Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 193 of 259
Found at i:61912843 original size:40 final size:40
Alignment explanation
Indices: 61912799--61913037 Score: 406
Period size: 40 Copynumber: 6.0 Consensus size: 40
61912789 AAATGCACAT
* * * *
61912799 CACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
61912839 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
61912879 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
61912919 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
61912959 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
61912999 CACCAGCACGAATGCTCTTCGGGACTCAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
61913038 TAACTCTCAA
Statistics
Matches: 189, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 189 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:61914365 original size:37 final size:37
Alignment explanation
Indices: 61914312--61914414 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
61914302 CGAATAGTCC
*
61914312 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
61914349 CCACACGTAGTCATCGGGTCTTACCCTGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
61914386 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
61914415 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:61914613 original size:48 final size:48
Alignment explanation
Indices: 61914555--61914693 Score: 260
Period size: 48 Copynumber: 2.9 Consensus size: 48
61914545 ATATACACAC
*
61914555 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
61914603 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
61914651 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
61914694 CATATATATT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:61920422 original size:37 final size:37
Alignment explanation
Indices: 61920372--61920455 Score: 168
Period size: 37 Copynumber: 2.3 Consensus size: 37
61920362 CGGGTCACCT
61920372 CAAAACGACGCTGTTTTGGGCATATTAAGCTATGCCC
1 CAAAACGACGCTGTTTTGGGCATATTAAGCTATGCCC
61920409 CAAAACGACGCTGTTTTGGGCATATTAAGCTATGCCC
1 CAAAACGACGCTGTTTTGGGCATATTAAGCTATGCCC
61920446 CAAAACGACG
1 CAAAACGACG
61920456 TCATTTAGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (37 bp):
CAAAACGACGCTGTTTTGGGCATATTAAGCTATGCCC
Found at i:61925086 original size:19 final size:19
Alignment explanation
Indices: 61925062--61925123 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
61925052 AATCTTTAAG
61925062 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
61925081 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
61925100 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
61925121 GAT
1 GAT
61925124 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 31 0.79
21 8 0.21
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:61930349 original size:20 final size:20
Alignment explanation
Indices: 61930302--61930349 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
61930292 AAAAAAAGGG
* *
61930302 GAAAAAAGAAAAGAAAAAGA
1 GAAAAAATAAAAGAAAAAAA
61930322 GAAAAAATAAAA-ATAAAAAA
1 GAAAAAATAAAAGA-AAAAAA
61930342 GAAAAAAT
1 GAAAAAAT
61930350 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (20 bp):
GAAAAAATAAAAGAAAAAAA
Found at i:61931408 original size:44 final size:44
Alignment explanation
Indices: 61931351--61932007 Score: 306
Period size: 44 Copynumber: 14.9 Consensus size: 44
61931341 GATCCAAGAT
* * *
61931351 GATTTGGCATCTCTTTATTAGCAGAGAGTAGATTGAAGACAACA
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
** * ** *
61931395 GATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGACT
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
*
61931439 GATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-AGCAGAGAGCAGATCGAAGACA-A-CA
* * ** * * *
61931486 GATTTGGC-TTTCATGTGTTTACGTTGA-AGCAAATCTAAG---A-T
1 GATTTGGCATCTC-TGT-ATTA-GCAGAGAGCAGATCGAAGACAACA
* * *
61931527 GATTTGGCATCTCTGTATTAGCAGAGAGAAGATTGAAGATAACA
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
* * * * **
61931571 GAATTGGCATCTCTGTATTGGCAGAAAGCAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
* *
61931615 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTA
1 GATTTGGCATCTCTGTATT-AGCAGAGAGCAGATCGAAGACA-A-C-A
* * * * *
61931663 -ATTTGGCTTCCACGTGT-TTA-AATTGA-AGCA-AGTCTAAG---A-T
1 GATTTGGCAT-CTC-TGTATTAGCA--GAGAGCAGA-TCGAAGACAACA
* * * *
61931703 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
* * * * ** *
61931747 GATTTGGCATCTCTATATTGGTAGAGAGCAGATCAAAGATGATA
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
* * * *
61931791 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAAACATAGCT
1 GATTTGGCATCTCTGTATT-AGCAGAGAGCAGATCGAAGACA-A-CA
* * ** * *
61931838 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAG---A-T
1 GATTTGGCAT-CTC-TGTATTA-GCAGAGAGCAGA-TCGAAGACAACA
* *
61931879 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGA-A
1 GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACA-ACA
** * * *
61931923 GATTTGGTGTCTCTGTATT-GTCAGAGAGCA-AGTTGAAGATAGCA
1 GATTTGGCATCTCTGTATTAG-CAGAGAGCAGA-TCGAAGACAACA
* * *
61931967 GATTTGGCATCCCTGTGTTTA-CA-AGGAACAGATCGAAGACA
1 GATTTGGCATCTCTGT-ATTAGCAGA-GAGCAGATCGAAGACA
61932008 TAGTAGATCT
Statistics
Matches: 464, Mismatches: 98, Indels: 102
0.70 0.15 0.15
Matches are distributed among these distances:
39 14 0.03
40 36 0.08
41 33 0.07
42 3 0.01
43 7 0.02
44 224 0.48
45 55 0.12
46 8 0.02
47 59 0.13
48 19 0.04
49 6 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGACAACA
Found at i:61931450 original size:88 final size:87
Alignment explanation
Indices: 61931350--61931952 Score: 372
Period size: 88 Copynumber: 6.9 Consensus size: 87
61931340 AGATCCAAGA
* * * *
61931350 TGATTTGGCATCTCTTTATT-AGCAGAGAGTAGATTGAAGACAACAGATTTGGTGTCTCTGTATT
1 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATT
61931414 GGCAGAGAGCAGATCGAAGATGAC
66 GGCAGA-AGCAGATC-AAGATGAC
* * *
61931438 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTG
1 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACA-A-CAGATTTGG-TATC-TCTG
* ** * *
61931503 T-TTACGTTGAAGCAAATCTA-A-GA-
62 TATT-GGCAGAAGCAGATCAAGATGAC
* * * * *
61931526 TGATTTGGCATCTCTGTATT-AGCAGAGAGAAGATTGAAGATAACAGAATTGGCATCTCTGTATT
1 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATT
61931590 GGCAGAAAGCAGATCAAAGATGAC
66 GGCAG-AAGCAGATC-AAGATGAC
* * * *
61931614 AGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTA-ATTTGGCT-TCCACG
1 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACA-A-C-AGATTTGG-TAT-CTC-
** *
61931677 TGT-TT-AAATTGAAGCA-AGTCTA-A-GA-
60 TGTATTGGCA--GAAGCAGA-TCAAGATGAC
* * * * * *
61931702 TGATTTGGCATCTTTGTATT-GGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATT
1 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATT
*
61931766 GGTAGAGAGCAGATCAAAGATGA-
66 GGCAGA-AGCAGATC-AAGATGAC
* * * * *
61931789 TAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAAACATAGCTGATTTGGCT-TCCACG
1 T-GATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACA-A-CAGATTTGG-TAT-CTC-
* ** *
61931853 TGT-TTACGTTGAAGCA-AGTCTA-A-GA-
60 TGTATT-GGCAGAAGCAGA-TCAAGATGAC
* * *
61931878 TGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGATAGA-AGATTTGGTGTCTCTGTAT
1 TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACA-ACAGATTTGGTATCTCTGTAT
*
61931941 TGTCAGAGAGCA
65 TGGCAGA-AGCA
61931953 AGTTGAAGAT
Statistics
Matches: 403, Mismatches: 69, Indels: 90
0.72 0.12 0.16
Matches are distributed among these distances:
83 15 0.04
84 32 0.08
85 27 0.07
86 3 0.01
87 64 0.16
88 113 0.28
89 63 0.16
90 5 0.01
91 30 0.07
92 34 0.08
93 17 0.04
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (87 bp):
TGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATT
GGCAGAAGCAGATCAAGATGAC
Found at i:61931645 original size:176 final size:176
Alignment explanation
Indices: 61931346--61931982 Score: 920
Period size: 176 Copynumber: 3.6 Consensus size: 176
61931336 AAGAAGATCC
* * * * **
61931346 AAGATGATTTGGCATCTCTTTATTAGCAGAGAGTAGATTGAAGACAACAGATTTGGTGTCTCTGT
1 AAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
* * * *
61931411 ATTGGCAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCAGCAGAGAGCAGATCGA
66 ATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
* * *
61931476 AGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCT
131 AGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCT
* * *
61931522 AAGATGATTTGGCATCTCTGTATTAGCAGAGAGAAGATTGAAGATAACAGAATTGGCATCTCTGT
1 AAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
*
61931587 ATTGGCAGAAAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
66 ATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
* **
61931652 AGACATAGCTAATTTGGCTTCCACGTGTTTAAATTGAAGCAAGTCT
131 AGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCT
* * * *
61931698 AAGATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTAT
1 AAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
* *
61931763 ATTGGTAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
66 ATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
*
61931828 AAACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCT
131 AGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCT
* **
61931874 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGA-AGATTTGGTGTCTCTG
1 AAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATA-ACAGATTTGGCATCTCTG
* ** *
61931938 TATTGTCAGAGAGCA-AGTTGAAGAT-AGCAGATTTGGCATCCCTGT
65 TATTGGCAGAGAGCAGA-TCAAAGATGA-CAGATTTGGCATCTCTGT
61931983 GTTTACAAGG
Statistics
