Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 4 of 161
Found at i:1043969 original size:88 final size:88
Alignment explanation
Indices: 1043734--1044297 Score: 889
Period size: 88 Copynumber: 6.4 Consensus size: 88
1043724 GAAATATGTA
* * *
1043734 AGCCTGGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAAATTACAGATCTTATTTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
*
1043799 TAGTGGAGCAGATCGAATACCCC
66 TAGTGGAGCAGATCGAAGACCCC
*
1043822 AGCCTTGTCTCCCTGA-CAGCAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
*
1043886 TAGTGGACCAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
* *
1043909 AGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
*
1043974 TAGTGGACCAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
* *
1043997 AGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
* *
1044062 TAGTAGAGTAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
* * * * *
1044085 AGCCTTTTGTCCCTGAGCAACAGTAGAGTAGGTTG-AAAATTACAGATCTTATCTCCCTAAGCAA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
* * **
1044149 TAGTGGAGCAAATTGAAGACTTC
66 TAGTGGAGCAGATCGAAGACCCC
* *
1044172 AGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAATTGCAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
1044237 TAGTGGAGCAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
*
1044260 AGCCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
1044298 GCAGAGTAGA
Statistics
Matches: 437, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 155 0.35
88 282 0.65
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACCCC
Found at i:1044126 original size:175 final size:176
Alignment explanation
Indices: 1043741--1044297 Score: 884
Period size: 175 Copynumber: 3.2 Consensus size: 176
1043731 GTAAGCCTGG
* *
1043741 TCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAAATTACAGATCTTATTTCCCTAAGCAGTAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* *
1043806 GCAGATCGAATACCCCAGCCTTGTCTCCCTGA-CAGCAGTGGAGTAGGTTAAAAAATTACAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
*
1043870 TTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGCCTTA
131 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
*
1043916 TCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* * *
1043981 CCAGATCGAAGACCCCAGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
* * *
1044046 TTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACCCCAGCCTTT
131 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
* * * *
1044092 TGTCCCTGAGCAACAGTAGAGTAGGTTG-AAAATTACAGATCTTATCTCCCTAAGCAATAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* * ** * *
1044156 GCAAATTGAAGACTTCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAATTGCAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
*
1044221 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTG
131 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
*
1044267 TCTCCCTGAACAGCAGTGGAGTAGGTTGAAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
1044298 GCAGAGTAGA
Statistics
Matches: 347, Mismatches: 33, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
175 248 0.71
176 99 0.29
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (176 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
Found at i:1044221 original size:263 final size:263
Alignment explanation
Indices: 1043741--1044297 Score: 882
Period size: 263 Copynumber: 2.1 Consensus size: 263
1043731 GTAAGCCTGG
* * *
1043741 TCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAAATTACAGATCTTATTTCCCTAAGCAGTAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGA
* * *
1043806 GCAGATCGAATACCCCAGCCTTGTCTCCCTGACAGCAGTGGAGTAGGTTAAAAAATTACAGATCT
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGACAACAGTAGAGTAGGTTAAAAAATTACAGATCT
* * *
1043871 TATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGCCTTATCTCCTTGAGCAGCAGTGGA
131 TATCTCCCTAAGCAATAGTGGACCAAATCGAAGACCCCAGCCTTATCTCCCTGAGCAGCAGTGGA
1043936 GTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGCC
196 GTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGCC
1044001 TTA
261 TTA
*
1044004 TCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGA
* * * *
1044069 GTAGATCGAAGACCCCAGCCTTTTGTCCCTGAGCAACAGTAGAGTAGGTT-GAAAATTACAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGA-CAACAGTAGAGTAGGTTAAAAAATTACAGATC
* * ** * *
1044133 TTATCTCCCTAAGCAATAGTGGAGCAAATTGAAGACTTCAGCCTTGTCTCCCTGAGTAGCAGTGG
130 TTATCTCCCTAAGCAATAGTGGACCAAATCGAAGACCCCAGCCTTATCTCCCTGAGCAGCAGTGG
* *
1044198 AGTAGGTTGAAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGC
195 AGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGC
*
1044263 CTTG
260 CTTA
*
1044267 TCTCCCTGAACAGCAGTGGAGTAGGTTGAAA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
1044298 GCAGAGTAGA
Statistics
Matches: 268, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
263 253 0.94
264 15 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (263 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGA
GCAGATCGAAGACCCCAGCCTTGTCTCCCTGACAACAGTAGAGTAGGTTAAAAAATTACAGATCT
TATCTCCCTAAGCAATAGTGGACCAAATCGAAGACCCCAGCCTTATCTCCCTGAGCAGCAGTGGA
GTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGCC
TTA
Found at i:1044410 original size:89 final size:88
Alignment explanation
Indices: 1044297--1044635 Score: 399
Period size: 89 Copynumber: 3.8 Consensus size: 88
1044287 GTAGGTTGAA
* * * * ** *
1044297 AGCAGAGTAGACTGAAGATAGCAGATCTTGCCTTTCTGTACCAACAGCGAAGCAAATCGAAGACA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* *
1044362 CTAGCCTTGCCTCCCTAGGTTTCC
66 CCAGCCTTGCCTCCCT-GGTTTAC
* * * *
1044386 AACAGAGCAGACTAAAGACAGCAGATCTTGTCTTCCTGTACTGACAGCAAAGCAGATCAAAGACA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* *
1044451 CCAGCCTTGCCTCCTTGGGTTGAC
66 CCAGCCTTGCCTCCCT-GGTTTAC
* * * *
1044475 AGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* *
1044540 CCAGCCTTGCCTCCCTGGGTTGC
66 CCAGCCTTGCCTCCCTGGTTTAC
* * * * * * *
1044563 AGCGGAGCAGACTAAAAACACCAGATATTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAATACA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
*
1044628 CCAACCTT
66 CCAGCCTT
1044636 ATTTCCTTGA
Statistics
Matches: 212, Mismatches: 38, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
88 67 0.32
89 145 0.68
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
CCAGCCTTGCCTCCCTGGTTTAC
Found at i:1044485 original size:44 final size:43
Alignment explanation
Indices: 1044356--1044618 Score: 129
Period size: 45 Copynumber: 5.9 Consensus size: 43
1044346 AAGCAAATCG
* * ** *
1044356 AAGACACTAGCCTTGCCTCCCTAGGTTTCCAAC-AGAGCAGACTA
1 AAGACACCAGCCTTGCCT-CCTGGGTTGACAGCGA-AGCAGACTA
* * * *** *
1044400 AAGACAGCAGATCTTGTCTTCCTGTACTGACAGCAAAGCAGA-TCA
1 AAGACACCAG-CCTTG-CCTCCTGGGTTGACAGCGAAGCAGACT-A
* *
1044445 AAGACACCAGCCTTGCCTCCTTGGGTTGACAGCGGAGCAGACTG
1 AAGACACCAGCCTTGCCTCC-TGGGTTGACAGCGAAGCAGACTA
* * * *** *
1044489 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA-TCG
1 AAGACACCAG-CCTTGCC-TCCTGGGTTGACAGCGAAGCAGACT-A
* *
1044534 AAGATACCAGCCTTGCCTCCCTGGGTTG-CAGCGGAGCAGACTA
1 AAGACACCAGCCTTGCCT-CCTGGGTTGACAGCGAAGCAGACTA
* ** ** *
1044577 AAAACACCAGATATTGCCTTCCTGTATTGGCAGCGAAGCAGA
1 AAGACACCAG-CCTTGCC-TCCTGGGTTGACAGCGAAGCAGA
1044619 TCGAATACAC
Statistics
Matches: 164, Mismatches: 41, Indels: 27
0.71 0.18 0.12
Matches are distributed among these distances:
43 24 0.15
44 62 0.38
45 72 0.44
46 6 0.04
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (43 bp):
AAGACACCAGCCTTGCCTCCTGGGTTGACAGCGAAGCAGACTA
Found at i:1044629 original size:45 final size:45
Alignment explanation
Indices: 1044407--1044630 Score: 147
Period size: 45 Copynumber: 5.0 Consensus size: 45
1044397 CTAAAGACAG
* * * *
1044407 CAGATCTTGTCTTCCTGTACTGACAGCAAAGCAGATC-AAAGACAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAA-ACAC
* ** * * * * *
1044452 CAG-CCTTGCC-TCCTTGGGTTGACAGCGGAGCAGA-CTGAAGATAG
1 CAGATCTTGCCTTCC-TGTATTGGCAGCGAAGCAGATC-GAAAACAC
* * * *
1044496 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACAC
* * ** * *
1044541 CAG-CCTTGCCTCCCTGGGTT-GCAGCGGAGCAGA-CTAAAAACAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATC-GAAAACAC
* *
1044584 CAGATATTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAATACAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACAC
1044629 CA
1 CA
1044631 ACCTTATTTC
Statistics
Matches: 135, Mismatches: 34, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 23 0.17
44 49 0.36
45 57 0.42
46 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (45 bp):
CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACAC
Found at i:1045132 original size:129 final size:129
Alignment explanation
Indices: 1044900--1045928 Score: 1425
Period size: 129 Copynumber: 8.0 Consensus size: 129
1044890 CAACAACGAA
* * * * *
1044900 TCTTATCTCCCTGAGGTTACAGTGGAACAGATTA-AAGAAATC-AATCCTATTTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAA-CAAATCCTATCTCCCTGAAGTTG
* * * *
1044963 CAGTGGAGCAGATTAAAACCACAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGATCACATCCA
64 CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
1045028 G
129 G
* * * *
1045029 TCTTATCTCACAGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * *
1045094 GTGGAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTGTAATAGAGCAGATCGCATACAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* * * * * * *
1045158 TCTTATATTCCTAAAGTTGTAGTGGAGTAGAAAGAAGAAACAAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * **
1045223 GTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGTAGTAGAGTGGATCGCATCCTA-
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC-AG
* * * *
1045287 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * *
1045352 GTGGAGCGAATTAAAACCACAAATCTTATCTTTCTAAAGTTGCAGTAGAGCAGATCGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* ** *
1045416 TCTTATCTCCCTGAAGTTGCGGTAAAGCATACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * * *
1045481 GTGGAACGGATTAAAACCATAGATCTTATCGCTCTGAAGTTGCAGTAGAGTAGATAGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* **
1045545 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* *
1045610 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* *
1045674 TATTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * * *
1045739 GTGGAGCGAATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTATAGCAAATCGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* * *
1045803 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACAAATCTTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * *
1045868 GTGCAGCGGATTAAAACCACAAATCTCATATCTCTGAAGTTGCAGTAGAGCAGATCGCATC
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
1045929 AGAATTATCT
Statistics
Matches: 789, Mismatches: 107, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
128 3 0.00
129 785 0.99
130 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
Found at i:1045554 original size:85 final size:83
Alignment explanation
Indices: 1044951--1045830 Score: 341
Period size: 85 Copynumber: 10.3 Consensus size: 83
1044941 CAATCCTATT
* * *
1044951 TCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTATGAAGTTGCAGTAGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C-CAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
*
1045016 AGATCA-CATCCAGTCTTATC
64 AGAT-AGAATCCAGTCTTATC
* * * * ** * * *
1045036 TCACAGAAGTTGCAGTGGAGTAGACAGAAGAAACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAG-CG-GATTA-AAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
1045100 CGGGTTAAAACCACAGATCTTATC
63 C-AGATAGAATC-CAG-TCTTATC
* * * * * ** * * * *
1045124 TCTCTGAAGTTGTAATAGAGCAGATCGCATA-CAG-TCTTATAT-TCCTAAAGTTGTAGTGGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGAT-TAAAACCAGATCTTATCTCT-CTGAAGTTGCAGT--AG-
