Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 103 of 168
Found at i:30381810 original size:33 final size:31
Alignment explanation
Indices: 30381753--30381840 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 31
30381743 TGTAAATATT
*
30381753 TTTAATTAATAA-ATATTAATTATTTATAAA-A
1 TTTAATT-ATAATATATAAATTATTT-TAAATA
30381784 TTTAATTATAATATATAAACTATATTTTAAATA
1 TTTAATTATAATATATAAA-T-TATTTTAAATA
*
30381817 TTTAAATATAATCAT-TAAA-TATTT
1 TTTAATTATAAT-ATATAAATTATTT
30381841 GTAATTAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
30 9 0.18
31 13 0.26
32 5 0.10
33 21 0.42
34 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTAATTATAATATATAAATTATTTTAAATA
Found at i:30382124 original size:2 final size:2
Alignment explanation
Indices: 30382119--30382150 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30382109 AAAAAAAAAA
30382119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30382151 TTAAGTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30386515 original size:24 final size:24
Alignment explanation
Indices: 30386457--30386515 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
30386447 TTTTATGTCC
30386457 TAAA-ATTACAGCGGACTTAACCT
1 TAAAGATTACAGCGGACTTAACCT
* *
30386480 TAAAGATCACAGCGGA-TTGAACTT
1 TAAAGATTACAGCGGACTT-AACCT
*
30386504 TGAAGATTACAG
1 TAAAGATTACAG
30386516 TGGGGGCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (24 bp):
TAAAGATTACAGCGGACTTAACCT
Found at i:30387040 original size:89 final size:89
Alignment explanation
Indices: 30386921--30387147 Score: 348
Period size: 89 Copynumber: 2.6 Consensus size: 89
30386911 GCAGCAAAGC
* * *
30386921 AGATCGAAGACACCAGCCTCG-CCTCTCTGAGTTTGCAGCGGAGCAGACTGAATATGGAAGATCT
1 AGATCAAAGACACAAGCCT-GACCTCCCTGAGTTTGCAGCGGAGCAGACTGAATATGGAAGATCT
30386985 TGTCTTCCTACACCGATAGCGAAGT
65 TGTCTTCCTACACCGATAGCGAAGT
* *
30387010 AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCGGAGCAAACTGAATATGGCAGATCTT
1 AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCGGAGCAGACTGAATATGGAAGATCTT
30387075 GTCTTCCTACACCGATAGCGAAGT
66 GTCTTCCTACACCGATAGCGAAGT
* * * * *
30387099 AGATCAAAGACACACGCCTGATCTCCCTGTGTTTGCAGAGGAGTAGACT
1 AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCGGAGCAGACT
30387148 AAAAGCAGTA
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 1 0.01
89 125 0.99
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (89 bp):
AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCGGAGCAGACTGAATATGGAAGATCTT
GTCTTCCTACACCGATAGCGAAGT
Found at i:30387168 original size:89 final size:89
Alignment explanation
Indices: 30386889--30387141 Score: 321
Period size: 89 Copynumber: 2.9 Consensus size: 89
30386879 ACTAGAAGCA
** ** * * * * *
30386889 GCAGATCTTGTCTTCCTGTA-CGGCAGCAAAGCAGATCGAAGACACCAGCCTCG-CCTCTCTGAG
1 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCT-GACCTCCCTGAG
* * *
30386952 TTTGCAGCGGAGCAGACTGAATATG
65 TTTGCAGAGGAGCAAACTGAATAAG
*
30386977 GAAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
1 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
* *
30387042 TTGCAGCGGAGCAAACTGAATATG
66 TTGCAGAGGAGCAAACTGAATAAG
* * *
30387066 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACACGCCTGATCTCCCTGTGT
1 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
30387131 TTGCAGAGGAG
66 TTGCAGAGGAG
30387142 TAGACTAAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
88 18 0.12
89 129 0.88
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (89 bp):
GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
TTGCAGAGGAGCAAACTGAATAAG
Found at i:30387532 original size:44 final size:44
Alignment explanation
Indices: 30387467--30387712 Score: 162
Period size: 44 Copynumber: 5.6 Consensus size: 44
30387457 CAGATCATAT
* * *
30387467 CAAACTTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
* * *
30387510 GCAAACCTTATC-CCCATGAAGTTGCAGTGGGGCAAGTTGAAGATA
1 -CAAACCTTATCTCCC-TGAAGTTGCAGTAGAGCAGGTTGAAGATA
** * * *
30387555 CAAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTGAAGTTA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
** * * * *
30387599 CTAGTCC-AATCTTCCTGAAGTTGCAGTGGAGC-GGATTAAAATGATA
1 C-AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGG-TT-GAA-GATA
* * ** *
30387645 -GATCC-TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
* * *
30387687 GCAAATCGTATTTCCCTGAAGTTGCA
1 -CAAACCTTATCTCCCTGAAGTTGCA
30387713 ATGGAACAGA
Statistics
Matches: 158, Mismatches: 33, Indels: 21
0.75 0.16 0.10
Matches are distributed among these distances:
42 4 0.03
43 6 0.04
44 118 0.75
45 27 0.17
46 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
Found at i:30387858 original size:44 final size:44
Alignment explanation
Indices: 30387788--30387939 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 44
30387778 TCAAACTTTG
* * ** * *
30387788 TCTCTCTGAAGTTGCAGTAGAACAAGTTGAAA-TTACAATTCTTA
1 TCTCCCTGAAGTTGCAGTGGGGCAAGTT-AAAGATACAAGTCTTA
*
30387832 TC-CCCTTGAAGTTGCAGTGGGGCAAGTTAAAGATACGAGTCTTA
1 TCTCCC-TGAAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCTTA
* *
30387876 TCTCCCTGAAGTTGAAGTGGGGCAAGTCAAA-AT-CATGAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGGGCAAGTTAAAGATACA--AGTCTTA
* *
30387920 TCTCTCTGATGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGG
30387940 AGTATACTAG
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 7 0.08
44 79 0.88
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCTTA
Found at i:30387936 original size:312 final size:312
Alignment explanation
Indices: 30387338--30387941 Score: 937
Period size: 312 Copynumber: 1.9 Consensus size: 312
30387328 CCACCAATCT
* * *
30387338 TATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
* *
30387403 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTGAAGTTGCAGTAAAGCAGATCATATC
66 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGTAAAGCAGATCATATC
* *
30387468 AAACTTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTT
131 AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAATAGCAAACCTTATCCCCATGAAGTT
* * ** * *
30387533 GCAGTGGGGCAAGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTGAAGTT
196 GCAGTGGGGCAAGTTAAAGATACAAGTCTTATCTCCCTGAAGTTGAAGTCGAGCAGATCAAAATC
30387598 ACTAGTCCAATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCC
261 ACTAGTCCAATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCC
30387650 TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
1 TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
*
30387715 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGTAGAGCAGATCATATC
66 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGTAAAGCAGATCATATC
** *
30387780 AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAATTA-CAATTCTTATCCCCTTGAAGT
131 AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAA-TAGCAAACCTTATCCCCATGAAGT
* * *
30387844 TGCAGTGGGGCAAGTTAAAGATACGAGTCTTATCTCCCTGAAGTTGAAGTGGGGCA-AGTCAAAA
195 TGCAGTGGGGCAAGTTAAAGATACAAGTCTTATCTCCCTGAAGTTGAAGTCGAGCAGA-TCAAAA
** *
30387908 TCA-TGAGTCTTATC-TCTCTGATGTTGCAGTGGAG
259 TCACT-AGTCCAATCTTC-CTGAAGTTGCAGTGGAG
30387942 TATACTAGAA
Statistics
Matches: 265, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
311 4 0.02
312 259 0.98
313 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (312 bp):
TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGTAAAGCAGATCATATC
AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAATAGCAAACCTTATCCCCATGAAGTT
GCAGTGGGGCAAGTTAAAGATACAAGTCTTATCTCCCTGAAGTTGAAGTCGAGCAGATCAAAATC
ACTAGTCCAATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCC
Found at i:30388288 original size:44 final size:45
Alignment explanation
Indices: 30388225--30388387 Score: 170
Period size: 44 Copynumber: 3.7 Consensus size: 45
30388215 CATTTCAAAC
* * **
30388225 CTTATCTCCCCGAAGTTGCAGTGGGGCAGGTTGAAGATA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT
* * * * *
30388269 CTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT
* * *
30388314 CTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGCTA-CTAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAGT
* *
30388358 CCTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
30388388 TTAAAATGAT
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
44 59 0.61
45 37 0.39
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGT
Found at i:30388445 original size:228 final size:225
Alignment explanation
Indices: 30388030--30388527 Score: 624
Period size: 228 Copynumber: 2.2 Consensus size: 225
30388020 GGAAAACAAA
* * *
30388030 TTGAAGCTACAAGTCTTATCCCACTGAGGTTGCAGTAGAATAGACTGAAGATAGCAGATATTACC
1 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCAGATATTACC
** * * * * * * *
30388095 TCTTTGAAGTTACAGTAGAGCAGATCACGATGAGTCTTATCTCCCTGAAGTTACAGTGGATCGGA
66 TCCCTAAAGTTACAGTAGAACAGATAACGATGAATCCTATCTCCCTGAAGTTACAGTGGAGCAGA
* * * *
30388160 CCATAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGACTTAGATTTTATCATTTCAAAC
131 CCAAAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATATCAAAC
**
30388225 CTTATCTCCCCGAAGTTGCAGTGGGGCAGG
196 CTTATCTCCCCGAAGTTGCAGTGGAACAGG
* *
30388255 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGC-GAGTCTTAT
1 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCAGA-TATTAC
* * * **
30388319 CTCCCTAAAGTTGCAGTGGAACAGACTGAAGCTACT-AATCCTATCTCCCTGAAGTTGTAGTGGA
65 CTCCCTAAAGTTACAGTAGAACAGA-T-AA-CGA-TGAATCCTATCTCCCTGAAGTTACAGTGGA
** * *
30388383 GCAGATTAAAATGATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATAT
126 GCAGACCAAAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATAT
* *
30388448 CAAACCTTATCTCCCTGAAGTTGCGGTGGAACAGG
191 CAAACCTTATCTCCCCGAAGTTGCAGTGGAACAGG
* * *
30388483 TTG-AGATACAAGTCTTATCTCCCTGACGTTGCAGTGGAGTAGACT
1 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACT
30388528 AAAACCACAA
Statistics
Matches: 234, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
224 2 0.01
225 75 0.32
226 1 0.00
227 40 0.17
228 115 0.49
229 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (225 bp):
TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCAGATATTACC
TCCCTAAAGTTACAGTAGAACAGATAACGATGAATCCTATCTCCCTGAAGTTACAGTGGAGCAGA
CCAAAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATATCAAAC
CTTATCTCCCCGAAGTTGCAGTGGAACAGG
Found at i:30390053 original size:2 final size:2
Alignment explanation
Indices: 30389997--30390042 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
30389987 TTTATAAACC
30389997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30390039 TA TA
1 TA TA
30390043 CTTACATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30390086 original size:8 final size:9
Alignment explanation
Indices: 30389997--30390086 Score: 63
Period size: 8 Copynumber: 10.4 Consensus size: 9
30389987 TTTATAAACC
30389997 TATATAT-A
1 TATATATCA
30390005 TATATAT-A
1 TATATATCA
30390013 TATATAT-A
1 TATATATCA
30390021 TATATAT-A
1 TATATATCA
30390029 TATATAT-A
1 TATATATCA
30390037 TATATACTTACA
1 TATATA--T-CA
*
30390049 TATATTTCA
1 TATATATCA
30390058 TA-AT-TCTTA
1 TATATATC--A
30390067 TATATATC-
1 TATATATCA
30390075 TATATA-CA
1 TATATATCA
30390083 TATA
1 TATA
30390087 CGTATCTAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 18
0.79 0.01 0.20
Matches are distributed among these distances:
7 3 0.04
8 50 0.69
9 7 0.10
10 4 0.06
11 2 0.03
12 6 0.08
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (9 bp):
TATATATCA
Found at i:30399067 original size:16 final size:16
Alignment explanation
Indices: 30399035--30399067 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30399025 TTCGTACATA
30399035 ATTTTATAAATAGATT