Matches: 416, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
175 2 0.00
176 414 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
AAGATGATTTGGCATCTCTGTATTAGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
ATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGA
AGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCT
Found at i:61932303 original size:44 final size:45
Alignment explanation
Indices: 61932175--61932368 Score: 210
Period size: 45 Copynumber: 4.3 Consensus size: 45
61932165 TTTACATCGA
* * * * * *
61932175 AGCAGATCCAAGATGACAGATTTGACATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
* * * * **
61932220 AGCATATCGGAGATAACATATTTGGCATCTCTGCGTTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
* * *
61932265 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
* *
61932309 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
* *
61932354 AACAGATCAAAGATA
1 AGCAGATCGAAGATA
61932369 GCAGATATCG
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
44 37 0.30
45 88 0.70
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
Found at i:61932374 original size:45 final size:45
Alignment explanation
Indices: 61931351--61932374 Score: 249
Period size: 44 Copynumber: 23.1 Consensus size: 45
61931341 GATCCAAGAT
* * * * * * *
61931351 GATTTGGCATCTCTTTATTAG-CAGAGAGTAGATTGAAGACAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
** * * * *
61931395 GATTTGGTGTCTCTGTATT-GGCAGAGAGCAGATCGAAGAT-GACT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAG-CA
* * *
61931439 GATTTGGCATCTCTGTATTCAG-CAGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-AGACGGGGAGCAGATCGAAG--ATAGCA
* * * * * * *
61931486 GATTTGGC-TTTCATGTGTT-TACGTTGAAGCAAATCTAAGAT----
1 GATTTGGCATCTC-TGTATTAGACG-GGGAGCAGATCGAAGATAGCA
* * * * *
61931527 GATTTGGCATCTCTGTATTAG-CAGAGAGAAGATTGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
* * * ** *
61931571 GAATTGGCATCTCTGTATT-GGCAGAAAGCAGATCAAAGAT-GACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAG-CA
* * *
61931615 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAGC-A
* * *** * *
61931663 -ATTTGGCTTCCACGTGT-TTA-AATTGAAGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATTAGACGGGGAGCAGA-TCGAAGATAGCA
* * * *
61931703 GATTTGGCATCTTTGTATT-GGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
* * * * *
61931747 GATTTGGCATCTCTATATTGGTA--GAGAGCAGATCAAAGAT-GATA
1 GATTTGGCATCTCTGTATTAG-ACGGGGAGCAGATCGAAGATAG-CA
* * * * *
61931791 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAAACATAGCT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCG--AAGATAGCA
* * * * *
61931838 GATTTGGCTTCCACGTGT-TT--ACGTTGAAGCA-AGTCTAAGAT----
1 GATTTGGCAT-CTC-TGTATTAGACG-GGGAGCAGA-TCGAAGATAGCA
* * * *
61931879 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGATAGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
** * * * *
61931923 GATTTGGTGTCTCTGTATT-GTCAGAGAGCA-AGTTGAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGA-TCGAAGATAGCA
* * * ** * *
61931967 GATTTGGCATCCCTGTGTT-TACAAGGAACAGATCGAAGACATAGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAGCA
* * * * * * **
61932013 GATCTGACAT-TCCTGTGCTT-G-CAGCGAAGCAGATTGAAGATTTCA
1 GATTTGGCATCT-CTGT-ATTAGAC-GGGGAGCAGATCGAAGATAGCA
* * * * * *
61932058 GCA--TGGCATCCCTGTGTTTATA--GGGAACA-AGTTGAAGATAGTA
1 G-ATTTGGCATCTCTGT-ATTAGACGGGGAGCAGA-TCGAAGATAGCA
* ** * ** *
61932101 GATTTGGTATCTCCATATTCGACGGGGAGCAGATTAAAGACATAGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAGCA
* * * * * * *
61932148 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGAT-GACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CA
* * * * *
61932193 GATTTGACATCTTTGTATTAGACGGGGAGCATATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
* ** *
61932238 TATTTGGCATCTCTGCGTTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
* * * *
61932282 AATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
* * * *
61932327 GATTTGGCGTCTCTGTATTAGATGGGGAACAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
61932372 GAT
1 GAT
61932375 ATCGCCTTCC
Statistics
Matches: 720, Mismatches: 179, Indels: 161
0.68 0.17 0.15
Matches are distributed among these distances:
39 6 0.01
40 39 0.05
41 34 0.05
42 5 0.01
43 22 0.03
44 281 0.39
45 176 0.24
46 32 0.04
47 103 0.14
48 15 0.02
49 7 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
Found at i:61932740 original size:19 final size:19
Alignment explanation
Indices: 61932716--61932784 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
61932706 AATCTTTAAG
61932716 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61932735 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61932754 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
61932771 GATTTGCAATCTTA
1 GATATGCAATCTTA
61932785 AATTCTTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 16 0.34
19 31 0.66
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:61932746 original size:36 final size:35
Alignment explanation
Indices: 61932706--61932783 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
61932696 ATGGAAATAT
61932706 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
*
61932742 AATC-TTAGATATGATACAATCTTAGATATGATTTGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
61932778 AATCTT
1 AATCTT
61932784 AAATTCTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 6 0.16
34 1 0.03
35 2 0.05
36 27 0.73
37 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:61942878 original size:3 final size:3
Alignment explanation
Indices: 61942870--61942920 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
61942860 TATTAACATG
61942870 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
61942918 AAT
1 AAT
61942921 GGCAAAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:61945491 original size:50 final size:52
Alignment explanation
Indices: 61945433--61945548 Score: 166
Period size: 50 Copynumber: 2.3 Consensus size: 52
61945423 TTAATAAAGT
*
61945433 CATGCATTATGTAACTCTCATGTTAGCT-AAGTTTGCATCA-TAAATTACA-A
1 CATGCATTATGTAACTCCCATGTTAGCTAAAGTTTGCATCATTAAATTA-AGA
* *
61945483 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGCTAAAGTTTGCATCATTAAATTAAGA
*
61945535 CATGCATTAAGTAA
1 CATGCATTATGTAA
61945549 TTCATTTGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 26 0.44
51 13 0.22
52 20 0.34
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGCTAAAGTTTGCATCATTAAATTAAGA
Found at i:61951258 original size:13 final size:13
Alignment explanation
Indices: 61951210--61951265 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
61951200 CAAATAAACC
61951210 AAAATTGTATTACT
1 AAAATT-TATTACT
**
61951224 AAAATCCATCT-CT
1 AAAATTTAT-TACT
61951237 AAAATTTTATTACT
1 AAAA-TTTATTACT
61951251 AAAATTTATTA-T
1 AAAATTTATTACT
61951263 AAA
1 AAA
61951266 CATTAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.11
13 16 0.46
14 15 0.43
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (13 bp):
AAAATTTATTACT
Found at i:61953033 original size:20 final size:20
Alignment explanation
Indices: 61953008--61953060 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
61952998 ATTTTTAATA
*
61953008 TATTTTTAATAATTTATATT
1 TATTTTTAAGAATTTATATT
** *
61953028 TATTTTTAAGCTTTTTTATT
1 TATTTTTAAGAATTTATATT
61953048 TATTTTT-AGAATT
1 TATTTTTAAGAATT
61953061 ATTGTTAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TATTTTTAAGAATTTATATT
Found at i:61954710 original size:42 final size:41
Alignment explanation
Indices: 61954634--61954787 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 41
61954624 CTAAGTTTAT
* * *
61954634 GTGTAAGACCATATCT-GGATATGGAATCAGTATGATACTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTC
61954675 GTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTC
* * * *
61954717 GTATAAGACCATAGCTAGGCTATTGGCATCCATATGAGATTAC
1 GTGTAAGACCATATCTAGGATA-TGGCATCAATATGAGATT-C
*
61954760 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
61954788 TGGTATGGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
41 16 0.16
42 48 0.49
43 34 0.35
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATATGAGATTC
Found at i:61962285 original size:43 final size:42
Alignment explanation
Indices: 61962163--61962315 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
61962153 TAAGTTTATG
* * *
61962163 TGTAAGACCATATCT-GGATATGGAAT-CAGTATGATACTTCA
1 TGTAAGACCATATCTAGGATATGGCATCCA-TATGAGATTTCA
* *
61962204 TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGGCATCCATATGAGATTTCA
* * *
61962246 TGTAAGACCATAGCTAGGCTATTGGCATCCATATGAGATTACA
1 TGTAAGACCATATCTAGGATA-TGGCATCCATATGAGATTTCA
61962289 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
61962316 TGGTATGGTA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
41 15 0.15
42 44 0.45
43 38 0.39
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCCATATGAGATTTCA
Found at i:61965294 original size:27 final size:27
Alignment explanation
Indices: 61965227--61965296 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
61965217 ATGGAGGAAG
* * *
61965227 TACT-ATACTGGTGACTATGTCACATT
1 TACTGATACTGGTGGCTATGCCACAAT
*
61965253 TACTGTTACTGGTGGCTATGCCACAAT
1 TACTGATACTGGTGGCTATGCCACAAT
61965280 TACTGATACTGGTGGCT
1 TACTGATACTGGTGGCT
61965297 TTACTACATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTGATACTGGTGGCTATGCCACAAT
Found at i:61967279 original size:13 final size:13
Alignment explanation
Indices: 61967261--61967290 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61967251 AATTAATATA
*
61967261 ATAATATATTAAT
1 ATAATATAATAAT
61967274 ATAATATAATAAT
1 ATAATATAATAAT
61967287 ATAA
