAGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
* *
50235236 GTGGAGCAGATTAAAGCTGACA
196 GTGGAGCAGATTAAAACCGACA
* * *
50235258 ATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATATTATCTCTCTAAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGC
* *
50235323 AGAGAGCAGATCGCGTCTAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAGTAAGC-AGA
66 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG-
50235387 TCTTAT-CTCCC
130 TCTTATCCTCCC
50235398 TAAGCAGTAA
Statistics
Matches: 323, Mismatches: 33, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
216 7 0.02
217 316 0.98
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCCGAAGTTGCAGTGAAGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAACCGACA
Found at i:50235275 original size:173 final size:173
Alignment explanation
Indices: 50234951--50235280 Score: 388
Period size: 173 Copynumber: 1.9 Consensus size: 173
50234941 TAAGTAAGCA
*
50234951 AGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGAAGACAAATCTTATCTCCCTGAAGTT
* * * ** *
50235016 GCAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTACGGTGGAGTGGATTAAAATC
66 GCAGTGAAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAGC
* * **
50235081 TTAGATCTTATCTTTCTGAAGTTGCAGAGAGCATATCGCATCT
131 TGAAATCTTATCTCCCTGAAGTTGCAGAGAGCATATCGCATCT
*
50235124 AGTCTTAT-CTCTCTGAAGTTGCAGTG-GAGCAGACT-AAGTAAG-CAAGTCTTATCCTCCC-GA
1 AGTCTTATCCTCT-TGAAGTTGCAGTGAG-GCAGACTGAAG-AAGACAAATCTTAT-CTCCCTGA
* * * *
50235184 AGTTGCAGTGAAGCAGACTGAAGA-TGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT
62 AGTTGCAGTGAAGCAGA-TGAAAACCGAC-AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT
50235248 -AAAGCTGACAAT-TCTATCTCCCTGAAGTTGCAG
125 AAAAGCTGA-AATCT-TATCTCCCTGAAGTTGCAG
50235281 TGGAGCGGAT
Statistics
Matches: 133, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
172 44 0.33
173 89 0.67
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (173 bp):
AGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGAAGACAAATCTTATCTCCCTGAAGTT
GCAGTGAAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAGC
TGAAATCTTATCTCCCTGAAGTTGCAGAGAGCATATCGCATCT
Found at i:50235587 original size:132 final size:133
Alignment explanation
Indices: 50235383--50235663 Score: 467
Period size: 132 Copynumber: 2.1 Consensus size: 133
50235373 ACTAAGTAAG
*
50235383 CAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTACATCCCTGTGGT
*
50235448 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAACAGATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAACAGATTGAAGAT
50235513 T-T
131 TGT
* * *
50235515 CAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACATCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTACATCCCTGTGGT
* * *
50235580 TATAGTGGAGTACATTGAAGCTAGTAATTCTACTTCCCTGGGCAACAGCGGAATAGATTGAAGAT
66 TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAACAGATTGAAGAT
50235645 TGT
131 TGT
*
50235648 AAG-TCTTATCTCCCTA
1 CAGATCTTATCTCCCTA
50235664 CAGTTGCAGT
Statistics
Matches: 138, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 135 0.98
133 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (133 bp):
CAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGCGGATTTTACATCCCTGTGGT
TATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGCGGAACAGATTGAAGAT
TGT
Found at i:50243255 original size:5 final size:5
Alignment explanation
Indices: 50243245--50243295 Score: 75
Period size: 5 Copynumber: 10.2 Consensus size: 5
50243235 CCTAAATAGT
* * *
50243245 AATAA AATAA AATAA AATAA AATAA AATAA AATGA AATGA AATGA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
50243295 A
1 A
50243296 TTTATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:50245959 original size:12 final size:12
Alignment explanation
Indices: 50245942--50245973 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
50245932 TTATTTATTG
50245942 TTATTATTAATA
1 TTATTATTAATA
*
50245954 TTATTATTACTA
1 TTATTATTAATA
50245966 TTATTATT
1 TTATTATT
50245974 CCATTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:50259187 original size:9 final size:9
Alignment explanation
Indices: 50259170--50259420 Score: 175
Period size: 9 Copynumber: 28.8 Consensus size: 9
50259160 TATGTATTAA
*
50259170 GTAAATTAT
1 GTAAGTTAT
50259179 GTAAGTTAT
1 GTAAGTTAT
*
50259188 GTACGTGTA-
1 GTAAGT-TAT
50259197 -TAAGTTAT
1 GTAAGTTAT
50259205 GTAAGTTAT
1 GTAAGTTAT
*
50259214 GT-A-TTAA
1 GTAAGTTAT
**
50259221 GTAAACTAT
1 GTAAGTTAT
*
50259230 GTAAGTTGT
1 GTAAGTTAT
50259239 GT-A-TTAT
1 GTAAGTTAT
*
50259246 GTAACTTAT
1 GTAAGTTAT
50259255 GTAAGTTAT
1 GTAAGTTAT
** *
50259264 CAAAGTAAT
1 GTAAGTTAT
*
50259273 GTATGTTAT
1 GTAAGTTAT
50259282 GTAAG-T-T
1 GTAAGTTAT
50259289 GTAAGTTAT
1 GTAAGTTAT
*
50259298 -TATGTATTAT
1 GTAAG--TTAT
* * *
50259308 ATAACTTCT
1 GTAAGTTAT
50259317 GTAAGTTAT
1 GTAAGTTAT
50259326 GTAAGTTAT
1 GTAAGTTAT
*
50259335 GTAAGTTGT
1 GTAAGTTAT
*
50259344 GTAAGCTAT
1 GTAAGTTAT
* *
50259353 TTCAGTTAT
1 GTAAGTTAT
*
50259362 GTAACCTT-T
1 GTAA-GTTAT
50259371 GT-A-TTAT
1 GTAAGTTAT
50259378 GTAAGTTAT
1 GTAAGTTAT
*
50259387 GTAGGTTAT
1 GTAAGTTAT
*
50259396 GTAAGTTGT
1 GTAAGTTAT
*
50259405 GTAAATTAT
1 GTAAGTTAT
50259414 GTAAGTT
1 GTAAGTT
50259421 CTTGTACATA
Statistics
Matches: 185, Mismatches: 41, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
6 2 0.01
7 21 0.11
8 15 0.08
9 137 0.74
10 8 0.04
11 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:50259187 original size:25 final size:25
Alignment explanation
Indices: 50259159--50259263 Score: 124
Period size: 25 Copynumber: 4.2 Consensus size: 25
50259149 TGATATATAT
50259159 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
*
50259184 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAATTATGTAAG
*
50259210 TTATGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
50259235 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
50259260 TTAT
1 TTAT
50259264 CAAAGTAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 42 0.63
26 19 0.28
27 2 0.03
28 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:50259219 original size:51 final size:50
Alignment explanation
Indices: 50259159--50259263 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 50
50259149 TGATATATAT
* * *
50259159 TTATGTATTAAGTAAATTATGTAAGTTATGTACGTGTATAAGTTATGTAAG
1 TTATGTATTAAGTAAACTATGTAAGTTATGTA-GTATATAACTTATGTAAG
* * *
50259210 TTATGTATTAAGTAAACTATGTAAGTTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAACTATGTAAGTTATGTAGTATATAACTTATGTAAG
50259260 TTAT
1 TTAT
50259264 CAAAGTAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 18 0.38
51 30 0.62
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (50 bp):
TTATGTATTAAGTAAACTATGTAAGTTATGTAGTATATAACTTATGTAAG
Found at i:50259636 original size:53 final size:53
Alignment explanation
Indices: 50259565--50259700 Score: 218
Period size: 53 Copynumber: 2.6 Consensus size: 53
50259555 TTTATAGCGG
*
50259565 GTAATGTATTTAAATAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * *
50259618 GTAATGTATCTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
**
50259671 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAA
50259701 TATATTCAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 75 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (53 bp):
GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:50259646 original size:13 final size:13
Alignment explanation
Indices: 50259615--50259719 Score: 79
Period size: 13 Copynumber: 8.0 Consensus size: 13
50259605 CAAATTTTAG
* *
50259615 TAAGTAATGTATC
1 TAAGTAATATATT
* *
50259628 TGAGTAACATATT
1 TAAGTAATATATT
* *
50259641 TAAGTAAAAAATT
1 TAAGTAATATATT
*
50259654 TAACG-AA-ATTTT
1 TAA-GTAATATATT
*
50259666 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
50259681 TAAGTAATTTATT
1 TAAGTAATATATT
50259694 TAAGTAATATATT
1 TAAGTAATATATT
*
50259707 CAAGTAATATATT
1 TAAGTAATATATT
50259720 AAGAGTAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
12 3 0.04
13 61 0.84
14 6 0.08
15 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:50259921 original size:44 final size:44
Alignment explanation
Indices: 50259873--50259956 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
50259863 TTAAATTGTA
50259873 AAAATAT-TAACATATATA-TATTTTTAATATTAATAAGTTATGAT
1 AAAATATATAA-ATATATACT-TTTTTAATATTAATAAGTTATGAT
*
50259917 AAAATATATGAATATATACTTTTTTAATATTAATAAGTTA
1 AAAATATATAAATATATACTTTTTTAATATTAATAAGTTA
50259957 AATAAAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (44 bp):
AAAATATATAAATATATACTTTTTTAATATTAATAAGTTATGAT
Found at i:50260316 original size:7 final size:7
Alignment explanation
Indices: 50260291--50260354 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
50260281 CACTTCATTC
50260291 AACAGAA
1 AACAGAA
*
50260298 AATAGCAA
1 AACAG-AA
50260306 AACAGAA
1 AACAGAA