1 ATTTTATAAATAGATT
30399051 ATTTTCATAAATA-ATT
1 ATTTT-ATAAATAGATT
30399067 A
1 A
30399068 AATTATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTTATAAATAGATT
Found at i:30409049 original size:25 final size:25
Alignment explanation
Indices: 30409020--30409068 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30409010 TATTATTTTC
*
30409020 TGTGTTAATAATTT-GTGAATTAATA
1 TGTGTGAA-AATTTCGTGAATTAATA
*
30409045 TGTGTGAAAATTTCGTGATTTAAT
1 TGTGTGAAAATTTCGTGAATTAAT
30409069 TTTATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (25 bp):
TGTGTGAAAATTTCGTGAATTAATA
Found at i:30410206 original size:42 final size:42
Alignment explanation
Indices: 30410156--30410255 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
30410146 CTATACGAGT
** * *
30410156 GGCACTAAGTGTGCGAAATTAAAATGACGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
30410198 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
1 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
30410240 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
30410256 TACTAAGATC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
Found at i:30414603 original size:3 final size:3
Alignment explanation
Indices: 30414595--30414628 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
30414585 CAAAAAATGC
30414595 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30414629 ATATGGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:30423828 original size:21 final size:21
Alignment explanation
Indices: 30423804--30423855 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30423794 CTTTGATTTT
*
30423804 AATTTTTATTA-CTTATTTAAG
1 AATTTTTATTATCATA-TTAAG
*
30423825 AATTATTT-TTATCATATTAAT
1 AATT-TTTATTATCATATTAAG
30423846 AATTTTTATT
1 AATTTTTATT
30423856 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTTTTATTATCATATTAAG
Found at i:30430252 original size:64 final size:64
Alignment explanation
Indices: 30430061--30430534 Score: 419
Period size: 62 Copynumber: 7.4 Consensus size: 64
30430051 AGTTTCAGGC
* * * * ** *
30430061 TTTCAGCTAAAAGATAAAGCGATATAGCGTC-AAACTGAGTG-AAAAAACATAAAGAAATTAAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
* * * * *** * *
30430123 TTTCAGCTAAAAGATAGAGCTGAATAGCATCAAAACCAAGT--TAAAAACATAAAAATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
* * *
30430185 TTTCAGATAAAAGATAAA-CTAAATAGCGTAAAAAATGAGTGAAAAAAAACATAATGATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTG-AAAAAAACATAAAGATTTTCAG
* ** * *
30430249 TTTCAGCTAAAAGGCAAAGCTAAATAGCGTAAAAATTAAGTG-AAAAAACA-AAACGATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAA-GATTTTCAG
* * * * * * * *
30430312 TTTCAGCTAAAAAGATAAAGCTAAATAGAGTCAAATTTTAGTTAAAAATACATTAAGATTTACAG
1 TTTCAGAT-AAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
**
30430377 TTTCAGACTTTCAGCTCAAAGATAAAGCTAAATAGCGTCAAAATTTTGTGGAAAAAAA-ATAAAG
1 TTTCAGA---T-A----AAAGATAAAGCTAAATAGCGTCAAAATTGAGT-GAAAAAAACATAAAG
30430441 ATTTTCAG
57 ATTTTCAG
* * *
30430449 -TTCAGATAAAAGATAAA-CTAAATAGCATCAAAATTGAGTGAAAAAGACGTAAAGATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
* *
30430511 TTTCAGTTAAAAGATAAAGATAAA
1 TTTCAGATAAAAGATAAAGCTAAA
30430535 GATAAATAAC
Statistics
Matches: 337, Mismatches: 55, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
61 23 0.07
62 92 0.27
63 57 0.17
64 64 0.19
65 42 0.12
66 2 0.01
67 1 0.00
68 3 0.01
71 6 0.02
72 41 0.12
73 6 0.02
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (64 bp):
TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
Found at i:30430432 original size:136 final size:131
Alignment explanation
Indices: 30430121--30430572 Score: 404
Period size: 134 Copynumber: 3.4 Consensus size: 131
30430111 AAAGAAATTA
* * * ** * * *
30430121 AGTTTCAGCTAAAAGATAGAGCTGAATAGCATCAAAACCAAGT--TAAAAACATAAAAATTTTCA
1 AGTTTCAGCT-AAAGATAAAGCTAAATAGCGTCAAAATTAAGTGGAAAAAAAATAAAGATTTTCA
* * * * *
30430184 GTTTCAGATAAAAGATAAACTAAATAGCGTAAAAAATGAGTGAAAAAAAACATAATGA--T----
65 G-TTCAGATAAAAGATAAACTAAATAGCATCAAAATTGAGTG-AAAAAGACATAAAGATTTACAG
30430243 TTTC
128 TTTC
** * *
30430247 AGTTTCAGCTAAAAGGCAAAGCTAAATAGCGTAAAAATTAAGT-GAAAAAACAA-AACGATTTTC
1 AGTTTCAGCT-AAAGATAAAGCTAAATAGCGTCAAAATTAAGTGGAAAAAA-AATAAAGATTTTC
* * * * * *
30430310 AGTTTCAGCTAAAAAGATAAAGCTAAATAG-AGTCAAATTTTAGTTAAAAATACATTAAGATTTA
64 AG-TTCAGAT-AAAAGATAAA-CTAAATAGCA-TCAAAATTGAGTGAAAAAGACATAAAGATTTA
30430374 CAGTTTC
125 CAGTTTC
**
30430381 AGACTTTCAGCTCAAAGATAAAGCTAAATAGCGTCAAAATTTTGTGGAAAAAAAATAAAGATTTT
1 AG--TTTCAGCT-AAAGATAAAGCTAAATAGCGTCAAAATTAAGTGGAAAAAAAATAAAGATTTT
* *
30430446 CAGTTCAGATAAAAGATAAACTAAATAGCATCAAAATTGAGTGAAAAAGACGTAAAGATTTTCAG
63 CAGTTCAGATAAAAGATAAACTAAATAGCATCAAAATTGAGTGAAAAAGACATAAAGATTTACAG
30430511 TTTC
128 TTTC
** * * * *
30430515 AGTTAAAAGATAAAGATAAAGATAAATAACGTCAAAATTGAGTGGAAAAAATAATAAA
1 AGTT-TCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTAAGTGGAAAAAA-AATAAA
30430573 ATAAAAATGA
Statistics
Matches: 264, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
126 35 0.13
127 22 0.08
128 23 0.09
129 16 0.06
130 1 0.00
132 38 0.14
133 9 0.03
134 48 0.18
135 11 0.04
136 43 0.16
137 18 0.07
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.26
Consensus pattern (131 bp):
AGTTTCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTAAGTGGAAAAAAAATAAAGATTTTCAG
TTCAGATAAAAGATAAACTAAATAGCATCAAAATTGAGTGAAAAAGACATAAAGATTTACAGTTT
C
Found at i:30430442 original size:72 final size:70
Alignment explanation
Indices: 30430306--30430572 Score: 216
Period size: 72 Copynumber: 3.9 Consensus size: 70
30430296 ACAAAACGAT
* * * * * * *
30430306 TTTCAG-TTTCAGCTAAAAAGATAAAGCTAAATAGAGTCAAATTTTAGTTAAAAATACATTAAGA
1 TTTCAGATTTCAGCT--AAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAGAAATAAAGA
*
30430370 TTTACAG
64 TTTTCAG
**
30430377 TTTCAGACTTTCAGCTCAAAGATAAAGCTAAATAGCGTCAAAATTTTGTGGAAAAA-AAATAAAG
1 TTTCAGA-TTTCAGCT-AAAGATAAAGCTAAATAGCGTCAAAATTGAGT-GAAAAAGAAATAAAG
30430441 ATTTTCAG
63 ATTTTCAG
* **
30430449 -TTCAGA--T-A---AAAGATAAA-CTAAATAGCATCAAAATTGAGTGAAAAAGACGTAAAGATT
1 TTTCAGATTTCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAGAAATAAAGATT
30430506 TTCAG
66 TTCAG
** * * *
30430511 TTTCAG-TTAAAAGATAAAGATAAAGATAAATAACGTCAAAATTGAGTGGAAAAA-ATAATAAA
1 TTTCAGATT-TCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTGAGT-GAAAAAGA-AATAAA
30430573 ATAAAAATGA
Statistics
Matches: 162, Mismatches: 19, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
61 6 0.04
62 33 0.20
63 14 0.09
66 1 0.01
67 1 0.01
68 1 0.01
69 9 0.06
70 20 0.12
71 22 0.14
72 42 0.26
73 13 0.08
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (70 bp):
TTTCAGATTTCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAGAAATAAAGATT
TTCAG
Found at i:30432279 original size:91 final size:91
Alignment explanation
Indices: 30432163--30432450 Score: 344
Period size: 91 Copynumber: 3.2 Consensus size: 91
30432153 AGTAACTATT
* * *
30432163 CAATAACATGCCAGTTTG-TTCATAAGAGCTTTCCAACCAATAACATGCCAGATGCACATAGTGC
1 CAATAACACGCCAGATTGCTT-ATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGC
*
30432227 AAAGCTTGTAGACTGAATATTCTCCCC
65 AAAGCTTGTAGGCTGAATATTCTCCCC
* * ** *
30432254 CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAGCATGCCATACACACGTAGTGCA
1 CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCA
*** * *
30432319 AAGCCCATAGGTTGACTATTCTCCCC
66 AAGCTTGTAGGCTGAATATTCTCCCC
** * * * * * *
30432345 CAATAACACTTCATATTACTCATAAGAGCTTTCCAACCGATAACACGCTAGATGCACATAGTGTA
1 CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCA
30432410 AAGCTTGTAGGCTGAATATTCTCCCC
66 AAGCTTGTAGGCTGAATATTCTCCCC
* *
30432436 CGATAACATGCCAGA
1 CAATAACACGCCAGA
30432451 ATCTCCGAAG
Statistics
Matches: 159, Mismatches: 37, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
91 157 0.99
92 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (91 bp):
CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCA
AAGCTTGTAGGCTGAATATTCTCCCC
Found at i:30454242 original size:18 final size:19
Alignment explanation
Indices: 30454219--30454267 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
30454209 AATTGTGTCG
*
30454219 TTCATTTTCAAAAT-ATTA
1 TTCATTTTCAAAATCATAA
*
30454237 TTCATTTAC-AAATCATAA
1 TTCATTTTCAAAATCATAA
*
30454255 TTCAATTTCAAAA
1 TTCATTTTCAAAA
30454268 CATTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (19 bp):
TTCATTTTCAAAATCATAA
Found at i:30461402 original size:21 final size:22
Alignment explanation
Indices: 30461372--30461413 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30461362 CACTTCACAA
*
30461372 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
30461394 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
30461414 AAAGTCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:30463583 original size:42 final size:42
Alignment explanation
Indices: 30463532--30463639 Score: 171
Period size: 42 Copynumber: 2.5 Consensus size: 42
30463522 ATGCTAATAG
*
30463532 CCAGTTATGGTCTTACACGAATCTCATATCAATGCCAATGTC
1 CCAGATATGGTCTTACACGAATCTCATATCAATGCCAATGTC
* *
30463574 CCAGATATGGTCTTACACAAATCTCATATCGATGCCAATGTC
1 CCAGATATGGTCTTACACGAATCTCATATCAATGCCAATGTC
*
30463616 CCAGACATGGTCTTACACGTAATC
1 CCAGATATGGTCTTACACG-AATC
30463640 ACATCTCAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 56 0.93
43 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
CCAGATATGGTCTTACACGAATCTCATATCAATGCCAATGTC
Found at i:30493728 original size:89 final size:89
Alignment explanation
Indices: 30493577--30493755 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
30493567 AAGAAAATAA
*
30493577 TAAATCTAGATGGTCATATAGTAAAGGCGAGTGCTCCAGAAGAGACCCAAAGACATAACTAATAA
1 TAAATCTAGATGGCCATATAGTAAAGGCGAGTGCTCCAGAAGAGACCCAAAGACATAACTAATAA
30493642 GTAAAACTCCAGAAGAGGTTCAGG
66 GTAAAACTCCAGAAGAGGTTCAGG
30493666 TAAATCTAGATGGCCATATAGTAAAGGCGAGTGCTCCAGAAGAGACCCAAAGACATAACTAATAA
1 TAAATCTAGATGGCCATATAGTAAAGGCGAGTGCTCCAGAAGAGACCCAAAGACATAACTAATAA
30493731 GTAAAACTCCAGAAGAGGTTCAGG
66 GTAAAACTCCAGAAGAGGTTCAGG
30493755 T
1 T
30493756 GCCTGAAACT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (89 bp):
TAAATCTAGATGGCCATATAGTAAAGGCGAGTGCTCCAGAAGAGACCCAAAGACATAACTAATAA
GTAAAACTCCAGAAGAGGTTCAGG
Found at i:30495310 original size:17 final size:18
Alignment explanation
Indices: 30495265--30495312 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
30495255 TGAATGATCA
* *
30495265 TTTTGAGTTTAAGTCACT
1 TTTTGAGTTTAAATTACT
30495283 TTTT-A-TTTAAATTA-T
1 TTTTGAGTTTAAATTACT
30495298 TTTTGAGTTTAAATT
1 TTTTGAGTTTAAATT
30495313 TGATAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
17 9 0.35
18 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.58
Consensus pattern (18 bp):
TTTTGAGTTTAAATTACT
Found at i:30496127 original size:20 final size:20
Alignment explanation
Indices: 30496093--30496134 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
30496083 AACTATTTAA
** *
30496093 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
30496113 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
30496133 AT
1 AT
30496135 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:30504184 original size:609 final size:609
Alignment explanation
Indices: 30503057--30504258 Score: 2219
Period size: 609 Copynumber: 2.0 Consensus size: 609
30503047 TTTAACCACA
30503057 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
1 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
*
30503122 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATTGATTCAACAATTATTAAATT
66 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATTGATTCAACAATTACTAAATT
*
30503187 CCATGTACATATACCATCTATATCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
131 CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
*
30503252 CATGTACTAGTTCGTATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTAG
196 CATGTACTAATTCGTATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTAG
* *
30503317 AATATCGTTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTGT
261 AATACCATTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTGT
*
30503382 ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATTAGTAAGCTCTCAC
326 ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATCAGTAAGCTCTCAC
30503447 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCGCAACACATGCAGGACCACAACCAA
391 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCGCAACACATGCAGGACCACAACCAA
*
30503512 ATCGGTAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGACTCTGTA
456 ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGACTCTGTA
30503577 TTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACAT
521 TTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACAT
30503642 ATATTTCAGAGCATAACATAATTC
586 ATATTTCAGAGCATAACATAATTC
*
30503666 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAATCATT
1 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
*
30503731 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTA-TGAATTTAACAATTACTAAAT
66 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATTG-ATTCAACAATTACTAAAT
*
30503795 TCCATGTACATATACCATCTATACCGTATATCTGTATATCATATATAAACCATTTTCATGTAAAT
130 TCCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAAT
*
30503860 ACCTGTACTAATTCGTATTGAACTTGTGTAATCTCGTAATAA-ACTATGCCCGTTGAACCACTTA
195 ACATGTACTAATTCGTATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTA
* *
30503924 GAATACCATTAGATACGCGGGTAGTACACGCGAGATGTACTAAACTGTAAATTTGTCAATTCTTG
260 GAATACCATTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTG
* *
30503989 TACATGTATGCTCATACGAGCGATAAACGGTAGGCTCCTCCGAGCTGTGAATCAGTAAGCTCTCA
325 TACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATCAGTAAGCTCTCA
*
30504054 CGAGTTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCGCAACACATGCAGGACCACAACCA
390 CGAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCGCAACACATGCAGGACCACAACCA
30504119 AATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTG
455 AATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAAC-GGACTCTG
*
30504184 TATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCGAATAC
519 TATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATAC
30504249 ATATATTTCA
584 ATATATTTCA
30504259 ATTAAAGTAT
Statistics
Matches: 574, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
608 266 0.46
609 308 0.54
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (609 bp):
AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATTGATTCAACAATTACTAAATT
CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
CATGTACTAATTCGTATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTAG
AATACCATTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTGT
ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATCAGTAAGCTCTCAC
GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCGCAACACATGCAGGACCACAACCAA
ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGACTCTGTA
TTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACAT
ATATTTCAGAGCATAACATAATTC
Found at i:30508767 original size:62 final size:59
Alignment explanation
Indices: 30508659--30508775 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
30508649 ATCACTTTAA
* * *
30508659 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTTAATTTAATATTAAATCT
1 TATTAAAATAATATAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
30508718 TATTAAAATAATATAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
30508776 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAAATAATATAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:30508801 original size:20 final size:18
Alignment explanation
Indices: 30508754--30508860 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
30508744 CAAGATAAAC
30508754 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
30508771 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
30508791 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
*
30508810 ATTTAGA-TAAGTA-TTAA-
1 A-TTAAATTAA-TATTTAAT
*
30508827 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
30508847 ATTAAAATAATATT
1 ATTAAATTAATATT
30508861 AATTTTGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
16 4 0.06
17 11 0.16
18 10 0.14
19 18 0.26
20 27 0.39
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:30510808 original size:3 final size:3
Alignment explanation
Indices: 30510802--30510867 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
30510792 TCTGCTATAT
30510802 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
30510849 GTTA TTA CTA TTA TCA TTA
1 -TTA TTA TTA TTA TTA TTA
30510868 CTATATATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 53 0.93
4 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30514711 original size:4 final size:4
Alignment explanation
Indices: 30514702--30514759 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
30514692 GCAAAGTATC
* * *
30514702 AAAT AAAT AAA- AATAT GAAA- ACAT AAAT CAAC AAA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
30514749 AAAT AAAT AAA
1 AAAT AAAT AAA
30514760 GAAAAGAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
3 7 0.16
4 34 0.77
5 1 0.02
6 2 0.05
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:30515133 original size:23 final size:22
Alignment explanation
Indices: 30515086--30515131 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
30515076 AAACATTAGT
30515086 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
*
30515109 TAAACAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
30515130 TA
1 TA
30515132 TATATAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:30516667 original size:2 final size:2
Alignment explanation
Indices: 30516660--30516699 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30516650 ATGAGTTGGA
30516660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30516700 TAAAAAATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30523451 original size:26 final size:26
Alignment explanation
Indices: 30523415--30523474 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
30523405 TTTTATCCCT
* *
30523415 ATTTTACCCCCAATGAAATTTTGACG
1 ATTTTACCCCCAATAAAATTTTAACG
* *
30523441 ATTTTATCCCCGATAAAATTTTAACG
1 ATTTTACCCCCAATAAAATTTTAACG
30523467 ATTTTACC
1 ATTTTACC
30523475 ATTGGTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (26 bp):
ATTTTACCCCCAATAAAATTTTAACG
Found at i:30527056 original size:34 final size:32
Alignment explanation
Indices: 30527011--30527078 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
30527001 GGAAACACCC
30527011 AAAAATCGAATATAGTTAAGTCACCAAAAAAGAA
1 AAAAATCG-A-ATAGTTAAGTCACCAAAAAAGAA
* * *
30527045 AAAAATTGAATAGTTGAGTGACCAAAAAAGAA
1 AAAAATCGAATAGTTAAGTCACCAAAAAAGAA
30527077 AA
1 AA
30527079 TTACTAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 23 0.74
33 1 0.03
34 7 0.23
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (32 bp):
AAAAATCGAATAGTTAAGTCACCAAAAAAGAA
Found at i:30527088 original size:31 final size:32
Alignment explanation
Indices: 30527022--30527096 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
30527012 AAAATCGAAT
* * *
30527022 ATAGTTAAGTCACCAAAAAAGAAAAAAATTGA
1 ATAGTTGAGTGACCAAAAAAGAAAAAAACTGA
**
30527054 ATAGTTGAGTGACCAAAAAAGAAAATTACT-A
1 ATAGTTGAGTGACCAAAAAAGAAAAAAACTGA
*
30527085 ATAGTTGGGTGA
1 ATAGTTGAGTGA
30527097 TTACTAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 12 0.32
32 25 0.68
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.23
Consensus pattern (32 bp):
ATAGTTGAGTGACCAAAAAAGAAAAAAACTGA
Found at i:30531700 original size:2 final size:2
Alignment explanation
Indices: 30531693--30531719 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30531683 AAAGAAAGTG
30531693 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30531720 GGGACTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30541181 original size:14 final size:14
Alignment explanation
Indices: 30541162--30541195 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30541152 TCCCTAAAAG
30541162 AAATTTCAGCTTCA
1 AAATTTCAGCTTCA
*
30541176 AAATTTCGGCTTCA
1 AAATTTCAGCTTCA
30541190 AAATTT
1 AAATTT
30541196 TACCTGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (14 bp):
AAATTTCAGCTTCA
Found at i:30542155 original size:22 final size:21
Alignment explanation
Indices: 30542094--30542155 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 21
30542084 TGTTTTGAGG
*
30542094 TAAAAA-AATATTTAGAATAAT
1 TAAAAATATTATTTA-AATAAT
30542115 TAAAAATATTATTTAAAT--T
1 TAAAAATATTATTTAAATAAT
*
30542134 CT-ATAATATTATTTAAATAAT
1 -TAAAAATATTATTTAAATAAT
30542155 T
1 T
30542156 TGAAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 16 0.46
20 2 0.06
21 10 0.29
22 7 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAAATATTATTTAAATAAT
Found at i:30542166 original size:22 final size:21
Alignment explanation
Indices: 30542094--30542167 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
30542084 TGTTTTGAGG
*
30542094 TAAAAAAATATTTAGAATAA-T
1 TAAAAAATTATTTA-AATAATT
*
30542115 TAAAAATATTATTTAAAT--TC
1 TAAAAA-ATTATTTAAATAATT
* *
30542135 TATAATATTATTTAAATAATT
1 TAAAAAATTATTTAAATAATT
30542156 TGAAAAAATTAT
1 T-AAAAAATTAT
30542168 CCAAATTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 11 0.27
20 4 0.10
21 11 0.27
22 15 0.37
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAAAAATTATTTAAATAATT
Found at i:30546818 original size:17 final size:18
Alignment explanation
Indices: 30546786--30546820 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30546776 GGAATTTGGG
*
30546786 GAGTTTTGTCTTTTTATT
1 GAGTTTTCTCTTTTTATT
30546804 GAGTTTTCT-TTTTTATT
1 GAGTTTTCTCTTTTTATT
30546821 ATCCTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (18 bp):
GAGTTTTCTCTTTTTATT
Found at i:30551004 original size:74 final size:74
Alignment explanation
Indices: 30550871--30551026 Score: 170
Period size: 74 Copynumber: 2.1 Consensus size: 74
30550861 ATTTTTATGT
* * * * * * *
30550871 TAAAATGGTAAGTAATTGTGACAAAATTAAATTGTTACACGTATTTCATTTCCTAGTGACCAAGT
1 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACACGTATTTCATTTCCTAGTGACAAAAT
30550936 TTCCGACAC
66 TTCCGACAC
** ** *
30550945 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACATTTATTT-AGTTTTTTGGTGACAAAA
1 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACACGTATTTCA-TTTCCTAGTGACAAAA
**
30551009 TTTTTGACAC
65 TTTCCGACAC
30551019 TAAAATGA
1 TAAAATGA
30551027 CAGACAATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
73 1 0.01
74 66 0.99
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (74 bp):
TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACACGTATTTCATTTCCTAGTGACAAAAT
TTCCGACAC
Found at i:30551039 original size:74 final size:70
Alignment explanation
Indices: 30550947--30551129 Score: 165
Period size: 74 Copynumber: 2.5 Consensus size: 70
30550937 TCCGACACTA
* * * *
30550947 AAATGATAAGGAACTGTGACAAAATTAAATAGTCACATTTA-TTTAGTTTTTTGGTGACAAAATT
1 AAATG-TAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTA-TTTTTT-GTGACAAAACT
30551011 TTTGACACT
63 TTTGACA-T
* * * *
30551020 AAAATG-ACAGACAATTGTGATAAGATTTAAAT-GATCATAATTATTTTATTTTTTGTGATAAAA
1 -AAATGTA-AG-CAATTGTGACAA-AATTAAATAG-TCACAATTATTTTATTTTTTGTGACAAAA
30551083 CTTTTGACAT
61 CTTTTGACAT