1 ATAA
61967291 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:61967317 original size:23 final size:25
Alignment explanation
Indices: 61967281--61967330 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
61967271 AATATAATAT
*
61967281 AATAATATAAAAC-AAA-AAAAAGA
1 AATAAAATAAAACAAAAGAAAAAGA
*
61967304 AATAAAATAGAACAAAAGAAAAAGA
1 AATAAAATAAAACAAAAGAAAAAGA
61967329 AA
1 AA
61967331 CATATAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (25 bp):
AATAAAATAAAACAAAAGAAAAAGA
Found at i:61968341 original size:44 final size:44
Alignment explanation
Indices: 61968163--61968327 Score: 127
Period size: 44 Copynumber: 3.6 Consensus size: 44
61968153 TGTACAGGGA
* * * *
61968163 TACTTCGACCTTGGGTCAATGAGGCACTAATAGTGTCGTATTGT
1 TACTTCGACTTTGTGTCGATGAGGCACTAATAGTGTCGTACTGT
* * ** *
61968207 TACTTCGACTTCGTGTCGATTAGGCACTTCGT-GTGTTGTACTGT
1 TACTTCGACTTTGTGTCGATGAGGCAC-TAATAGTGTCGTACTGT
* * * * *
61968251 TTCTAT-TACTTCGGTTTAATCTGATAAGGCACTAATAGTGTCGTACTGT
1 TACT-TCGACTT---TGT-GTC-GATGAGGCACTAATAGTGTCGTACTGT
61968300 TACTTCGACTTTGTGTCGATGAGGCACT
1 TACTTCGACTTTGTGTCGATGAGGCACT
61968328 TCGTGTGTTG
Statistics
Matches: 89, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
44 49 0.55
45 5 0.06
46 2 0.02
47 1 0.01
48 5 0.06
49 27 0.30
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (44 bp):
TACTTCGACTTTGTGTCGATGAGGCACTAATAGTGTCGTACTGT
Found at i:61968353 original size:93 final size:93
Alignment explanation
Indices: 61968184--61968377 Score: 298
Period size: 93 Copynumber: 2.1 Consensus size: 93
61968174 TGGGTCAATG
* *
61968184 AGGCACTAATAGTGTCGTATTGTTACTTCGACTTCGTGTCGATTAGGCACTTCGTGTGTTGTACT
1 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATGAGGCACTTCGTGTGTTGTACT
* * * *
61968249 GTTTCTATTACTTCGGTTTAATCTGATA
66 ATTTCTATTACTTCAGTTTAACCCGATA
*
61968277 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTTGTGTCGATGAGGCACTTCGTGTGTTGTACT
1 AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATGAGGCACTTCGTGTGTTGTACT
* *
61968342 ATTTTTGTTACTTCAGTTTAACCCGATA
66 ATTTCTATTACTTCAGTTTAACCCGATA
*
61968370 AGGTACTA
1 AGGCACTA
61968378 GGTACCGTAC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (93 bp):
AGGCACTAATAGTGTCGTACTGTTACTTCGACTTCGTGTCGATGAGGCACTTCGTGTGTTGTACT
ATTTCTATTACTTCAGTTTAACCCGATA
Found at i:61971875 original size:11 final size:11
Alignment explanation
Indices: 61971861--61971901 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
61971851 TATTTTCTCT
61971861 CTATTTTGCTA
1 CTATTTTGCTA
*
61971872 CTATTTTACTA
1 CTATTTTGCTA
* *
61971883 TTATGTTGCTA
1 CTATTTTGCTA
61971894 CTATTTTG
1 CTATTTTG
61971902 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:61971944 original size:11 final size:11
Alignment explanation
Indices: 61971930--61971959 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
61971920 TATATAAAAG
61971930 TTATTTTATTA
1 TTATTTTATTA
61971941 TTATTTTATTA
1 TTATTTTATTA
61971952 TTATTTTA
1 TTATTTTA
61971960 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:61971977 original size:30 final size:30
Alignment explanation
Indices: 61971943--61971999 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
61971933 TTTTATTATT
61971943 ATTTTATTATTATTTTAAAGACATTTGGTA
1 ATTTTATTATTATTTTAAAGACATTTGGTA
* * *
61971973 ATTTTGTTATTATTTTAGAGGCATTTG
1 ATTTTATTATTATTTTAAAGACATTTG
61972000 CTTGTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (30 bp):
ATTTTATTATTATTTTAAAGACATTTGGTA
Found at i:61972153 original size:12 final size:12
Alignment explanation
Indices: 61972123--61972156 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
61972113 TATATATTTT
61972123 AAAATT-ATATA
1 AAAATTAATATA
61972134 AAAA-TAATATA
1 AAAATTAATATA
61972145 AAAATTAATATA
1 AAAATTAATATA
61972157 GGCAGGCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:61975529 original size:140 final size:140
Alignment explanation
Indices: 61975272--61975533 Score: 321
Period size: 140 Copynumber: 1.9 Consensus size: 140
61975262 CACTTGTGTG
* ** *
61975272 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 AGCTAATGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAGAGTAAGACCATGT
* *** * * *
61975337 CTGGGATATGGCATTGGCATTAAGACGAGTGCTAGTGGAAGACATGTCTGGGACATGCTTCGGCC
66 CTGGGACATGGCATCAACATTAAGACGAGAGCCAATGGAAGACATGTCTGGGACATGCTTCGGCC
61975402 TTGAGATGTA
131 TTGAGATGTA
* ** *
61975412 AGCTAATGTAAGACATGTCTGGGACATGCATCGGTTACAAAATGATAGCCAGAGTAAGACCATGT
1 AGCTAATGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAGAGTAAGACCATGT
* * * *
61975477 CTGGGACATGGCATCAAC-TTGAGA-TATGAGCCAATGTAAGACTATGTTTGGGACATG
66 CTGGGACATGGCATCAACATTAAGACGA-GAGCCAATGGAAGAC-ATGTCTGGGACATG
61975534 GCATCGGCAT
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
138 1 0.01
139 16 0.16
140 84 0.83
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (140 bp):
AGCTAATGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAGAGTAAGACCATGT
CTGGGACATGGCATCAACATTAAGACGAGAGCCAATGGAAGACATGTCTGGGACATGCTTCGGCC
TTGAGATGTA
Found at i:61978510 original size:21 final size:21
Alignment explanation
Indices: 61978469--61978512 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61978459 TTAAGAAATT
*
61978469 AATATAATAATATATTAATAA
1 AATATAATAATATAATAATAA
61978490 AATATAATAATAATAAT-ATAA
1 AATATAATAAT-ATAATAATAA
61978511 AA
1 AA
61978513 CAAATAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATAATAATATAATAATAA
Found at i:61980618 original size:21 final size:21
Alignment explanation
Indices: 61980594--61980647 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
61980584 CGGGATGACA
61980594 ACACGGGCGTGTC-ATAAAGAC
1 ACACGGGCGTGTCTATAAA-AC
* * * *
61980615 ACACAGGCATGTCTCTAAACC
1 ACACGGGCGTGTCTATAAAAC
61980636 ACACGGGCGTGT
1 ACACGGGCGTGT
61980648 GGTATTGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.17
Consensus pattern (21 bp):
ACACGGGCGTGTCTATAAAAC
Found at i:61982035 original size:3 final size:3
Alignment explanation
Indices: 61982023--61982172 Score: 87
Period size: 3 Copynumber: 49.7 Consensus size: 3
61982013 GTTATTTTGC
* * *
61982023 TAT T-T TAT TAT TAA AAT TAAT TAAT TAAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT
* * *
61982070 T-T TCAC TAT TAT TAT TAT TAT TAA TA- TAT TCT TAT TAAT GTAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT
* * * *
61982116 TAT TTT CTAC T-T TAT TAT TAT TAT T-G TAT TAT TAC TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
61982160 CAT CA- TAT TAT TA
1 TAT TAT TAT TAT TA
61982173 AACTAATTAA
Statistics
Matches: 115, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
2 9 0.08
3 88 0.77
4 17 0.15
5 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:61982116 original size:17 final size:15
Alignment explanation
Indices: 61982023--61982172 Score: 63
Period size: 14 Copynumber: 10.5 Consensus size: 15
61982013 GTTATTTTGC
61982023 TATT-TTATTATTAA
1 TATTATTATTATTAA
*
61982037 AATTA--ATTAATT-A
1 TATTATTATT-ATTAA
* *
61982050 -ATTATTACTATTAT
1 TATTATTATTATTAA
* *
61982064 TATTATT-TTCACTAT
1 TATTATTATT-ATTAA
61982079 TATTATTATTATTAA
1 TATTATTATTATTAA
*
61982094 TA-TATTCTTATTAA
1 TATTATTATTATTAA
*
61982108 TGTATTATTATT-TT-C
1 --TATTATTATTATTAA
* *
61982123 TACT-TTATTATTAT
1 TATTATTATTATTAA
* *
61982137 TATT-GTATTATTAC
1 TATTATTATTATTAA
* *
61982151 TATTATTATCA-TCA
1 TATTATTATTATTAA
61982165 TATTATTA
1 TATTATTA
61982173 AACTAATTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 28
0.69 0.13 0.19
Matches are distributed among these distances:
12 9 0.09
13 12 0.12
14 44 0.43
15 26 0.25
16 6 0.06
17 6 0.06
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (15 bp):
TATTATTATTATTAA
Found at i:61982168 original size:23 final size:23
Alignment explanation
Indices: 61982128--61982172 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
61982118 TTTTCTACTT
* **
61982128 TATTATTATTATTGTATTATTAC
1 TATTATTATCATCATATTATTAC
61982151 TATTATTATCATCATATTATTA
1 TATTATTATCATCATATTATTA
61982173 AACTAATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATCATCATATTATTAC
Found at i:61982288 original size:17 final size:17
Alignment explanation
Indices: 61982258--61982290 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61982248 ATTATTACCC
61982258 TTTTACTTTTTATTTTA
1 TTTTACTTTTTATTTTA
61982275 TTTTA-TTTTATATTTT
1 TTTTACTTTT-TATTTT
61982291 TCTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTACTTTTTATTTTA
Found at i:61984337 original size:15 final size:15
Alignment explanation
Indices: 61984317--61984368 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
61984307 ATGACACTTA
*
61984317 ATGAATAAGAATATC
1 ATGAATAACAATATC
*
61984332 ATGAATAACAATGTC
1 ATGAATAACAATATC
61984347 ATGCAATGACACAAT-TC
1 ATG-AAT-A-ACAATATC
61984364 ATGAA
1 ATGAA
61984369 AATAGTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 16 0.50
16 5 0.16
17 6 0.19
18 5 0.16
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (15 bp):
ATGAATAACAATATC
Found at i:61985406 original size:26 final size:26
Alignment explanation
Indices: 61985370--61985479 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
61985360 TGATACAAAT
61985370 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61985396 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61985422 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61985448 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61985474 TGATAA
1 TGATAA
61985480 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:61991208 original size:26 final size:26
Alignment explanation
Indices: 61991172--61991281 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