*
50260313 AACAAAA
1 AACAGAA
*
50260320 AATAGAA
1 AACAGAA
50260327 AACAGAA
1 AACAGAA
50260334 AACAG--
1 AACAGAA
*
50260339 AACAAAA
1 AACAGAA
50260346 AACAGAA
1 AACAGAA
50260353 AA
1 AA
50260355 TAAAGAAACA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 4 0.09
7 36 0.78
8 6 0.13
ACGTcount: A:0.73, C:0.12, G:0.11, T:0.03
Consensus pattern (7 bp):
AACAGAA
Found at i:50260320 original size:21 final size:21
Alignment explanation
Indices: 50260291--50260354 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
50260281 CACTTCATTC
50260291 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
*
50260313 AACAAAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
*
50260334 AACAGAACA-A-AAAACAGAA
1 AACAGAAAATAGAAAACAGAA
50260353 AA
1 AA
50260355 TAAAGAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.28
20 1 0.03
21 16 0.41
22 11 0.28
ACGTcount: A:0.73, C:0.12, G:0.11, T:0.03
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:50260326 original size:14 final size:14
Alignment explanation
Indices: 50260304--50260369 Score: 73
Period size: 14 Copynumber: 4.8 Consensus size: 14
50260294 AGAAAATAGC
50260304 AAAACAGAAAACAA
1 AAAACAGAAAACAA
* *
50260318 AAAATAGAAAACAG
1 AAAACAGAAAACAA
50260332 AAAACAG--AACAA
1 AAAACAGAAAACAA
*
50260344 AAAACAGAAAATAA
1 AAAACAGAAAACAA
*
50260358 AGAAACATAAAA
1 A-AAACAGAAAA
50260370 ATGGTACAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 11 0.26
14 23 0.53
15 9 0.21
ACGTcount: A:0.76, C:0.11, G:0.09, T:0.05
Consensus pattern (14 bp):
AAAACAGAAAACAA
Found at i:50260400 original size:18 final size:19
Alignment explanation
Indices: 50260358--50260401 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
50260348 CAGAAAATAA
*
50260358 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
50260377 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
50260395 AGAAACA
1 AGAAACA
50260402 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:50261182 original size:301 final size:302
Alignment explanation
Indices: 50260638--50261243 Score: 1108
Period size: 301 Copynumber: 2.0 Consensus size: 302
50260628 TAAACTAGAT
* *
50260638 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAGTATATTATAAAAGAAAAA
1 ATTAAAACTATATATAATATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
* *
50260703 AATCAAAAAAAAAATTGAATCTCAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAGTTTGA
66 AAT-AAAAAAAAAATTGAATCTAAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGA
50260768 ACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAG
130 ACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAG
*
50260833 TAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAGTTTTG
195 TAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTG
50260898 CAATTTTCAACAGAACAGCAGTAAATGATTCAACATGGTAGCA
260 CAATTTTCAACAGAACAGCAGTAAATGATTCAACATGGTAGCA
50260941 ATTAAAACTATATATAATATATATTAAAAATGTATATAAATTTTAAATATATTATAAAA-AATAA
1 ATTAAAACTATATATAATATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAA-AA
* *
50261005 TAAT-AAAAAAAGATTGAATCTAAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGA
65 AAATAAAAAAAAAATTGAATCTAAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGA
50261069 ACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAG
130 ACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAG
50261134 TAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTG
195 TAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTG
*
50261199 CAATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCA
260 CAATTTTCAACAGAACAGCAGTAAATGATTCAACATGGTAGCA
50261242 AT
1 AT
50261244 GGAAACTAAT
Statistics
Matches: 294, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
301 230 0.78
302 2 0.01
303 62 0.21
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (302 bp):
ATTAAAACTATATATAATATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
AATAAAAAAAAAATTGAATCTAAGATTTCAACCAAAAATATTACTTTGCTCTTTAGAAATTTGAA
CTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGCCACTATTGGATTTTTTCTAATAGT
AGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAATTTTGC
AATTTTCAACAGAACAGCAGTAAATGATTCAACATGGTAGCA
Found at i:50261980 original size:198 final size:197
Alignment explanation
Indices: 50261642--50262066 Score: 708
Period size: 198 Copynumber: 2.2 Consensus size: 197
50261632 TAATTAACCC
*
50261642 ATTTGCGGCGTTTGTATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
* * *
50261707 TAACTGAAACTCATGGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTGAAACATTTTTGC
66 TAACTCAAACTCATGGCATTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
*
50261772 GGCGTTTACTAAAAGCGCCACTAAAAG-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
131 GGCGTTTACTAAAAGCGCCACT-AAAGTTAAATAAGAAAACGAAGCCATTTTCCTAAACAA-TTC
50261836 TGTA
194 TGTA
** *
50261840 ATTTGCGGTTTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCATT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
50261905 TAACTCAAACTCATGGCATTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
66 TAACTCAAACTCATGGCATTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
*
50261970 GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGGAGCCATTTTCCTAAACAATTCTG
131 GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCATTTTCCTAAACAATTCTG
50262035 TA
196 TA
* * **
50262037 AATTGCGGCGTTTATACATAAGCGCCACTA
1 ATTTGCGGCGTTTATATACCAGCGCCACTA
50262067 AATATTAGGC
Statistics
Matches: 211, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
197 35 0.17
198 176 0.83
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (197 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
TAACTCAAACTCATGGCATTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGC
GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCATTTTCCTAAACAATTCTG
TA
Found at i:50262529 original size:47 final size:47
Alignment explanation
Indices: 50262441--50262532 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
50262431 CTTAATTTCG
* **
50262441 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
50262488 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
50262533 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:50262869 original size:7 final size:7
Alignment explanation
Indices: 50262857--50262918 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
50262847 ATAACCCAAT
50262857 CCCTAAC
1 CCCTAAC
50262864 CCCTAAC
1 CCCTAAC
*
50262871 CCTTAAC
1 CCCTAAC
*
50262878 CCTTAAC
1 CCCTAAC
*
50262885 CCTTAAC
1 CCCTAAC
* *
50262892 CCATGAC
1 CCCTAAC
*
50262899 CTCTAAC
1 CCCTAAC
50262906 CCCTAAC
1 CCCTAAC
50262913 CCCTAA
1 CCCTAA
50262919 ACCTTATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.29, C:0.48, G:0.02, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:50262871 original size:96 final size:96
Alignment explanation
Indices: 50262702--50262886 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 96
50262692 TATAAAGAAC
* * ** * * * *
50262702 TTATTTAATATGTTAATTAAAAAGTACTAATTAATCCAAATCTTAATCCCTAACCCGACTCCAAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCAACTCCAAA
*
50262767 TCCATAACCCCTAACCCCTAACCCCTAAACT
66 CCCATAACCCCTAACCCCTAACCCCTAAACT
* *
50262798 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCATAACCCAA-TCCCTA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCAACT-CCAA
* * *
50262862 ACCCCTAACCCTTAACCCTTAACCC
65 ACCCATAACCCCTAACCCCTAACCC
50262887 TTAACCCATG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (96 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCAACTCCAAA
CCCATAACCCCTAACCCCTAACCCCTAAACT
Found at i:50262886 original size:21 final size:20
Alignment explanation
Indices: 50262836--50262924 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 20
50262826 AATTAATCTA
* *
50262836 AACCTTAAACCATAACCCA-
1 AACCTTAACCCCTAACCCAT
* * *
50262855 ATCCCTAACCCCTAACCCTT
1 AACCTTAACCCCTAACCCAT
*
50262875 AACCCTTAACCCTTAACCCAT
1 AA-CCTTAACCCCTAACCCAT
* *
50262896 GACCTCTAACCCCTAACCCCT
1 AACCT-TAACCCCTAACCCAT
50262917 AAACCTTA
1 -AACCTTA
50262925 TTTAATATAT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
19 14 0.26
20 4 0.08
21 31 0.58
22 4 0.08
ACGTcount: A:0.34, C:0.44, G:0.01, T:0.21
Consensus pattern (20 bp):
AACCTTAACCCCTAACCCAT
Found at i:50263028 original size:7 final size:7
Alignment explanation
Indices: 50263018--50263071 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
50263008 CTCTTAACAT
50263018 CTAACCC
1 CTAACCC
50263025 CTAA--C
1 CTAACCC
*
50263030 CTAATCC
1 CTAACCC
50263037 CTAACCC
1 CTAACCC
50263044 CTAACCC
1 CTAACCC
*
50263051 ATAACCC
1 CTAACCC
*
50263058 TTAACCC
1 CTAACCC
50263065 CTAACCC
1 CTAACCC
50263072 ATAAACCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 5 0.12
7 36 0.88
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAACCC
Found at i:50263064 original size:21 final size:21