* * *
30551093 TATTGTAAGTAATTGTGACAAAATTAAATAGTCACAA
1 AAATGTAAGCAATTGTGACAAAATTAAATAGTCACAA
30551130 GTAACCTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
70 12 0.14
71 11 0.12
72 6 0.07
73 4 0.05
74 31 0.35
75 20 0.23
76 4 0.05
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (70 bp):
AAATGTAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTATTTTTTGTGACAAAACTTTT
GACAT
Found at i:30554938 original size:949 final size:940
Alignment explanation
Indices: 30553505--30555408 Score: 2575
Period size: 951 Copynumber: 2.0 Consensus size: 940
30553495 CTAGATGACG
* * * * *
30553505 GATACATTGTTTCATTTTGGGTCTTGTTGGGTTTTTGAGCCTTCTTGTGAAGAGGAGATCCGAAG
1 GATACATTCTTTTATTTTGAGTCTTGTTGGGTTTTTGAACCTTCTTGTGAAGAGGAGATCCAAAG
* *
30553570 GGTGTGAACGTCAAGTACAGGGTCAATTCCTATTCGATTGGGTTCGTTAGGGTTTACTTTGTCTA
66 GGTGTGAACGTCAAGTACAGGGTCAATACCTATTCGATTGGGTTCGTTAGGGATTACTTTGTCTA
* * *
30553635 CGTAGGGCCAAACACTTTATAGACATAGGCATCGATTTGTTTGATAGGCTACAGTTCGGTTGGAA
131 CGTAGGGCCAAACACTTCATAGACATAGGCATAGATTTGTTTGATAGGCTACAGTTCAGTTGGAA
* * *
30553700 CGATTGTATCCTTCGATGACATCTTGGCCAAGATAATCAAGGTCAAATTGACTCTCAATATGGAA
196 CGATTGTATCCTCCGATGACATCTTGGCCAAGATAATCAAGGTAAAATTAACTCTCAATATGGAA
* * * * *
30553765 GGTGATAAAGATGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGTTATACTATGTTGATCG
261 GGTAATAAAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGCTATACTATGGTGATCA
*
30553830 AAATACATCGTTTTACCACAAATTTGCCACTTTTCAGAAGCATATGAATTTAGTAACTTCTTTGG
326 AAATACATCATTTTACCACAAATTTGCCACTTTTCAGAAGCATATGAATTTAGTAACTTCTTTGG
* * * *
30553895 TGGATGATGATGGTCGTATTTGTACAGACATGGATGCTATGTTTGGGGTTGCCGCTAGATATTTT
391 TGGATAATGATGGTCGTACTTGTACAGACATGGATGCTATGTTTGGGGTTCCCACTAGATATTTT
* * * *
30553960 CAGGGCGTTTTTACTTCGTCTAGGCCGGTGAATTTTCAT-TTT-TTAGAGGACATTTAGGTGTGT
456 CAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTCATATTTGTTAGACGACATTGAGGTGCGT
*
30554023 ATTACTCATTAGAA-AATGAGGGTTTTTCTATCCGATTTTACACCTCTAGAGATTAGGTCTACCA
521 ATTACT-ATTAGAAGAATG-GGGTTTTGCTATCCGATTTTACACCTCTAGAGATTAGGTCTACCA
* * * *
30554087 TTGACGGGATGTCTCCTTTGAAATCCCCGGGTAGGGATGGATTGCCAGATTTGTTTTTTCAGTAG
584 TTGACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGATTTGTTTTTTCAGAAG
* * * *
30554152 TATTGGCATACCATTGATGCTGATGTCACAAATTATTATTTGCAGGTGCTTTGAAGGGAGCTCCT
649 TATAGGCATACCATTGACGCTGATGTCACAAATTATTATTTGCAGGTGCTTCGAAGGGAGCTCCC
* * **
30554217 TTTTTTTATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAATCCTGTGAAAATGTC
714 TTTTTTGATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAACCCTACGAAAATGTC
30554282 ACAATTCCACCTGATTAGTCTCTGTT-CTATTCTTTACAAGATTATTTCTACAGTTTCGGGGAAC
779 ACAATTCCACCTGATTAGTCTCTGTTCCT-TTCTTTACAAGATTATTTCTACAGTTTCGGGGAAC
* * * * * *
30554346 ATGTTTAAAGGGGTTTTGTCCACTTGTATTGA-AGAGGCACAGAGTGCGTTTTTTCCTGACTGTT
843 AGGTTTAAAAGAGTTTTGTCCACTTGTATTGACA-AGGCACAGAGTGCATTTGTTCCTGACCGTT
*
30554410 TTATCACTAACAACTTCCTAATTGCTTATGAGGT
907 TTATCACTAACAACTTCCTAAATGCTTATGAGGT
*
30554444 GATACATTCTTTTGTTTTGAGTCTTGTTGGGTTTTCT-AACCTTCTTGTGAAGAGGAGATCCAAA
1 GATACATTCTTTTATTTTGAGTCTTGTTGGGTTTT-TGAACCTTCTTGTGAAGAGGAGATCCAAA
** * *** * * *
30554508 GGGTGTGGGCTTCAAGTACAGGGTTGGTACCTATTTGATTGGGTTTGTTAGGGATTATTTTGTCT
65 GGGTGTGAACGTCAAGTACAGGGTCAATACCTATTCGATTGGGTTCGTTAGGGATTACTTTGTCT
* * * *
30554573 ACTTGGGGCCAAACACTTCATAGATATAGGCGTTAG-TTTGTTTGATAGGCTACAGCTT-AGTTG
130 ACGTAGGGCCAAACACTTCATAGACATAGGC-ATAGATTTGTTTGATAGGCTACAG-TTCAGTTG
* *
30554636 GAACGATTGCATCAGGTTGATCCCTCCGGTGACATCTTGGCCGAGATAATCAAGGTAAAATTAAC
193 GAACGA-T---T---G-T-AT-CCTCCGATGACATCTTGGCCAAGATAATCAAGGTAAAATTAAC
* * * * * *
30554701 TCTCAATATGGAGGGTAATAGAA-AGGAATTGTTTTGGGGCCAACGGGCATGTGTGAATTGGCTG
248 TCTCAATATGGAAGGTAATA-AAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGCTA
*
30554765 TACTATGGTGATCAAAATACATCATTTTACCACAAATTTGCCACTTTTCGGAAGCATATGAATTT
312 TACTATGGTGATCAAAATACATCATTTTACCACAAATTTGCCACTTTTCAGAAGCATATGAATTT
* * * *
30554830 GGTAAGTTCTTTGGTGGATAATGATGGTCGTACTTGTATAGACATGGATGTTATGTTTGGGGTTC
377 AGTAACTTCTTTGGTGGATAATGATGGTCGTACTTGTACAGACATGGATGCTATGTTTGGGGTTC
* * * *
30554895 CCACTAGATATTTTCAGGGCCTTTTTACTTTGTTTAGGCCGGTGAATTTTGATAATTTGTTTGAC
442 CCACTAGATATTTTCAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTCAT-ATTTGTTAGAC
* * * * *
30554960 GACATTGATGTGCGTATTACTATTCGAAGAATGGGGTTTTGCTCTCTGATTTTACATCTCTAGAG
506 GACATTGAGGTGCGTATTACTATTAGAAGAATGGGGTTTTGCTATCCGATTTTACACCTCTAGAG
* ** * * *
30555025 ATTAGGTTTGTCATTGATGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCGGCTTT
571 ATTAGGTCTACCATTGACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGATTT
* * * * * *
30555090 GTTTTTTTAGAAGTATAGGTATATCATTGACGCTGATGTCACAGATTATTCTTTGCAGGTGGTTC
636 GTTTTTTCAGAAGTATAGGCATACCATTGACGCTGATGTCACAAATTATTATTTGCAGGTGCTTC
* *
30555155 GAAGGGAGCTCCCTTTTTTGATATTAATGCCACAAACTTCATTCTTTTTCCCAAGGTGCATAACC
701 GAAGGGAGCTCCCTTTTTTGATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAACC
* * * * *
30555220 CTACGTAGATGTCACAATTCCGCCTGATTAGTCTTTGTTCCTTTCTTTACAAGATTATTTCTATA
766 CTACGAAAATGTCACAATTCCACCTGATTAGTCTCTGTTCCTTTCTTTACAAGATTATTTCTACA
* ***
30555285 GTTTCGGGGAAGAGGTTTAAAAGAGTTTTGTCTGTTTGTATTGACAAGGCACAGAGTGCATTTGT
831 GTTTCGGGGAACAGGTTTAAAAGAGTTTTGTCCACTTGTATTGACAAGGCACAGAGTGCATTTGT
* * * *
30555350 TCCTGGCCGTTTTATCACTAATAACTTTCTAAATGCTTATGATGT
896 TCCTGACCGTTTTATCACTAACAACTTCCTAAATGCTTATGAGGT
*
30555395 GTTACATTCTTTTA
1 GATACATTCTTTTA
30555409 AACACAAGCG
Statistics
Matches: 833, Mismatches: 112, Indels: 28
0.86 0.12 0.03
Matches are distributed among these distances:
939 166 0.20
940 6 0.01
943 1 0.00
946 1 0.00
947 1 0.00
948 2 0.00
949 257 0.31
950 2 0.00
951 368 0.44
952 29 0.03
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (940 bp):
GATACATTCTTTTATTTTGAGTCTTGTTGGGTTTTTGAACCTTCTTGTGAAGAGGAGATCCAAAG
GGTGTGAACGTCAAGTACAGGGTCAATACCTATTCGATTGGGTTCGTTAGGGATTACTTTGTCTA
CGTAGGGCCAAACACTTCATAGACATAGGCATAGATTTGTTTGATAGGCTACAGTTCAGTTGGAA
CGATTGTATCCTCCGATGACATCTTGGCCAAGATAATCAAGGTAAAATTAACTCTCAATATGGAA
GGTAATAAAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGCTATACTATGGTGATCA
AAATACATCATTTTACCACAAATTTGCCACTTTTCAGAAGCATATGAATTTAGTAACTTCTTTGG
TGGATAATGATGGTCGTACTTGTACAGACATGGATGCTATGTTTGGGGTTCCCACTAGATATTTT
CAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTCATATTTGTTAGACGACATTGAGGTGCGT
ATTACTATTAGAAGAATGGGGTTTTGCTATCCGATTTTACACCTCTAGAGATTAGGTCTACCATT
GACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGATTTGTTTTTTCAGAAGTA
TAGGCATACCATTGACGCTGATGTCACAAATTATTATTTGCAGGTGCTTCGAAGGGAGCTCCCTT
TTTTGATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAACCCTACGAAAATGTCAC
AATTCCACCTGATTAGTCTCTGTTCCTTTCTTTACAAGATTATTTCTACAGTTTCGGGGAACAGG
TTTAAAAGAGTTTTGTCCACTTGTATTGACAAGGCACAGAGTGCATTTGTTCCTGACCGTTTTAT
CACTAACAACTTCCTAAATGCTTATGAGGT
Found at i:30558236 original size:20 final size:20
Alignment explanation
Indices: 30558187--30558236 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30558177 TAAACCACTT
*
30558187 CATTTACATACTTACCATTC
1 CATTTACTTACTTACCATTC
*
30558207 CATTTACTTACTTTCCATTC
1 CATTTACTTACTTACCATTC
* *
30558227 TATTTGCTTA
1 CATTTACTTA
30558237 GCATAAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (20 bp):
CATTTACTTACTTACCATTC
Found at i:30561596 original size:18 final size:18
Alignment explanation
Indices: 30561562--30561596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30561552 TTTGGGTTTC
*
30561562 TTTTTCTTTTGTCTTTTG
1 TTTTTCTTTGGTCTTTTG
*
30561580 TTTTTCTTTGGTGTTTT
1 TTTTTCTTTGGTCTTTT
30561597 TCTGATTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (18 bp):
TTTTTCTTTGGTCTTTTG
Found at i:30585790 original size:20 final size:20
Alignment explanation
Indices: 30585734--30585791 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
30585724 ATTTCTTCAA
*
30585734 AATTTTAGAAAATT-TA-TT
1 AATTTTAGAATATTATATTT
* *
30585752 GATCTTTTGAATA-TATATTT
1 AAT-TTTAGAATATTATATTT
30585772 AATTTTAGAATATTATATTT
1 AATTTTAGAATATTATATTT
30585792 TTATTTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 3 0.10
19 17 0.55
20 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (20 bp):
AATTTTAGAATATTATATTT
Found at i:30585831 original size:20 final size:20
Alignment explanation
Indices: 30585808--30585845 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30585798 TTATTTTTTT
30585808 AATT-TATTGATGCTTTTTAG
1 AATTATATTGAT-CTTTTTAG
*
30585828 AATTATATTTATCTTTTT
1 AATTATATTGATCTTTTT
30585846 TTTTTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (20 bp):
AATTATATTGATCTTTTTAG
Found at i:30586043 original size:25 final size:22
Alignment explanation
Indices: 30586012--30586055 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30586002 ATAGTTAACA
*
30586012 TCATCATCAATTGTCATTATTT
1 TCATCATCATTTGTCATTATTT
30586034 TCATCATCATTTGTCATTATTT
1 TCATCATCATTTGTCATTATTT
30586056 ACTCGCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (22 bp):
TCATCATCATTTGTCATTATTT
Found at i:30592037 original size:19 final size:19
Alignment explanation
Indices: 30592013--30592052 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30592003 CTTAGTGAGT
30592013 TACATAAAGAAAACATAAC
1 TACATAAAGAAAACATAAC
30592032 TACATAAAGAAAACATAAC
1 TACATAAAGAAAACATAAC
30592051 TA
1 TA
30592053 ACTTACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (19 bp):
TACATAAAGAAAACATAAC
Found at i:30594424 original size:43 final size:43
Alignment explanation
Indices: 30594360--30594470 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
30594350 ATGTTCCAAT
*
30594360 ATCGATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCATGTAAGAACATAGCTGGGCTATTGGC
* **
30594403 ATCGATTTGAGATTT-AGTGTAAGAACATAGCTGGGGTATTCAC
1 ATCGATTTGAGATTTCA-TGTAAGAACATAGCTGGGCTATTGGC
* **
30594446 ATCAATACGAGATTTCCATGTAAGA
1 ATCGATTTGAGATTT-CATGTAAGA
30594471 CCATGTTTGG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 49 0.84
44 7 0.12
45 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
ATCGATTTGAGATTTCATGTAAGAACATAGCTGGGCTATTGGC
Found at i:30597457 original size:22 final size:22
Alignment explanation
Indices: 30597432--30597473 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30597422 CAAAATTTGG
30597432 AATACATAA-ATAATAAAATAAT
1 AATACATAATA-AATAAAATAAT
*
30597454 AATACCTAATAAATAAAATA
1 AATACATAATAAATAAAATA
30597474 TTGGACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
AATACATAATAAATAAAATAAT
Found at i:30603046 original size:13 final size:14
Alignment explanation
Indices: 30603018--30603058 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
30603008 ACCTAAGTCC
*
30603018 ATAACAG-TAACAG
1 ATAACAGATATCAG
*
30603031 ATACCAGA-ATCAG
1 ATAACAGATATCAG
30603044 ATAACAGATATCAG
1 ATAACAGATATCAG
30603058 A
1 A
30603059 ATCCTACCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (14 bp):
ATAACAGATATCAG
Found at i:30607860 original size:20 final size:20
Alignment explanation
Indices: 30607837--30607887 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
30607827 TTGTTATTCC
30607837 TAGAAAATAAAATTTATACT
1 TAGAAAATAAAATTTATACT
*
30607857 TAGAAAATAGAATTTATACT
1 TAGAAAATAAAATTTATACT
30607877 TAGAAAATAAA
1 TAGAAAATAAA
30607888 TTCTCTCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (20 bp):
TAGAAAATAAAATTTATACT
Found at i:30608280 original size:21 final size:22
Alignment explanation
Indices: 30608245--30608296 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
30608235 AATATTATTG
*
30608245 ATTAATTAATTTAATTAGATAA
1 ATTAATTAATTTAATTAAATAA
*
30608267 ATTAATT-TTTTAATTAAATAA
1 ATTAATTAATTTAATTAAATAA
* *
30608288 TTTTATTAA
1 ATTAATTAA