61991162 TGATACAAAT
61991172 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61991198 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61991224 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61991250 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61991276 TGATAA
1 TGATAA
61991282 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:61996869 original size:19 final size:19
Alignment explanation
Indices: 61996826--61996871 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
61996816 AAAATTAATA
61996826 AAATTAAT--CATTTAAAT
1 AAATTAATAACATTTAAAT
*
61996843 TAATTAATAACATTTAAA-
1 AAATTAATAACATTTAAAT
61996861 AAATATAATAA
1 AAAT-TAATAA
61996872 ATAAATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 14 0.58
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAATAACATTTAAAT
Found at i:62000981 original size:46 final size:46
Alignment explanation
Indices: 62000929--62001104 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
62000919 TATTTGGGCA
* *
62000929 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
62000975 TCCGAGCTCGTTGAGTTGAGTCCAAGTTC-GTGA--GACGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
62001022 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
62001068 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62001105 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 61 0.58
47 28 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:62001084 original size:93 final size:93
Alignment explanation
Indices: 62000925--62001097 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
62000915 AGGATATTTG
*
62000925 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTTGAG
62000990 TTGAGTCCAAGTTCGTGAGACGTAACTA
66 TTGAGTCCAAGTTCGTGAGACGTAACTA
* *
62001018 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAGCTCGTTGA
*
62001082 GTTGAGTCCGAGTTCG
65 GTTGAGTCCAAGTTCG
62001098 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAGACGTAACTA
Found at i:62005451 original size:35 final size:34
Alignment explanation
Indices: 62005385--62005455 Score: 115
Period size: 35 Copynumber: 2.1 Consensus size: 34
62005375 GGAAGGTCTG
**
62005385 AATGAGGAAATCAAGCTGTTGATTGGGATTCTCTA
1 AATGAGGAAATCAAGCTGTTGATTGAAATTCT-TA
62005420 AATGAGGAAATCAAGCTGTTGATTGAAATTCTTA
1 AATGAGGAAATCAAGCTGTTGATTGAAATTCTTA
62005454 AA
1 AA
62005456 ATACGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (34 bp):
AATGAGGAAATCAAGCTGTTGATTGAAATTCTTA
Found at i:62014823 original size:10 final size:10
Alignment explanation
Indices: 62014799--62014860 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
62014789 AATGAAATTC
62014799 TAAAAGATAAA
1 TAAAA-ATAAA
*
62014810 TAAAAATAAT
1 TAAAAATAAA
* *
62014820 TAAAGATAAT
1 TAAAAATAAA
*
62014830 TAAAGATAAA
1 TAAAAATAAA
*
62014840 TAAAGATAAA
1 TAAAAATAAA
*
62014850 TGAAAATAAA
1 TAAAAATAAA
62014860 T
1 T
62014861 CCTAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 41 0.89
11 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:62014824 original size:20 final size:20
Alignment explanation
Indices: 62014801--62014860 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
62014791 TGAAATTCTA
*
62014801 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAAAT
* *
62014821 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAAAATAAAT
*
62014841 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
62014861 CCTAAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:62014903 original size:26 final size:27
Alignment explanation
Indices: 62014857--62014909 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
62014847 AAATGAAAAT
62014857 AAATCCTAAAAATTAAATCTAA-ATAA
1 AAATCCTAAAAATTAAATCTAATATAA
* *
62014883 AAATCCTTAATAATT-ATTCTAATATAA
1 AAATCC-TAAAAATTAAATCTAATATAA
62014910 TTGAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (27 bp):
AAATCCTAAAAATTAAATCTAATATAA
Found at i:62015655 original size:95 final size:97
Alignment explanation
Indices: 62015518--62015698 Score: 276
Period size: 95 Copynumber: 1.9 Consensus size: 97
62015508 ATTTTATTTA
* * * *
62015518 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACC-CA
1 TTTATTTTTACCTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
*
62015582 CCCCAGTTATTCAGCCCAACATACTCCTAATT
66 CCCCAGTTACTCAGCCCAACATACTCCTAATT
* *
62015614 TTTATTTTT-CCTAAGAACATATCGAATCTTTTGACGCGAAGAGAGATGATAGCCAAGCACCTCA
1 TTTATTTTTACCTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
*
62015678 CCCCGGTTACTCAGCCCAACA
66 CCCCAGTTACTCAGCCCAACA
62015699 CTTTCTTAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 46 0.61
96 30 0.39
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACCTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
CCCCAGTTACTCAGCCCAACATACTCCTAATT
Found at i:62016498 original size:15 final size:15
Alignment explanation
Indices: 62016478--62016534 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
62016468 TTAATATCTG
*
62016478 AAAATAATAAATAAT
1 AAAATAATAAATAAA
62016493 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
62016509 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
62016524 AATAA-AATAAA
1 AA-AATAATAAA
62016535 AATTGGGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 3 0.08
15 21 0.57
16 7 0.19
17 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:62016532 original size:11 final size:11
Alignment explanation
Indices: 62016483--62016537 Score: 67
Period size: 11 Copynumber: 4.8 Consensus size: 11
62016473 ATCTGAAAAT
62016483 AATAAATAATAA
1 AATAAA-AATAA
62016495 AATAATAAGATAA
1 AATAA-AA-ATAA
*
62016508 AATAAATA-AA
1 AATAAAAATAA
62016518 AATAAAAATAA
1 AATAAAAATAA
62016529 AATAAAAAT
1 AATAAAAAT
62016538 TGGGTTGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 9 0.24
11 12 0.32
12 7 0.18
13 10 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:62016534 original size:21 final size:25
Alignment explanation
Indices: 62016483--62016534 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 25
62016473 ATCTGAAAAT
62016483 AATAAATAATAAAATAATAAGATAA
1 AATAAATAATAAAATAATAAGATAA
62016508 AATAAAT-A-AAAATAA-AA-ATAA
1 AATAAATAATAAAATAATAAGATAA
62016529 AATAAA
1 AATAAA
62016535 AATTGGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.37
22 2 0.07
23 7 0.26
24 1 0.04
25 7 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AATAAATAATAAAATAATAAGATAA
Found at i:62018737 original size:38 final size:38
Alignment explanation
Indices: 62018686--62018763 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
62018676 GGAAAGCACG
62018686 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
1 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
62018724 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
1 TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
62018762 TA
1 TA
62018764 CTAAGGCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (38 bp):
TAGTTCAATTTGATCCTCAGTTACCCCCTGAGGTTTCA
Found at i:62020281 original size:10 final size:10
Alignment explanation
Indices: 62020262--62020321 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
62020252 TGAAATTCTA
62020262 AAAGATAAAT
1 AAAGATAAAT
62020272 ACAA-ATAAAT
1 A-AAGATAAAT
*
62020282 AAAGATAATT
1 AAAGATAAAT
62020292 AAAGATAAAT
1 AAAGATAAAT
62020302 AAAGATAAAT
1 AAAGATAAAT
62020312 GAAA-ATAAAT
1 -AAAGATAAAT
62020322 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:62028652 original size:17 final size:17
Alignment explanation
Indices: 62028630--62028663 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62028620 ATAAATATTT
62028630 ATAATGAAGATCAAACC
1 ATAATGAAGATCAAACC
62028647 ATAATGAAGATCAAACC
1 ATAATGAAGATCAAACC
62028664 TAGACAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
ATAATGAAGATCAAACC
Found at i:62033831 original size:14 final size:14
Alignment explanation
Indices: 62033812--62033840 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62033802 ACAGATGGAT
62033812 TCGTATAATTCTTA
1 TCGTATAATTCTTA
62033826 TCGTATAATTCTTA
1 TCGTATAATTCTTA
62033840 T
1 T
62033841 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:62036694 original size:23 final size:23
Alignment explanation
Indices: 62036654--62036732 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
62036644 AGCTCCTCTT
* *
62036654 GAGCTGATGGACAATAAGCTCTGAC
1 GAGCTGA-GAACAGTAAGCTCT-AC
* *
62036679 AAGCTGA-ATCAGTAAGCTCATAC
1 GAGCTGAGAACAGTAAGCTC-TAC
62036702 GAGCTGAGAACAGTAAGCTCTCAC
1 GAGCTGAGAACAGTAAGCTCT-AC
62036726 GAGCTGA
1 GAGCTGA
62036733 TATATTGGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 18 0.40
24 21 0.47
25 6 0.13
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (23 bp):
GAGCTGAGAACAGTAAGCTCTAC
Found at i:62039331 original size:34 final size:34
Alignment explanation
Indices: 62039305--62039380 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
62039295 ATAACAGTCT
62039305 AGTAACAGT-TAGGGCCTTAGCCCAATACAGTATC
1 AGTAACAGTGTA-GGCCTTAGCCCAATACAGTATC
* * * *
62039339 AGTAGCAGTGTAGGCTTTAGCCCATTACAGTAAC
1 AGTAACAGTGTAGGCCTTAGCCCAATACAGTATC
62039373 AGTAACAG
1 AGTAACAG
62039381 AAATGCAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (34 bp):
AGTAACAGTGTAGGCCTTAGCCCAATACAGTATC
Found at i:62039831 original size:18 final size:18
Alignment explanation
Indices: 62039803--62039837 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62039793 AAAGTTCATA
62039803 ACACGGCCCATGTAGGCCC
1 ACACGGCCCATGT-GGCCC
62039822 ACAC-GCCCATGTGGCC
1 ACACGGCCCATGTGGCC
62039838 TACAAAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (18 bp):
ACACGGCCCATGTGGCCC