Alignment explanation
Indices: 50263019--50263082 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
50263009 TCTTAACATC
50263019 TAACCCCTAA-CC-TAATCCC-
1 TAACCCCTAACCCATAA-CCCT
50263038 TAACCCCTAACCCATAACCCT
1 TAACCCCTAACCCATAACCCT
*
50263059 TAACCCCTAACCCATAAACCT
1 TAACCCCTAACCCATAACCCT
50263080 TAA
1 TAA
50263083 ATCACATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 10 0.24
20 5 0.12
21 26 0.63
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACCCCTAACCCATAACCCT
Found at i:50263127 original size:14 final size:15
Alignment explanation
Indices: 50263105--50263138 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50263095 CTTAAACCAG
*
50263105 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
50263119 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
50263134 AATCT
1 AATCT
50263139 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:50263545 original size:114 final size:114
Alignment explanation
Indices: 50263379--50263938 Score: 590
Period size: 114 Copynumber: 4.9 Consensus size: 114
50263369 ATCCCTCAGT
* * * * * * *
50263379 ATTAGTGGCGCT-TCATAAAAACACCACCAAATCCCCGAAAGCTAAAAAAACGACGTCGTTGGGC
1 ATTAGCGGCGCTATAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
50263443 TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGC
66 TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGC
* * * ** *
50263492 ATTAGTGGCGC-ATACAAAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGACGTCGTTGG
1 ATTAGCGGCGCTATA-ATAAAAACGCCACTAAATCC-CCGAAAGCTCAGAAAACGGCGTCGTTGG
* * * * * ** *
50263555 GCTGAAGTATTATTGTGGCGCTTTCACAAAAATGCCGTTAAATCCCTGAGT
64 GCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGC
* * * * *
50263606 ATTAACGGCGCTTTAATAAAAACGCTACTAAATCCTCGAAAGCTCAGAAAACGGCGTTGTTGGGC
1 ATTAGCGGCGCTATAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* * * ** * *
50263671 TGAAGTATTGTTGTGGCGCTTTCACAAAAACGCCGCTAAATCCCTAAGT
66 TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGC
* * * *
50263720 ATTAGCGACGCTTTAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTCGGC
1 ATTAGCGGCGCTATAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
** *
50263785 TGAAGTACGTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACTTGAGC
66 TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGC
* * * * * *
50263834 ATTCGCGGCGAT-TGCATGAAAACGCCACTAAATCCCCCGAAAGCTCA-AAAACGGCATCGTTAG
1 ATTAGCGGCGCTAT-AATAAAAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGG
** * * *
50263897 GCTGAAGTACGTTTGCGGCGCATCCCCAAAAACGCCACTAAA
64 GCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
50263939 TCCCCGAAAG
Statistics
Matches: 382, Mismatches: 58, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
113 15 0.04
114 351 0.92
115 16 0.04
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (114 bp):
ATTAGCGGCGCTATAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
TGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGC
Found at i:50263951 original size:187 final size:186
Alignment explanation
Indices: 50263737--50264090 Score: 471
Period size: 187 Copynumber: 1.9 Consensus size: 186
50263727 ACGCTTTAAT
* * *
50263737 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTCGGCTGAAGTAC-GTTTGCGG
1 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGCGGCGGAAGT-CTGTTTGCGG
* *
50263801 CGCTTTCCCAAAAACGCCGCTAAAGACTTGAGCATTCGCGGCGATTGCATGAAAA-CGCCACTAA
65 CGCTTACCCAAAAACGCCGCTAAAGA-TTGAGAATTCGCGGCGATTGCAT-AAAATCGCCACTAA
50263865 ATCCCCCGAAAGCTCA-AAAACGGCATCGTTAGGCTGAAGTACGTTTGCGGCGCATCCCC
128 ATCCCCC-AAAGCTCAGAAAACGGCATCGTTAGGCTGAAGTACGTTTGCGGCGCATCCCC
* * *
50263924 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGGGGCGGAAGTCTTTTTGTGGC
1 AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGCGGCGGAAGTCTGTTTGCGGC
* * * * * *
50263989 GCTTACCGAGAAACGCCGCTAAAGATTGATAATTGGCGGCGCTTTCATAAAATCGCCACTAAATC
66 GCTTACCCAAAAACGCCGCTAAAGATTGAGAATTCGCGGCGATTGCATAAAATCGCCACTAAATC
** ** * *
50264054 CTTCTCAGCTCAGAAAACGGCGTCGTTGGGCTGAAGT
131 CCCCAAAGCTCAGAAAACGGCATCGTTAGGCTGAAGT
50264091 CTTTTGAGGC
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
185 10 0.07
186 55 0.38
187 79 0.55
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (186 bp):
AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTGCGGCGGAAGTCTGTTTGCGGC
GCTTACCCAAAAACGCCGCTAAAGATTGAGAATTCGCGGCGATTGCATAAAATCGCCACTAAATC
CCCCAAAGCTCAGAAAACGGCATCGTTAGGCTGAAGTACGTTTGCGGCGCATCCCC
Found at i:50264761 original size:14 final size:14
Alignment explanation
Indices: 50264726--50264764 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
50264716 TGTAATTTTG
*
50264726 AAATTTAATTTTTCT
1 AAATTTAA-TTTTAT
*
50264741 AATTTTAATTTTAT
1 AAATTTAATTTTAT
50264755 AAATTTAATT
1 AAATTTAATT
50264765 CCTCTACTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
AAATTTAATTTTAT
Found at i:50264770 original size:29 final size:29
Alignment explanation
Indices: 50264713--50264770 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
50264703 TCTATGTACT
**
50264713 ATTTGTAATTTTGAAATTTAATTTTTCTA
1 ATTTGTAATTTTGAAATTTAATTCCTCTA
*
50264742 ATTT-TAATTTTATAAATTTAATTCCTCTA
1 ATTTGTAATTTT-GAAATTTAATTCCTCTA
50264771 CTTCTCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (29 bp):
ATTTGTAATTTTGAAATTTAATTCCTCTA
Found at i:50268344 original size:17 final size:17
Alignment explanation
Indices: 50268322--50268364 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
50268312 ATTATTTTAA
* *
50268322 AAAAATATTTTTGGAAT
1 AAAAATATTTTCGAAAT
*
50268339 AAAAATACTTTCGAAAT
1 AAAAATATTTTCGAAAT
50268356 AAAAATATT
1 AAAAATATT
50268365 ACTAAACAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
AAAAATATTTTCGAAAT
Found at i:50271133 original size:9 final size:9
Alignment explanation
Indices: 50271119--50271144 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50271109 GAAAGGGAAG
50271119 AACAAGAAC
1 AACAAGAAC
50271128 AACAAGAAC
1 AACAAGAAC
50271137 AACAAGAA
1 AACAAGAA
50271145 GAAGATGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.19, G:0.12, T:0.00
Consensus pattern (9 bp):
AACAAGAAC
Found at i:50276517 original size:12 final size:12
Alignment explanation
Indices: 50276500--50276528 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50276490 AGTAAATAAA
50276500 TAAATGAAATAT
1 TAAATGAAATAT
50276512 TAAATGAAATAT
1 TAAATGAAATAT
50276524 TAAAT
1 TAAAT
50276529 AAAACAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAAATGAAATAT
Found at i:50278257 original size:51 final size:49
Alignment explanation
Indices: 50278198--50278479 Score: 257
Period size: 46 Copynumber: 5.9 Consensus size: 49
50278188 CATGATTTGT
** *
50278198 AGCTTTAATCTGTTCCACTATAACGCCAGAGAAATAAGATTCGTTGCCTTC
1 AGCTTTAATCTGTT--ACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* *
50278249 AGCTTTAATC---TACTGCAACGCCAGGGAAATAAGACTCGCTGCCTTC
1 AGCTTTAATCTGTTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
*
50278295 AGCTTTAATCTG-T--TGCAACGCCAGAGAAATAAGACTT-GCTGCCTTT
1 AGCTTTAATCTGTTACTGCAACGCCAGAGAAATAAGA-TTCGCTGCCTTC
** * * * *
50278341 AGCTTTAGCCTG----TGCAACGCTAGGGAAATAAGATTTGCTGCCTTG
1 AGCTTTAATCTGTTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
* * * *
50278386 AGCTTTAATCTGTTCTAATGCAACGCTAGGGAAATAAGATTCGTTGCCTTC
1 AGCTTTAATCTG-T-TACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
50278437 AGCTTTAATCTGTTCCACTGCAACGCC-GAGGAAATAA-ATTCGC
1 AGCTTTAATCTGTT--ACTGCAACGCCAGA-GAAATAAGATTCGC
50278480 CATAATGACT
Statistics
Matches: 196, Mismatches: 22, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
44 2 0.01
45 37 0.19
46 78 0.40
47 1 0.01
48 2 0.01
49 1 0.01
50 7 0.04
51 68 0.35
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (49 bp):
AGCTTTAATCTGTTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTC
Found at i:50278390 original size:91 final size:92
Alignment explanation
Indices: 50278219--50278444 Score: 276
Period size: 91 Copynumber: 2.4 Consensus size: 92
50278209 GTTCCACTAT
* *
50278219 AACGCCAGAGAAATAAGATTCGTTGCCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGAC
1 AACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAACCTACTGCAACGCCAGGGAAATAAGAC
50278284 TCGCTGCCTTCAGCTTTAATCTGTTGC
66 TCGCTGCCTTCAGCTTTAATCTGTTGC
* * * *
50278311 AACGCCAGAGAAATAAGACTT-GCTGCCTTTAGCTTTAGCCT-GTGCAACGCTAGGGAAATAAGA
1 AACGCCAGAGAAATAAGA-TTCGCTGCCTTCAGCTTTAACCTACTGCAACGCCAGGGAAATAAGA
* * *
50278374 TTTGCTGCCTTGAGCTTTAATCTGTTCTAATGC
65 CTCGCTGCCTTCAGCTTTAATCTG---T--TGC
* * *
50278407 AACGCTAGGGAAATAAGATTCGTTGCCTTCAGCTTTAA
1 AACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAA
50278445 TCTGTTCCAC
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
91 41 0.36
92 34 0.30
93 2 0.02
94 1 0.01
95 2 0.02
96 33 0.29
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (92 bp):
AACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAACCTACTGCAACGCCAGGGAAATAAGAC
TCGCTGCCTTCAGCTTTAATCTGTTGC
Found at i:50279748 original size:11 final size:11
Alignment explanation
Indices: 50279734--50279775 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
50279724 GACCTCTCCT
*
50279734 TTTTCTTTTCC
1 TTTTCTTTTTC
50279745 TTTT-TTTTTC
1 TTTTCTTTTTC
*
50279755 TTCTCTTTTTC
1 TTTTCTTTTTC
*
50279766 TTTCCTTTTT
1 TTTTCTTTTT
50279776 TCATCATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:50279791 original size:27 final size:27
Alignment explanation
Indices: 50279734--50279792 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
50279724 GACCTCTCCT
** *
50279734 TTTTCTTTTCCTTTTTTTTTCTTCTCT
1 TTTTCTTTTCCTTTTTTCATCTTCTCA
*
50279761 TTTTC-TTTCCTTTTTTCATCATTTTCA
1 TTTTCTTTTCCTTTTTTCATC-TTCTCA
50279788 TTTTC
1 TTTTC
50279793 ATCTTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTCTTTTCCTTTTTTCATCTTCTCA
Found at i:50279837 original size:23 final size:21
Alignment explanation
Indices: 50279811--50279856 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
50279801 CTTTCTTTCT
50279811 TTTTTTTGAAAAATATTTTTTGA
1 TTTTTTTG--AAATATTTTTTGA
50279834 TTTTTTTGAAATATTTTTTGA
1 TTTTTTTGAAATATTTTTTGA
50279855 TT
1 TT
50279857 GGATCTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTTTTTGAAATATTTTTTGA
Found at i:50279865 original size:22 final size:21
Alignment explanation
Indices: 50279821--50279865 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50279811 TTTTTTTGAA
** *
50279821 AAATATTTTTTGATTTTTTTG
1 AAATATTTTTTGATTGATCTG
50279842 AAATATTTTTTGATTGGATCTG
1 AAATATTTTTTGATT-GATCTG
50279864 AA
1 AA
50279866 CTCATAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (21 bp):
AAATATTTTTTGATTGATCTG
Found at i:50283279 original size:41 final size:41
Alignment explanation
Indices: 50283221--50283387 Score: 253
Period size: 41 Copynumber: 4.0 Consensus size: 41
50283211 CTTAATTTAA
*
50283221 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
50283263 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
** *
50283304 CAGATCACCGGCACTTAGCCTGCTAGTTTTATAACTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * *
50283345 CCGATCACCGGCACTTAGCCTGTTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
50283386 CA
1 CA
50283388 AATTGCATAA
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 110 0.96
42 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:50286637 original size:16 final size:16
Alignment explanation
Indices: 50286612--50286645 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50286602 TTTTATGATG
*
50286612 AAATGCCATGCAGTCA
1 AAATGCCATGCAATCA
*
50286628 AAATGTCATGCAATCA
1 AAATGCCATGCAATCA
50286644 AA
1 AA
50286646 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:50288164 original size:12 final size:12
Alignment explanation
Indices: 50288125--50288157 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
50288115 AGTAAATAAA
50288125 TAAATAAAATAT
1 TAAATAAAATAT
*
50288137 TAAATGAAATAT
1 TAAATAAAATAT
50288149 TAAATAAAA
1 TAAATAAAA
50288158 CAGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:50288194 original size:3 final size:3
Alignment explanation
Indices: 50288188--50288220 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
50288178 GATGATGATG
50288188 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50288221 TTGTAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50295952 original size:24 final size:24
Alignment explanation
Indices: 50295925--50295999 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 24
50295915 ATGGAAAATT
50295925 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGGTATGGTGTTTCA
** ** *
50295949 GTGAATAA--AGCCATACTGAGTT--
1 GTGAA-AAGTAGGTATGGTG-TTTCA
50295971 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGGTATGGTGTTTCA
50295995 GTGAA
1 GTGAA
50296000 GAAAACCATA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 2 0.06
22 7 0.20
23 12 0.34
24 12 0.34
25 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.31
Consensus pattern (24 bp):
GTGAAAAGTAGGTATGGTGTTTCA
Found at i:50295975 original size:46 final size:46
Alignment explanation
Indices: 50295923--50296062 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
50295913 CCATGGAAAA
* * *
50295923 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAATAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTAAG
50295969 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTAAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTAAG
* * * * *
50296015 TTGTGAAAAGTGGGTATGGTATTTCAGTAAAGGAAACTATACTAAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTAAG
50296061 TT
1 TT
50296063 ATAGCATTGT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTAAG
Found at i:50302009 original size:58 final size:58
Alignment explanation
Indices: 50301919--50302036 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
50301909 CAGTGCTTAG
50301919 TTGAACCTTTCATGTATTGGATCTAATTATATGTGTTATCTAGACTTTTATCCAACGT
1 TTGAACCTTTCATGTATTGGATCTAATTATATGTGTTATCTAGACTTTTATCCAACGT
*
50301977 TTGAATCTTTCATGTATTGGATCTAATTATATGTGTTATCTAGACTTTTATCCAACGT
1 TTGAACCTTTCATGTATTGGATCTAATTATATGTGTTATCTAGACTTTTATCCAACGT
50302035 TT
1 TT
50302037 ATAATTTATC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (58 bp):
TTGAACCTTTCATGTATTGGATCTAATTATATGTGTTATCTAGACTTTTATCCAACGT
Found at i:50305124 original size:31 final size:32
Alignment explanation
Indices: 50305086--50305150 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
50305076 TTTAAAATCT
* * *
50305086 AAAAAATAGAAGAATT-AATTTTAAATTTTTA
1 AAAAAATACAAGAATTAAATTCTAAATTTATA
*
50305117 AAAAAATACAATAATTAAATTCTAAATTTATA
1 AAAAAATACAAGAATTAAATTCTAAATTTATA
50305149 AA
1 AA
50305151 GAGTACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAAAATACAAGAATTAAATTCTAAATTTATA
Found at i:50306588 original size:65 final size:65
Alignment explanation
Indices: 50306484--50306614 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
50306474 CCAGATTGAA
50306484 TTGATGTCATAAGTTAATTAAATGCCTCATGACTAGTTGACAAATCACTAAAAACCTCATTCTTT
1 TTGATGTCATAAGTTAATTAAATGCCTCATGACTAGTTGACAAATCACTAAAAACCTCATTCTTT
*
50306549 TTGATGTCATAAGTTAATTAAATGCCTCATGACTAGTTGACAAATCACTAAAAGCCTCATTCTTT
1 TTGATGTCATAAGTTAATTAAATGCCTCATGACTAGTTGACAAATCACTAAAAACCTCATTCTTT
50306614 T
1 T
50306615 ACCAAAAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (65 bp):
TTGATGTCATAAGTTAATTAAATGCCTCATGACTAGTTGACAAATCACTAAAAACCTCATTCTTT
Found at i:50306608 original size:30 final size:30
Alignment explanation
Indices: 50306502--50306608 Score: 81
Period size: 30 Copynumber: 3.4 Consensus size: 30
50306492 ATAAGTTAAT
*
50306502 TAAATGCCTCATGACTAGTTGACAAATCAC
1 TAAAAGCCTCATGACTAGTTGACAAATCAC
* * ** * *
50306532 TAAAAACCTCAT-TCTTTTTGATGTCATAAGTTAAT
1 TAAAAGCCTCATGACTAGTTGA---CA-AA--TCAC
*
50306567 TAAATGCCTCATGACTAGTTGACAAATCAC
1 TAAAAGCCTCATGACTAGTTGACAAATCAC
50306597 TAAAAGCCTCAT
1 TAAAAGCCTCAT
50306609 TCTTTTACCA
Statistics
Matches: 55, Mismatches: 15, Indels: 14
0.65 0.18 0.17
Matches are distributed among these distances:
29 6 0.11
30 23 0.42
32 4 0.07
33 4 0.07
35 12 0.22
36 6 0.11
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (30 bp):
TAAAAGCCTCATGACTAGTTGACAAATCAC
Found at i:50307753 original size:6 final size:6
Alignment explanation
Indices: 50307713--50307752 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
50307703 GCGCATGAAT
* *
50307713 ATAAAA ATAAAA ATAAAA ATAAAA ATATAA ATAATA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
50307753 TGATACAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:50308222 original size:22 final size:21
Alignment explanation
Indices: 50308197--50308244 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
50308187 TATAAATTAA
50308197 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-AAATCAT
*
50308219 ATCTTCTAAGATTACATATCAT
1 ATC-TCTAAGATTACAAATCAT
50308241 ATCT
1 ATCT
50308245 AAGATTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 12 0.50
23 11 0.46
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCAT
Found at i:50308230 original size:23 final size:22
Alignment explanation
Indices: 50308200--50308244 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
50308190 AAATTAAATC
50308200 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
*
50308223 TCTAAGATTACATATCATATCT
1 TCTAAGATTACAAATCATATCT
50308245 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:50308247 original size:19 final size:20
Alignment explanation
Indices: 50308200--50308257 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
50308190 AAATTAAATC
*
50308200 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
50308223 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
50308242 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