* * * * *
1045186 AGAAAGA-AGAAACAAATCCTATC
61 AG-CAGATAGAATCCAGTCTTATC
* * * *
1045209 TCCCTGAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGTAGTAGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACC--AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
* * *
1045274 GGATCGCATCCTA-TCTTATC
64 AGATAGAATCC-AGTCTTATC
* * ** * * * * *
1045294 TCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCA-ATCCTATCTCCCTAAAGTTACAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * *
1045358 C-GAATTAAAACCACAAATCTTATC
63 CAG-A-TAGAATC-C-AGTCTTATC
** * * * *** * * *
1045382 TTTCTAAAGTTGCAGTAGAGCAGATCGCATCCAG-TCTTATCTCCCTGAAGTTGCGGTAAAGCAT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAGATCTTATCTCTCTGAAGTTGCAGT--AG-A-
* * * * *
1045446 ACAGA-AGAAACAAATCCTATC
62 GCAGATAGAATCCAGTCTTATC
* * *
1045467 TCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCGCTCTGAAGTTGCAGTAGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACC--AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
*
1045532 AGATAGCATCCAGTCTTATC
64 AGATAGAATCCAGTCTTATC
* ** * * ** *
1045552 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCA-ATCCTATCTCCCTGAAGTTATAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * *
1045616 CGGATTAAAACCACAGATCTTATC
63 CAGA-TAGAATC-CAG-TCTTATC
* * * * * * * *
1045640 TCTCTGAAGTTGTAGTAGAGCAGATCACATCCAG-TATTATCTC-CTTGAAGTTGCAGTGGAGCA
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAGATCTTATCTCTC-TGAAGTTGCAGT--AG-A
* * * *
1045703 GACAGA-AGAAACAAATCCTATC
62 G-CAGATAGAATCCAGTCTTATC
* * *
1045725 TCCCTGAAGTTGCAGTGGAGCGAATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTATAGC
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACC--AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
* * *
1045790 AAATCGCATCCAGTCTTATC
64 AGATAGAATCCAGTCTTATC
*
1045810 TCCCTGAAGTTGTAGTGGAGC
1 TCCCTGAAGTTGCAGTGGAGC
1045831 AGACAGAAGA
Statistics
Matches: 567, Mismatches: 173, Indels: 110
0.67 0.20 0.13
Matches are distributed among these distances:
84 12 0.02
85 334 0.59
86 30 0.05
87 36 0.06
88 147 0.26
89 7 0.01
90 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (83 bp):
TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
ATAGAATCCAGTCTTATC
Found at i:1046311 original size:24 final size:26
Alignment explanation
Indices: 1046265--1046316 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
1046255 CCAGCCGAAT
1046265 AAACACCAAAAGAAAAATAAAAAATA
1 AAACACCAAAAGAAAAATAAAAAATA
* *
1046291 AAACA-CAAAA-ATAAATAAAAATTA
1 AAACACCAAAAGAAAAATAAAAAATA
1046315 AA
1 AA
1046317 TAACAGTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 5 0.21
26 5 0.21
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.12
Consensus pattern (26 bp):
AAACACCAAAAGAAAAATAAAAAATA
Found at i:1054609 original size:23 final size:25
Alignment explanation
Indices: 1054578--1054629 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
1054568 AATATATTAA
1054578 TAATATAAATA-AAATATTA-C-TTT
1 TAATATAAATATAAA-ATTATCATTT
*
1054601 TAATGTAAATATAAAATTATCATTT
1 TAATATAAATATAAAATTATCATTT
1054626 TAAT
1 TAAT
1054630 CTATCAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 14 0.56
24 4 0.16
25 7 0.28
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATATAAATATAAAATTATCATTT
Found at i:1055860 original size:3 final size:3
Alignment explanation
Indices: 1055852--1055879 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1055842 AGAATTTCTA
1055852 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1055880 GTCTGCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1060142 original size:8 final size:8
Alignment explanation
Indices: 1060129--1060228 Score: 56
Period size: 8 Copynumber: 11.2 Consensus size: 8
1060119 TATAAAAATT
1060129 ATTTTAAA
1 ATTTTAAA
1060137 ATTTTAAA
1 ATTTTAAA
*
1060145 ACTTTAAAA
1 A-TTTTAAA
1060154 ATTATTAAA
1 ATT-TTAAA
* *
1060163 AGTATAAAA
1 A-TTTTAAA
*
1060172 ATTATAATA
1 ATTTTAA-A
1060181 TATATTTATACA
1 -AT-TTTA-A-A
1060193 ATTTTTAATA
1 A-TTTTAA-A
* *
1060203 TTTTTAAT
1 ATTTTAAA
1060211 ATTTTAAA
1 ATTTTAAA
1060219 ATTTTAAA
1 ATTTTAAA
1060227 AT
1 AT
1060229 AATTTTTATA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
8 30 0.43
9 24 0.34
10 5 0.07
11 8 0.11
12 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:1060144 original size:20 final size:19
Alignment explanation
Indices: 1060084--1060145 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
1060074 GCAATTAATT
1060084 AATTTTTTAAAAATTTTAAA
1 AATTTTTT-AAAATTTTAAA
***
1060104 AATTTAGAAGAAATTTATAAA
1 AATTTTTTA-AAATTT-TAAA
1060125 AATTATTTTAAAATTTTAAA
1 AATT-TTTTAAAATTTTAAA
1060145 A
1 A
1060146 CTTTAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 16 0.48
21 14 0.42
22 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AATTTTTTAAAATTTTAAA
Found at i:1060261 original size:9 final size:9
Alignment explanation
Indices: 1060130--1060268 Score: 52
Period size: 9 Copynumber: 14.9 Consensus size: 9
1060120 ATAAAAATTA
1060130 TTTTAAAA-
1 TTTTAAAAT
*
1060138 TTTTAAAAC
1 TTTTAAAAT
*
1060147 TTTAAAAAT
1 TTTTAAAAT
*
1060156 TATTAAAA-
1 TTTTAAAAT
* * *
1060164 GTATAAAAA
1 TTTTAAAAT
*
1060173 TTATAATATAT
1 TTTTAA-A-AT
*
1060184 ATTTATACAAT
1 -TTT-TAAAAT
*
1060195 TTTTAATAT
1 TTTTAAAAT
*
1060204 TTTTAATA-
1 TTTTAAAAT
1060212 TTTTAAAAT
1 TTTTAAAAT
*
1060221 TTTAAAATAAT
1 TTT-TAA-AAT
*
1060232 TTTTATAATT
1 TTTTA-AAAT
*
1060242 TTCTTCTAAAT
1 TT-TT-AAAAT
1060253 TTTTAAAA-
1 TTTTAAAAT
1060261 TTTTAAAA
1 TTTTAAAA
1060269 AAATAATTAA
Statistics
Matches: 99, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
8 28 0.28
9 36 0.36
10 13 0.13
11 17 0.17
12 3 0.03
13 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:1060269 original size:9 final size:9
Alignment explanation
Indices: 1060088--1060227 Score: 70
Period size: 9 Copynumber: 14.9 Consensus size: 9
1060078 TTAATTAATT
1060088 TTTTAAAAA
1 TTTTAAAAA
1060097 TTTTAAAAA
1 TTTTAAAAA
*
1060106 TTTAGAAGAAA
1 TTT-TAA-AAA
1060117 TTTATAAAAA
1 TTT-TAAAAA
*
1060127 TTATTTTAAAA
1 -T-TTTAAAAA
1060138 TTTT-AAAA
1 TTTTAAAAA
*
1060146 CTTTAAAAA
1 TTTTAAAAA
1060155 TTATT-AAAA
1 TT-TTAAAAA
* *
1060164 GTATAAAAA
1 TTTTAAAAA
* *
1060173 TTATAATATA
1 TTTTAA-AAA
*
1060183 TATTTATACAA
1 T-TTTA-AAAA
* *
1060194 TTTTTAATA
1 TTTTAAAAA
* *
1060203 TTTTTAATA
1 TTTTAAAAA
1060212 TTTT-AAAA
1 TTTTAAAAA
1060220 TTTTAAAA
1 TTTTAAAA
1060228 TAATTTTTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 22
0.73 0.11 0.15
Matches are distributed among these distances:
8 15 0.14
9 52 0.50
10 14 0.13
11 20 0.19
12 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:1060272 original size:20 final size:20
Alignment explanation
Indices: 1060212--1060272 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1060202 ATTTTTAATA
*
1060212 TTTTAAAATTTTAAAATAAT
1 TTTTAAAATTTTAAAAAAAT
* ****
1060232 TTTTATAATTTTCTTCTAAAT
1 TTTTAAAATTTT-AAAAAAAT
1060253 TTTTAAAATTTTAAAAAAAT
1 TTTTAAAATTTTAAAAAAAT
1060273 AATTAATTGC
Statistics
Matches: 29, Mismatches: 11, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAAATTTTAAAAAAAT
Found at i:1062543 original size:18 final size:17
Alignment explanation
Indices: 1062520--1062562 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1062510 AAACGTATAA
1062520 AAATATATAAAAAATTTT
1 AAATATATAAAAAA-TTT
* *
1062538 AAATATACAATAAATTT
1 AAATATATAAAAAATTT
1062555 -AATATATA
1 AAATATATA
1062563 GATAGTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 12 0.55
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATATAAAAAATTT
Found at i:1062732 original size:20 final size:20
Alignment explanation
Indices: 1062670--1062732 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
1062660 TATCCAACTG
1062670 AATGCTTCAACAATAGCAGC
1 AATGCTTCAACAATAGCAGC
*** *
1062690 AATGCCTTTGGC--TCG-AG-
1 AATG-CTTCAACAATAGCAGC
1062707 AATGCTTCAACAATAGCAGC
1 AATGCTTCAACAATAGCAGC
1062727 AATGCT
1 AATGCT
1062733 GAGAGTCAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 4 0.13
19 4 0.13
20 10 0.33
21 4 0.13
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
AATGCTTCAACAATAGCAGC
Found at i:1063493 original size:83 final size:84
Alignment explanation
Indices: 1063392--1063555 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 84
1063382 AAATTCTGTA
*
1063392 GTATTCAATATGGAGTAATTTTAAAAATTTCC-ATAAAGATACAAATATTTCCATTAAA-GGAGT
1 GTATTCAATATGGAGTAATTTTAAAAATTTCCAATAAAGATACAAACATTTCCATTAAATGG-GT
*
1063455 CTTTAAATTAGTTTTTATAG
65 CTTTAAATAAGTTTTTATAG
* * * *
1063475 GTATTCAATATGGGGTAATTTTGAAAATTTCCATAAATAAAGATACAAACCTTTTCATTAAATGG
1 GTATTCAATATGGAGTAATTTTAAAAATTTCC---AATAAAGATACAAACATTTCCATTAAATGG
1063540 GTCTTTAAATAAGTTT
63 GTCTTTAAATAAGTTT
1063556 GAATAAAATC
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
83 30 0.43
87 38 0.54
88 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (84 bp):
GTATTCAATATGGAGTAATTTTAAAAATTTCCAATAAAGATACAAACATTTCCATTAAATGGGTC
TTTAAATAAGTTTTTATAG
Found at i:1067286 original size:22 final size:22
Alignment explanation
Indices: 1067238--1067286 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1067228 TCATCAATGG
*
1067238 AAAATTGGAAAAAGAAAATGAT
1 AAAATTGGAAAAAGAAAATAAT
* ** *
1067260 TAAATTGGAAAGTGGAAATAAT
1 AAAATTGGAAAAAGAAAATAAT
1067282 AAAAT
1 AAAAT
1067287 ATGATAAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.22
Consensus pattern (22 bp):
AAAATTGGAAAAAGAAAATAAT
Found at i:1067825 original size:5 final size:5
Alignment explanation
Indices: 1067815--1067852 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
1067805 TCCTAGGATG
1067815 TGAAT TGAAT TGAAT TGAAT ATGAAT TGAAT ATGAAT T
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT -TGAAT T
1067853 TTATTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:1067841 original size:11 final size:11
Alignment explanation
Indices: 1067815--1067852 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
1067805 TCCTAGGATG
1067815 TGAATTGAAT-
1 TGAATTGAATA
1067825 TGAATTGAATA
1 TGAATTGAATA
1067836 TGAATTGAATA
1 TGAATTGAATA
1067847 TGAATT
1 TGAATT
1067853 TTATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:1068380 original size:26 final size:26
Alignment explanation
Indices: 1068316--1068382 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
1068306 TGAGTGTCCC
*
1068316 ATTATATGGCTCTTCGTGAGCTTACCG
1 ATTA-ATGGCTCTTCGTGAGCTTACCA
* * *
1068343 ATTAAAGACTCTTTGTGAGCTT-CCAA
1 ATTAATGGCTCTTCGTGAGCTTACC-A
1068369 ATTAATGGCTCTTC
1 ATTAATGGCTCTTC
1068383 AGAGTTTCCC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.06
26 26 0.81
27 4 0.12
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTAATGGCTCTTCGTGAGCTTACCA
Found at i:1069939 original size:16 final size:15
Alignment explanation
Indices: 1069914--1069944 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1069904 GACAATATGA
1069914 TTTTATATGTTTGAT
1 TTTTATATGTTTGAT
1069929 TTTTGATATGTTTGAT
1 TTTT-ATATGTTTGAT
1069945 GAATGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (15 bp):
TTTTATATGTTTGAT
Found at i:1071414 original size:50 final size:50
Alignment explanation
Indices: 1071338--1071461 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 50
1071328 TATTGAGGTT
* * * * * *
1071338 ATGAGATGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATGGGCACCGAG
* * * *
1071388 ATGAGAGGTCCCCCATAAGACTATGTCTAGAACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATGGGCACCGAG
** **
1071438 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACATAAGACCAT
1071462 ATCTGGGATA
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATGGGCACCGAG
Found at i:1071758 original size:20 final size:20