Found at i:62054807 original size:16 final size:16
Alignment explanation
Indices: 62054786--62054818 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62054776 ATAAAAACAT
*
62054786 AAAATAAAAATAATAA
1 AAAATAAAAAAAATAA
62054802 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
62054818 A
1 A
62054819 GATAAAATGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:62054823 original size:22 final size:22
Alignment explanation
Indices: 62054776--62054825 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
62054766 AAATTTGTTT
*
62054776 ATAAAAACATAAAATAAAAATA
1 ATAAAAACATAAAATAAAAAAA
62054798 ATAAAAA-ATAAAA-AAAATAAA
1 ATAAAAACATAAAATAAAA-AAA
62054819 GATAAAA
1 -ATAAAA
62054826 TGAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 13 0.52
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
ATAAAAACATAAAATAAAAAAA
Found at i:62064990 original size:18 final size:18
Alignment explanation
Indices: 62064941--62064980 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
62064931 ATCAGGCAAG
62064941 TTTCACATACATGTATTT
1 TTTCACATACATGTATTT
62064959 TTTCACATACATGTATTT
1 TTTCACATACATGTATTT
62064977 TTTC
1 TTTC
62064981 CATGTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTCACATACATGTATTT
Found at i:62089666 original size:41 final size:41
Alignment explanation
Indices: 62089609--62089691 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
62089599 CAGTAAGGCA
* *
62089609 AGTTGTCGAATAAGACCATAGCCGAGCTGTGGCAATCGAAT
1 AGTTGTCGAATAAGACCAAAGCCGAGCTGTGGAAATCGAAT
* *
62089650 AGTTGTCGAATAAGACCAAAGTCGGGCTGTGGAAATCGAAT
1 AGTTGTCGAATAAGACCAAAGCCGAGCTGTGGAAATCGAAT
62089691 A
1 A
62089692 ATAAGGCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (41 bp):
AGTTGTCGAATAAGACCAAAGCCGAGCTGTGGAAATCGAAT
Found at i:62090444 original size:24 final size:23
Alignment explanation
Indices: 62090417--62090461 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
62090407 TAAAGTAAGA
62090417 TAAATTGAT-TGGTATTTGAGTAGG
1 TAAA-TGATATGG-ATTTGAGTAGG
*
62090441 TAAATGGTATGGATTTGAGTA
1 TAAATGATATGGATTTGAGTA
62090462 ATGAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (23 bp):
TAAATGATATGGATTTGAGTAGG
Found at i:62092190 original size:47 final size:45
Alignment explanation
Indices: 62091986--62092301 Score: 262
Period size: 49 Copynumber: 6.7 Consensus size: 45
62091976 ATATGTTGCT
* * *
62091986 GATGCCATGTCCC-GAACATGGTCTTACACTGGCTATCATCATCGAGGCT
1 GATG-CATGTCCCAG-ACAT-GTCTTACACTGGCTCTCATC-T-TAGGCC
* * * *
62092035 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTATACGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT-TA-G-GCC
* * * *
62092085 AATGCATGTCCCAGACATGTCTTACACTAGCAC-AACTCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TCTTAGGCC
*
62092129 GATGCATGTCCCAGACACGTCTTACACTGGCTCTCATCGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATC-TT-AGGCC
* * *
62092176 GATGCATGTGCCAGACATGTCTTACACTGG-TGCTCATTCTCTACGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-CTCA-TCT-TAGGCC
* * * *
62092223 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTT-AGGCC
62092271 GATGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
62092302 ACACAAGTAA
Statistics
Matches: 224, Mismatches: 28, Indels: 33
0.79 0.10 0.12
Matches are distributed among these distances:
44 33 0.15
45 3 0.01
46 15 0.07
47 60 0.27
48 41 0.18
49 64 0.29
50 8 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTAGGCC
Found at i:62092275 original size:95 final size:94
Alignment explanation
Indices: 62092035--62092300 Score: 301
Period size: 95 Copynumber: 2.8 Consensus size: 94
62092025 CATCGAGGCT
* * * * *
62092035 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTATACGT-GCTAATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATAT-TGTGGCTGATGCATGTCCCAG
62092099 ACATGTCTTACACT--AGCACAACTCTTAGCC
63 ACATGTCTTACACTGGAGCACAACTCTTAGCC
* * * * *
62092129 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCATCGTTGAGGCCGATGCATGTGCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATTGTGGCTGATGCATGTCCCAGAC
* * * *
62092192 ATGTCTTACACTGGTGCTC-ATTCTCTACGTC
65 ATGTCTTACACTGGAGCACAACTCT-TA-GCC
*
62092223 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCTGATGCATGTCCCAGACA
62092288 TGTCTTACACTGG
66 TGTCTTACACTGG
62092301 CACACAAGTA
Statistics
Matches: 144, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
90 2 0.01
91 29 0.20
92 19 0.13
93 18 0.12
94 10 0.07
95 48 0.33
96 18 0.12
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCTGATGCATGTCCCAGACA
TGTCTTACACTGGAGCACAACTCTTAGCC
Found at i:62101314 original size:44 final size:44
Alignment explanation
Indices: 62101237--62101461 Score: 247
Period size: 44 Copynumber: 5.1 Consensus size: 44
62101227 AACGGGTTGT
* * *
62101237 TACAAATCTTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAGC
* * * *
62101281 TACAAATCTTATCTCCTTGAAGTTGTAGAGGAGCAAATTAAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAGC
* *
62101325 TACAAATCTTATCTCCCTAAAGTTGCA-ATGGAGCAGATTAAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGA-GGAGCAGATTGAAGC
* * * *
62101369 TACAAATCTCATCTCCTTGAAGCTGCA-ATGGAGCATATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGA-GGAGCAGATTGAAGC
** * * * *
62101413 TATGAACCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAGC
62101457 TACAA
1 TACAA
62101462 TTTCTATACC
Statistics
Matches: 152, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
43 1 0.01
44 151 0.99
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAGC
Found at i:62101345 original size:88 final size:88
Alignment explanation
Indices: 62101237--62101461 Score: 308
Period size: 88 Copynumber: 2.6 Consensus size: 88
62101227 AACGGGTTGT
* *
62101237 TACAAATCTTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCTTGAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTCATCTCCTTGAA
* *
62101302 GTTGTAGA-GGAGCAAATTAAAGC
66 GCTGCA-ATGGAGCAAATTAAAGC
* *
62101325 TACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCTACAAATCTCATCTCCTTGAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTCATCTCCTTGAA
* *
62101390 GCTGCAATGGAGCATATTGAAGC
66 GCTGCAATGGAGCAAATTAAAGC
** * * * *
62101413 TATGAACCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAA
62101462 TTTCTATACC
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 1 0.01
88 119 0.99
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (88 bp):
TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTCATCTCCTTGAA
GCTGCAATGGAGCAAATTAAAGC
Found at i:62103100 original size:4 final size:4
Alignment explanation
Indices: 62103091--62103121 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
62103081 TACGAACTCT
62103091 TTTA TTTA TTTA TTTA TTTA -TTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
62103122 GCCTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:62104462 original size:20 final size:20
Alignment explanation
Indices: 62104415--62104465 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
62104405 AGATAGGGGC
*
62104415 ACATGCCCATGTGGCCTGGG
1 ACATGCCCATGTGGCCTGGA
* *
62104435 ACACGCCCGTGTGGCCTGGA
1 ACATGCCCATGTGGCCTGGA
62104455 ACATGCCCATG
1 ACATGCCCATG
62104466 GGCAGATTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (20 bp):
ACATGCCCATGTGGCCTGGA
Found at i:62105123 original size:48 final size:48
Alignment explanation
Indices: 62105064--62105219 Score: 188
Period size: 48 Copynumber: 3.1 Consensus size: 48
62105054 TTCATCTCTC
*
62105064 AACCACGTATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
1 AACCACATATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
* *
62105112 AACCACATATAATTATTCAATTCACATTTCAAATATGAAC-CTTTGATTCATCTCTC
1 AACCACATATAATTATTCAATTCACATTTCAAATATAAACAC-----TTCA----TA
*
62105168 AACCACATATAATTATTCACTTCACATTTCAAATATAAACACTTCATA
1 AACCACATATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
62105216 AACC
1 AACC
62105220 TTTGGTTCAT
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
47 1 0.01
48 43 0.47
52 8 0.09
56 39 0.42
57 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (48 bp):
AACCACATATAATTATTCAATTCACATTTCAAATATAAACACTTCATA
Found at i:62106461 original size:19 final size:18
Alignment explanation
Indices: 62106428--62106475 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
62106418 ATTTTCCCTT
* *
62106428 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
62106446 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
62106465 TTTCTTTCTCT
1 TTTCTTTCTCT
62106476 GTAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:62106679 original size:3 final size:3
Alignment explanation
Indices: 62106671--62106708 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
62106661 TTGATAAAAT
62106671 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A
62106709 ATAAATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:62106750 original size:4 final size:4
Alignment explanation
Indices: 62106704--62106731 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
62106694 AATAATAATT
62106704 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
62106732 TCTTTAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:62107884 original size:19 final size:19
Alignment explanation
Indices: 62107862--62107904 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
62107852 GATTTTTTTA
*
62107862 TTTTTTTTAACTTTTGTCT
1 TTTTTTTTAAATTTTGTCT
* *
62107881 TTTTCTTTAAATTTTTTCT
1 TTTTTTTTAAATTTTGTCT
62107900 TTTTT
1 TTTTT
62107905 AAGTTTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTTAAATTTTGTCT
Found at i:62107942 original size:13 final size:13