50308258 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:50312669 original size:18 final size:17
Alignment explanation
Indices: 50312646--50312682 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
50312636 AATTATTATT
50312646 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
50312662 AAATATATGATTTAATA
1 AAATATATGATTTAATA
50312679 AAAT
1 AAAT
50312683 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:50312680 original size:59 final size:60
Alignment explanation
Indices: 50312514--50312692 Score: 152
Period size: 59 Copynumber: 3.0 Consensus size: 60
50312504 ATATTTTAAC
* *
50312514 ATAATTATTATTAAATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAATAATCA
1 ATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TCATAATAATAA
* * * * * * * * *
50312575 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAAT-ATAAT-TTGAA
1 ATAATTATTAT-TAAATATATTATAATTAAAATATATGAT-TTAATAAAATCATAATAAT-AA
* *
50312634 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TCATAATAAT
50312693 TATTACTAAT
Statistics
Matches: 87, Mismatches: 22, Indels: 17
0.69 0.17 0.13
Matches are distributed among these distances:
58 2 0.02
59 34 0.39
60 16 0.18
61 32 0.37
62 3 0.03
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (60 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATCATAATAATAA
Found at i:50312767 original size:15 final size:15
Alignment explanation
Indices: 50312749--50312777 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50312739 TTATTATTAA
50312749 ATATAATTTCATAAT
1 ATATAATTTCATAAT
50312764 ATATAATTTCATAA
1 ATATAATTTCATAA
50312778 AATTCTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTTCATAAT
Found at i:50312780 original size:44 final size:43
Alignment explanation
Indices: 50312731--50312871 Score: 101
Period size: 44 Copynumber: 3.1 Consensus size: 43
50312721 TTGTATAATT
50312731 TAAAATAATTATTATTAAATATAATTTCAT-AATATATAATTTCA
1 TAAAATAATTA-TATTAAATATAATTT-ATAAATATATAATTTCA
** * * ** *
50312775 TAAAATTCTTGATAATAAATTTTCTTATATGAATTTATATAA-TT--
1 TAAAATAATT-ATATTAAATATAATT-TAT-AA-ATATATAATTTCA
50312819 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATT-ATATTAAATATAATTT-ATAA--ATATATAATTTCA
50312866 TAAAAT
1 TAAAAT
50312872 TCTTAATAAT
Statistics
Matches: 71, Mismatches: 16, Indels: 17
0.68 0.15 0.16
Matches are distributed among these distances:
43 3 0.04
44 48 0.68
45 4 0.06
46 3 0.04
47 13 0.18
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (43 bp):
TAAAATAATTATATTAAATATAATTTATAAATATATAATTTCA
Found at i:50312802 original size:88 final size:90
Alignment explanation
Indices: 50312690--50312902 Score: 340
Period size: 88 Copynumber: 2.4 Consensus size: 90
50312680 AATTCTTAAT
* * * *
50312690 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
*
50312755 TTTCAT-A-ATATATAATTTCATAA
66 TTTAATAAGATATATAATTTCATAA
*
50312778 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
50312843 TTTAATAATGATATATAATTTCATAA
66 TTTAATAA-GATATATAATTTCATAA
*
50312869 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
50312903 CTAAAATCAT
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
88 65 0.57
89 1 0.01
91 48 0.42
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (90 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAAGATATATAATTTCATAA
Found at i:50318614 original size:36 final size:36
Alignment explanation
Indices: 50318565--50318636 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
50318555 GTATTGAGTG
*
50318565 GGGCCACATAATAAAGGTATAATGGCTAATCCATTA
1 GGGCCACAGAATAAAGGTATAATGGCTAATCCATTA
*
50318601 GGGCCACAGAATAAAGGTGTAATGGCTAATCCATTA
1 GGGCCACAGAATAAAGGTATAATGGCTAATCCATTA
50318637 CACCCAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (36 bp):
GGGCCACAGAATAAAGGTATAATGGCTAATCCATTA
Found at i:50321661 original size:17 final size:19
Alignment explanation
Indices: 50321635--50321672 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
50321625 ATATATAAAT
*
50321635 TATTATAAA-TTA-TTTAA
1 TATTACAAATTTATTTTAA
50321652 TATTACAAATTTATTTTAA
1 TATTACAAATTTATTTTAA
50321671 TA
1 TA
50321673 ATAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTACAAATTTATTTTAA
Found at i:50321693 original size:22 final size:23
Alignment explanation
Indices: 50321668--50321711 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
50321658 AAATTTATTT
50321668 TAATAATAAATTTTAAA-AATAA
1 TAATAATAAATTTTAAATAATAA
**
50321690 TAATTTTAAATTTTAAATAATA
1 TAATAATAAATTTTAAATAATA
50321712 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATAAATTTTAAATAATAA
Found at i:50321696 original size:15 final size:16
Alignment explanation
Indices: 50321669--50321699 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
50321659 AATTTATTTT
50321669 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
50321685 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
50321700 TTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:50321709 original size:20 final size:21
Alignment explanation
Indices: 50321674--50321718 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
50321664 ATTTTAATAA
50321674 TAAATTTTAAAAATAATAATTT
1 TAAATTTT-AAAATAATAATTT
*
50321696 TAAATTTT-AAATAATATTTT
1 TAAATTTTAAAATAATAATTT
50321716 TAA
1 TAA
50321719 TATATTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATTTTAAAATAATAATTT
Found at i:50330736 original size:13 final size:13
Alignment explanation
Indices: 50330718--50330764 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
50330708 ATGTAAAAAT
50330718 AATTTAAAATATA
1 AATTTAAAATATA
* *
50330731 AATTTATTAATAAA
1 AATTTA-AAATATA
50330745 CAATTTAAAATATA
1 -AATTTAAAATATA
50330759 AATTTA
1 AATTTA
50330765 TTAACAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 12 0.43
14 10 0.36
15 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTAAAATATA
Found at i:50330918 original size:14 final size:14
Alignment explanation
Indices: 50330881--50330911 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
50330871 CCAGAAAAGT
50330881 AAATCATTTTTCAA
1 AAATCATTTTTCAA
50330895 AAATCATTTTTCAA
1 AAATCATTTTTCAA
50330909 AAA
1 AAA
50330912 ATATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATCATTTTTCAA
Found at i:50341641 original size:223 final size:222
Alignment explanation
Indices: 50341248--50341704 Score: 869
Period size: 223 Copynumber: 2.1 Consensus size: 222
50341238 TGAAGAAAGA
* *
50341248 TTTTCTGTAAATGATGAGAGAATGGTTTACCAAGCAGCACTGGAGGTATTTCTTGTTGAATCTGA
1 TTTTTTGTAAATGATGAGAGAATGGTTTACCAAGCACCACTGGAGGTATTTCTTGTTGAATCTGA
50341313 GAGCTTCCTTTTTCCTGCCATGATCAGACATTTGATGATCCACTGCACGTTATGGAAATTTCTTA
66 GAGCTTCCTTTTTCCTGCCATGATCAGACATTTGATGATCCACTGCACGTTATGGAAATTTCTTA
50341378 TATCACTCTTAAGTCTGTGAATTCTTGCATCTTACATATTGGGCTGGGGTGATATTATTTTGATA
131 TATCACTCTTAAGTCTGTGAATTCTTGCATCTTACATATTGGGCTGGGGTGATATTATTTTGATA
50341443 AAAAGGAGTTCTCATTATGTTTTTTTTT
196 AAAAGGAGTTCTCATTATG-TTTTTTTT
50341471 TTTTTTGTAAATGATGAGAGAATGGTTTACCAAGCACCACTGGAGGTATTTCTTGTTGAATCTGA
1 TTTTTTGTAAATGATGAGAGAATGGTTTACCAAGCACCACTGGAGGTATTTCTTGTTGAATCTGA
* *
50341536 GAGTTTCCTTTTTCCTGCCATGATCAGACATTTGATGATCCACTGCACGTTATGGAAATTTGTTA
66 GAGCTTCCTTTTTCCTGCCATGATCAGACATTTGATGATCCACTGCACGTTATGGAAATTTCTTA
50341601 TATCACTCTTAAGTCTGTGAATTCTTGCATCTTACATATTGGGCTGGGGTGATATTATTTTGATA
131 TATCACTCTTAAGTCTGTGAATTCTTGCATCTTACATATTGGGCTGGGGTGATATTATTTTGATA
50341666 AAAAGGAGTTCTCATTATGTTTTTTTT
196 AAAAGGAGTTCTCATTATGTTTTTTTT
50341693 TTTTTTGTAAAT
1 TTTTTTGTAAAT
50341705 TACAAAGCCT
Statistics
Matches: 230, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
222 20 0.09
223 210 0.91
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (222 bp):
TTTTTTGTAAATGATGAGAGAATGGTTTACCAAGCACCACTGGAGGTATTTCTTGTTGAATCTGA
GAGCTTCCTTTTTCCTGCCATGATCAGACATTTGATGATCCACTGCACGTTATGGAAATTTCTTA
TATCACTCTTAAGTCTGTGAATTCTTGCATCTTACATATTGGGCTGGGGTGATATTATTTTGATA
AAAAGGAGTTCTCATTATGTTTTTTTT
Found at i:50345606 original size:15 final size:15
Alignment explanation
Indices: 50345578--50345611 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
50345568 GGAAGTAGGG
*
50345578 CTGAGCAACAAAAAA
1 CTGAGAAACAAAAAA
*
50345593 CTGAGAAACCAAAAA
1 CTGAGAAACAAAAAA
50345608 CTGA
1 CTGA
50345612 CCTGATCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.21, G:0.15, T:0.09
Consensus pattern (15 bp):
CTGAGAAACAAAAAA
Found at i:50352829 original size:16 final size:16
Alignment explanation
Indices: 50352808--50352854 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
50352798 TTTTGGGGGG
50352808 GGGGATGTATTTCAAA
1 GGGGATGTATTTCAAA
* *
50352824 GGGGA--TATTTTAAGG
1 GGGGATGTATTTCAA-A
50352839 GGGGATGTATTTCAAA
1 GGGGATGTATTTCAAA
50352855 AGGGTTAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 5 0.21
17 7 0.29
ACGTcount: A:0.30, C:0.04, G:0.34, T:0.32