Alignment explanation
Indices: 1071733--1071771 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1071723 TGAGTTATTT
1071733 AAGTAAG-CAAGTAAGTAAAC
1 AAGTAAGACAA-TAAGTAAAC
1071753 AAGTAAGACAATAAGTAAA
1 AAGTAAGACAATAAGTAAA
1071772 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (20 bp):
AAGTAAGACAATAAGTAAAC
Found at i:1075988 original size:19 final size:19
Alignment explanation
Indices: 1075952--1075995 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
1075942 ATCATGTTCA
*
1075952 TATTTTTTACATAATTAAAT
1 TATTTTATACATAATT-AAT
*
1075972 TATTTTATA-ATATTTAAT
1 TATTTTATACATAATTAAT
1075990 TATTTT
1 TATTTT
1075996 TCGACAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTATACATAATTAAT
Found at i:1078161 original size:79 final size:81
Alignment explanation
Indices: 1078025--1078209 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
1078015 TTGAATGATG
*
1078025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1078089 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
1078104 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
1078166 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
1078184 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1078210 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:1078223 original size:40 final size:39
Alignment explanation
Indices: 1078026--1078209 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
1078016 TGAATGATGT
* * *
1078026 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
1078066 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
1078106 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
1078144 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
1078185 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1078210 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:1078231 original size:79 final size:79
Alignment explanation
Indices: 1078026--1078242 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
1078016 TGAATGATGT
** * * * **
1078026 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
1078089 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
1078106 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
1078171 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
1078185 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
1078243 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:1097092 original size:63 final size:59
Alignment explanation
Indices: 1097024--1097143 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 59
1097014 TATTAATGCG
* *
1097024 GTACAAACTAAGACACCATTAATAGACTTAGAACAACTAAACAATCAGACATGTAATAATGTT
1 GTACAAACTAAGACACAATTAATAAACTT--AACAA--AAACAATCAGACATGTAATAATGTT
* * *
1097087 GTACAAACTAGGACATAATTAATAAACTTAACAAAAATAATCAGACATGTAATAATG
1 GTACAAACTAAGACACAATTAATAAACTTAACAAAAACAATCAGACATGTAATAATG
1097144 CTATATGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 22 0.42
61 5 0.10
63 25 0.48
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (59 bp):
GTACAAACTAAGACACAATTAATAAACTTAACAAAAACAATCAGACATGTAATAATGTT
Found at i:1105613 original size:45 final size:45
Alignment explanation
Indices: 1105557--1105667 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
1105547 TACTAGTATG
* * * **
1105557 GTGTAGATAAACCACTCATTGGTACAAATAAAATTTGCTAGTACA
1 GTGTAGATAAACCACTAATCGATACAAATAAAAACTGCTAGTACA
* *
1105602 GTGTAAATAAACCACTAATCGATACAGATAAAAACTGCTAGTACA
1 GTGTAGATAAACCACTAATCGATACAAATAAAAACTGCTAGTACA
*
1105647 GTGTGGATAAACCACTAATCG
1 GTGTAGATAAACCACTAATCG
1105668 GTGTAGATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGTAGATAAACCACTAATCGATACAAATAAAAACTGCTAGTACA
Found at i:1105793 original size:34 final size:34
Alignment explanation
Indices: 1105730--1105794 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
1105720 ATGCAATATG
**
1105730 ACATGCTTATAACAGACCAAGACGGTAGCAAGGA
1 ACATGCTTATAACAGACCAAGACAATAGCAAGGA
* * *
1105764 ACATGCTTATAACAGATCAATATAATAGCAA
1 ACATGCTTATAACAGACCAAGACAATAGCAA
1105795 TATATATGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (34 bp):
ACATGCTTATAACAGACCAAGACAATAGCAAGGA
Found at i:1112677 original size:51 final size:51
Alignment explanation
Indices: 1112557--1112744 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 51
1112547 TATCATTCGA
* * * *
1112557 TACACGTAGTACCCTTCACATAGTACTACACACGTGA-TCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
* *
1112607 TTCACGTGGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
* * * ** * *
1112658 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCT-TCCGG
* *
1112709 TACACGTAGTAGCCTGCACTTAGCACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
1112745 TTTATAAGCA
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 33 0.28
51 83 0.71
52 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
Found at i:1112742 original size:102 final size:101
Alignment explanation
Indices: 1112557--1112744 Score: 243
Period size: 101 Copynumber: 1.9 Consensus size: 101
1112547 TATCATTCGA
* * * * * * *
1112557 TACACGTAGTACCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACGTGGTAGCCT
1 TACACATAGTACCCTGCACATAGTACTACACACGTGACCAAACTATCCGATACACGTAGTAGCCT
*
1112622 GCACATAGTACTACACACGTGACTAAAACCTTCCGG
66 GCACATAGCACTACACACGTGACTAAAACCTTCCGG
* * *
1112658 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGATACACGTAGTAGC
1 TACACATAGTACCCTGCACATAGTACTACACACGTGACCA--AACTATCCGATACACGTAGTAGC
*
1112722 CTGCACTTAGCACTACACACGTG
64 CTGCACATAGCACTACACACGTG
1112745 TTTATAAGCA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
101 35 0.48
102 34 0.47
103 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (101 bp):
TACACATAGTACCCTGCACATAGTACTACACACGTGACCAAACTATCCGATACACGTAGTAGCCT
GCACATAGCACTACACACGTGACTAAAACCTTCCGG
Found at i:1123229 original size:40 final size:39
Alignment explanation
Indices: 1123145--1123329 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
1123135 TTGAATGATG
* * * *
1123145 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
1123185 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
1123225 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
1123264 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
1123305 -CCGAGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
1123330 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:1123281 original size:79 final size:80
Alignment explanation
Indices: 1123145--1123329 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
1123135 TTGAATGATG
* *
1123145 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
1123210 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
1123225 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
1123287 TTGTGCGAGTTACT-AT
64 TTGTGCGAGATACTAAT
* * *
1123303 AACCGAGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGC-TTTG
1123330 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 31 0.35
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAAT
Found at i:1123351 original size:79 final size:79
Alignment explanation
Indices: 1123198--1123362 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
1123188 GGACTAAGAT
* * * **
1123198 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
1123263 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
1123277 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGAGCTATGTCCCGAAGGCGTTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
1123340 -AATATCC-GGTTAAATT
63 TAA-ATCCGGGTTAAATC
1123356 CCGAAGG
1 CCGAAGG
1123363 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:1129456 original size:200 final size:200
Alignment explanation
Indices: 1129113--1129514 Score: 768
Period size: 200 Copynumber: 2.0 Consensus size: 200
1129103 AAGTTGAGCC
1129113 CGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGTATAGATTGATTTTG
1 CGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGTATAGATTGATTTTG
1129178 CCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGTTATAGATCCGA
66 CCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGTTATAGATCCGA
* *
1129243 TCCATCACATGTGATTAATCTCTCAGAAGTTGAAATTCAATCTGACTTGAGTTATGAAGAAGAAC
131 ACCATCACATGTGATTAATCCCTCAGAAGTTGAAATTCAATCTGACTTGAGTTATGAAGAAGAAC
1129308 CGATT
196 CGATT
*
1129313 CGAGATTCATTGGGCCGTACGAAATCTTCGAACGAGTTGGTCCGGTTGCGTATAGATTGATTTTG
1 CGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGTATAGATTGATTTTG
1129378 CCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGTTATAGATCCGA
66 CCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGTTATAGATCCGA
*
1129443 ACCGTCACATGTGATTAATCCCTCAGAAGTTGAAATTCAATCTGACTTGAGTTATGAAGAAGAAC
131 ACCATCACATGTGATTAATCCCTCAGAAGTTGAAATTCAATCTGACTTGAGTTATGAAGAAGAAC
1129508 CGATT
196 CGATT
1129513 CG
1 CG
1129515 TATCCTAGCT
Statistics
Matches: 198, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 198 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (200 bp):
CGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGTATAGATTGATTTTG
CCCCCTGAACTTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGTTATAGATCCGA
ACCATCACATGTGATTAATCCCTCAGAAGTTGAAATTCAATCTGACTTGAGTTATGAAGAAGAAC
CGATT
Found at i:1131510 original size:119 final size:120
Alignment explanation
Indices: 1131294--1131518 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
1131284 TTGAATGATG
*
1131294 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
1131359 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGTATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
1131414 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
1131476 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
1131519 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 69 0.76
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:1131525 original size:40 final size:40
Alignment explanation
Indices: 1131294--1131518 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
1131284 TTGAATGATG
* * * *
1131294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
1131334 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
1131374 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
1131414 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
1131453 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
1131494 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1131519 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:1131540 original size:79 final size:79
Alignment explanation
Indices: 1131301--1131551 Score: 262
Period size: 79 Copynumber: 3.2 Consensus size: 79
1131291 ATGTCCGGGC
* * * *
1131301 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
1131364 AGATACTAAATCCGGAC
64 AGATACTAAATCCGG-T
* *
1131381 TAAGAT-CCGAAGGTATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
1131443 AGTTACTAAATCCGGGT
64 AGATACTAAATCC-GGT
* * **
1131460 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
1131525 -TAGCTATATCCGGT
66 ATA-CTAAATCCGGT
* *
1131539 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
1131552 TACGTGATTT
Statistics
Matches: 145, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 82 0.57
80 54 0.37
81 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
ATACTAAATCCGGT
Found at i:1133221 original size:24 final size:22
Alignment explanation
Indices: 1133180--1133223 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
1133170 CATTATTCAA
*
1133180 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
1133202 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
1133224 GTAACATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:1134095 original size:40 final size:39
Alignment explanation
Indices: 1134019--1134095 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
1134009 AAATCAGTTT