Alignment explanation
Indices: 62107926--62107968 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
62107916 TTTTTCTTAT
*
62107926 TTTATTTTGTTTA
1 TTTATTTTATTTA
62107939 TTTATTTTATTTA
1 TTTATTTTATTTA
* *
62107952 TTTTTTGTTATTAA
1 TTTATT-TTATTTA
62107966 TTT
1 TTT
62107969 TAAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:62107963 original size:10 final size:9
Alignment explanation
Indices: 62107922--62107955 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
62107912 ATATTTTTTC
62107922 TTATTTTAT
1 TTATTTTAT
62107931 TT-TGTTTAT
1 TTAT-TTTAT
62107940 TTATTTTAT
1 TTATTTTAT
62107949 TTATTTT
1 TTATTTT
62107956 TTGTTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:62108030 original size:23 final size:23
Alignment explanation
Indices: 62107972--62108038 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
62107962 TTAATTTTAA
* *
62107972 AAAATTTGAAATGTATA--TTTG
1 AAAATTTTAAATATATATTTTTG
*
62107993 AAATATTTTATAATATATATTTTTT
1 AAA-ATTTTA-AATATATATTTTTG
62108018 AAAATTTTAAATAT-TATTTTT
1 AAAATTTTAAATATATATTTTT
62108039 AAATTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.08
22 12 0.31
23 12 0.31
24 6 0.15
25 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
AAAATTTTAAATATATATTTTTG
Found at i:62108031 original size:33 final size:32
Alignment explanation
Indices: 62107988--62108141 Score: 139
Period size: 36 Copynumber: 4.5 Consensus size: 32
62107978 TGAAATGTAT
*
62107988 ATTTGAAATAT-TTTATAATATATATTTTTTAAA
1 ATTTTAAATATATTTATAA-AT-TATTTTTTAAA
*
62108021 ATTTTAAATATTATTTTTAAATTATTTTTTAAA
1 ATTTTAAATA-TATTTATAAATTATTTTTTAAA
* *
62108054 ATTTTAAATATATATTTTTGAAATTATTTCTTATAA
1 ATTTT-AA-ATATATTTAT-AAATTATTTTTTA-AA
* *
62108090 ATTTTAAAAATATATTTTTGAAATTAATTTTTATAA
1 ATTTT--AAATATATTTAT-AAATTATTTTTTA-AA
62108126 ATTTTAAATAATATTT
1 ATTTTAAAT-ATATTT
62108142 TTTAAATATT
Statistics
Matches: 108, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
33 25 0.23
34 16 0.15
35 27 0.25
36 37 0.34
37 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTTAAATATATTTATAAATTATTTTTTAAA
Found at i:62108040 original size:13 final size:12
Alignment explanation
Indices: 62108022--62108128 Score: 64
Period size: 13 Copynumber: 8.8 Consensus size: 12
62108012 TTTTTTAAAA
62108022 TTTTAAATATTAT
1 TTTTAAA-ATTAT
62108035 TTTT-AAATTAT
1 TTTTAAAATTAT
*
62108046 TTTTTAAA--A-
1 TTTTAAAATTAT
62108055 TTTTAAATATATAT
1 TTTTAAA-AT-TAT
*
62108069 TTTTGAAATTAT
1 TTTTAAAATTAT
*
62108081 TTCTTATAA--AT
1 TT-TTAAAATTAT
*
62108092 TTTAAAAATATAT
1 TTTTAAAAT-TAT
*
62108105 TTTTGAAATTAAT
1 TTTTAAAATT-AT
62108118 TTTTATAAATT
1 TTTTA-AAATT
62108129 TTAAATAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 23
0.70 0.09 0.22
Matches are distributed among these distances:
9 6 0.08
10 6 0.08
11 13 0.18
12 11 0.15
13 26 0.36
14 11 0.15
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:62108047 original size:23 final size:25
Alignment explanation
Indices: 62107993--62108048 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
62107983 TGTATATTTG
62107993 AAATATTTTATAATATATATTTTTT
1 AAATATTTTATAATATATATTTTTT
62108018 AAA-ATTTTA-AATAT-TA-TTTTT
1 AAATATTTTATAATATATATTTTTT
62108039 AAATTATTTT
1 AAA-TATTTT
62108049 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.28
22 2 0.07
23 10 0.34
24 6 0.21
25 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATTTTATAATATATATTTTTT
Found at i:62108069 original size:23 final size:23
Alignment explanation
Indices: 62108043--62108177 Score: 61
Period size: 22 Copynumber: 5.8 Consensus size: 23
62108033 ATTTTTAAAT
62108043 TATTTTTTAAAATTTTAAATATA
1 TATTTTTTAAAATTTTAAATATA
* ***
62108066 TA-TTTTTGAAATTATTTCTTATA
1 TATTTTTTAAAATT-TTAAATATA
* **
62108089 AATTTTAAAAATATATTTTTGAAAT-TA
1 TATTTT-TTAA-A-A-TTTT-AAATATA
62108116 -A-TTTTTATAAATTTTAAATA-A
1 TATTTTTTA-AAATTTTAAATATA
*
62108137 TATTTTTT-AAATATT-AA-ATA
1 TATTTTTTAAAATTTTAAATATA
62108157 TATTTTTTAATAATATTTAAA
1 TATTTTTTAA-AAT-TTTAAA
62108178 AATTAAAATT
Statistics
Matches: 81, Mismatches: 15, Indels: 31
0.64 0.12 0.24
Matches are distributed among these distances:
19 1 0.01
20 11 0.14
21 12 0.15
22 18 0.22
23 17 0.21
24 7 0.09
25 5 0.06
26 2 0.02
27 5 0.06
28 3 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTTTTTAAAATTTTAAATATA
Found at i:62108077 original size:22 final size:20
Alignment explanation
Indices: 62108035--62108078 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
62108025 TAAATATTAT
62108035 TTTTAAATTATTTTTTAAAA
1 TTTTAAATTATTTTTTAAAA
*
62108055 TTTTAAATATATATTTTTGAAA
1 TTTTAAAT-TAT-TTTTTAAAA
62108077 TT
1 TT
62108079 ATTTCTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAAATTATTTTTTAAAA
Found at i:62108097 original size:36 final size:35
Alignment explanation
Indices: 62108010--62108148 Score: 203
Period size: 36 Copynumber: 4.0 Consensus size: 35
62108000 TTATAATATA
62108010 TATTTTTTAAAATTTTAAATAT-TATTTTT-AAAT
1 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
62108043 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
1 TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
* *
62108078 TATTTCTTATAAATTTTAAAAATATATTTTTGAAAT
1 TATTTTTTA-AAATTTTAAATATATATTTTTGAAAT
* *
62108114 TAATTTTTATAAATTTTAAATA-ATATTTTTTAAAT
1 TATTTTTTA-AAATTTTAAATATATATTTTTGAAAT
62108149 ATTAAATATA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
33 22 0.23
34 7 0.07
35 24 0.25
36 44 0.45
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (35 bp):
TATTTTTTAAAATTTTAAATATATATTTTTGAAAT
Found at i:62108121 original size:71 final size:68
Alignment explanation
Indices: 62108010--62108148 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 68
62108000 TTATAATATA
* * *
62108010 TATTTTTTAAAATTTTAAATATTATTTTTAAATTATTTTTTA-AAATTTTAAATATATATTTTTG
1 TATTTCTTAAAATTTTAAAAATTATTTTTAAATTAATTTTTATAAATTTTAAATA-ATATTTTTG
62108074 AAAT
65 AAAT
62108078 TATTTCTTATAAATTTTAAAAATATATTTTTGAAATTAATTTTTATAAATTTTAAATAATATTTT
1 TATTTCTTA-AAATTTTAAAAAT-TATTTTT-AAATTAATTTTTATAAATTTTAAATAATATTTT
*
62108143 TTAAAT
63 TGAAAT
62108149 ATTAAATATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
68 8 0.13
69 12 0.19
70 7 0.11
71 24 0.38
72 12 0.19
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (68 bp):
TATTTCTTAAAATTTTAAAAATTATTTTTAAATTAATTTTTATAAATTTTAAATAATATTTTTGA
AAT
Found at i:62108130 original size:22 final size:21
Alignment explanation
Indices: 62108105--62108183 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
62108095 AAAAATATAT
62108105 TTTTGAAATTAATTTTTATAAA
1 TTTT-AAATTAATTTTTATAAA
*
62108127 TTTTAAA-TAATATTTTTTAAA
1 TTTTAAATTAAT-TTTTATAAA
* *
62108148 TATTAAATATATTTTTTAATAATA
1 TTTTAAAT-TAATTTTT-ATAA-A
*
62108172 TTTAAAAATTAA
1 TTT-TAAATTAA
62108184 AATTTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 17 0.39
22 8 0.18
23 6 0.14
24 5 0.11
25 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (21 bp):
TTTTAAATTAATTTTTATAAA
Found at i:62108161 original size:20 final size:21
Alignment explanation
Indices: 62108116--62108166 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
62108106 TTTGAAATTA
*
62108116 ATTTTTATAAATTTTAAATAAT
1 ATTTTT-TAAATATTAAATAAT
62108138 ATTTTTTAAATATTAAAT-AT
1 ATTTTTTAAATATTAAATAAT
62108158 ATTTTTTAA
1 ATTTTTTAA
62108167 TAATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 11 0.39
21 11 0.39
22 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTAAATATTAAATAAT
Found at i:62108210 original size:12 final size:13
Alignment explanation
Indices: 62108158--62108216 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
62108148 TATTAAATAT
* *
62108158 ATTTTTTAATAAT
1 ATTTTTAAATAAA
**
62108171 ATTTAAAAATTAAA
1 ATTTTTAAA-TAAA
62108185 ATTTTTAAATAAA
1 ATTTTTAAATAAA
*
62108198 ATTTTTATAAAAAA
1 ATTTTTA-AATAAA
62108212 ATTTT
1 ATTTT
62108217 ACATATAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 17 0.46
14 20 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTAAATAAA
Found at i:62108217 original size:13 final size:14
Alignment explanation
Indices: 62108181--62108217 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
62108171 ATTTAAAAAT
62108181 TAAAATTTT-TAAA
1 TAAAATTTTATAAA
62108194 TAAAATTTTTATAAA
1 TAAAA-TTTTATAAA
62108209 -AAAATTTTA
1 TAAAATTTTA
62108218 CATATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAATTTTATAAA
Found at i:62108271 original size:17 final size:16
Alignment explanation
Indices: 62108252--62108335 Score: 55
Period size: 18 Copynumber: 4.8 Consensus size: 16
62108242 TTTTAAAATT
62108252 AAAAATAAAAAATAAA
1 AAAAATAAAAAATAAA
62108268 TAAACAA-AATAAAATAAGA
1 -AAA-AATAA-AAAATAA-A
*
62108287 AAAAATATAAAACTTAAA
1 AAAAATA-AAAA-ATAAA
62108305 AAAAGA-AAAAAATTAAA
1 AAAA-ATAAAAAA-TAAA
62108322 GAAAAAGTAAAAAA
1 -AAAAA-TAAAAAA
62108336 AACAAATTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
17 16 0.30
18 26 0.48
19 12 0.22
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAAATAAAAAATAAA
Found at i:62108333 original size:26 final size:26
Alignment explanation
Indices: 62108303--62108353 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
62108293 ATAAAACTTA
* *
62108303 AAAAAAGAAAAAAATTAAAGAAAAAGT
1 AAAAAA-AACAAAATTAAAAAAAAAGT
*
62108330 AAAAAAAACAAATTTAAAAAAAAA
1 AAAAAAAACAAAATTAAAAAAAAA
62108354 ACCAAAAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (26 bp):
AAAAAAAACAAAATTAAAAAAAAAGT
Found at i:62114950 original size:14 final size:14
Alignment explanation
Indices: 62114933--62114962 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62114923 CCTTCTGGTT
62114933 CCTTTCTTGCTTTC
1 CCTTTCTTGCTTTC