Consensus pattern (16 bp):
GGGGATGTATTTCAAA
Found at i:50359036 original size:17 final size:18
Alignment explanation
Indices: 50359016--50359089 Score: 53
Period size: 19 Copynumber: 3.9 Consensus size: 18
50359006 ATAATAAATT
50359016 AATATATAT-AAATAAAA
1 AATATATATAAAATAAAA
* *
50359033 AATAT-TATTGACAATAAAT
1 AATATATA-T-AAAATAAAA
*
50359052 AATAATATATAAAATTTAAA
1 AAT-ATATATAAAA-TAAAA
*
50359072 AATATATAAAGAAATAAA
1 AATATATATA-AAATAAA
50359090 TATTTTCTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
16 2 0.05
17 6 0.14
19 21 0.49
20 12 0.28
21 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
AATATATATAAAATAAAA
Found at i:50359088 original size:39 final size:38
Alignment explanation
Indices: 50359008--50359092 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 38
50358998 CAAAAAACAT
**
50359008 AATAAAT-TAATATATATAAATAAAAAATATTATTGAC
1 AATAAATATAATATATATAAATAAAAAATATTAAAGAC
*
50359045 AATAAATAATAATATATA-AAATTTAAAAATATATAAAGA-
1 AATAAAT-ATAATATATATAAA-TAAAAAATAT-TAAAGAC
50359084 AATAAATAT
1 AATAAATAT
50359093 TTTCTTAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
37 7 0.17
38 5 0.12
39 25 0.61
40 4 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (38 bp):
AATAAATATAATATATATAAATAAAAAATATTAAAGAC
Found at i:50371066 original size:5 final size:5
Alignment explanation
Indices: 50371056--50371126 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
50371046 AAAAAAATAT
* *
50371056 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TCATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA T-ATTA
50371102 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
50371127 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 32 0.58
6 10 0.18
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:50371108 original size:19 final size:19
Alignment explanation
Indices: 50371084--50371126 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
50371074 ATTATGTTTT
50371084 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
50371103 TATATTATATTATATTATA
1 TATATTATATTATATTATA
50371122 TATAT
1 TATAT
50371127 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:50371157 original size:16 final size:16
Alignment explanation
Indices: 50371136--50371168 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50371126 TACATAAAAC
*
50371136 AAAAGAAAGAATAGAA
1 AAAAGAAAGAAAAGAA
50371152 AAAAGAAAGAAAAGAA
1 AAAAGAAAGAAAAGAA
50371168 A
1 A
50371169 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAGAAAGAAAAGAA
Found at i:50371235 original size:4 final size:4
Alignment explanation
Indices: 50371228--50371259 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
50371218 GAGAAGGAAG
50371228 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
50371260 AAGAAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:50371803 original size:29 final size:30
Alignment explanation
Indices: 50371744--50371801 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
50371734 TCCGAGCCTT
*
50371744 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
50371774 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
50371802 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:50372229 original size:44 final size:45
Alignment explanation
Indices: 50372134--50372248 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
50372124 ACATGACAGA
* *
50372134 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGACTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAG
* * *
50372180 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
* **
50372224 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
50372249 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
Found at i:50375263 original size:23 final size:21
Alignment explanation
Indices: 50375211--50375306 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
50375201 CCTGATCAGT
** * *
50375211 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
* *
50375232 AAACGACACACGAGATGCCTG
1 ATACGACACACGAGGTGCCTG
50375253 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
50375274 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
50375295 AAATACGACACA
1 --ATACGACACA
50375307 TAAAGTGCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 55 0.85
23 10 0.15
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:50375271 original size:42 final size:43
Alignment explanation
Indices: 50375211--50375316 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
50375201 CCTGATCAGT
*
50375211 ATACGACACATAAAGTGCCTAAAACGACACACGAGATGCCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGATGCCTGA
* * * * *
50375253 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGATGCCTG-A
*
50375297 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
50375317 GATCGATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 36 0.68
44 17 0.32
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGATGCCTGA
Found at i:50375314 original size:23 final size:22
Alignment explanation
Indices: 50375211--50375318 Score: 98
Period size: 21 Copynumber: 5.0 Consensus size: 22
50375201 CCTGATCAGT
*
50375211 ATACGACACATAAAGTGCCT-A
1 ATACGACACACAAAGTGCCTGA
* *
50375232 AAACGACACAC-GAGATGCCTG-
1 ATACGACACACAAAG-TGCCTGA
* *
50375253 ATACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTGA
* *
50375274 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTG-A
*
50375297 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
50375319 TCGATAAAGC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.03
21 51 0.70
22 2 0.03
23 18 0.25
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:50375717 original size:15 final size:15
Alignment explanation
Indices: 50375691--50375747 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
50375681 CATATATATT
50375691 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
50375705 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
50375720 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
50375735 ATATAAATTCAAT
1 ATATAATTTCAAT
50375748 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:50380585 original size:674 final size:674
Alignment explanation
Indices: 50379237--50380584 Score: 2437
Period size: 674 Copynumber: 2.0 Consensus size: 674
50379227 TTCTTACAAT
50379237 TTTCTTTGCTTGTAAATGGCTTATGTCACTCGATGCTGAAATAGGTTACTTTTATAGATTAGGGG
1 TTTCTTTGCTTGTAAATGGCTTATGTCACTCGATGCTGAAATAGGTTACTTTTATAGATTAGGGG
*
50379302 GTGACTTGCAGTTCGTTTTGAAAATTTTCTAGGCCTAGTGAGGGGTTGAAATTTGTAGAGAGAAA
66 GTGACTTGCAGTTCGTTTTGAAAATTTTCTAGGCCTAGTGAAGGGTTGAAATTTGTAGAGAGAAA
* *
50379367 ACACTCCAAATAGGACGCACTGTCAGCAAAAGCACTGAAAGCACATCCAGCTGGAAGTATTTTCA
131 ACACTCCAAATAGGACGCACTGCCAACAAAAGCACTGAAAGCACATCCAGCTGGAAGTATTTTCA
*
50379432 GTGCCATGTCAGCTAAAAGCGCTTAAAGTTGGACGCGTTTCCAGTACTTTTGCATGCTTGGAGCA
196 GTGCCATGTCAGCTAAAAGCGCTTAAAGTTAGACGCGTTTCCAGTACTTTTGCATGCTTGGAGCA
50379497 TTTTTTCTCTACAAGTTTCAACCCCAACCTTTTTCCAAGAAACCCATCATATACCCCGGGATATA
261 TTTTTTCTCTACAAGTTTCAACCCCAACCTTTTTCCAAGAAACCCATCATATACCCCGGGATATA
*
50379562 TTTTCTGAACTCTTCTTGCCGAAAATAATGTACCAGGATAAATAATTTATTGAAAAATTGAATCA
326 TTTTCTGAACTCTTCTTGCCGAAAATAATGTACCAGGATAAATAATTTATTGAAAAATCGAATCA
* *
50379627 AACTAAGATTAAAAATGCGGAAAAAATTAATAACTAATATTTCATCCTAGTCGAGTGCTTCGAGT
391 AACTAAGATTAAAAATGCGAAAAAAATTAATAACTAATATTTCATCCTAGCCGAGTGCTTCGAGT
* *
50379692 TTCGATTATGAATTGAATTACATTTTGCAATTCAAATATATGATTGGTGTAAATATGATGTTTTT
456 TTCGATTATGAATTAAATTACATTTTGCAATTCAAATATATGATTGATGTAAATATGATGTTTTT
50379757 AAATTTTGAATTCAATAATATTATTATTTAACCTTTCAAAAAATTATAAAAATAAATAATATATA
521 AAATTTTGAATTCAATAATATTATTATTTAACCTTTCAAAAAATTATAAAAATAAATAATATATA
* * *
50379822 ATAAACTTTAAAATTTTAAACCAAAAATAACAAAACCTTAAATCTAAAATATCCTATTTTATAAA
586 ATAAACTTTAAAATTTTAAACCAAAAATAACAAAACCCTAAATCCAAAATATCCTACTTTATAAA
*
50379887 CCATAAATCATAACCCTAAAAAAA
651 CCATAAACCATAACCCTAAAAAAA
50379911 TTTCTTTGCTTGTAAATGGCTTATGTCACTCGATGCTGAAATAGGTTACTTTTATAGATTAGGGG
1 TTTCTTTGCTTGTAAATGGCTTATGTCACTCGATGCTGAAATAGGTTACTTTTATAGATTAGGGG
50379976 GTGACTTGCAGTTCGTTTTGAAAATTTTCCT-GGCCTAGTGAAGGGTTGAAATTTGTAGAGAGAA
66 GTGACTTGCAGTTCGTTTTGAAAATTTT-CTAGGCCTAGTGAAGGGTTGAAATTTGTAGAGAGAA
* *
50380040 AACATTCCAAATAGGACGCACTGCCAACAAAAGCACTGAAAGCACATCCAGCTGGAAGTATTTTT
130 AACACTCCAAATAGGACGCACTGCCAACAAAAGCACTGAAAGCACATCCAGCTGGAAGTATTTTC
* * *
50380105 AGTGCCATGTCAGCTAAAAGCGCTTACAGTTAGACGTGTTTCCAGTGCTTTTGCATGCTTGGAGC
195 AGTGCCATGTCAGCTAAAAGCGCTTAAAGTTAGACGCGTTTCCAGTACTTTTGCATGCTTGGAGC
* *
50380170 ATTTTTTCTCTACAAGTTTCAACCCCAACCTTTTTCCAAGAAATCCATCATATATCCCGGGATAT
260 ATTTTTTCTCTACAAGTTTCAACCCCAACCTTTTTCCAAGAAACCCATCATATACCCCGGGATAT
* * *
50380235 ATTTTCTGAACTCTTCTTGTCGATAATAATGTACTAGGATAAATAATTTATTGAAAAATCGAATC
325 ATTTTCTGAACTCTTCTTGCCGAAAATAATGTACCAGGATAAATAATTTATTGAAAAATCGAATC
50380300 AAACTAAGATTAAAAATGCAGAAAAAAATTAATAACTAATATTTCATCCTAGCCGAGTGCTTCGA