**
1134019 GGGCCTTAGCCCATTCAGATACAGTCTCAGAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATCAG-AATACATTA
*
1134059 GGGCCTTGGCCCATATCAGATACAGAATGCAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATACA
1134096 GTAAAAGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 11 0.34
42 3 0.09
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTA
Found at i:1136102 original size:25 final size:24
Alignment explanation
Indices: 1136068--1136137 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
1136058 GGGATGTTAC
1136068 ATGGTAAGCTCCTCCGAGCTGAAT
1 ATGGTAAGCTCCTCCGAGCTGAAT
* * *
1136092 AATGGTAAGCTCATGCTAGCTGAAT
1 -ATGGTAAGCTCCTCCGAGCTGAAT
1136117 ATCGGTAAGCT-CTCTCGAGCT
1 AT-GGTAAGCTCCTC-CGAGCT
1136138 AAGAATCGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 3 0.08
25 34 0.92
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
ATGGTAAGCTCCTCCGAGCTGAAT
Found at i:1136298 original size:20 final size:20
Alignment explanation
Indices: 1136259--1136295 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
1136249 GGCAATTACA
1136259 CAATTCACAAACATATAATT
1 CAATTCACAAACATATAATT
1136279 CAATTCA-AAACATATAA
1 CAATTCACAAACATATAA
1136296 ATTTACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (20 bp):
CAATTCACAAACATATAATT
Found at i:1140649 original size:22 final size:22
Alignment explanation
Indices: 1140624--1140670 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1140614 ACAAGATATA
1140624 TGGCAGTTTATATGCAATTATG
1 TGGCAGTTTATATGCAATTATG
*
1140646 TGGCAGTTTATCTGCAATTATG
1 TGGCAGTTTATATGCAATTATG
1140668 TGG
1 TGG
1140671 TAGCTTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (22 bp):
TGGCAGTTTATATGCAATTATG
Found at i:1148155 original size:50 final size:49
Alignment explanation
Indices: 1148099--1148370 Score: 348
Period size: 50 Copynumber: 5.4 Consensus size: 49
1148089 TATTCCAGAT
* ** * * * *
1148099 ATGGTCTTACATGAGATTTCTCATATCGGTGCCCATGCCATGTCCAATAC
1 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGTCCAA-AC
** * *
1148149 ATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGT-CCAAAC
*
1148199 ATGGTCTTACATGAGACCTCTTATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGT-CCAAAC
* *
1148249 ATGGTCTTACATGGGACCCCTTATCTCGGTTCCAACAG-CATGTCCAAGAC
1 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC-GCCATGTCCAA-AC
*
1148299 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGT-CCAAAC
1148349 ATGGTCTTACATGGGACCTCTT
1 ATGGTCTTACATGGGACCTCTT
1148371 TACCCAAATG
Statistics
Matches: 197, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
49 5 0.03
50 184 0.93
51 8 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (49 bp):
ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGTCCAAAC
Found at i:1153739 original size:39 final size:39
Alignment explanation
Indices: 1153644--1153845 Score: 286
Period size: 39 Copynumber: 5.2 Consensus size: 39
1153634 TTGAATGATG
*
1153644 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
1153682 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1153723 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1153762 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
1153801 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1153840 TCCGGG
1 TCCGGG
1153846 TTAGAGAACA
Statistics
Matches: 151, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 127 0.84
40 12 0.08
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:1167615 original size:79 final size:82
Alignment explanation
Indices: 1167504--1167688 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
1167494 GCTACTCGTT
* *
1167504 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
1167567 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
1167584 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
1167647 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
1167664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1167689 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:1167688 original size:40 final size:40
Alignment explanation
Indices: 1167485--1167688 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
1167475 CGGAATTTAA
** *
1167485 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
1167525 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
1167565 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
1167604 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
1167644 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
1167684 CCGGA
1 CCGGA
1167689 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:1189425 original size:27 final size:27
Alignment explanation
Indices: 1189395--1189572 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
1189385 ATATTGAGTC
* *
1189395 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
1189422 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
1189449 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
1189477 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
1189504 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
1189531 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
1189558 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1189573 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:1189534 original size:82 final size:81
Alignment explanation
Indices: 1189416--1189571 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
1189406 TGCTATATAA
*
1189416 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1189481 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
1189498 TCAATTCGCACACTTAGTGC-ATCGTATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1189562 CACTTAGTGC
65 CACTTAGTGC
1189572 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:1192627 original size:60 final size:60
Alignment explanation
Indices: 1192557--1192737 Score: 353
Period size: 60 Copynumber: 3.0 Consensus size: 60
1192547 TCACTTACGA
1192557 AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATAGAGTTTC
1 AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATAGAGTTTC
*
1192617 AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATGGAGTTTC
1 AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATAGAGTTTC
1192677 AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATAGAGTTTC
1 AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATAGAGTTTC
1192737 A
1 A
1192738 TTGGTTATGA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 119 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (60 bp):
AGAAGAACTGATAGATATTTTAGCTCATGAAGAGAAGGTTTTATGAAACAATAGAGTTTC
Found at i:1194456 original size:88 final size:88
Alignment explanation
Indices: 1194302--1194477 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 88
1194292 GATATTTTAG
* * *
1194302 CCTTGTGATCTTATGAGACTATTGGATATAGTTGGCATACAATAGGATTGTGAGTACTTACCTTT
1 CCTTATGATCTTATGAGACCATTGGATATAGTTAGCATACAATAGGATTGTGAGTACTTACCTTT
* *
1194367 GTGATGTGATTTTTAGGTGTTGA
66 GTAATGTGATTTTTAGGCGTTGA
* * * *
1194390 CCTTATGATCTTATGAGACCGTTGGATATAGTTAGTATACCATAGGATTGTGATTACTTACCTTT
1 CCTTATGATCTTATGAGACCATTGGATATAGTTAGCATACAATAGGATTGTGAGTACTTACCTTT
*
1194455 GTAATGTGATTTTTGGGCGTTGA
66 GTAATGTGATTTTTAGGCGTTGA
1194478 GGCCAAAGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (88 bp):
CCTTATGATCTTATGAGACCATTGGATATAGTTAGCATACAATAGGATTGTGAGTACTTACCTTT
GTAATGTGATTTTTAGGCGTTGA
Found at i:1234955 original size:20 final size:19
Alignment explanation
Indices: 1234925--1234961 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1234915 TAGACATAAT
1234925 TTTCTTTAAAAACTTGGCA
1 TTTCTTTAAAAACTTGGCA
1234944 TTTCTTTAAAAACTTGGC
1 TTTCTTTAAAAACTTGGC
1234962 TTACTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTCTTTAAAAACTTGGCA
Found at i:1240262 original size:20 final size:20
Alignment explanation
Indices: 1240216--1240274 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
1240206 GTATAAACTG
* *
1240216 TAATTCATTCATATAACCAG
1 TAATTCATTCATATAAACAA
* * *
1240236 TAGTTCATTCGTATAAATAA
1 TAATTCATTCATATAAACAA
*
1240256 TAATTCATCCATATAAACA
1 TAATTCATTCATATAAACA
1240275 CATATCTTAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATTCATTCATATAAACAA
Found at i:1240484 original size:23 final size:22
Alignment explanation
Indices: 1240458--1240581 Score: 81
Period size: 23 Copynumber: 5.3 Consensus size: 22
1240448 AGGCTCTATT
1240458 GAGCTGAAATGGTAAGCTCTGAC
1 GAGCTGAAATGGTAAGCTCT-AC
* *
1240481 GAGCTTAGCA--GTAAGCTCATAC
1 GAGCTGA-AATGGTAAGCTC-TAC
* * *
1240503 GAGCTGAAACGGTAAACTCTAAT
1 GAGCTGAAATGGTAAGCTCT-AC
* *
1240526 GAGCTGAAAATAGTAGGCTCTTAC
1 GAGCTG-AAATGGTAAGCTC-TAC
1240550 GAGCTGAAATATCGGTAAGCTCATAC
1 GAGCTG-AA-AT-GGTAAGCTC-TAC
1240576 GAGCTG
1 GAGCTG
1240582 TGCTGAGTCC
Statistics
Matches: 78, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
21 1 0.01
22 17 0.22
23 21 0.27
24 20 0.26
25 3 0.04
26 16 0.21
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (22 bp):
GAGCTGAAATGGTAAGCTCTAC
Found at i:1240553 original size:24 final size:26
Alignment explanation
Indices: 1240526--1240581 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1240516 AAACTCTAAT
* *
1240526 GAGCTGAAA-AT-AGTAGGCTCTTAC
1 GAGCTGAAATATCAGTAAGCTCATAC
*
1240550 GAGCTGAAATATCGGTAAGCTCATAC
1 GAGCTGAAATATCAGTAAGCTCATAC
1240576 GAGCTG
1 GAGCTG
1240582 TGCTGAGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 9 0.33
25 2 0.07
26 16 0.59
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (26 bp):
GAGCTGAAATATCAGTAAGCTCATAC
Found at i:1240805 original size:67 final size:67
Alignment explanation
Indices: 1240728--1241444 Score: 1082
Period size: 67 Copynumber: 10.8 Consensus size: 67
1240718 AATAATTCAA
* * *
1240728 TTTCTCAAATCACATATATATAATCTATTCAATTAAATACATACATTTAAATACTCAATTTGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1240793 AC
66 AC
* * ** *
1240795 CTTCTCAAATCACATATATATAATTGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1240860 AC
66 AC
* * *
1240862 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1240927 AC
66 AC
* * * *
1240929 TTTCT-TAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1240993 AC
66 AC
* * * *
1240995 TTTCTCAAATCATATACCTATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1241060 AC
66 AC
* * * *
1241062 TTTCT-TAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1241126 AC
66 AC
* * *
1241128 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1241193 AC
66 AC
* * * *
1241195 TTTCTC-AATCACATACATACAATCGATTTAGTTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1241259 AC
66 AC
* *
1241261 TTTCTCAAATCATATACATATAATCAATTGAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1241326 AC
66 AC
* * *
1241328 TTTCTCAAATCATATACATATAATCAATTAAATTAAATACATACATTTAATTACTCAATTCGC-T
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
1241392 AC
66 AC
*
1241394 TTTCTCAAATCACATACATATAATCAATTGAATTAAATACATACATTTAAA
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAA
1241445 AACTATTGCA
Statistics
Matches: 587, Mismatches: 60, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
66 227 0.39
67 360 0.61
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (67 bp):
TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
AC
Found at i:1241147 original size:200 final size:201
Alignment explanation
Indices: 1240728--1241444 Score: 1100
Period size: 200 Copynumber: 3.6 Consensus size: 201
1240718 AATAATTCAA
* * *
1240728 TTTCTCAAATCACATATATATAATCTATTCAATTAAATACATACATTTAAATACTCAATTTGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
* * **
1240793 ACCTTCTCAAATCACATATATATAATTGATTTAATTAAATACATACATTTAAATACTCAATTCGC
66 ACTTTCTCAAATCACATACATATAATCAATTTAATTAAATACATACATTTAAATACTCAATTCGC
* *
1240858 ATACTTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTAAATTC
131 ATACTTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTC
1240923 GCATAC
196 GCATAC
* * * *
1240929 TTTCT-TAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
* * * * *
1240993 ACTTTCTCAAATCATATACCTATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGC
66 ACTTTCTCAAATCACATACATATAATCAATTTAATTAAATACATACATTTAAATACTCAATTCGC
* * * * *
1241058 ATACTTTCT-TAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTC
131 ATACTTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTC
1241122 GCATAC
196 GCATAC
* * *
1241128 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
* * *
1241193 ACTTTCTC-AATCACATACATACAATCGATTTAGTTAAATACATACATTTAAATACTCAATTCGC
66 ACTTTCTCAAATCACATACATATAATCAATTTAATTAAATACATACATTTAAATACTCAATTCGC
*
1241257 ATACTTTCTCAAATCATATACATATAATCAATTGAATTAAATACATACATTTAAATACTCAATTC
131 ATACTTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTC
1241322 GCATAC
196 GCATAC
* * *
1241328 TTTCTCAAATCATATACATATAATCAATTAAATTAAATACATACATTTAATTACTCAATTCGC-T
1 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
*
1241392 ACTTTCTCAAATCACATACATATAATCAATTGAATTAAATACATACATTTAAA
66 ACTTTCTCAAATCACATACATATAATCAATTTAATTAAATACATACATTTAAA
1241445 AACTATTGCA
Statistics
Matches: 465, Mismatches: 48, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
199 125 0.27
200 335 0.72
201 5 0.01
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (201 bp):
TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
ACTTTCTCAAATCACATACATATAATCAATTTAATTAAATACATACATTTAAATACTCAATTCGC
ATACTTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTC
GCATAC
Found at i:1241444 original size:133 final size:134
Alignment explanation
Indices: 1240728--1241449 Score: 1182
Period size: 133 Copynumber: 5.4 Consensus size: 134
1240718 AATAATTCAA
* * * * *
1240728 TTTCTCAAATCACATATATATAATCTATTCAATTAAATACATACATTTAAATACTCAATTTGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTAAATTCGCAT
* * * *
1240793 ACCTTCTCAAATCACATATATATAATTGATTTAATTAAATACATACATTTAAATACTCAATTCGC
66 ACTTTCTCAAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
1240858 ATAC
131 ATAC
*
1240862 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTAAATTCGCAT
*
1240927 ACTTTCT-TAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
66 ACTTTCTCAAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
1240991 ATAC
131 ATAC
* *
1240995 TTTCTCAAATCATATACCTATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTAAATTCGCAT
*
1241060 ACTTTCT-TAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
66 ACTTTCTCAAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
1241124 ATAC
131 ATAC
*
1241128 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTAAATTCGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTAAATTCGCAT
*
1241193 ACTTTCTC-AATCACATACATACAATCGATTTAGTTAAATACATACATTTAAATACTCAATTCGC
66 ACTTTCTCAAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
1241257 ATAC
131 ATAC
* *
1241261 TTTCTCAAATCATATACATATAATCAATTGAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTAAATTCGCAT
* * * * *
1241326 ACTTTCTCAAATCATATACATATAATCAATTAAATTAAATACATACATTTAATTACTCAATTCGC
66 ACTTTCTCAAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
1241391 -TAC
131 ATAC
* * *
1241394 TTTCTCAAATCACATACATATAATCAATTGAATTAAATACATACATTTAAAAACTA
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTA
1241450 TTGCAATTGT
Statistics
Matches: 560, Mismatches: 26, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
133 445 0.79
134 115 0.21
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (134 bp):
TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAAATACTAAATTCGCAT
ACTTTCTCAAATCACATACATACAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGC
ATAC
Found at i:1244366 original size:28 final size:28
Alignment explanation
Indices: 1244299--1244430 Score: 194
Period size: 28 Copynumber: 4.8 Consensus size: 28
1244289 AACAGTAGAG
*
1244299 TGTGGGCCTTAGCCCAATACAGT-ACAG
1 TGTGGGCCTTAGCCCAATACAGTAACAA
*
1244326 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* *
1244354 TGTGGGCCTTAGCCCAATGCAGTAATAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
**
1244382 TGTGGGTTTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
*
1244410 TGTGGGCCTTCGCCCAATACA
1 TGTGGGCCTTAGCCCAATACA
1244431 ATATCGGTAC
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 22 0.24
28 70 0.76
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:1244580 original size:26 final size:26
Alignment explanation
Indices: 1244541--1244641 Score: 148
Period size: 26 Copynumber: 3.9 Consensus size: 26
1244531 AACACACCAA
* * * *
1244541 TATCACAGAAAAGCTGCCAATAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
1244567 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
1244593 TATCTCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
1244619 TATCGCAGCAAAGCTGCCAGTAA
1 TATCGCAGCAAAGCTGCCAGTAA
1244642 TAGTGTACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:1244871 original size:27 final size:27
Alignment explanation
Indices: 1244811--1245088 Score: 185
Period size: 27 Copynumber: 10.3 Consensus size: 27
1244801 GGGTATAATA
*
1244811 GTCATATTACCCTATAGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
1244839 ATCATTTTACCCTATGGGAGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
1244866 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
1244893 GTCATTTTACCTTATAGGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
1244920 ATCATTTTACTCTA--CGGG------G
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
1244939 GTCATTTTACCCTACGAGGCTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
**** **
1244966 GTCATTTACCCTAAACCCTACAAAGGTATTTTA
1 GTCATTT----T--ACCCTATGGGGGTATTTCG
*
1244999 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
1245026 GTTATTTTACACTACGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
1245053 GTCATTTTACCCTATGGGAGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
1245080 GTCATTTTA
1 GTCATTTTA
1245089 TTCTACAGGG
Statistics
Matches: 195, Mismatches: 41, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.07
21 2 0.01
25 2 0.01
27 141 0.72
28 13 0.07
29 1 0.01
31 1 0.01
33 22 0.11
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:1244900 original size:54 final size:53
Alignment explanation
Indices: 1244811--1245088 Score: 212
Period size: 54 Copynumber: 5.2 Consensus size: 53
1244801 GGGTATAATA
* * * * *
1244811 GTCATATTACCCTATAGGGGGTATTTCGATCATTTTACCCTATGGGAGTAATTCG
1 GTCATTTTACCCTA-CGGGGGTATTTTGGTCATTTTACCCTATGGG-GTATTTCG
* * *
1244866 GTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATAGGTGTATTTCG
1 GTCATTTTACCCTACGGGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCG
* * * * *
1244920 ATCATTTTACTCTAC--GGG------GGTCATTTTACCCTACGAGGCTATTTTG
1 GTCATTTTACCCTACGGGGGTATTTTGGTCATTTTACCCTATG-GGGTATTTCG
*** *
1244966 GTCATTTACCCTAAACCCTACAAAGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTT----T--ACCCTACGGGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCG
* * *
1245026 GTTATTTTACACTACGGGGGTATTTTGGTCATTTTACCCTATGGGAGTATTTCA
1 GTCATTTTACCCTACGGGGGTATTTTGGTCATTTTACCCTATGGG-GTATTTCG
1245080 GTCATTTTA
1 GTCATTTTA
1245089 TTCTACAGGG
Statistics
Matches: 175, Mismatches: 30, Indels: 37
0.72 0.12 0.15
Matches are distributed among these distances:
45 1 0.01
46 27 0.15
50 1 0.01
52 9 0.05
53 3 0.02
54 89 0.51
55 15 0.09
56 1 0.01
60 28 0.16
61 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (53 bp):
GTCATTTTACCCTACGGGGGTATTTTGGTCATTTTACCCTATGGGGTATTTCG
Found at i:1254667 original size:27 final size:27
Alignment explanation
Indices: 1254636--1254813 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1254626 TAAATTGTAC
1254636 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
1254663 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1254689 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
1254717 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
1254745 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1254772 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
1254799 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1254814 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:1254750 original size:82 final size:81
Alignment explanation
Indices: 1254637--1254792 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1254627 AAATTGTACA
* *
1254637 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
1254701 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
1254718 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
1254783 TGCGAGTTGA
65 TGCGAATTGA
1254793 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:1254804 original size:82 final size:81
Alignment explanation
Indices: 1254633--1254813 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
1254623 GATTAAATTG
* *
1254633 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
1254698 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
1254714 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
1254778 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
1254796 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1254814 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:1254899 original size:108 final size:108
Alignment explanation
Indices: 1254774--1254988 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
1254764 GATTACGTAG
*
1254774 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCGTGAATCAT
1 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCATGAATCAT
1254839 TATGGACACTATGTGTGCGACACTATTGAGTCGATCGCGGACC
66 TATGGACACTATGTGTGCGACACTATTGAGTCGATCGCGGACC
1254882 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCATGAATCAT
1 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCATGAATCAT
1254947 TATGGACACTATGTGTGCGACACTATTGAGTCGATCGCGGAC
66 TATGGACACTATGTGTGCGACACTATTGAGTCGATCGCGGAC
1254989 AGCGGATCGG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (108 bp):
CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTCAATATACATTCATGAATCAT
TATGGACACTATGTGTGCGACACTATTGAGTCGATCGCGGACC
Found at i:1264894 original size:40 final size:40
Alignment explanation
Indices: 1264850--1264928 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
1264840 CCATGCCCCC
*
1264850 CCATTACCGTGAGTTAAAGAAAAGAAATGAAAAATTTTGT
1 CCATTACCGTGAGTTAAAGAAAAGAAAAGAAAAATTTTGT
* *
1264890 CCATTGCCGTGAGTTAAAGAAAAGAAAAGAAATATTTTG
1 CCATTACCGTGAGTTAAAGAAAAGAAAAGAAAAATTTTG
1264929 CTCATNNNNN
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (40 bp):
CCATTACCGTGAGTTAAAGAAAAGAAAAGAAAAATTTTGT
Found at i:1271302 original size:79 final size:82
Alignment explanation
Indices: 1271185--1271369 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
1271175 GCTACTCGTT
* * * *
1271185 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
1271248 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
1271265 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
1271328 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
1271345 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1271370 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:1271369 original size:40 final size:40
Alignment explanation
Indices: 1271166--1271369 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
1271156 CGGAATTTAA
** *
1271166 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
1271206 CCAGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
1271246 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
1271285 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
1271325 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
1271365 CCGGA
1 CCGGA
1271370 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:1274401 original size:34 final size:34