62114947 CCTTTCTTGCTTTC
1 CCTTTCTTGCTTTC
62114961 CC
1 CC
62114963 CCTGCTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (14 bp):
CCTTTCTTGCTTTC
Found at i:62121148 original size:28 final size:27
Alignment explanation
Indices: 62121090--62121155 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
62121080 GGGAATGAAC
*
62121090 TATATACAT-AATAGATTTAAAAAAAA
1 TATATATATAAATAGATTTAAAAAAAA
* * *
62121116 CATATATATAAATAGATTTAGAATAAAT
1 TATATATATAAATAGATTTA-AAAAAAA
*
62121144 TATATGTATAAA
1 TATATATATAAA
62121156 ATAACATGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.22
27 10 0.31
28 15 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (27 bp):
TATATATATAAATAGATTTAAAAAAAA
Found at i:62122951 original size:90 final size:89
Alignment explanation
Indices: 62122857--62123033 Score: 196
Period size: 90 Copynumber: 2.0 Consensus size: 89
62122847 GAGATAAGGA
* * * * * *
62122857 TGGTGGCTTCAATCTGC-TCCACTGCAACTTCAGGGAGATGAGATCTGCTATCTTC-AGTCTACT
1 TGGTGACTTAAATCTGCTTCC-CTGCAACCTCAGGAAGATAAGATCTGCCATCTTCGA-TCTACT
62122920 CCACTACAACTTCAGGGAGATAAGACT
64 CCACTACAACTT-AGGGAGATAAGACT
* * * * * *
62122947 TGGTGACTTAAATCTGCTTCCTTGCTACCTCAGGAAGATAATATTTGCCATCTTCGATCTGCTCT
1 TGGTGACTTAAATCTGCTTCCCTGCAACCTCAGGAAGATAAGATCTGCCATCTTCGATCTACTCC
*
62123012 ACTACTACTTAGGGAGATAAGA
66 ACTACAACTTAGGGAGATAAGA
62123034 TCTACAATCT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
89 12 0.17
90 56 0.78
91 4 0.06
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (89 bp):
TGGTGACTTAAATCTGCTTCCCTGCAACCTCAGGAAGATAAGATCTGCCATCTTCGATCTACTCC
ACTACAACTTAGGGAGATAAGACT
Found at i:62123133 original size:132 final size:135
Alignment explanation
Indices: 62122863--62123144 Score: 311
Period size: 132 Copynumber: 2.1 Consensus size: 135
62122853 AGGATGGTGG
* * * * * *
62122863 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATCTGCTATCTTCAGTCTACTCCACTACA
1 CTTCAATCTGCTCTACTACAACTTCAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACA
* * * * * *
62122928 ACTTCAGGGAGATAAGACTTGGTGACTTAAATCTGCTTCCTTGCTACCTCAGGAAGATAATATTT
66 ACTTCAGGGAGACAAGACTAGGTGACTTAAATCTACTCCCTTGCTACCTCAGGAAGATAAGATTC
62122993 GCCAT
131 GCCAT
* * * * *
62122998 CTTCGATCTGCTCTACTACTACTT-AGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTCCT
1 CTTCAATCTGCTCTACTACAACTTCAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACA
* * * *
62123062 GCTT-AGGGAGACAAGGCTAGCG-G-CTTGAATCTACTCCCTTGCTACCTCAGGGAGATAAGATT
66 ACTTCAGGGAGACAAGACTAG-GTGACTTAAATCTACTCCCTTGCTACCTCAGGAAGATAAGATT
* *
62123124 CGTCGT
130 CGCCAT
*
62123130 CTTCAAACTGCTCTA
1 CTTCAATCTGCTCTA
62123145 TTGCTACCTC
Statistics
Matches: 121, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
132 50 0.41
133 14 0.12
134 37 0.31
135 20 0.17
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (135 bp):
CTTCAATCTGCTCTACTACAACTTCAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACA
ACTTCAGGGAGACAAGACTAGGTGACTTAAATCTACTCCCTTGCTACCTCAGGAAGATAAGATTC
GCCAT
Found at i:62139003 original size:38 final size:36
Alignment explanation
Indices: 62138960--62139091 Score: 140
Period size: 39 Copynumber: 3.5 Consensus size: 36
62138950 ATAAAGTATG
62138960 GTTTTAATTAATAATAAATAAAATAGTATGAGGAAGTA
1 GTTTTAATTAATAATAAA-AAAATAGTAT-AGGAAGTA
* *
62138998 GTTTTAATTAACAATAAAACAAGATAGTATAGGGAAATA
1 GTTTTAATTAATAATAAAA-AA-ATAGTATA-GGAAGTA
* * * *
62139037 GTTTTAATTAAATAA-AACAAAATAGCATAGGGAGTG
1 GTTTTAATT-AATAATAAAAAAATAGTATAGGAAGTA
*
62139073 GTTTTGATTAATAATAAAA
1 GTTTTAATTAATAATAAAA
62139092 CAAAGTAGCA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
35 5 0.06
36 15 0.19
37 8 0.10
38 22 0.28
39 25 0.32
40 4 0.05
ACGTcount: A:0.49, C:0.03, G:0.16, T:0.32
Consensus pattern (36 bp):
GTTTTAATTAATAATAAAAAAATAGTATAGGAAGTA
Found at i:62139094 original size:38 final size:38
Alignment explanation
Indices: 62138960--62139102 Score: 157
Period size: 38 Copynumber: 3.8 Consensus size: 38
62138950 ATAAAGTATG
* * *
62138960 GTTTTAATTAATAAT-AAATAAAATAGTATGAGGAAGTA
1 GTTTTAATTAATAATAAAACAAAATAGCAT-AGGGAGTA
* * * *
62138998 GTTTTAATTAACAATAAAACAAGATAGTATAGGGAAATA
1 GTTTTAATTAATAATAAAACAAAATAGCATAGGG-AGTA
*
62139037 GTTTTAATT-A-AATAAAACAAAATAGCATAGGGAGTG
1 GTTTTAATTAATAATAAAACAAAATAGCATAGGGAGTA
* *
62139073 GTTTTGATTAATAATAAAACAAAGTAGCAT
1 GTTTTAATTAATAATAAAACAAAATAGCAT
62139103 GGGGGGAGTG
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
36 10 0.11
37 21 0.23
38 35 0.39
39 24 0.27
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGCATAGGGAGTA
Found at i:62139637 original size:24 final size:26
Alignment explanation
Indices: 62139610--62139658 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
62139600 TGTATATACC
*
62139610 ATGTAAATATTTTA-ATAT-TATATT
1 ATGTAAACATTTTATATATATATATT
*
62139634 ATGTATACATTTTATATATATATAT
1 ATGTAAACATTTTATATATATATAT
62139659 CTTTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
ATGTAAACATTTTATATATATATATT
Found at i:62140765 original size:19 final size:21
Alignment explanation
Indices: 62140741--62140779 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
62140731 ACTCCCGTTT
62140741 TCATTTTT-AAAA-TCGATTC
1 TCATTTTTCAAAACTCGATTC
62140760 TCATTTTTCAAAACTCGATT
1 TCATTTTTCAAAACTCGATT
62140780 TGAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.46
Consensus pattern (21 bp):
TCATTTTTCAAAACTCGATTC
Found at i:62147128 original size:20 final size:22
Alignment explanation
Indices: 62147103--62147146 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
62147093 CATTATAACA
*
62147103 ACTTTAC-TAGAAGAAA-AATT
1 ACTTTACATAGAACAAATAATT
62147123 ACTTTACATAGAACAAATAATT
1 ACTTTACATAGAACAAATAATT
62147145 AC
1 AC
62147147 ATATACAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (22 bp):
ACTTTACATAGAACAAATAATT
Found at i:62150442 original size:28 final size:27
Alignment explanation
Indices: 62150384--62150449 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
62150374 GGGAATGAAC
*
62150384 TATATACAT-AATAGATTTAAAAAAAA
1 TATATATATAAATAGATTTAAAAAAAA
* * *
62150410 CATATATATAAATAGATTTAGAATAAAT
1 TATATATATAAATAGATTTA-AAAAAAA
*
62150438 TATATGTATAAA
1 TATATATATAAA
62150450 ATAACATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.22
27 10 0.31
28 15 0.47
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (27 bp):
TATATATATAAATAGATTTAAAAAAAA
Found at i:62166610 original size:34 final size:34
Alignment explanation
Indices: 62166572--62166641 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
62166562 CAAAGAGGAG
* *
62166572 TCAATGGCATTTTCGCAAGGTAATACCTCACCTC
1 TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
62166606 TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
1 TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
62166640 TC
1 TC
62166642 TCTTCTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (34 bp):
TCAATGGCATATTCGCAAGGTAAGACCTCACCTC
Found at i:62170246 original size:13 final size:13
Alignment explanation
Indices: 62170221--62170281 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
62170211 TTATGTTAAT
*
62170221 ATTTTA-TAGTAA
1 ATTTTAGTAATAA
62170233 ATTTTAGTAATAAA
1 ATTTTAGTAAT-AA
**
62170247 ATTTTAG-AGATGG
1 ATTTTAGTA-ATAA
62170260 ATTTTAGTAATACA
1 ATTTTAGTAATA-A
62170274 ATTTTAGT
1 ATTTTAGT
62170282 TTATTTGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.15
13 13 0.33
14 20 0.51
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (13 bp):
ATTTTAGTAATAA
Found at i:62170700 original size:21 final size:22
Alignment explanation
Indices: 62170659--62170701 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
62170649 TAAATTGATT
* *
62170659 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAACATAAC
62170681 CATTAAAAAT-TAAAACATAAC
1 CATTAAAAATGTAAAACATAAC
62170702 TAAAAAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CATTAAAAATGTAAAACATAAC
Found at i:62172808 original size:14 final size:15
Alignment explanation
Indices: 62172784--62172823 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
62172774 AATAATAATA
*
62172784 ATAATAATAAAAGGG
1 ATAATAATAAAAGGC
*
62172799 ATAA-AATAAAATGC
1 ATAATAATAAAAGGC
62172813 ATAATAATAAA
1 ATAATAATAAA
62172824 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (15 bp):
ATAATAATAAAAGGC
Found at i:62174299 original size:13 final size:12
Alignment explanation
Indices: 62174272--62174315 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
62174262 CTTTGAACTC
*
62174272 TTTA-TTTGATT
1 TTTATTTTGTTT
62174283 TTTATTTTGTTT
1 TTTATTTTGTTT
62174295 ATTTATTTTTGTTT
1 -TTTA-TTTTGTTT
62174309 TTTATTT
1 TTTATTT
62174316 GGGCTGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 8 0.28
14 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTATTTTGTTT
Found at i:62174310 original size:20 final size:20
Alignment explanation
Indices: 62174272--62174309 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62174262 CTTTGAACTC
62174272 TTTATTTGATTTTTATTTTG
1 TTTATTTGATTTTTATTTTG
*
62174292 TTTATTT-ATTTTTGTTTT
1 TTTATTTGATTTTTATTTT
62174310 TTATTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTATTTGATTTTTATTTTG
Found at i:62175969 original size:21 final size:20
Alignment explanation
Indices: 62175940--62175979 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
62175930 CCAGTAGCCC
62175940 CCCTCTCTC-CTTTCCTCTCT
1 CCCTCTCTCTC-TTCCTCTCT
62175960 CCCTCCTCTCTCTTCCTCTC
1 CCCT-CTCTCTCTTCCTCTC
62175980 CATTCTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.42
Consensus pattern (20 bp):
CCCTCTCTCTCTTCCTCTCT
Found at i:62176461 original size:19 final size:19