30608297 CCCAATTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTAATTAATTTAATTAAATAA
Found at i:30609734 original size:8 final size:8
Alignment explanation
Indices: 30609721--30609753 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
30609711 TAAGTTTATC
30609721 TTTTAAAT
1 TTTTAAAT
30609729 TTTTAAAT
1 TTTTAAAT
30609737 TTTTAAAT
1 TTTTAAAT
*
30609745 TTTAAAAT
1 TTTTAAAT
30609753 T
1 T
30609754 CATGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTAAAT
Found at i:30612049 original size:22 final size:22
Alignment explanation
Indices: 30611970--30612041 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
30611960 ATTGTTCAAA
* **
30611970 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
30611992 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
30612014 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
30612036 CATGAG
1 CATGAG
30612042 GGTTTAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:30621905 original size:49 final size:49
Alignment explanation
Indices: 30621848--30621951 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
30621838 TCATGTGTTA
* * * *
30621848 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
30621897 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
30621946 TAATTT
1 TAATTT
30621952 GTTTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:30623455 original size:17 final size:17
Alignment explanation
Indices: 30623435--30623468 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30623425 AATATTAAGA
30623435 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
30623452 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
30623469 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:30623507 original size:41 final size:41
Alignment explanation
Indices: 30623449--30623629 Score: 110
Period size: 41 Copynumber: 4.5 Consensus size: 41
30623439 TATTAAATTA
*
30623449 TATATTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
1 TATATTTTA-TAGTATTATATTTAATAATAATTATGTTAAAT
* * *
30623490 TATATTTTATAGTATTATATATT-ATGAT-TTTA-G-GAAAT
1 TATATTTTATAGTATTATAT-TTAATAATAATTATGTTAAAT
** * * * * * * *
30623528 TCATA--CAAGAATATT-TA-ATATTAAGAATTTTATTAAAT
1 T-ATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
* *
30623566 TATATATTTCTATTAAATTATATTTAATAATAATTATGTTAAAT
1 TATAT-TTTATAGT--ATTATATTTAATAATAATTATGTTAAAT
30623610 TATATTTTATAGTATTATAT
1 TATATTTTATAGTATTATAT
30623630 ATTATGATTT
Statistics
Matches: 98, Mismatches: 28, Indels: 28
0.64 0.18 0.18
Matches are distributed among these distances:
34 1 0.01
35 2 0.02
36 4 0.04
37 9 0.09
38 10 0.10
39 4 0.04
40 7 0.07
41 27 0.28
42 5 0.05
43 8 0.08
44 21 0.21
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (41 bp):
TATATTTTATAGTATTATATTTAATAATAATTATGTTAAAT
Found at i:30623579 original size:18 final size:17
Alignment explanation
Indices: 30623554--30623588 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
30623544 AATATTAAGA
30623554 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
30623571 ATTTCTATTAAATTATAT
1 ATTT-TATTAAATTATAT
30623589 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:30623641 original size:120 final size:119
Alignment explanation
Indices: 30623340--30623726 Score: 670
Period size: 120 Copynumber: 3.2 Consensus size: 119
30623330 AAGTAGATTA
* * *
30623340 TAAAATATATTTAATAATAACTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
30623405 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAT
*
30623459 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
30623524 AAATTCATACAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTCTAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTT-TAT
30623579 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* *
30623644 AAATTCATATAAGAATATTTATTATTAAGACTTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTT-AT
30623699 TCAAA-TATATTTAATAATAATTAT-TTAA
1 T-AAATTATATTTAATAATAATTATGTTAA
30623727 GATATGATTA
Statistics
Matches: 256, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
119 116 0.45
120 137 0.54
121 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTAT
Found at i:30623967 original size:16 final size:16
Alignment explanation
Indices: 30623942--30623979 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
30623932 AGGATTACCT
*
30623942 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
30623958 GTTACACCTCTATTCC
1 ATTACACCTCTATTCC
30623974 ATTACA
1 ATTACA
30623980 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:30624966 original size:22 final size:20
Alignment explanation
Indices: 30624921--30624966 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30624911 AGAGGGGTCA
*
30624921 ACACGCCTATGCGGAGGGGC
1 ACACGCCTAAGCGGAGGGGC
*
30624941 ACACGCCTAAGTGGAAGGAGGC
1 ACACGCCTAAGCGG-AGG-GGC
30624963 ACAC
1 ACAC
30624967 ACCCGTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.28, C:0.28, G:0.35, T:0.09
Consensus pattern (20 bp):
ACACGCCTAAGCGGAGGGGC
Found at i:30627948 original size:39 final size:40
Alignment explanation
Indices: 30627811--30627949 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
30627801 TGGCGTTTGG
*
30627811 ACAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* *
30627851 ACACAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* * * *
30627891 -CAGGAAAGCACCGCTAAAAAT-GAGCATTAGCGGCGTTTTT
1 ACA-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-CTTT
30627931 ACAAAAAACGCCG-TAAAAA
1 ACAAAAAACGCCGCTAAAAA
30627950 ACCTAAGCCC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
39 22 0.26
40 61 0.72
41 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (40 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:30628042 original size:41 final size:41
Alignment explanation
Indices: 30627982--30628303 Score: 437
Period size: 41 Copynumber: 7.9 Consensus size: 41
30627972 TTCTGACCTT
* * * *
30627982 TCAGGGCTTTAGTGGCGTTTTTAAAAAACCGTCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
30628023 TCAGGGCTTTAGCGTCGTTTTTGGAGAAGCACCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
30628064 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCTCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
30628105 TTAGGGCTTTAGCGTCGTTTTTGAAAAAGCGCCGCTAATCC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
30628146 TCAGGGATTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
30628187 TCAAGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCCAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
30628228 TTAGGGCGTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
30628269 TCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
30628304 AAAAACATTT
Statistics
Matches: 245, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 245 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:30628448 original size:26 final size:26
Alignment explanation
Indices: 30628400--30628450 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
30628390 AAAATGGATA
** * *
30628400 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
30628426 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
30628451 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:30628651 original size:14 final size:14
Alignment explanation
Indices: 30628634--30628667 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30628624 GGGTTTAATA
30628634 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
30628648 TATATGGTTTGGGG
1 TATATGGTTTAGGG
30628662 TATATG
1 TATATG
30628668 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:30628906 original size:7 final size:7
Alignment explanation
Indices: 30628884--30628918 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
30628874 TATTAAATAA
30628884 GGTTTATG
1 GGTTTA-G
30628892 GG-TTAG
1 GGTTTAG
30628898 GGTTTAG
1 GGTTTAG
30628905 GGTTTAG
1 GGTTTAG
30628912 GGTTTAG
1 GGTTTAG
30628919 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 3 0.12
7 21 0.81
8 2 0.08
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:30628974 original size:69 final size:67
Alignment explanation
Indices: 30628827--30628988 Score: 220
Period size: 69 Copynumber: 2.4 Consensus size: 67
30628817 TGGATTCGGT
* * *
30628827 GTTAG-GTTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAGGTTTAT
1 GTTAGAGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAAGTTTAG
30628891 GG
66 GG
*
30628893 GTTAGGGTTTAGGGTTTAGGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAAGTT
1 GTTAGAG-TTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TT-TATATTAAATAAAGTT
30628957 TAGGG
63 TAGGG
* *
30628962 GTTAGTAGTTAGGGGTTAGGGGTTAGA
1 GTTAG-AGTTAGGGTTTAGGGTTTAGA
30628989 GGTTACGAGT
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
66 5 0.06
67 7 0.08
68 31 0.36
69 41 0.48
70 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.44
Consensus pattern (67 bp):
GTTAGAGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAAGTTTAG
GG
Found at i:30628986 original size:14 final size:14
Alignment explanation
Indices: 30628956--30629000 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
30628946 TAAATAAAGT
*
30628956 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
30628970 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
30628984 TTAGAGGTTACGAG
1 TTAGGGGTTAGGAG
30628998 TTA
1 TTA
30629001 CTGATTTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:30629000 original size:21 final size:21
Alignment explanation
Indices: 30628956--30629000 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30628946 TAAATAAAGT
* *
30628956 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTACGAG
30628977 TTAGGGGTTAG-AGGTTACGAG
1 TTAGGGGTTAGTA-GTTACGAG
30628998 TTA
1 TTA
30629001 CTGATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTACGAG
Found at i:30630573 original size:32 final size:32
Alignment explanation
Indices: 30630522--30630584 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
30630512 AGTTACATAC
*
30630522 TAGTTCATAGGCTCAAATTAATGGGGTTCTAT
1 TAGTACATAGGCTCAAATTAATGGGGTTCTAT
*
30630554 TAGTACATAGGCTCGAATTAATGGGGTTCTA
1 TAGTACATAGGCTCAAATTAATGGGGTTCTA
30630585 ATTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.35
Consensus pattern (32 bp):
TAGTACATAGGCTCAAATTAATGGGGTTCTAT
Found at i:30633406 original size:43 final size:43
Alignment explanation
Indices: 30633335--30633519 Score: 219
Period size: 43 Copynumber: 4.3 Consensus size: 43
30633325 GTCAATGTTA
* * * *
30633335 TAGCGGCGTTTGTA-GAAAAAGTGTCGCTAAAGGTCTTGTTCTT
1 TAGCGGCGTTTTTAGGAAAAA-CGCCGCTAAAGGTCTTGGTCTT
* * * *
30633378 TAGCGGCTTTTTTGGGAAAAATGCCGCTAAAGGTATTGGTCTT
1 TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
* *
30633421 TAGCGGCGTTTCTAGGAAAAACGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
** * * *
30633464 TAGCGGCGTTTGAAGGACAAGCACCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
30633507 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
30633520 TTCTAAAAGC
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
43 115 0.95
44 6 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
Found at i:30638745 original size:25 final size:25
Alignment explanation
Indices: 30638714--30638761 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30638704 AAATTCATTG
* * *
30638714 TCTATTAAAGATTTCATTCATTTCT
1 TCTATTAAAAATATCATCCATTTCT
30638739 TCTATTAAAAATATCATCCATTT
1 TCTATTAAAAATATCATCCATTT
30638762 TGCTTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (25 bp):
TCTATTAAAAATATCATCCATTTCT
Found at i:30642452 original size:7 final size:7
Alignment explanation
Indices: 30642427--30642474 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