Alignment explanation
Indices: 1274358--1274425 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1274348 TTTGTTCATA
1274358 GTTTGAAGCCAATATCACCTACTCAAAAGTTATG
1 GTTTGAAGCCAATATCACCTACTCAAAAGTTATG
1274392 GTTTGAAGCCAATATCACCTACTCAAAAGTTATG
1 GTTTGAAGCCAATATCACCTACTCAAAAGTTATG
1274426 TCTTGGATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (34 bp):
GTTTGAAGCCAATATCACCTACTCAAAAGTTATG
Found at i:1276279 original size:45 final size:44
Alignment explanation
Indices: 1276210--1276417 Score: 170
Period size: 45 Copynumber: 4.6 Consensus size: 44
1276200 TTTCAAAGGA
* * * *
1276210 TGCCATGGTATCTTCCAACCATGGTCTTATGCATTCTCGAAGTAG
1 TGCCATAGTATCTTTCAACTATGGTCTTAT-CATTCTCGATGTAG
1276255 TGCCATAGTATCTTTCAACTATGGTCTTGATCATTAC-CGATGT-G
1 TGCCATAGTATCTTTCAACTATGGTCTT-ATCATT-CTCGATGTAG
* * * * *
1276299 ATGTCATAGTATCTTTCAACTATTGTCTTATTCATAT-TGGATTTAA
1 -TGCCATAGTATCTTTCAACTATGGTCTTA-TCAT-TCTCGATGTAG
* * * * * * * *
1276345 CGCCACAATATCTTTCAACTATGGTTTTACACATTGTCGGTTTAG
1 TGCCATAGTATCTTTCAACTATGGTCTTA-TCATTCTCGATGTAG
*
1276390 TGCCATAGTATCTTTCAATTATGGTCTT
1 TGCCATAGTATCTTTCAACTATGGTCTT
1276418 TCTCATTTCG
Statistics
Matches: 130, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
44 3 0.02
45 123 0.95
46 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (44 bp):
TGCCATAGTATCTTTCAACTATGGTCTTATCATTCTCGATGTAG
Found at i:1282682 original size:3 final size:3
Alignment explanation
Indices: 1282674--1282713 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
1282664 ATATGTAGGT
1282674 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1282714 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1283167 original size:23 final size:22
Alignment explanation
Indices: 1283139--1283183 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1283129 AAATTAAATA
1283139 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
1283162 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
1283184 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:1283177 original size:17 final size:17
Alignment explanation
Indices: 1283155--1283206 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
1283145 ATTACAAAAT
1283155 CATATCTTCTAAGATTG
1 CATATCTTCTAAGATTG
1283172 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTG
* *
1283191 CATATCCTCGAAGATT
1 CATATCTTCTAAGATT
1283207 ATGTTTCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.45
18 1 0.03
19 16 0.52
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTG
Found at i:1284368 original size:126 final size:131
Alignment explanation
Indices: 1284044--1284360 Score: 448
Period size: 126 Copynumber: 2.4 Consensus size: 131
1284034 TTCCACCTAC
* * * *
1284044 TCCACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGA
* *
1284108 TAGGACCTACAACCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATATTTCAAC
65 TAAGA-CTACAA-CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATACTTCAAC
1284173 ATAT
128 ATAT
* * *
1284177 TCCACTGCTAACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTATCCAGGGAGAT
1 TCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGAT
* * * *
1284242 AAGA-TTC-A-TT-AATTTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAAT-CTTCAACCTC
66 AAGACTACAACTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATACTTCAACATA
1284302 T
131 T
1284303 TCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCA
1 TCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCA
1284361 AGAAGATAGG
Statistics
Matches: 167, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
126 63 0.38
127 39 0.23
128 2 0.01
130 1 0.01
131 2 0.01
133 59 0.35
134 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (131 bp):
TCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGAT
AAGACTACAACTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATACTTCAACATA
T
Found at i:1284415 original size:44 final size:44
Alignment explanation
Indices: 1284038--1284414 Score: 394
Period size: 44 Copynumber: 8.7 Consensus size: 44
1284028 GCTATTTTCC
* * * *
1284038 ACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTTA
* * *
1284082 ACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTACAACCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTTA
* * * * *
1284126 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATATTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTT-A
* *
1284171 ACATATTCCACTGCTAACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
* *
1284215 ACCTATTCCACTACT-ATCCAGGGAGATAAGATT--C-A---TTA
1 ACCTATTCCACTGCTGA-CCAGGGAGATAGGATTCACAATCTTTA
** * * * *
1284253 ATTTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
*
1284297 ACCTCTTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
* * * *
1284341 ACCTATTCCACTGCTGTCCAAGAAGATAGGGTTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
* *
1284385 ACCTATTCCACTACTAACCAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
1284415 GCTGGGGTCA
Statistics
Matches: 274, Mismatches: 47, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
38 29 0.11
40 1 0.00
41 2 0.01
42 1 0.00
43 2 0.01
44 200 0.73
45 39 0.14
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
Found at i:1284473 original size:88 final size:88
Alignment explanation
Indices: 1284391--1284900 Score: 644
Period size: 88 Copynumber: 5.8 Consensus size: 88
1284381 TTTAACCTAT
** * * * * * *
1284391 TCCACTACTAA-CCAGGGAGATAGGGCTGGGGTCATCAATCTGCTTCGCTGTCAGTGCAAGAAGG
1 TCCACTAC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
*
1284455 CAAGATCTGCTATTTTTAACCTGC
65 CAAGATCTGCTATTTTTAGCCTGC
*
1284479 TCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
1 TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
* *
1284544 AAGATCTGTTATTTTTAGTCTGC
66 AAGATCTGCTATTTTTAGCCTGC
** * * * *
1284567 TCTGCTACAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGAAGGAAGGT
1 TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
1284632 AAGATCTGCTATTTTTAGCCTGC
66 AAGATCTGCTATTTTTAGCCTGC
* *
1284655 TCCACTACAACCCAGGGAGGCAAGGCTGGTGACTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGC
1 TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
* * *
1284720 AAGATCTACTATTTTCAGCCCGC
66 AAGATCTGCTATTTTTAGCCTGC
** * * *
1284743 TCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGC
1 TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
*
1284808 AAGATATGCTATTTTTAGCCTGC
66 AAGATCTGCTATTTTTAGCCTGC
* * * ** * * ** * *
1284831 TCCGCTGCCACTGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTTACTGTCAGTACAGGAAGGC
1 TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
1284896 AAGAT
66 AAGAT
1284901 TTGTTATCTT
Statistics
Matches: 369, Mismatches: 52, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
87 2 0.01
88 367 0.99
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (88 bp):
TCCACTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
AAGATCTGCTATTTTTAGCCTGC
Found at i:1287693 original size:40 final size:40
Alignment explanation
Indices: 1287610--1287872 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
1287600 TTGAATGCTG
* * * * * *
1287610 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
1287650 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
1287690 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1287730 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
1287770 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
1287810 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
1287849 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1287873 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:1287892 original size:79 final size:80
Alignment explanation
Indices: 1287649--1287907 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
1287639 AAGTGAATAT
* * * * * *
1287649 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
1287713 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
1287729 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
1287794 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
1287809 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
1287873 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
1287888 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
1287908 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:1295645 original size:40 final size:40
Alignment explanation
Indices: 1295562--1295824 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
1295552 TTGAATGCTG
* * * * * *
1295562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
1295602 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
1295642 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1295682 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
1295722 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
1295762 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
1295801 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1295825 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:1295844 original size:79 final size:80
Alignment explanation
Indices: 1295601--1295859 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
1295591 AAGTGAATAT
* * * * * *
1295601 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
1295665 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
1295681 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
1295746 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
1295761 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
1295825 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
1295840 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
1295860 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:1314951 original size:63 final size:64
Alignment explanation
Indices: 1314875--1315022 Score: 181
Period size: 64 Copynumber: 2.3 Consensus size: 64
1314865 TTTGATTTCA
* * * *
1314875 TACAACATTATTACATGTCTGATTATCTTAGTTG-TTTAAGCCTATTAATTGTGTCATGGTTTG
1 TACAGCATTATTACATGTCTAATTATCTTAGTTGTTTTAAGCCTATTAATGGTGTCATCGTTTG
* * * * *
1314938 TACAGCATTATTACATGTGTAATTGTTTTAGTTGTTTTAAGTCTATTAATGGTGTCTTCGTTTG
1 TACAGCATTATTACATGTCTAATTATCTTAGTTGTTTTAAGCCTATTAATGGTGTCATCGTTTG
* **
1315002 TACCGCATTAACACATGTCTA
1 TACAGCATTATTACATGTCTA
1315023 TGTCAAACTC
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 29 0.41
64 42 0.59
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (64 bp):
TACAGCATTATTACATGTCTAATTATCTTAGTTGTTTTAAGCCTATTAATGGTGTCATCGTTTG
Found at i:1318242 original size:79 final size:79
Alignment explanation
Indices: 1318131--1318354 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
1318121 GCTACTCGTT
* * *
1318131 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
1318196 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
1318211 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
1318274 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
1318289 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
1318353 GA
64 GA
1318355 CATCATTCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 36 0.28
79 57 0.45
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:1318248 original size:39 final size:40
Alignment explanation
Indices: 1318131--1318354 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
1318121 GCTACTCGTT
* *
1318131 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
1318171 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
1318211 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
1318250 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
1318289 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