390 AAACTAAGATTAAAAATGC-GAAAAAAATTAATAACTAATATTTCATCCTAGCCGAGTGCTTCGA
*
50380365 GTTTCGATTATGAATTAAATTGCATTTTGCAATTCAAATATATGATTGATGTAAATATGATGTTT
454 GTTTCGATTATGAATTAAATTACATTTTGCAATTCAAATATATGATTGATGTAAATATGATGTTT
50380430 TTAAATTTTGAATTCAATAATATTATTATTTAACCTTTCAAAAAATTATAAAAATAAATAATATA
519 TTAAATTTTGAATTCAATAATATTATTATTTAACCTTTCAAAAAATTATAAAAATAAATAATATA
*
50380495 TAATAAACTTTAAAATTTTAAACCAAAAATAACAAAACCCTGAATCCAAAATATCCTACTTTATA
584 TAATAAACTTTAAAATTTTAAACCAAAAATAACAAAACCCTAAATCCAAAATATCCTACTTTATA
*
50380560 AACCATAAACCATAACTCTAAAAAA
649 AACCATAAACCATAACCCTAAAAAA
50380585 TAAAACTCAA
Statistics
Matches: 646, Mismatches: 26, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
674 390 0.60
675 256 0.40
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (674 bp):
TTTCTTTGCTTGTAAATGGCTTATGTCACTCGATGCTGAAATAGGTTACTTTTATAGATTAGGGG
GTGACTTGCAGTTCGTTTTGAAAATTTTCTAGGCCTAGTGAAGGGTTGAAATTTGTAGAGAGAAA
ACACTCCAAATAGGACGCACTGCCAACAAAAGCACTGAAAGCACATCCAGCTGGAAGTATTTTCA
GTGCCATGTCAGCTAAAAGCGCTTAAAGTTAGACGCGTTTCCAGTACTTTTGCATGCTTGGAGCA
TTTTTTCTCTACAAGTTTCAACCCCAACCTTTTTCCAAGAAACCCATCATATACCCCGGGATATA
TTTTCTGAACTCTTCTTGCCGAAAATAATGTACCAGGATAAATAATTTATTGAAAAATCGAATCA
AACTAAGATTAAAAATGCGAAAAAAATTAATAACTAATATTTCATCCTAGCCGAGTGCTTCGAGT
TTCGATTATGAATTAAATTACATTTTGCAATTCAAATATATGATTGATGTAAATATGATGTTTTT
AAATTTTGAATTCAATAATATTATTATTTAACCTTTCAAAAAATTATAAAAATAAATAATATATA
ATAAACTTTAAAATTTTAAACCAAAAATAACAAAACCCTAAATCCAAAATATCCTACTTTATAAA
CCATAAACCATAACCCTAAAAAAA
Found at i:50381101 original size:15 final size:15
Alignment explanation
Indices: 50381081--50381126 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
50381071 AGTGTATATG
50381081 TTTAGTTTAATTCGA
1 TTTAGTTTAATTCGA
* * *
50381096 TTTAGTGT-A-TAGG
1 TTTAGTTTAATTCGA
50381109 TTTAGTTTAATTCGA
1 TTTAGTTTAATTCGA
50381124 TTT
1 TTT
50381127 TAAATTTAGT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (15 bp):
TTTAGTTTAATTCGA
Found at i:50381103 original size:28 final size:28
Alignment explanation
Indices: 50381071--50381126 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
50381061 ATATTGAAAG
*
50381071 AGTGTATATGTTTAGTTTAATTCGATTT
1 AGTGTATAGGTTTAGTTTAATTCGATTT
50381099 AGTGTATAGGTTTAGTTTAATTCGATTT
1 AGTGTATAGGTTTAGTTTAATTCGATTT
50381127 TAAATTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.52
Consensus pattern (28 bp):
AGTGTATAGGTTTAGTTTAATTCGATTT
Found at i:50382662 original size:12 final size:12
Alignment explanation
Indices: 50382647--50382794 Score: 66
Period size: 12 Copynumber: 11.8 Consensus size: 12
50382637 TTCAAATTTA
50382647 ATTTCGATTTTG
1 ATTTCGATTTTG
* *
50382659 ATTTTGATTTTT
1 ATTTCGATTTTG
*
50382671 ATTTCAATTTTG
1 ATTTCGATTTTG
* *
50382683 ATTACAATTTTG
1 ATTTCGATTTTG
** *
50382695 AAACACTCACTGATTCTG
1 ----A-TTTC-GATTTTG
*
50382713 ATTTAGATTTTG
1 ATTTCGATTTTG
*
50382725 ATTTCAATTTTG
1 ATTTCGATTTTG
* *
50382737 ATTTCGATCTTA
1 ATTTCGATTTTG
* **
50382749 ATTTAGGA-TGAG
1 ATTT-CGATTTTG
50382761 AATTT-GATTTTG
1 -ATTTCGATTTTG
*
50382773 ATTTCGATTTAG
1 ATTTCGATTTTG
50382785 ATTTCGATTT
1 ATTTCGATTT
50382795 AGGGTTATTT
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
11 6 0.06
12 77 0.77
13 7 0.07
14 1 0.01
16 1 0.01
17 3 0.03
18 5 0.05
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.52
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:50382734 original size:18 final size:18
Alignment explanation
Indices: 50382713--50382754 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
50382703 ACTGATTCTG
*
50382713 ATTTAGATTTTGAT-TTCA
1 ATTTAGATTTCGATCTT-A
*
50382731 ATTTTGATTTCGATCTTA
1 ATTTAGATTTCGATCTTA
50382749 ATTTAG
1 ATTTAG
50382755 GATGAGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (18 bp):
ATTTAGATTTCGATCTTA
Found at i:50383000 original size:34 final size:34
Alignment explanation
Indices: 50382962--50383066 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
50382952 ATTGTATGAA
50382962 TGCCATTATCAAACTGATCTTTATTGTGTATATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
* * * *
50382996 TGCCATTGT----TTGTATCTATCA-T-TGTATGA-A
1 TGCCATTATCAAACTG-ATCT-TTATTGTGTAT-ATC
*
50383026 TGCCATTATCAAACTGATCTTTATTGTATATATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
50383060 TGCCATT
1 TGCCATT
50383067 GTTTGTAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
30 15 0.29
31 6 0.12
32 4 0.08
33 6 0.12
34 21 0.40
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (34 bp):
TGCCATTATCAAACTGATCTTTATTGTGTATATC
Found at i:50383054 original size:32 final size:32
Alignment explanation
Indices: 50382952--50383054 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 32
50382942 TGTATCTGCC
50382952 ATTGTATGAATGCCATTATCAAACTGATCTTT
1 ATTGTATGAATGCCATTATCAAACTGATCTTT
* * * *
50382984 ATTGTGTAT-ATCTGCCATTGT----TTGTATCTATC
1 A-T-TGTATGA-ATGCCATTATCAAACTG-ATCT-TT
50383016 ATTGTATGAATGCCATTATCAAACTGATCTTT
1 ATTGTATGAATGCCATTATCAAACTGATCTTT
50383048 ATTGTAT
1 ATTGTAT
50383055 ATATCTGCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
30 15 0.28
31 6 0.11
32 11 0.21
33 6 0.11
34 15 0.28
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.45
Consensus pattern (32 bp):
ATTGTATGAATGCCATTATCAAACTGATCTTT
Found at i:50383262 original size:62 final size:64
Alignment explanation
Indices: 50382936--50383327 Score: 497
Period size: 64 Copynumber: 6.2 Consensus size: 64
50382926 TTTGATGTTT
* *
50382936 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
** * * *
50383000 ATTGTTTGTATCTATCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTATATATCTGCC
1 ATTGTTTGTATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
* *
50383064 ATTGTTTGTAAT-TGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGT-ATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
* * * ***
50383128 ATTGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTAATGTTTATTGTGTATATCTATA
1 ATTGTTTGTATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
* ** * *
50383192 ATTGTTTGTATTTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
* * ** * * *
50383254 ATTATTTGTATCTGCAATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
50383316 ATTGTTTGTATC
1 ATTGTTTGTATC
50383328 CAAGCTCCTA
Statistics
Matches: 297, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
62 98 0.33
63 4 0.01
64 193 0.65
65 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCC
Found at i:50383635 original size:15 final size:15
Alignment explanation
Indices: 50383615--50383656 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
50383605 AGAAAACGTG
50383615 TCTGGTAGTGATGTA
1 TCTGGTAGTGATGTA
* *
50383630 TCTGGTAGTGAAGTG
1 TCTGGTAGTGATGTA
50383645 TCTGGTAGTGAT
1 TCTGGTAGTGAT
50383657 AGTGATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.19, C:0.07, G:0.36, T:0.38
Consensus pattern (15 bp):
TCTGGTAGTGATGTA
Found at i:50385392 original size:43 final size:43
Alignment explanation
Indices: 50385301--50385478 Score: 256
Period size: 43 Copynumber: 4.2 Consensus size: 43
50385291 TTGCTGATCA
* *
50385301 CATGCAGTGATTGTTGGAAAGTTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGTTGTTGACTATTTTTTAATATG
* *
50385343 TATGCAATGATTATTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGTTGTTGACTATTTTTTAATATG
* *
50385386 CATGCAATAATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGTTGTTGACTATTTTTTAATATG
* *
50385429 CATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGTTGTTGACTATTTTTTAATATG
50385469 CATGCAATGA
1 CATGCAATGA
50385479 GTTTTTTTTT
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 30 0.24
41 1 0.01
42 26 0.21
43 67 0.54
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (43 bp):
CATGCAATGATTGTTGGAAAGTTGTTGACTATTTTTTAATATG
Found at i:50385476 original size:83 final size:84
Alignment explanation
Indices: 50385301--50385476 Score: 248
Period size: 83 Copynumber: 2.1 Consensus size: 84
50385291 TTGCTGATCA
* * * *
50385301 CATGCAGTGATTGTTGGAAAGTTATTGACTTTTTTTAATATGTATGCAATGATTATTGGAAAGTT
1 CATGCAATAATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGG-AAGTT
50385366 GTTGACTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
* * *
50385386 CATGCAATAATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAATGATTGTTGG-TG-T
1 CATGCAATAATTGTTGGAAAGCTATTGACT-TTTTTTAATATGCATGCAATGATTATTGGAAGTT
*
50385449 GTTGCCTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
50385469 CATGCAAT
1 CATGCAAT
50385477 GAGTTTTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
83 28 0.34
84 1 0.01
85 26 0.32
86 27 0.33
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (84 bp):
CATGCAATAATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGGAAGTTG
TTGACTATTTTTTAATATG
Found at i:50385514 original size:28 final size:28
Alignment explanation