30642417 TATTTTAATA
30642427 ATATTTT
1 ATATTTT
*
30642434 ATATAGTT
1 ATAT-TTT
*
30642442 -TATTTA
1 ATATTTT
30642448 ATATTTT
1 ATATTTT
30642455 ATATTTT
1 ATATTTT
30642462 ATATTTT
1 ATATTTT
30642469 ATATTT
1 ATATTT
30642475 AAATATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 1 0.03
7 32 0.91
8 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
ATATTTT
Found at i:30642459 original size:14 final size:14
Alignment explanation
Indices: 30642442--30642481 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
30642432 TTATATAGTT
30642442 TATTTAATATTTTA
1 TATTTAATATTTTA
*
30642456 TATTTTATATTTTA
1 TATTTAATATTTTA
30642470 TATTTAAATATT
1 TATTT-AATATT
30642482 ATTCTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTAATATTTTA
Found at i:30642519 original size:20 final size:21
Alignment explanation
Indices: 30642474--30642519 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
30642464 ATTTTATATT
*
30642474 TAAATATTATTCTTTTGATAG
1 TAAATATTATTCTTTTAATAG
*
30642495 AAAATATTATTC-TTTAATAG
1 TAAATATTATTCTTTTAATAG
30642515 TAAAT
1 TAAAT
30642520 TGATGTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAATATTATTCTTTTAATAG
Found at i:30642927 original size:42 final size:42
Alignment explanation
Indices: 30642874--30643075 Score: 325
Period size: 42 Copynumber: 4.8 Consensus size: 42
30642864 ATTTACAAAC
*
30642874 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
30642916 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
** *
30642957 AAAAACGCTACTAAAGACCATGTTCGTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
30642999 AAAAAAGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
30643041 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
30643076 TTTATTCTTA
Statistics
Matches: 147, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
41 37 0.25
42 110 0.75
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:30643010 original size:83 final size:84
Alignment explanation
Indices: 30642874--30643075 Score: 325
Period size: 83 Copynumber: 2.4 Consensus size: 84
30642864 ATTTACAAAC
*
30642874 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAAAGCCGCTAAAGAACATGT
30642939 TCTTTAGCGGCGCTTA-AA
66 TCTTTAGCGGCGCTTAGAA
** * * *
30642957 AAAAACGCTACTAAAGACCATGTTCGTTAGCGGCGCTTAGAAAAAAAAGCCGCTAAAGACCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAAAGCCGCTAAAGAACATGT
*
30643022 TCTTTAGCGGCGCTTAGAT
66 TCTTTAGCGGCGCTTAGAA
*
30643041 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
30643076 TTTATTCTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
83 75 0.70
84 32 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAAAGCCGCTAAAGAACATGT
TCTTTAGCGGCGCTTAGAA
Found at i:30643136 original size:125 final size:125
Alignment explanation
Indices: 30642874--30643117 Score: 317
Period size: 125 Copynumber: 1.9 Consensus size: 125
30642864 ATTTACAAAC
30642874 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
* * *****
30642939 TCTTTAGCGGCGCTTAAAAAAAACGCTACTAAAGACCATGTTCGTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGCTTAAAAAAAACGCCACTAAAGAACATGAAAAATAGCGGCGCTTAGAA
* * *
30642999 AAAAAAGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGATAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
* **** * * *
30643064 TCTTTAGCGGCGTTTATTCTTAAGCGCCGCTAAAGAACATGAAAAATAGTGGCG
66 TCTTTAGCGGCGCTTA-AAAAAAACGCCACTAAAGAACATGAAAAATAGCGGCG
30643118 TTTTTTTTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
125 77 0.77
126 23 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (125 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCGCTTAAAAAAAACGCCACTAAAGAACATGAAAAATAGCGGCGCTTAGAA
Found at i:30648988 original size:9 final size:9
Alignment explanation
Indices: 30648974--30649058 Score: 70
Period size: 9 Copynumber: 9.9 Consensus size: 9
30648964 AAGTTATACA
30648974 TTATGTAAG
1 TTATGTAAG
30648983 TTATGTAAG
1 TTATGTAAG
30648992 TTATGTAAG
1 TTATGTAAG
* *
30649001 TTGTGCAAG
1 TTATGTAAG
*
30649010 TTGTGT-A-
1 TTATGTAAG
* *
30649017 TTATGAAAC
1 TTATGTAAG
30649026 TTATGTAAG
1 TTATGTAAG
**
30649035 TTGCGTAAG
1 TTATGTAAG
*
30649044 TTGTGT-A-
1 TTATGTAAG
30649051 TTATGTAA
1 TTATGTAA
30649059 CTTACCCNNN
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
7 9 0.15
8 4 0.06
9 49 0.79
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:30649021 original size:34 final size:34
Alignment explanation
Indices: 30648983--30649062 Score: 124
Period size: 34 Copynumber: 2.4 Consensus size: 34
30648973 ATTATGTAAG
* *
30648983 TTATGTAAGTTATGTAAGTTGTGCAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGCAAGTTGTGTA
* *
30649017 TTATGAAACTTATGTAAGTTGCGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGCAAGTTGTGTA
30649051 TTATGTAACTTA
1 TTATGTAACTTA
30649063 CCCNNNNNNN
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.44
Consensus pattern (34 bp):
TTATGTAACTTATGTAAGTTGCGCAAGTTGTGTA
Found at i:30650760 original size:10 final size:9
Alignment explanation
Indices: 30650741--30650800 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
30650731 AGCGGGGTTC
30650741 TTTTTTCTT
1 TTTTTTCTT
30650750 TTTTCTTCTT
1 TTTT-TTCTT
30650760 TTTTTAT-TT
1 TTTTT-TCTT
*
30650769 TTTGTTTTTT
1 TTT-TTTCTT
*
30650779 GTTTTTTGTT
1 -TTTTTTCTT
*
30650789 TTTTTTGTT
1 TTTTTTCTT
30650798 TTT
1 TTT
30650801 GCATTGAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
9 23 0.51
10 19 0.42
11 3 0.07
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:30650760 original size:17 final size:16
Alignment explanation
Indices: 30650738--30650800 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
30650728 CCCAGCGGGG
*
30650738 TTCTTTTTTCTTTTTT
1 TTCTTTTTTGTTTTTT
*
30650754 CTTCTTTTTT-TATTTT
1 -TTCTTTTTTGTTTTTT
*
30650770 TTGTTTTTTGTTTTTT
1 TTCTTTTTTGTTTTTT
30650786 GTT-TTTTTTGTTTTT
1 -TTCTTTTTTGTTTTT
30650801 GCATTGAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.20
16 22 0.54
17 11 0.27
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.86
Consensus pattern (16 bp):
TTCTTTTTTGTTTTTT
Found at i:30650799 original size:14 final size:13
Alignment explanation
Indices: 30650741--30650799 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 13
30650731 AGCGGGGTTC
*
30650741 TTTTTTCTTTTTT
1 TTTTTTGTTTTTT
* * *
30650754 CTTCTT-TTTTTA
1 TTTTTTGTTTTTT
30650766 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
30650779 GTTTTTTGTTTTTT
1 -TTTTTTGTTTTTT
30650793 TTGTTTT
1 TT-TTTT
30650800 TGCATTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.24
13 11 0.30
14 17 0.46
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:30650800 original size:7 final size:7
Alignment explanation
Indices: 30650759--30650792 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
30650749 TTTTTCTTCT
*
30650759 TTTTTTA
1 TTTTTTG
30650766 TTTTTTG
1 TTTTTTG
30650773 TTTTTTG
1 TTTTTTG
30650780 TTTTTTG
1 TTTTTTG
30650787 TTTTTT
1 TTTTTT
30650793 TTGTTTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:30657446 original size:132 final size:132
Alignment explanation
Indices: 30657230--30658226 Score: 1561
Period size: 132 Copynumber: 7.6 Consensus size: 132
30657220 CATCAGTCTA
* * * * * * * * *
30657230 CTCCACTACTGCTTAGGGAGATAAGATCTGCTATTCTTCGATCGATTCCACTGTCGACCAAGGAG
1 CTCCACTAATGCTTAAGGAGATAAGATCTG-AAATCTTCAATCTATTCCACTGCCAACCAGGGAG
*
30657295 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACTC-CAGGTAGGTAAAATCTGCCATCTTCGA
65 ATAGAATTACTGGCTTCAATGTACTCCACTGTAAC-CACAGGGAGGTAAAATCTGCCATCTTCGA
30657359 TCTG
129 TCTG
* * *
30657363 CTCCACTAATGCTTAGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGGGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
30657428 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAAT-TCGTCATCTTCGAT
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTCGAT
30657492 CTG
130 CTG
* * *
30657495 CTCCACTACTGCTTAAAGAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
30657560 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
*
30657625 TA
131 TG
* * * *
30657627 CTCTACTAATGCCTAAGGATATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACAAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
*
30657692 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATATTCGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
30657757 TG
131 TG
** *
30657759 CTCCACTACCGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
* *
30657824 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
*
30657889 TA
131 TG
* *
30657891 CTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
*
30657956 TAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
30658021 TG
131 TG
* * *
30658023 CTTCACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
1 CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
30658088 TAGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
66 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
30658152 TG
131 TG
* * *
30658154 CTCCACTAATG-TCTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTCAACCAGGGAG
1 CTCCACTAATGCT-TAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAG
30658218 ATAGAATTA
65 ATAGAATTA
30658227 GCATCTTCGA
Statistics
Matches: 799, Mismatches: 61, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
131 126 0.16
132 644 0.81
133 29 0.04
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (132 bp):
CTCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGA
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATC
TG
Found at i:30657825 original size:44 final size:45
Alignment explanation
Indices: 30657512--30658220 Score: 181
Period size: 44 Copynumber: 16.1 Consensus size: 45
30657502 ACTGCTTAAA
*
30657512 GAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * *
30657556 GAGAT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCTCAGG
1 GAGATAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** ** * * * *
30657600 GAGGTAAAATCTGCCATCTTTGATCTACTCTACT---AATGCCTAAG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CCCAGG
* *
30657644 GATATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CAAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * *
30657688 GAGAT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCACAGG
1 GAGATAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** * * ** * * ** *
30657732 GAGGTAAAATCTGCCATATTCGATCTGCTCCACTACC-GCTTAAG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
*
30657776 GAGATAAGATCTGAAATCTTCAATCTATTCCGCTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * *
30657820 GAGAT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCTCAGG
1 GAGATAAG-A-T-CTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** ** * * * *
30657864 GAGGTAAAATCTGCCATCTTTGATCTACTCTACT---AATGCCTAAG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CCCAGG
30657908 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
* * * * *
30657952 GAGAT-AGAAT-T-ACTAGCTTCAATGTACTCCACTG-TAACCACAGG
1 GAGATAAG-ATCTGA-AATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** * * *
30657996 GAGGTAAAATCTGCCATCTTCGATCTGCTT-CACT---AATGCCTAGG
1 GAGATAAGATCTGAAATCTTCAATCT-ATTCCACTGCCAA--CCCAGG
30658040 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
*** * * *
30658084 GAGAT-AGAAT-T-ACGGCTTCAATGTACTCCACTG-TAACCACAGG
1 GAGATAAG-ATCTGAAATCTTCAATCTATTCCACTGCCAACC-CAGG
* * ** * ** * *
30658127 GAGGTAAAATCTGCCATCTTCGATCTGCTCCACT---AATGTCTAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CCCAGG
* *
30658171 GAGATAAGATCTAAAATCTTCAATCTATTCCACTGTCAA-CCAGG
1 GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
30658215 GAGATA