1318330 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1318355 CATCATTCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 77 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:1338151 original size:35 final size:34
Alignment explanation
Indices: 1338098--1338237 Score: 100
Period size: 35 Copynumber: 3.9 Consensus size: 34
1338088 AATCAGTTAT
* *
1338098 CCCAGCTCTAGTTGGATAAACCAACGATATTTGCG
1 CCCAGCGCTA-TTCGATAAACCAACGATATTTGCG
** *
1338133 CCCAGCGCTATTCAGATAAACTGACGATATAAATAGTGAG
1 CCCAGCGCTATTC-GATAAACCAACGATAT---T--TGCG
** *
1338173 CCCAGATCTAGTTGGATAAACCAACGATATTTGCG
1 CCCAGCGCTA-TTCGATAAACCAACGATATTTGCG
* * *
1338208 CCCAACGCTAGTCGAATAAACCGACGATAT
1 CCCAGCGCTATTCG-ATAAACCAACGATAT
1338238 AAATAGTGAG
Statistics
Matches: 80, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
34 4 0.05
35 47 0.59
37 1 0.01
38 1 0.01
40 25 0.31
41 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (34 bp):
CCCAGCGCTATTCGATAAACCAACGATATTTGCG
Found at i:1338191 original size:40 final size:40
Alignment explanation
Indices: 1338147--1338275 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 40
1338137 GCGCTATTCA
*
1338147 GATAAACTGACGATATAAATAGTGAGCCCAGATCTAGTTG
1 GATAAACCGACGATATAAATAGTGAGCCCAGATCTAGTTG
* * * *
1338187 GATAAACCAACGATAT---T--TGCGCCCA-ACGCTAGTCG
1 GATAAACCGACGATATAAATAGTGAGCCCAGA-TCTAGTTG
* * *
1338222 AATAAACCGACGATATAAATAGTGAGCCAAGCTCTAGTTG
1 GATAAACCGACGATATAAATAGTGAGCCCAGATCTAGTTG
* *
1338262 GATGAACCAACGAT
1 GATAAACCGACGAT
1338276 GATTGTGCCC
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
34 1 0.01
35 27 0.40
37 1 0.01
38 1 0.01
40 37 0.55
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
GATAAACCGACGATATAAATAGTGAGCCCAGATCTAGTTG
Found at i:1338192 original size:75 final size:75
Alignment explanation
Indices: 1338098--1338312 Score: 308
Period size: 75 Copynumber: 2.9 Consensus size: 75
1338088 AATCAGTTAT
* *
1338098 CCCAGCTCTAGTTGGATAAACCAACGATATTTGCGCCCAGCGCTATTC-AGATAAACTGACGATA
1 CCCAGCTCTAGTTGGATAAACCAACGATATTTGCGCCCAGCGCTAGTCGA-ATAAACCGACGATA
1338162 TAAATAGTGAG
65 TAAATAGTGAG
* *
1338173 CCCAGATCTAGTTGGATAAACCAACGATATTTGCGCCCAACGCTAGTCGAATAAACCGACGATAT
1 CCCAGCTCTAGTTGGATAAACCAACGATATTTGCGCCCAGCGCTAGTCGAATAAACCGACGATAT
1338238 AAATAGTGAG
66 AAATAGTGAG
* * * * * *
1338248 CCAAGCTCTAGTTGGATGAACCAACGATGA-TTGTGCCCAGCACTAGTCGAATGAACCGACAATA
1 CCCAGCTCTAGTTGGATAAACCAACGAT-ATTTGCGCCCAGCGCTAGTCGAATAAACCGACGATA
1338312 T
65 T
1338313 CAATTACTCA
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
75 124 0.98
76 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (75 bp):
CCCAGCTCTAGTTGGATAAACCAACGATATTTGCGCCCAGCGCTAGTCGAATAAACCGACGATAT
AAATAGTGAG
Found at i:1338379 original size:20 final size:21
Alignment explanation
Indices: 1338345--1338384 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1338335 TAAAATCATA
1338345 TTTCATAATCTCAATATCACG
1 TTTCATAATCTCAATATCACG
1338366 TTTCATAA-CTCAATATCAC
1 TTTCATAATCTCAATATCAC
1338385 ATTCACTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (21 bp):
TTTCATAATCTCAATATCACG
Found at i:1338419 original size:36 final size:37
Alignment explanation
Indices: 1338372--1338445 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
1338362 CACGTTTCAT
1338372 AACTCAATATCACATTCACTTC-ATTATCTATTAATC
1 AACTCAATATCACATTCACTTCAATTATCTATTAATC
*
1338408 AACTCAATATCATATTCACTTCAATTATCTATTAATC
1 AACTCAATATCACATTCACTTCAATTATCTATTAATC
1338445 A
1 A
1338446 TTCATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 21 0.58
37 15 0.42
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.39
Consensus pattern (37 bp):
AACTCAATATCACATTCACTTCAATTATCTATTAATC
Found at i:1340620 original size:14 final size:14
Alignment explanation
Indices: 1340601--1340627 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1340591 CCAAGGTCTG
1340601 GGTTTAGGGTCCAT
1 GGTTTAGGGTCCAT
1340615 GGTTTAGGGTCCA
1 GGTTTAGGGTCCA
1340628 GGGTCCAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.33
Consensus pattern (14 bp):
GGTTTAGGGTCCAT
Found at i:1344635 original size:17 final size:18
Alignment explanation
Indices: 1344605--1344641 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1344595 CATCAACATC
1344605 TGATATTCCAGAAGCTGG
1 TGATATTCCAGAAGCTGG
*
1344623 TGATATT-CAGAAGGTGG
1 TGATATTCCAGAAGCTGG
1344640 TG
1 TG
1344642 GACCTTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (18 bp):
TGATATTCCAGAAGCTGG
Found at i:1345882 original size:6 final size:6
Alignment explanation
Indices: 1345873--1345897 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1345863 AAAAGTGAAA
1345873 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
1345898 GATTATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:1350251 original size:11 final size:10
Alignment explanation
Indices: 1350225--1350253 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1350215 TTGTAGTATT
1350225 TATTTTTCTG
1 TATTTTTCTG
1350235 TATTTTTCTG
1 TATTTTTCTG
1350245 TATTTTTCT
1 TATTTTTCT
1350254 TCTTGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.72
Consensus pattern (10 bp):
TATTTTTCTG
Found at i:1352684 original size:25 final size:25
Alignment explanation
Indices: 1352656--1352713 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
1352646 ATGTAAACAG
*
1352656 GAAGCTCTTTTGAGCCATAAAACGA
1 GAAGCTCTTCTGAGCCATAAAACGA
* ** *
1352681 GAAGCTCATCTGAGCCATGTAACGG
1 GAAGCTCTTCTGAGCCATAAAACGA
1352706 GAAGCTCT
1 GAAGCTCT
1352714 AGAGAGCCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
GAAGCTCTTCTGAGCCATAAAACGA
Found at i:1352732 original size:24 final size:24
Alignment explanation
Indices: 1352692--1352848 Score: 91
Period size: 25 Copynumber: 6.3 Consensus size: 24
1352682 AAGCTCATCT
1352692 GAGCCATGTAACGGGAAGCTCTAGA
1 GAGCCAT-TAACGGGAAGCTCTAGA
*
1352717 GAGCCATTAACGGGAAGCTCATA-C
1 GAGCCATTAACGGGAAGCTC-TAGA
* * * * * * *
1352741 GAGCTAATAACAGAAAGGTTCAAGC
1 GAGCCATTAACGGGAA-GCTCTAGA
* * *
1352766 GAGCCAATATCGGGAAGCTCCAGA
1 GAGCCATTAACGGGAAGCTCTAGA
* *
1352790 GAGCCATTAATTGGGAAGCTCATGAAA
1 GAGCCATTAA-CGGGAAGCTC-T-AGA
* * * *
1352817 GAGCCTTTAATCAGGAAGCTCCAAA
1 GAGCCATTAA-CGGGAAGCTCTAGA
1352842 GAGCCAT
1 GAGCCAT
1352849 ATATCGAGAC
Statistics
Matches: 102, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
24 39 0.38
25 43 0.42
27 20 0.20
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCTAGA
Found at i:1352807 original size:25 final size:25
Alignment explanation
Indices: 1352692--1352848 Score: 92
Period size: 24 Copynumber: 6.3 Consensus size: 25
1352682 AAGCTCATCT
*
1352692 GAGCCATGTAA-CGGGAAGCTCTAGA
1 GAGCCAT-TAATCGGGAAGCTCCAGA
*
1352717 GAGCCATTAA-CGGGAAGCT-CATA
1 GAGCCATTAATCGGGAAGCTCCAGA
* * * * * * *
1352740 CGAGCTAATAA-CAGAAAGGTTCAAGC
1 -GAGCCATTAATCGGGAA-GCTCCAGA
*
1352766 GAGCCAAT-ATCGGGAAGCTCCAGA
1 GAGCCATTAATCGGGAAGCTCCAGA
*
1352790 GAGCCATTAATTGGGAAGCT-CATGAAA
1 GAGCCATTAATCGGGAAGCTCCA-G--A
* * *
1352817 GAGCCTTTAATCAGGAAGCTCCAAA
1 GAGCCATTAATCGGGAAGCTCCAGA
1352842 GAGCCAT
1 GAGCCAT
1352849 ATATCGAGAC
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.02
24 39 0.39
25 38 0.38
26 1 0.01
27 18 0.18
28 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCCAGA
Found at i:1352987 original size:25 final size:25
Alignment explanation
Indices: 1352930--1353000 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
1352920 AAAGAGCTAT
* * *
1352930 TAACGGGAAGCTCGTAAGAACCATA
1 TAACGGGAAGCTCGTGAGAGCCAAA
1352955 TAACGGGAAGCTCGTGAGAGCCAAA
1 TAACGGGAAGCTCGTGAGAGCCAAA
** * *
1352980 TATTGGGATGCTCATGAGAGC
1 TAACGGGAAGCTCGTGAGAGC
1353001 TAGTAACGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (25 bp):
TAACGGGAAGCTCGTGAGAGCCAAA
Found at i:1359014 original size:35 final size:35
Alignment explanation
Indices: 1358968--1359062 Score: 174
Period size: 35 Copynumber: 2.7 Consensus size: 35
1358958 TAAGTGTTAC
1358968 AACACACCAATGCTCATAAGAGCTAATCCC-TCTAA
1 AACACACCAATGCTCATAAGAGCTAATCCCATC-AA
1359003 AACACACCAATGCTCATAAGAGCTAATCCCATCAA
1 AACACACCAATGCTCATAAGAGCTAATCCCATCAA
1359038 AACACACCAATGCTCATAAGAGCTA
1 AACACACCAATGCTCATAAGAGCTA
1359063 GTGCAACTGA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
35 57 0.97
36 2 0.03
ACGTcount: A:0.42, C:0.31, G:0.09, T:0.18
Consensus pattern (35 bp):
AACACACCAATGCTCATAAGAGCTAATCCCATCAA
Found at i:1376611 original size:35 final size:35
Alignment explanation
Indices: 1376507--1376611 Score: 81
Period size: 35 Copynumber: 3.0 Consensus size: 35
1376497 AACCACTTTT
* *
1376507 GAGGTGTTGCTCTGTAGGACCTATATACATTCATC
1 GAGGTGTTGCTCTATAGGACCTATAAACATTCATC
* * ** * *
1376542 -ATGATGTTGCCCTATA-GAGCCTGCAGA-TTGTCATC
1 GA-GGTGTTGCTCTATAGGA-CCTATAAACAT-TCATC
*
1376577 GAGGTGTTGCTCTATAGGACCTATAAACCTTCATC
1 GAGGTGTTGCTCTATAGGACCTATAAACATTCATC
1376612 ACAATGTCGC
Statistics
Matches: 51, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
34 4 0.08
35 43 0.84
36 4 0.08
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
GAGGTGTTGCTCTATAGGACCTATAAACATTCATC
Found at i:1380912 original size:19 final size:18
Alignment explanation
Indices: 1380877--1380927 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
1380867 AAATGTAATC
* *
1380877 AAAT-ATAATAATGATAA
1 AAATAATAATAGTAATAA
*
1380894 CAATAATAAATAGTAATAA
1 AAATAAT-AATAGTAATAA
1380913 AAATAATAATAGTAA
1 AAATAATAATAGTAA
1380928 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAATAATAGTAATAA
Found at i:1380918 original size:25 final size:24
Alignment explanation
Indices: 1380872--1380933 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
1380862 AATAGAAATG
**
1380872 TAATCAAATATAATAATGATAACAA
1 TAAT-AAATATAATAAAAATAACAA
*
1380897 TAATAAATAGTAATAAAAATAATAA
1 TAATAAATA-TAATAAAAATAACAA
*
1380922 TAGTAAAT-TAAT
1 TAATAAATATAAT
1380934 TAATAGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 23 0.72
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (24 bp):
TAATAAATATAATAAAAATAACAA
Found at i:1390356 original size:27 final size:27
Alignment explanation
Indices: 1390325--1390502 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1390315 TAAATTGTAC
1390325 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
1390352 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1390378 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
1390406 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
1390434 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1390461 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
1390488 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1390503 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:1390439 original size:82 final size:81
Alignment explanation
Indices: 1390326--1390481 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1390316 AAATTGTACA
* *
1390326 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
1390390 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
1390407 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
1390472 TGCGAGTTGA
65 TGCGAATTGA
1390482 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:1390493 original size:82 final size:81
Alignment explanation
Indices: 1390322--1390502 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
1390312 GATTAAATTG
* *
1390322 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
1390387 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
1390403 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
1390467 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
1390485 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1390503 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:1390513 original size:27 final size:27
Alignment explanation
Indices: 1390407--1390513 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
1390397 TGACCATGCG
* * * *
1390407 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