Alignment explanation
Indices: 62176437--62176479 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
62176427 TTTTGTTTCT
62176437 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
62176456 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
62176475 TTATT
1 TTATT
62176480 GTAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTAAATATTGTTATTA
Found at i:62176907 original size:20 final size:20
Alignment explanation
Indices: 62176857--62176928 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
62176847 ATATTCTTGC
* *
62176857 ATTATGTATATTATTCTTTTT
1 ATTATGTATATT-TTCTATAT
*
62176878 AAATAT-TATATTTTCTATAT
1 -ATTATGTATATTTTCTATAT
*
62176898 ATTATGTATACATTT-TATAT
1 ATTATGTATA-TTTTCTATAT
*
62176918 ATTACGTATAT
1 ATTATGTATAT
62176929 ATCTTTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 4 0.10
20 24 0.59
21 9 0.22
22 4 0.10
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTATGTATATTTTCTATAT
Found at i:62177563 original size:21 final size:22
Alignment explanation
Indices: 62177539--62177594 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
62177529 TCTCATATAT
*
62177539 TATTATATTATTTATTAT-ACC
1 TATTATTTTATTTATTATCACC
*
62177560 TATTATTTTCA-TTATTATCACT
1 TATTATTTT-ATTTATTATCACC
62177582 TATTATTTTATTT
1 TATTATTTTATTT
62177595 TAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTATTTATTATCACC
Found at i:62177588 original size:22 final size:21
Alignment explanation
Indices: 62177550--62177590 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
62177540 ATTATATTAT
62177550 TTATTATACCTATTATTTTCA
1 TTATTATACCTATTATTTTCA
*
62177571 TTATTATCACTTATTATTTT
1 TTATTAT-ACCTATTATTTT
62177591 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATACCTATTATTTTCA
Found at i:62177602 original size:38 final size:37
Alignment explanation
Indices: 62177509--62177604 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 37
62177499 CTTGTATACA
* *
62177509 TATTTTATATATAGTATTATTCTCATATATTATTATAT
1 TATTTTAT-TATAATATTATTCTCATATATTATCATAT
* *
62177547 TA-TTTATTATACCTATTATTTTCAT-TATTATCACTTAT
1 TATTTTATTATA-ATATTATTCTCATATATTATCA--TAT
*
62177585 TATTTTATTTTAATATTATT
1 TATTTTATTATAATATTATT
62177605 ATGTATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 11 0.22
37 16 0.33
38 14 0.29
39 8 0.16
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTTTATTATAATATTATTCTCATATATTATCATAT
Found at i:62189678 original size:84 final size:84
Alignment explanation
Indices: 62189574--62189728 Score: 242
Period size: 84 Copynumber: 1.8 Consensus size: 84
62189564 TGATATTTTT
* *
62189574 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-GACACGT-GAGGT
1 ATTTATGTTTTCAAAAATCAACTCATATTGC-AG-AAGGAGTTGAGCCTCAGGACACGTCGAGGT
62189637 ATTTTCAATTTCTATTTCTCA
64 ATTTTCAATTTCTATTTCTCA
* *
62189658 ATTTATGTTTTCAAAAATCAACTCATATTGCAGAGGGAGTTGAGCCTCAGGTCACGTCGAGGTAT
1 ATTTATGTTTTCAAAAATCAACTCATATTGCAGAAGGAGTTGAGCCTCAGGACACGTCGAGGTAT
62189723 TTTCAA
66 TTTCAA
62189729 ATTTGCTCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
82 14 0.22
83 8 0.12
84 43 0.66
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (84 bp):
ATTTATGTTTTCAAAAATCAACTCATATTGCAGAAGGAGTTGAGCCTCAGGACACGTCGAGGTAT
TTTCAATTTCTATTTCTCA
Found at i:62190046 original size:86 final size:85
Alignment explanation
Indices: 62189926--62190140 Score: 310
Period size: 86 Copynumber: 2.5 Consensus size: 85
62189916 TAATTTCTAC
*
62189926 TTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
* *
62189991 ATTTTGTCTTTAATTTCGA-AT-
66 ATTTT-TATTT--TTTCAATATA
* *
62190012 TTTTCAAAAATCAACTCATATTTGCGA-AGGTGAGTTGAGCCTCAGGATACGCTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATA-TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
62190076 AATTTTTATTTTTTCAATTATA
65 AATTTTTATTTTTTCAA-TATA
*
62190098 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
62190141 GGCTCGCATG
Statistics
Matches: 118, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
83 5 0.04
85 12 0.10
86 95 0.81
87 6 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (85 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTTTATTTTTTCAATATA
Found at i:62190141 original size:273 final size:260
Alignment explanation
Indices: 62189665--62190178 Score: 628
Period size: 273 Copynumber: 1.9 Consensus size: 260
62189655 TCAATTTATG
* *
62189665 TTTTCAAAAATCAACTCATATTGCAGAGGGAGTTGAGCCTCAGGTCACGTCGAGGTATTTTCAAA
1 TTTTCAAAAATCAACTCATATTGCAGAGGGAGTTGAGCCTCAGGACACGTCGAGGTAATTTCAAA
* *
62189730 TTTGCTCTTAAGTTTCAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCAGGCTCACGTTGA
66 TTTGCTCTTAAGTTTCAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCAGGATCACGCTGA
* * *
62189795 GCTTTTTCAATTTCTGTTTTTAATGTTTATTTTTAAAAATTCAATTCATATTGCGAGAGGTGAGT
131 GCTTTTTCAATTTCTGTTTTTAATGTATATTTTCAAAAATTCAACTCATATTGCGAGAGGTGAGT
* * *
62189860 TGAGCCTCGGGTCACATGCCGAGGTATTTTCAATTCTGTTGTTCAAATTATGTTTTTAATTTCTA
196 TCAGCCTCGGCTCACATGCCGAGGTATTTTCAATTCTATT-TTCAAATTATGTTTTTAATTTCTA
62189925 C
260 C
*
62189926 TTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGACACG-CTGAGGTAATTTC
1 TTTTCAAAAATCAACTCATATTGC-AGAGG-GAGTTGAGCCTCAGGACACGTC-GAGGTAATTTC
* *
62189990 AATTTTG-TCTTTAA-TTTCGAATTTTTCAAAAATCAACTCATATTTGCGA-AGGTGAGTTGAGC
63 AAATTTGCTC-TTAAGTTTC-AA------AAAAA-AAACTCATA-TTGCGAGAGGTGAGTTGAG-
* * *
62190052 CTCAGGAT-ACGCTGAGGTATTTTCAATTTTTATTTTTTCAAT-TATATTTTCAAAAA-TCAACT
117 --CAGGATCACGCTGAGCT-TTTTCAATTTCT-GTTTTT-AATGTATATTTTCAAAAATTCAACT
* * *
62190114 CATATTGCGAGAGGTGAGTTCAGCCTCGGCTCGCATGCTGAGGTATTTTCAGTTCTATTTTCAAA
177 CATATTGCGAGAGGTGAGTTCAGCCTCGGCTCACATGCCGAGGTATTTTCAATTCTATTTTCAAA
62190179 NNNNNNNNNN
Statistics
Matches: 215, Mismatches: 19, Indels: 27
0.82 0.07 0.10
Matches are distributed among these distances:
261 24 0.11
262 11 0.05
263 41 0.19
269 5 0.02
270 20 0.09
271 6 0.03
272 14 0.07
273 74 0.34
274 17 0.08
275 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (260 bp):
TTTTCAAAAATCAACTCATATTGCAGAGGGAGTTGAGCCTCAGGACACGTCGAGGTAATTTCAAA
TTTGCTCTTAAGTTTCAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCAGGATCACGCTGA
GCTTTTTCAATTTCTGTTTTTAATGTATATTTTCAAAAATTCAACTCATATTGCGAGAGGTGAGT
TCAGCCTCGGCTCACATGCCGAGGTATTTTCAATTCTATTTTCAAATTATGTTTTTAATTTCTAC
Found at i:62202641 original size:14 final size:15
Alignment explanation
Indices: 62202617--62202656 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
62202607 AATAATAATA
*
62202617 ATAATAATAAAAGGG
1 ATAATAATAAAAGGC
*
62202632 ATAA-AATAAAATGC
1 ATAATAATAAAAGGC
62202646 ATAATAATAAA
1 ATAATAATAAA
62202657 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (15 bp):
ATAATAATAAAAGGC
Found at i:62204115 original size:17 final size:18
Alignment explanation
Indices: 62204086--62204127 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
62204076 ACTTTGACTC
62204086 TTATTTGATTTTT-TTTGT
1 TTATTTGATTTTTGTTT-T
62204104 TTATTT-ATTTTTGTTTT
1 TTATTTGATTTTTGTTTT
62204121 TTATTTG
1 TTATTTG
62204128 GGCTGGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (18 bp):
TTATTTGATTTTTGTTTT
Found at i:62205741 original size:19 final size:19
Alignment explanation
Indices: 62205717--62205753 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
62205707 CAGTAGCCCC
62205717 CCTCTCTC-CTTTCCTCTCT
1 CCTCTCTCTC-TTCCTCTCT
62205736 CCTCTCTCTCTTCCTCTC
1 CCTCTCTCTCTTCCTCTC
62205754 CATTCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (19 bp):
CCTCTCTCTCTTCCTCTCT
Found at i:62206223 original size:18 final size:19
Alignment explanation
Indices: 62206202--62206243 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
62206192 TTTTGTTTCT
62206202 TTATTAAATA-TGTTATTA
1 TTATTAAATATTGTTATTA
62206220 TTATTAAATATTGTTATTA
1 TTATTAAATATTGTTATTA
62206239 TTATT
1 TTATT
62206244 GTAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTAAATATTGTTATTA
Found at i:62206664 original size:20 final size:20
Alignment explanation
Indices: 62206614--62206678 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
62206604 ATATTCTTGC
* *
62206614 ATTATGTATATTATTCTTTTT
1 ATTATGTATATT-TTCTATAT
*
62206635 AAATAT-TATATTTTCTATAT
1 -ATTATGTATATTTTCTATAT
*
62206655 ATTATGTATACATTT-TATAT
1 ATTATGTATA-TTTTCTATAT
62206675 ATTA
1 ATTA
62206679 CTATATATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 4 0.11
20 19 0.53
21 9 0.25
22 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTATGTATATTTTCTATAT
Found at i:62206696 original size:22 final size:20
Alignment explanation
Indices: 62206650--62206697 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
62206640 TTATATTTTC
*
62206650 TATATATTATGTATACATTT
1 TATATATTATATATACATTT
62206670 TATATATTACTATATATC-TTT
1 TATATATTA-TATATA-CATTT
62206691 TA-ATATT
1 TATATATT
62206698 GTATTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 14 0.56
21 10 0.40
22 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
TATATATTATATATACATTT
Found at i:62207293 original size:8 final size:8
Alignment explanation
Indices: 62207280--62207361 Score: 53
Period size: 8 Copynumber: 9.8 Consensus size: 8
62207270 ATTATTCTCA
62207280 TATATTAT
1 TATATTAT
62207288 TATATTAT
1 TATATTAT
62207296 T-TATTA-
1 TATATTAT
62207302 TACTATTAT
1 TA-TATTAT
62207311 T-TCATTAT
1 TAT-ATTAT
62207319 TATCACTTAT
1 TAT-A-TTAT
*
62207329 TATTTTAT
1 TATATTAT
* *
62207337 TTTAATAT
1 TATATTAT
62207345 TATTATGTAT
1 TA-TAT-TAT
62207355 ATATATT
1 -TATATT
62207362 TTGTATATGT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.02
7 6 0.10
8 30 0.51
9 7 0.12
10 13 0.22
11 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (8 bp):
TATATTAT
Done.