Indices: 50385457--50385517 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
50385447 GTGTTGCCTA
* **
50385457 TTTTT-TAATATGCATGCAATGAGTTTT
1 TTTTTATAATATGCATGCAATGACTGCT
* *
50385484 TTTTTATAATATGCATGTAGTGACTGCT
1 TTTTTATAATATGCATGCAATGACTGCT
50385512 TTTTTA
1 TTTTTA
50385518 GGGGGTGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (28 bp):
TTTTTATAATATGCATGCAATGACTGCT
Found at i:50386221 original size:21 final size:21
Alignment explanation
Indices: 50386195--50386248 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
50386185 CTCAACAAGG
50386195 TGCCCCAACTCA-ATTACCTAC
1 TGCCCCAACTCAGA-TACCTAC
*
50386216 TGCCCCAACTCAGATACCTAT
1 TGCCCCAACTCAGATACCTAC
50386237 TGCCCCAACTCA
1 TGCCCCAACTCA
50386249 TCAAGAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.28, C:0.43, G:0.07, T:0.22
Consensus pattern (21 bp):
TGCCCCAACTCAGATACCTAC
Found at i:50386563 original size:26 final size:26
Alignment explanation
Indices: 50386503--50386555 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50386493 CTGAATTTTT
*
50386503 TTGTAAATTTCCCTACAATTCCCATC
1 TTGTAAATTTCCCTACAATTCACATC
50386529 TTGTAAATTTCCCTACAATTCACATC
1 TTGTAAATTTCCCTACAATTCACATC
50386555 T
1 T
50386556 GTTCAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (26 bp):
TTGTAAATTTCCCTACAATTCACATC
Found at i:50386769 original size:59 final size:59
Alignment explanation
Indices: 50386671--50386809 Score: 224
Period size: 59 Copynumber: 2.4 Consensus size: 59
50386661 TATTTGTTAT
* * * *
50386671 CCAACTGTTAAGCAATTTATATACCAACTGTTATTTTTTCTAACTAGCAGCCATGTATA
1 CCAAGTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
* *
50386730 CCAAGTGTTAAGCAATTTGTATATCAATTGTTATCTTTTCTAACCAGCAGCCATGTATA
1 CCAAGTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
50386789 CCAAGTGTTAAGCAATTTGTA
1 CCAAGTGTTAAGCAATTTGTA
50386810 AACAACAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (59 bp):
CCAAGTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACCAGCAGCCATGTATA
Found at i:50397109 original size:21 final size:21
Alignment explanation
Indices: 50397070--50397110 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50397060 ATTAAGGAAA
**
50397070 AAAAATTTTCTTTCCTCTTTG
1 AAAAATTTTCCCTCCTCTTTG
*
50397091 AAAAATTTTCCCTCTTCTTT
1 AAAAATTTTCCCTCCTCTTT
50397111 TCTTTCTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.51
Consensus pattern (21 bp):
AAAAATTTTCCCTCCTCTTTG
Found at i:50411303 original size:46 final size:48
Alignment explanation
Indices: 50411233--50411326 Score: 138
Period size: 46 Copynumber: 2.0 Consensus size: 48
50411223 GCATCGGAGA
* * *
50411233 GATGTGATTATGTGCTTCTGTATAAGACCAT-TCTAGGATATGGCATC
1 GATGTGATTATATGCTACTGTATAAGACCATATCTAGGATATGACATC
*
50411280 GATGTGA-TATATGCTACTGTATAAGACCATATCTGGGATATGACATC
1 GATGTGATTATATGCTACTGTATAAGACCATATCTAGGATATGACATC
50411327 AGTGAGATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 21 0.50
47 21 0.50
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (48 bp):
GATGTGATTATATGCTACTGTATAAGACCATATCTAGGATATGACATC
Found at i:50411356 original size:47 final size:49
Alignment explanation
Indices: 50411305--50411438 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 49
50411295 ACTGTATAAG
*
50411305 ACCATA-TCTGGGATATGACATC-A-GTGAGATATGTGATTACGTGTAAA
1 ACCATAGT-TGGGATATGACATCAATATGAGATATGTGATTACGTGTAAA
* ** * *
50411352 ACCATAGTTGGGCTATGGTATCAATATGTGATATGTGATTACGTGTAAG
1 ACCATAGTTGGGATATGACATCAATATGAGATATGTGATTACGTGTAAA
* * * *
50411401 ACCATAGTTGGGCTATGGCATCGATATGTGAATATGTG
1 ACCATAGTTGGGATATGACATCAATATGAG-ATATGTG
50411439 TGAGACTATA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 17 0.23
48 2 0.03
49 49 0.65
50 7 0.09
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (49 bp):
ACCATAGTTGGGATATGACATCAATATGAGATATGTGATTACGTGTAAA
Found at i:50411380 original size:42 final size:42
Alignment explanation
Indices: 50411333--50411494 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 42
50411323 CATCAGTGAG
* *
50411333 ATATGTGATTACGTGTAAAACCATAGTTGGGCTATGGTATCA
1 ATATGTGAATACGTGTAAGACCATAGTTGGGCTATGGTATCA
* *
50411375 ATATGTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
1 ATATGTG--A----A-TACGTGTAAGACCATAGTTGGGCTATGGTATCA
* * * **
50411424 ATATGTGAATATGTGTGAGACTATAACTGGGCTATGGTATCA
1 ATATGTGAATACGTGTAAGACCATAGTTGGGCTATGGTATCA
* * *
50411466 TTATGTGAAGATGTGTAAGACCATAGTTG
1 ATATGTGAATACGTGTAAGACCATAGTTG
50411495 AACTATGGCA
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 56 0.58
43 1 0.01
44 1 0.01
47 1 0.01
49 37 0.39
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (42 bp):
ATATGTGAATACGTGTAAGACCATAGTTGGGCTATGGTATCA
Found at i:50411387 original size:49 final size:49
Alignment explanation
Indices: 50411332--50411438 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 49
50411322 ACATCAGTGA
*
50411332 GATATGTGATTACGTGTAAAACCATAGTTGGGCTATGGTATCAATATGT
1 GATATGTGATTACGTGTAAAACCATAGTTGGGCTATGGCATCAATATGT
* *
50411381 GATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATGT
1 GATATGTGATTACGTGTAAAACCATAGTTGGGCTATGGCATCAATATGT
50411430 GAATATGTG
1 G-ATATGTG
50411439 TGAGACTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 47 0.87
50 7 0.13
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (49 bp):
GATATGTGATTACGTGTAAAACCATAGTTGGGCTATGGCATCAATATGT
Found at i:50411501 original size:42 final size:42
Alignment explanation
Indices: 50411394--50411506 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
50411384 ATGTGATTAC
*
50411394 GTGTAAGACCATAGTTGGGCTATGGCATCGATATGTGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATATGTGAAGAT
* * ** *
50411436 GTGTGAGACTATAACTGGGCTATGGTATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATGTGAAGAT
**
50411478 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGTTGGGCTATGGCATC
50411507 TAGAAAACGA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATATGTGAAGAT
Found at i:50413742 original size:46 final size:47
Alignment explanation
Indices: 50413692--50413817 Score: 177
Period size: 46 Copynumber: 2.7 Consensus size: 47
50413682 TGCCATAGTG
* * * * *
50413692 TCTTTCAACTATGATCTTACTCATTTTC-TGTCATGTTGCCATGGCA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGCA
*
50413738 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGCA
50413784 TCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAG
50413818 AGAGCACACT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 4 0.05
46 69 0.95
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.40
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGCA
Found at i:50415976 original size:14 final size:15
Alignment explanation
Indices: 50415950--50415978 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50415940 CTTTTATACT
50415950 AAATAATTAATAAAA
1 AAATAATTAATAAAA
50415965 AAATAA-TAATAAAA
1 AAATAATTAATAAAA
50415979 TATCTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAATTAATAAAA
Found at i:50415993 original size:18 final size:20
Alignment explanation
Indices: 50415978--50416014 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50415968 TAATAATAAA
*
50415978 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
50415998 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
50416015 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:50426632 original size:23 final size:23
Alignment explanation
Indices: 50426604--50426650 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50426594 AAATTTCTAG
50426604 TAATAATCTTCTAAGGAACCAAA
1 TAATAATCTTCTAAGGAACCAAA
50426627 TAATAATCTTCTAAGGAACCAAA
1 TAATAATCTTCTAAGGAACCAAA
50426650 T
1 T
50426651 CTCTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (23 bp):
TAATAATCTTCTAAGGAACCAAA
Found at i:50428329 original size:16 final size:16
Alignment explanation
Indices: 50428296--50428329 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50428286 GAACCTTGTT
* *
50428296 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50428312 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50428328 AA
1 AA
50428330 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:50431157 original size:21 final size:21
Alignment explanation
Indices: 50431131--50431171 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50431121 AGACGAGCAA
* *
50431131 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
50431152 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
50431172 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:50433074 original size:16 final size:16
Alignment explanation
Indices: 50433041--50433074 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50433031 GGAGATTGTT
* *
50433041 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50433057 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50433073 AA
1 AA
50433075 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Done.