1390435 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
1390462 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
1390489 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
1390514 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:1393481 original size:44 final size:44
Alignment explanation
Indices: 1393427--1393535 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
1393417 CACTCCACTA
* *
1393427 TAACTTCAGGGAGATAGGATTATC-GGCTTCAATCAGCTCAACTG
1 TAACCTCAGGGAGATAAGATT-TCTGGCTTCAATCAGCTCAACTG
* * *
1393471 TAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTG
1 TAACCTCAGGGAGATAAGATTTCTGGCTTCAATCAGCTCAACTG
*
1393515 TAACCTTAGGGAGATAAGATT
1 TAACCTCAGGGAGATAAGATT
1393536 CACCATTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TAACCTCAGGGAGATAAGATTTCTGGCTTCAATCAGCTCAACTG
Found at i:1393667 original size:233 final size:230
Alignment explanation
Indices: 1393231--1393942 Score: 913
Period size: 233 Copynumber: 3.1 Consensus size: 230
1393221 CTTTGACCTT
* *
1393231 CTCCACTG-TACCGCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAG
1 CTCCACTGCAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAG
*
1393295 ATAAGATTCACCATTTTTGATTAAGAGTTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAG
66 ATAAGATTCACCA-TTTTGATT-AGA-TTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAG
* *
1393360 ACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCTTTTATTTTAATCCACTCCAC
128 ACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTACTTTAATCCACTCCAC
* *
1393425 TATAACTTCAGGGAGATAGGATTATCGGCTTCAATCAG
193 TACAACTTCAGGGAGATAGGATTATCGACTTCAATCAG
* * *
1393463 CTCAACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAG
1 CTCCACTGCAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAG
*
1393528 ATAAGATTCACCATTTTCGATTAGGAATTCTTTAGTCTATTCCACTGTAATCTCAGGGAGATAAG
66 ATAAGATTCACCATTTT-GATTA-G-ATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAG
* * * *
1393593 ACCTGATGCGATCTACTCTACTGTAATTTTAGAGAGATAAGATCCTTTAGTTTAATCCGCTCCAT
128 ACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTACTTTAATCCACTCCAC
*
1393658 TACAACTTCAGGGAGATAGGATTATCGACTTCAATCTG
193 TACAACTTCAGGGAGATAGGATTATCGACTTCAATCAG
* * ** * *
1393696 CTCCACTACAACCTCAGGGAGATAAGATTTACT-TCTTCGGTCTGCCCCACTGTGA-CTTCAGGG
1 CTCCACTGCAACCTCAGGGAGATAAGATTT-CTGGCTTCAATCTGCTCCACTGTAACCTT-AGGG
* * * * *
1393759 GGATAAG----A-C---TTG-TT---TTC-TCAGTATGCTT-CACTGCAACCTCAGGGAGATAAG
64 AGATAAGATTCACCATTTTGATTAGATTCTTCAGTCT-ATTCCACTGTAATCTCAGGGAGATAAG
* * * *
1393810 GCCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAT-CTGTTACTTTAATCCACTCCA
128 ACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCT-TTACTTTAATCCACTCCA
1393874 CTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTA-
192 CTACAACTTCAGGGAGATAGGATTATCGACTTCAATC-AG
1393913 CTCCACTGCAACCTCAGGGAGATAAGATTT
1 CTCCACTGCAACCTCAGGGAGATAAGATTT
1393943 GCTTCTTCGG
Statistics
Matches: 432, Mismatches: 39, Indels: 33
0.86 0.08 0.07
Matches are distributed among these distances:
216 2 0.00
217 145 0.34
218 5 0.01
223 2 0.00
224 1 0.00
225 2 0.00
228 1 0.00
229 1 0.00
232 15 0.03
233 255 0.59
234 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (230 bp):
CTCCACTGCAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAG
ATAAGATTCACCATTTTGATTAGATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACC
TGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTACTTTAATCCACTCCACTAC
AACTTCAGGGAGATAGGATTATCGACTTCAATCAG
Found at i:1393954 original size:217 final size:217
Alignment explanation
Indices: 1393570--1393988 Score: 678
Period size: 217 Copynumber: 1.9 Consensus size: 217
1393560 TAGTCTATTC
* * * * * *
1393570 CACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAATTTTAGAGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGA
* * * *
1393635 TCCTTTAGTTTAATCCGCTCCATTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC
66 TCCTTTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCC
* *
1393700 ACTACAACCTCAGGGAGATAAGATTTACTTCTTCGGTCTGCCCCACTGTGACTTCAGGGGGATAA
131 ACTACAACCTCAGGGAGATAAGATTTACTTCTTCGGTCTGCCCCACTATGACTTCAGAGGGATAA
1393765 GACTTGTTTTCTCAGTATGCTT
196 GACTTGTTTTCTCAGTATGCTT
*
1393787 CACTGCAACCTCAGGGAGATAAGGCCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGA
1393852 T-CTGTTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
66 TCCT-TTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTC
* * *
1393916 CACTGCAACCTCAGGGAGATAAGATTTGCTTCTTCGGTCTGCCCCACTATGACTTCATAGGGATA
130 CACTACAACCTCAGGGAGATAAGATTTACTTCTTCGGTCTGCCCCACTATGACTTCAGAGGGATA
1393981 AGACTTGT
195 AGACTTGT
1393989 GGCTTGAATC
Statistics
Matches: 185, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 2 0.01
217 183 0.99
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
CACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGA
TCCTTTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTACTCC
ACTACAACCTCAGGGAGATAAGATTTACTTCTTCGGTCTGCCCCACTATGACTTCAGAGGGATAA
GACTTGTTTTCTCAGTATGCTT
Found at i:1393963 original size:44 final size:44
Alignment explanation
Indices: 1393646--1393950 Score: 149
Period size: 44 Copynumber: 7.0 Consensus size: 44
1393636 CCTTTAGTTT
* * * * * **
1393646 AATCCGCTCCATTACAACTTCAGGGAGATAGGATTAT-CGACTTC
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTCTTC
* *
1393690 AATCTGCTCCACTACAACCTCAGGGAGATAAGATTTACTTCTTC
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTC
** * ** * * * *
1393734 GGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTG-TTTTCTC
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCT-TC
* * * ** *
1393778 AGTATGCTTCACTGCAACCTCAGGGAGATAAG----GCCTGATGC
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG-CTTCTTC
* ** * * * * *
1393819 GATCCACTCTACTGCAACTTCAGAGAGATAAGATCTG-TTACTTT
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTT-CTTC
** * * * **
1393863 AATCCACTCCACTACAACTTCAGGGAGATAGGATTAT-CGACTTC
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTCTTC
*
1393907 AATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTC
1 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTC
1393951 GGTCTGCCCC
Statistics
Matches: 193, Mismatches: 56, Indels: 24
0.71 0.21 0.09
Matches are distributed among these distances:
40 1 0.01
41 24 0.12
42 2 0.01
43 6 0.03
44 158 0.82
45 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTC
Found at i:1394124 original size:128 final size:128
Alignment explanation
Indices: 1393982--1394348 Score: 637
Period size: 128 Copynumber: 2.9 Consensus size: 128
1393972 ATAGGGATAA
* * *
1393982 GACTTGTGGCTTGAATCTGCTTTCTTACACTTGAAGATAAGATTTTCCGCTTTTGATCTGCTCCG
1 GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCG
1394047 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAG
66 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAG
1394110 GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCG
1 GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCG
1394175 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAG
66 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAG
* * * *
1394238 GACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCG-TCTTCCATCTACTCC
1 GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCT-TTCGATCTGCTCC
* *
1394302 GCTACTGCTTAGGGAGACAAGATCTGTGATTTCCAACCTATTCCACT
65 GCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACT
1394349 ACTGGTCAGA
Statistics
Matches: 229, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
127 1 0.00
128 228 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
GACTTGTGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCG
CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGACCAGGGACATAG
Found at i:1394384 original size:44 final size:44
Alignment explanation
Indices: 1394335--1394547 Score: 354
Period size: 44 Copynumber: 4.8 Consensus size: 44
1394325 CTGTGATTTC
* * *
1394335 CAACCTATTCCACTACTGGTCAGAGAGCTAGATTTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTGCAATCTT
*
1394379 CAACCTATTCCACTGCTGGTCGGGGAGCTAGGTTTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTGCAATCTT
*
1394423 CAACCTATTCCACTGCTGGTGAGGGAGCTAGGTTTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTGCAATCTT
* *
1394467 CTACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTGGAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTGCAATCTT
*
1394511 CAACCTATTCCACTGCTGGTTAGGGAGCTAGGTTTTG
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTG
1394548 TGATTCCACT
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 158 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (44 bp):
CAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTGCAATCTT
Found at i:1396608 original size:7 final size:7
Alignment explanation
Indices: 1396566--1396590 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1396556 TCCTTCGCTC
1396566 TTTCCTT
1 TTTCCTT
1396573 TTTCCTT
1 TTTCCTT
1396580 TTTCCTT
1 TTTCCTT
1396587 TTTC
1 TTTC
1396591 TTCTCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCCTT
Found at i:1396649 original size:24 final size:24
Alignment explanation
Indices: 1396578--1396653 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
1396568 TCCTTTTTCC
*
1396578 TTTTTCCTTTTTCTTCTCTTTTTTCA
1 TTTTT-CTTTTTCTTCT-TTTTTTGA
* * *
1396604 TTTTTATTTTGAC--CTTGATTTTGA
1 TTTTTCTTTT-TCTTCTT-TTTTTGA
1396628 TTTTTCTTTTTCTTCTTTTTTTGA
1 TTTTTCTTTTTCTTCTTTTTTTGA
1396652 TT
1 TT
1396654 ATTGATTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 2 0.05
24 24 0.62
25 7 0.18
26 6 0.15
ACGTcount: A:0.08, C:0.14, G:0.05, T:0.72
Consensus pattern (24 bp):
TTTTTCTTTTTCTTCTTTTTTTGA
Found at i:1396673 original size:6 final size:6
Alignment explanation
Indices: 1396646--1396681 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
1396636 TTTCTTCTTT
1396646 TTTTGA TTATTGA TTATTGA TTTTGA TTTTGA TTTT
1 TTTTGA TT-TTGA TT-TTGA TTTTGA TTTTGA TTTT
1396682 TTTTGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:1406049 original size:68 final size:68
Alignment explanation
Indices: 1405957--1406152 Score: 182
Period size: 67 Copynumber: 2.9 Consensus size: 68
1405947 CAGTATGACC
* **
1405957 CATGTTTAACGTCCTGGCAGACTCTATTAGTTGTCATAGCTGAGCTATGGT-TCTACACCTTGGA
1 CATGTTTAACGTCCAGGCAGACTCTATTAGTTGTCATAGCCAAGCTATGGTCT-TACACCTTGGA
1406021 AACT
65 AACT
* * * *
1406025 CATGTTTAACGTCCAGG-TGAACTCTATTGGTTGTCATATCCAAGCTATGGTCTTACACCTT-GT
1 CATGTTTAACGTCCAGGCAG-ACTCTATTAGTTGTCATAGCCAAGCTATGGTCTTACACCTTGGA
*
1406088 AACC
65 AACT
* * *** * * * * * *
1406092 CATATTTAACATTTTGGCGGACTTTATTGGTGGTCAAAGCCGAGCTATGGTCTTACACCTT
1 CATGTTTAACGTCCAGGCAGACTCTATTAGTTGTCATAGCCAAGCTATGGTCTTACACCTT
1406153 AAACCTCTTT
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
67 53 0.50
68 52 0.49
69 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (68 bp):
CATGTTTAACGTCCAGGCAGACTCTATTAGTTGTCATAGCCAAGCTATGGTCTTACACCTTGGAA
ACT
Found at i:1409109 original size:45 final size:45
Alignment explanation
Indices: 1409003--1409135 Score: 133
Period size: 45 Copynumber: 3.0 Consensus size: 45
1408993 CGTACTAACT
* * * *
1409003 ATGATGCCATAGCGTGTTTCAGCTATGGTCTTAGTCTTATTTA-CC
1 ATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCAT-TTTAGCC
* * * * * *
1409048 ATAATGCTATAACATCTTTTAGCCATGGTCTTACTCATTTTAGTC
1 ATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTAGCC
* * *
1409093 ATGATGCCATAGCATCTTTCAGTTACGGTCTTATTCATTTTAG
1 ATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTAG
1409136 GTGTATAGCC
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 4 0.06
45 65 0.94
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (45 bp):
ATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTAGCC
Done.