1 GAGATA
30658221 GAATTAGCAT
Statistics
Matches: 472, Mismatches: 129, Indels: 128
0.65 0.18 0.18
Matches are distributed among these distances:
41 2 0.00
42 36 0.08
43 102 0.22
44 232 0.49
45 82 0.17
46 10 0.02
47 8 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (45 bp):
GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCCAGG
Found at i:30658015 original size:88 final size:90
Alignment explanation
Indices: 30657377--30658021 Score: 214
Period size: 88 Copynumber: 7.3 Consensus size: 90
30657367 ACTAATGCTT
* * ** * * *
30657377 AGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC-CAGGGGGATAGAAT-TACTGG
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
* *
30657440 CTTCAATGTACTCCACTGTAACCCC
66 CTTCAATCTACTCCACTGTAACCAC
* * * * * ** * **
30657465 AGGGAGGTAAAAT-TCGTCATCTTCGATCTGCTCCACT-ACTGCTTAAAGAGATA-AGATCTGA-
1 AGGGAGATAAAATCT-GCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGA-ATCT-AC
* * * * *
30657526 AATCTTCAATCTATTCCGCTGCCAA-C-C
63 TAGCTTCAATCTACTCCACTG-TAACCAC
* * *** * * * * * *
30657553 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGCCA
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAA-CTCAGGGAGATAGAATCTACTA
* ** *
30657616 TCTTTGATCTACTCTAC--TAATGCCTA-
65 GCTTCAATCTACTCCACTGTAA--CC-AC
* * ** * * *
30657642 A-GGATATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC-AAGGGAGATAGAAT-TACTGG
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
*
30657704 CTTCAATGTACTCCACTGTAACCAC
66 CTTCAATCTACTCCACTGTAACCAC
* * * * * * * * *
30657729 AGGGAGGTAAAATCTGCCATATTCGATCTGCTCCACTACC-GCTTAAGGAGATA-AGATCTGA-A
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGA-ATCT-ACT
* * * *
30657791 ATCTTCAATCTATTCCGCTGCCAA-C-C
64 AGCTTCAATCTACTCCACTG-TAACCAC
* * *** * * * * * *
30657817 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGCCA
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAA-CTCAGGGAGATAGAATCTACTA
* ** *
30657880 TCTTTGATCTACTCTAC--TAATGCCTA-
65 GCTTCAATCTACTCCACTGTAA--CC-AC
* ** *
30657906 A-GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAAC-CAGGGAGATAGAAT-TACTAG
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
*
30657968 CTTCAATGTACTCCACTGTAACCAC
66 CTTCAATCTACTCCACTGTAACCAC
* *
30657993 AGGGAGGTAAAATCTGCCATCTTCGATCT
1 AGGGAGATAAAATCTGCCATCTTCAATCT
30658022 GCTTCACTAA
Statistics
Matches: 379, Mismatches: 137, Indels: 82
0.63 0.23 0.14
Matches are distributed among these distances:
85 4 0.01
86 2 0.01
87 70 0.18
88 213 0.56
89 80 0.21
90 10 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (90 bp):
AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTGCCAACTCAGGGAGATAGAATCTACTAG
CTTCAATCTACTCCACTGTAACCAC
Found at i:30659061 original size:67 final size:67
Alignment explanation
Indices: 30658943--30659077 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
30658933 AAACCTGGTG
* *
30658943 CGTTTTAAATAACAGTCCTGTTTCAGGCTCCTATATTGTTTAGAAACTTCTAGAGTAATATGCAA
1 CGTTCTAAACAACAGTCCTGTTTCAGGCTCCTATATTGTTTAGAAACTTCTAGAGTAATATGCAA
30659008 AA
66 AA
30659010 CGTTCTAAACAACAGTCCTGTTTCAGGCTCCTATATTGTTTAGAAACTTCTAGAGTAATATGCAA
1 CGTTCTAAACAACAGTCCTGTTTCAGGCTCCTATATTGTTTAGAAACTTCTAGAGTAATATGCAA
30659075 AA
66 AA
30659077 C
1 C
30659078 TTCCCTTGTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (67 bp):
CGTTCTAAACAACAGTCCTGTTTCAGGCTCCTATATTGTTTAGAAACTTCTAGAGTAATATGCAA
AA
Found at i:30660124 original size:6 final size:6
Alignment explanation
Indices: 30660113--30660195 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
30660103 CCCAGCGAGG
***
30660113 TTCTTT TTCTTT TTCTTT TTCTCTT TT-TTT TTC-TT TTCCCC TT-TTT
1 TTCTTT TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT
* * *
30660159 TTGTTT TTGTTT TT-TTT TTGTTT TCTCTTT TT-TTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT T-TCTTT TTCTTT TT
30660196 GGATTAAATC
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
5 21 0.32
6 35 0.54
7 9 0.14
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:30660149 original size:17 final size:17
Alignment explanation
Indices: 30660113--30660194 Score: 80
Period size: 18 Copynumber: 4.8 Consensus size: 17
30660103 CCCAGCGAGG
30660113 TTCT-TTTTCTTTTTCTTT
1 TTCTCTTTT-TTTTTC-TT
30660131 TTCTCTTTTTTTTTCTT
1 TTCTCTTTTTTTTTCTT
* *
30660148 TTCCCCTTTTTTTGT-TT
1 TT-CTCTTTTTTTTTCTT
* *
30660165 TTGT-TTTTTTTTTGTT
1 TTCTCTTTTTTTTTCTT
30660181 TTCTCTTTTTTTTT
1 TTCTCTTTTTTTTT
30660195 TGGATTAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 8 0.15
16 5 0.09
17 17 0.31
18 20 0.37
19 4 0.07
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.82
Consensus pattern (17 bp):
TTCTCTTTTTTTTTCTT
Found at i:30660195 original size:18 final size:17
Alignment explanation
Indices: 30660113--30660196 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 17
30660103 CCCAGCGAGG
*
30660113 TTCTTTTTCTTTTTCTTT
1 TTCTTTTT-TTTTTGTTT
*
30660131 TTCTCTTTTTTTTT-CTT
1 TTCT-TTTTTTTTTGTTT
***
30660148 TTCCCCTTTTTTTGTTT
1 TTCTTTTTTTTTTGTTT
*
30660165 TTGTTTTTTTTTTGTTT
1 TTCTTTTTTTTTTGTTT
30660182 TCTCTTTTTTTTTTG
1 T-TCTTTTTTTTTTG
30660197 GATTAAATCT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
16 7 0.13
17 21 0.40
18 21 0.40
19 4 0.08
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (17 bp):
TTCTTTTTTTTTTGTTT
Found at i:30665080 original size:25 final size:26
Alignment explanation
Indices: 30665034--30665085 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
30665024 TAAACATATG
30665034 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
30665059 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
30665085 A
1 A
30665086 TATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:30665274 original size:14 final size:14
Alignment explanation
Indices: 30665233--30665274 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
30665223 AATTAACAGT
30665233 AATAAAC-AATAAA
1 AATAAACTAATAAA
30665246 AAT-AACATAATAAA
1 AATAAAC-TAATAAA
30665260 AATAAACTAA-AAA
1 AATAAACTAATAAA
30665273 AA
1 AA
30665275 CAAATGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 12 0.46
15 3 0.12
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAACTAATAAA
Found at i:30670888 original size:26 final size:24
Alignment explanation
Indices: 30670844--30670891 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
30670834 CCAGGAAAAT
30670844 AATATTATTAGATTATTAAATAAA
1 AATATTATTAGATTATTAAATAAA
30670868 AATATTTATTGAGCATT-TTAAATA
1 AATA-TTATT-AG-ATTATTAAATA
30670892 TTCGAATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 5 0.24
26 9 0.43
27 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
AATATTATTAGATTATTAAATAAA
Found at i:30673477 original size:32 final size:34
Alignment explanation
Indices: 30673406--30673485 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
30673396 AAAAATTTAT
* *
30673406 ATTTCTTAAA-AA-ATATATATAAATTTTAAAATA
1 ATTTC-TAAATAATATATAAATAAATGTTAAAATA
*
30673439 AATTCTAAATAATATATAAATAAA-GTTAAAA-A
1 ATTTCTAAATAATATATAAATAAATGTTAAAATA
30673471 ATTTCTAAAATAATA
1 ATTTCT-AAATAATA
30673486 ATTTTGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 10 0.25
33 20 0.50
34 10 0.25
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (34 bp):
ATTTCTAAATAATATATAAATAAATGTTAAAATA
Found at i:30673481 original size:22 final size:22
Alignment explanation
Indices: 30673426--30673483 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
30673416 AAATATATAT
*
30673426 AAATTTTAAAATAAATTCTAAA
1 AAATTTTAAAATAAAGTCTAAA
* *
30673448 TAA-TATATAAATAAAGT-TAAA
1 AAATTTTA-AAATAAAGTCTAAA
30673469 AAATTTCTAAAATAA
1 AAATTT-TAAAATAA
30673484 TAATTTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 9 0.32
22 17 0.61
23 2 0.07
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTTTAAAATAAAGTCTAAA
Found at i:30677138 original size:35 final size:35
Alignment explanation
Indices: 30677099--30677296 Score: 105
Period size: 35 Copynumber: 5.4 Consensus size: 35
30677089 GTGCCCAACA
30677099 CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
1 CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
* * * * ***
30677134 CTAGTCGGATATACTGA-TGATTATAATAATGTGCCCAATA
1 CTAGTCAGATAAACTGACAGA--AT--T--TGCGCCCAGCG
* * * *
30677174 CTAGTCAGATGAACTAACAGAAGTTGCGCCCAGTG
1 CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
* * *
30677209 CTAGTCAGATAAACAGACA-AATACAATGGTGTGCCCAGCA
1 CTAGTCAGATAAACTGACAGAAT----T--TGCGCCCAGCG
* *
30677249 CTAGTCAGATAAACTGAC-GAAAGTTGCACCCAGCG
1 CTAGTCAGATAAACTGACAG-AATTTGCGCCCAGCG
*
30677284 CTAGTCGGATAAA
1 CTAGTCAGATAAA
30677297 TCAACAAATA
Statistics
Matches: 119, Mismatches: 29, Indels: 30
0.67 0.16 0.17
Matches are distributed among these distances:
34 4 0.03
35 59 0.50
36 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
40 45 0.38
41 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (35 bp):
CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
Found at i:30677201 original size:75 final size:74
Alignment explanation
Indices: 30677046--30677368 Score: 369
Period size: 75 Copynumber: 4.3 Consensus size: 74
30677036 TAACTAAACT
* * * *
30677046 TTGCGCCTAGCGCTAGTCAGATGAACTGACAAATATAAAGAGCGTGCCCAACACTAGTCAGATAA
1 TTGCGCCCAGCGCTAGTCGGAT-AACTGACAAATATAATG-GTGTGCCCAACACTAGTCAGATAA
*
30677111 ACTGACAGAAT
64 ACTGACAGAAG
** * ** * *
30677122 TTGCGCCCAGCGCTAGTCGGATATACTGATGATTATAATAATGTGCCCAATACTAGTCAGATGAA
1 TTGCGCCCAGCGCTAGTCGGATA-ACTGACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
*
30677187 CTAACAGAAG
65 CTGACAGAAG
* * * * *
30677197 TTGCGCCCAGTGCTAGTCAGATAAACAGACAAATACAATGGTGTGCCCAGCACTAGTCAGATAAA
1 TTGCGCCCAGCGCTAGTCGGAT-AACTGACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
30677262 CTGAC-GAAAG
65 CTGACAG-AAG
* * *
30677272 TTGCACCCAGCGCTAGTCGGATAAATCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
1 TTGCGCCCAGCGCTAGTCGGATAACT-GACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
*
30677337 CTGACAAAAG
65 CTGACAGAAG
* *
30677347 TTGCGCCTAGCACTAGTCGGAT
1 TTGCGCCCAGCGCTAGTCGGAT
30677369 GAATCGACAA
Statistics
Matches: 204, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
74 3 0.01
75 169 0.83
76 32 0.16
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (74 bp):
TTGCGCCCAGCGCTAGTCGGATAACTGACAAATATAATGGTGTGCCCAACACTAGTCAGATAAAC
TGACAGAAG
Found at i:30677256 original size:40 final size:39
Alignment explanation
Indices: 30677209--30677344 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
30677199 GCGCCCAGTG
30677209 CTAGTCAGATAAACAGACAAATACAATGGTGTGCCCAGCA
1 CTAGTCAGATAAACAGACAAATA-AATGGTGTGCCCAGCA
* * * ** *
30677249 CTAGTCAGATAAACTGAC---GAAA-GTTGCACCCAGCG
1 CTAGTCAGATAAACAGACAAATAAATGGTGTGCCCAGCA
* *
30677284 CTAGTCGGATAAATCA-ACAAATATAATGGTGTGCCCAACA
1 CTAGTCAGATAAA-CAGACAAATA-AATGGTGTGCCCAGCA
*
30677324 CTAGTCAGATAAACTGACAAA
1 CTAGTCAGATAAACAGACAAA
30677345 AGTTGCGCCT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
35 23 0.32
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 42 0.58
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (39 bp):
CTAGTCAGATAAACAGACAAATAAATGGTGTGCCCAGCA
Found at i:30677378 original size:150 final size:151
Alignment explanation
Indices: 30677046--30677371 Score: 406
Period size: 150 Copynumber: 2.2 Consensus size: 151
30677036 TAACTAAACT
* *
30677046 TTGCGCCTAGCGCTAGTCAGATGAACTGACAAATATAAAGAGCGTGCCCAACACTAGTCAGATAA
1 TTGCGCCTAGCGCTAGTCAGATGAACAGACAAATACAAAGAGCGTGCCCAACACTAGTCAGATAA
* * * * ** * *
30677111 ACTGACAGAATTTGCGCCCAGCGCTAGTCGGATATACTGATGATTATAATAATGTGCCCAATACT
66 ACTGACAGAAGTTGCACCCAGCGCTAGTCGGATAAACTAACAAATATAATAATGTGCCCAACACT
* *
30677176 AGTCAGATGAACTAACAGAAG
131 AGTCAGATAAACTAACAAAAG
* * * * * *
30677197 TTGCGCCCAGTGCTAGTCAGATAAACAGACAAATACAATG-GTGTGCCCAGCACTAGTCAGATAA
1 TTGCGCCTAGCGCTAGTCAGATGAACAGACAAATACAAAGAGCGTGCCCAACACTAGTCAGATAA
**
30677261 ACTGAC-GAAAGTTGCACCCAGCGCTAGTCGGATAAA-TCAACAAATATAATGGTGTGCCCAACA
66 ACTGACAG-AAGTTGCACCCAGCGCTAGTCGGATAAACT-AACAAATATAATAATGTGCCCAACA
*
30677324 CTAGTCAGATAAACTGACAAAAG
129 CTAGTCAGATAAACTAACAAAAG
* *
30677347 TTGCGCCTAGCACTAGTCGGATGAA
1 TTGCGCCTAGCGCTAGTCAGATGAA
30677372 TCGACAATGG
Statistics
Matches: 147, Mismatches: 26, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
149 2 0.01
150 111 0.76
151 34 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (151 bp):
TTGCGCCTAGCGCTAGTCAGATGAACAGACAAATACAAAGAGCGTGCCCAACACTAGTCAGATAA
ACTGACAGAAGTTGCACCCAGCGCTAGTCGGATAAACTAACAAATATAATAATGTGCCCAACACT
AGTCAGATAAACTAACAAAAG
Found at i:30677636 original size:2 final size:2
Alignment explanation
Indices: 30677629--30677654 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30677619 TAGAATTATC
30677629 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
30677655 TACAAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30679792 original size:42 final size:42
Alignment explanation
Indices: 30679728--30679837 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
30679718 TGTGTCTCAA
* * *
30679728 CCACGCAATCGTGCATCACTGTCACACGGGCGTGT-CATTCAG
1 CCACGCGATCGTGTATCTCTGTCACACGGGCGTGTCCATT-AG
* * * *
30679770 CCACGCGACCGTGTATCTCTGTCACATGGGTGTGTCCCTTAG
1 CCACGCGATCGTGTATCTCTGTCACACGGGCGTGTCCATTAG
*
30679812 CCACACGATCGTGTAT-TCCTGTCACA
1 CCACGCGATCGTGTATCT-CTGTCACA
30679838 TGGTTTGGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 53 0.93
43 3 0.05
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (42 bp):
CCACGCGATCGTGTATCTCTGTCACACGGGCGTGTCCATTAG
Found at i:30683544 original size:21 final size:22
Alignment explanation
Indices: 30683520--30683562 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30683510 TTTTAAATGA
*
30683520 TAAA-TATGTTTTTTAATAAAT
1 TAAATTATATTTTTTAATAAAT
*
30683541 TAAATTATATTTTTTTATAAAT
1 TAAATTATATTTTTTAATAAAT
30683563 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAAATTATATTTTTTAATAAAT
Found at i:30688746 original size:418 final size:421
Alignment explanation
Indices: 30687929--30688720 Score: 1128
Period size: 418 Copynumber: 1.9 Consensus size: 421
30687919 TGGTAAGTTC
* * * *
30687929 TAAGACTTAAATCATTCATTGTACATTGTTGAAATAGTGGGTTGATTCTCTAAGCAAGGCATTGT
1 TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
* * ** * *
30687994 AGTCATTGGTGTTTATCGAACAACATAACCAATTGTTTTTGTATTACTGTTCTTTATTTGTTATA
66 AGACATAGGTGTTTATCGAACAACATAACCAATTACTTTTGTATTACTGTTATTCATTTGTTATA
* *
30688059 CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTGCATTTGATATT
131 CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTACATTTGACATT
* * *
30688124 AAAATCTAACACTTGACATAGTAAGTGGTGTTTCTGGTGTTGATTTTTGCTAGTAATAGAAGGTT
196 AAAATCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATAGAAGGTT
* * * * * *
30688189 CATCTGTTTCATGTCCCTTAGTGTTGGATGGATCCAATTACACGTACTAGAGGGCAAAGATGAAT
261 CATCTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACACGTAATAGAAGGCAAAGATGAAG
* * ** *
30688254 GCACTTATAAAGTTAATGGATGAACAGGCCTGGTGTACAATTTTTACTAAATAGGAGCCACCTAC
326 GCACTTATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTAAATAGGAGCCACCTAC
30688319 AACTAAAACCAATTGCTACACAGGTGAGTGG
391 AACTAAAACCAATTGCTACACAGGTGAGTGG
* *
30688350 TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTTTAAGTAAGGCACTGT
1 TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
* *
30688415 AGACATAGGTGTTTA-CTGAACAACATAACCAATTACTTTTGTATTATTGTTATTCATTTTTTAT
66 AGACATAGGTGTTTATC-GAACAACATAACCAATTACTTTTGTATTACTGTTATTCATTTGTTAT
* *
30688479 ACACCTCAAGTATAACTGCTCA-ATAATATTACTTGC-AAA-TAGACTATTCTTACATTTGACAT
130 ACACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTACATTTGACAT
* * *
30688541 TAGAGTCTAACACTTGACGTAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAAT-GAAAGG
195 TAAAATCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATAG-AAGG
* * * *
30688605 TTCGTTTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACATGTAATAGAAGGCAAGGATGA
259 TTCATCTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACACGTAATAGAAGGCAAAGATGA
* * * *
30688670 AGGTA-TTCATAAACTTAATGGATGAAAAGGCTTGGCATATAGTTCTTACTA
324 AGGCACTT-ATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTA
30688721 GATGAGAGTT
Statistics
Matches: 325, Mismatches: 43, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
417 3 0.01
418 170 0.52
419 3 0.01
420 14 0.04
421 135 0.42
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (421 bp):
TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
AGACATAGGTGTTTATCGAACAACATAACCAATTACTTTTGTATTACTGTTATTCATTTGTTATA
CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTACATTTGACATT
AAAATCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATAGAAGGTT
CATCTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACACGTAATAGAAGGCAAAGATGAAG
GCACTTATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTAAATAGGAGCCACCTAC
AACTAAAACCAATTGCTACACAGGTGAGTGG
Found at i:30691671 original size:43 final size:41
Alignment explanation
Indices: 30691608--30691721 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 41
30691598 TGATTTCATG
* *
30691608 TAAGACCATGT-TTGGAACATTGGCACCGAAGTGAGAGAACGTA
1 TAAGACCATGTCTTGG-ACATTGGCATCGAA-TAAGAG-ACGTA
* *
30691651 TAAGACCATGTCTTGGACATTGGCATCGTATAAGAGTCGTA
1 TAAGACCATGTCTTGGACATTGGCATCGAATAAGAGACGTA
* * *
30691692 TAAGACCTTGTCTGGGACAATGGCATCGAA
1 TAAGACCATGTCTTGGACATTGGCATCGAA
30691722 ATGTGTTAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.48
42 5 0.08
43 23 0.37
44 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (41 bp):
TAAGACCATGTCTTGGACATTGGCATCGAATAAGAGACGTA
Found at i:30693576 original size:56 final size:57
Alignment explanation
Indices: 30693396--30693593 Score: 263
Period size: 57 Copynumber: 3.5 Consensus size: 57
30693386 ATTATTTTGG
* * * * * **
30693396 TAATAAACAACAATGGACAACAACAATTAAATACCATTTTTGACAGTTTAATTCCAA
1 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
* * * * * *
30693453 AAATAAATAAAAATGAAGAACAATAATTAAACACCCTTTTTGACAACTTAATTCCAG
1 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
30693510 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTT-ACAACTTAATTCCAA
1 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
*
30693566 TAATAAATAACAATAAACAACAACAATA
1 TAATAAATAACAATGAACAACAACAATA
30693594 TGAACAAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
56 41 0.33
57 82 0.67
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.25
Consensus pattern (57 bp):
TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
Found at i:30705235 original size:26 final size:26
Alignment explanation
Indices: 30705206--30705257 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
30705196 TTGGGTTGTA
30705206 ATCAACTAAAAAGCTACCTTTTAACT
1 ATCAACTAAAAAGCTACCTTTTAACT
*
30705232 ATCAACTGAAAAGCTACCTTTTAACT
1 ATCAACTAAAAAGCTACCTTTTAACT
30705258 GAGAGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCAACTAAAAAGCTACCTTTTAACT
Found at i:30709026 original size:63 final size:64
Alignment explanation
Indices: 30708933--30709062 Score: 253
Period size: 63 Copynumber: 2.0 Consensus size: 64
30708923 TGCCAAAATC
30708933 TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
1 TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
30708997 TTTT-CCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
1 TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
30709060 TTT
1 TTT
30709063 CCGGAAAATG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 62 0.94
64 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (64 bp):
TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
Found at i:30710269 original size:17 final size:17
Alignment explanation
Indices: 30710247--30710281 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30710237 TAGCTTTAAT
*
30710247 ATTAATTGTATAACACA
1 ATTAATTATATAACACA
*
30710264 ATTAATTATATAATACA
1 ATTAATTATATAACACA
30710281 A
1 A
30710282 ATTTGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTAATTATATAACACA
Found at i:30710298 original size:6 final size:6
Alignment explanation
Indices: 30710287--30710314 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30710277 TACAAATTTG
30710287 TAATAT TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAAT
30710315 TGTATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:30712602 original size:19 final size:20
Alignment explanation
Indices: 30712578--30712625 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
30712568 TAATTATATT
30712578 TAAAATAAATTATAACT-AA
1 TAAAATAAATTATAACTAAA
30712597 TAAAATAAATTATAACTAAA
1 TAAAATAAATTATAACTAAA
30712617 TAAACATAA
1 TAAA-ATAA
30712626 TTTCTAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 17 0.63
20 6 0.22
21 4 0.15
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATAAATTATAACTAAA
Found at i:30715773 original size:33 final size:33
Alignment explanation
Indices: 30715730--30715792 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
30715720 AAATTTATAG
30715730 TTTTTAATATTTATTTCAAAATTTTTAAAATGT
1 TTTTTAATATTTATTTCAAAATTTTTAAAATGT
* * * **
30715763 TTTTTTATATTTTTTTGAATTTTTTTAAAA
1 TTTTTAATATTTATTTCAAAATTTTTAAAA
30715793 AAAATTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (33 bp):
TTTTTAATATTTATTTCAAAATTTTTAAAATGT
Found at i:30716719 original size:29 final size:29
Alignment explanation
Indices: 30716686--30716744 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
30716676 TTTGTGTGTT
*
30716686 CAATTTCTCAATTTCTTTTGGTATTTTTA
1 CAATTCCTCAATTTCTTTTGGTATTTTTA
30716715 CAATTCCTCAATTTCTTTTGGTATTTTTA
1 CAATTCCTCAATTTCTTTTGGTATTTTTA
30716744 C
1 C
30716745 TTGTTCGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (29 bp):
CAATTCCTCAATTTCTTTTGGTATTTTTA
Found at i:30718540 original size:24 final size:23
Alignment explanation
Indices: 30718512--30718557 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
30718502 TTTGGAGAAT
30718512 TTTGTGTTT-ACGTTTTGTGGGTTC
1 TTTGT-TTTCACGTTTTG-GGGTTC
*
30718536 TTTGTTTTCAGGTTTTGGGGTT
1 TTTGTTTTCACGTTTTGGGGTT
30718558 TAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.07, G:0.30, T:0.59
Consensus pattern (23 bp):
TTTGTTTTCACGTTTTGGGGTTC
Found at i:30737144 original size:5 final size:5
Alignment explanation
Indices: 30737129--30737159 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
30737119 GAAAGTTGCT
30737129 AAAGAA AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAG-A AAAGA AAAGA AAAGA AAAGA AAAGA
30737160 GCTTTGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:30738130 original size:84 final size:84
Alignment explanation
Indices: 30737977--30738132 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 84
30737967 ATGTATTTTC
* * *
30737977 GTGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTATACGTGGAAGACCATGTCTGGGACA
1 GTGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTATACATGGAAGACCACGTCTAGGACA
30738042 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
30738061 GTGTAAGACC-CTATCTGGGACAG-TGGCATCGA-TATGTG-ATTACATGTG-AGACCACGTCTA
1 GTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGACT-TGTGTA-TACATG-GAAGACCACGTCTA
*
30738121 GGACGTTGGCAT
61 GGACATTGGCAT
30738133 TGTACGAGCC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
83 3 0.05
84 58 0.92
85 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTATACATGGAAGACCACGTCTAGGACA
TTGGCATCGTATTTGATTT
Done.