Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 27 of 230
Found at i:7404082 original size:16 final size:16
Alignment explanation
Indices: 7404061--7404145 Score: 100
Period size: 16 Copynumber: 4.9 Consensus size: 16
7404051 CTTTTTTTAA
7404061 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
7404077 AAAAAAGAAACAAAAAG
1 AAAAAAGAAA-AAAAAG
7404094 AAAAAA-AAGAAAAAAG
1 AAAAAAGAA-AAAAAAG
7404110 AAAAAAGGAAAAAGAAAG
1 AAAAAA-GAAAAA-AAAG
7404128 AAGAAGAAGAAGAAAAAA
1 AA-AA-AAGAA-AAAAAA
7404146 AGGAGAGGCC
Statistics
Matches: 61, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
16 24 0.39
17 16 0.26
18 8 0.13
19 8 0.13
20 5 0.08
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:7404098 original size:26 final size:25
Alignment explanation
Indices: 7404059--7404145 Score: 113
Period size: 26 Copynumber: 3.3 Consensus size: 25
7404049 CACTTTTTTT
7404059 AAAAAAAAGAAAAAAAAGAAAAAAG
1 AAAAAAAAGAAAAAAAAGAAAAAAG
7404084 AAACAAAAAGAAAAAAAAGAAAAAAG
1 AAA-AAAAAGAAAAAAAAGAAAAAAG
*
7404110 -AAAAAAGGAAAAAGAAAGAAGAAGAAG
1 AAAAAAAAGAAAAA-AAAGAA-AA-AAG
7404137 AAGAAAAAA
1 AA-AAAAAA
7404146 AGGAGAGGCC
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
24 10 0.19
25 11 0.20
26 24 0.44
27 3 0.06
28 1 0.02
29 5 0.09
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAAAGAAAAAAG
Found at i:7404122 original size:1 final size:1
Alignment explanation
Indices: 7404059--7404115 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
7404049 CACTTTTTTT
* * * * * * *
7404059 AAAAAAAAGAAAAAAAAGAAAAAAGAAACAAAAAGAAAAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7404116 GGAAAAAGAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.02, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:7405169 original size:45 final size:45
Alignment explanation
Indices: 7405017--7406452 Score: 649
Period size: 44 Copynumber: 31.8 Consensus size: 45
7405007 CATCATGGCG
* * * *
7405017 AATCTTATCTTCCTGAAGTTGCAGTGGAACAGATT-AAAACCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCA
* * * * *
7405061 AACCTTAT-TCTTCTAAAGTTGCAGTAGAGCAGGTTGAA-ATTA-CA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCA
* * * *
7405105 AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7405150 AACCTTATCTCCTTGAAGTTGCAGTGGAGTAGGTTGAAGATA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7405194 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7405239 AATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCA
* * * * **
7405290 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATATTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
7405331 AACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGTTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * *
7405375 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7405420 AATCTTATTTCCCTGAAGTTGCAGTGGAACATAGTAAAGTT-ATAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC--AG---A-TTGA-AGATAGCA
* ** ** * * *
7405471 GATCTTATCTCTGTG-AGATTAAAGTAGAGCAGA-T---CATATCA
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
7405512 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
7405557 AATCTTATTTCCATGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATAGCA
* * * * * * ** *
7405608 GACCTTATATCTCTGAGGTTGCAGT--AG-AG-TAGATCATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
7405649 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATCGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * ** * * *
7405694 GATCTTATTTCCCTGAAGTTTCAGTAGAATATATTAAAGCTATAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGATAGCA
* * * * * *
7405745 GATCTTATCT-CTTTAAGGTTGCAGTAGAGCAGA-T---CATATCA
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGATAGCA
* * ** *
7405786 AACCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------ATAGCA
* * *
7405837 GATCTTATCTCTCC-GAAGTTACAGTAGAGCAGA-T--A-ATAGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7405878 AACCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTA-CA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * *
7405922 AGTCTTACCT-CATGAAATTGCAGTGGAGCAGACTGAATATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7405966 AACCTTATCTCCCTGAAGTTGCAATAGAGCAGGTTGAAGATA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * *
7406010 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * *
7406055 AATCTTATTTCCCTGATGTTGTAGTGGAACAGATTGAAGCTATAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCA
* * * * * *
7406106 AGTCTTATCTCACTAAAGTTGCAGTAGAGCAGA-T---CATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* ** * * * * * * *
7406147 AACCTTATCTCTTTAAAGTTGTAGTGGTGCAGGTTAAAAATA-AA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * *
7406191 TCAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGACAGGCTA
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-GC-A
* * * * **
7406240 CGAATCTTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGCCA-CA
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * * * * *
7406286 AACCTTATCTCTCTAAATTTGCAGTAGAGCAGGTTGAA-ATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* * * *
7406330 AACCTTATCTCCCTGAAGTT-CTAGTGGAGCAGGTTGACGATA-CC
1 AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGATAGCA
* * *
7406374 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
* *
7406418 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
7406453 AAAACGATGA
Statistics
Matches: 1036, Mismatches: 268, Indels: 176
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.00
41 159 0.15
42 12 0.01
43 31 0.03
44 325 0.31
45 241 0.23
46 34 0.03
47 8 0.01
48 4 0.00
49 43 0.04
50 14 0.01
51 160 0.15
52 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
Found at i:7405350 original size:41 final size:44
Alignment explanation
Indices: 7405293--7405408 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 44
7405283 AATTACAGAT
* *
7405293 CTTATCT-CTCTGAAGTTGCAGTAGAGCAGATCATA-TTA-AA-C
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGATCAAAGTTACAAGC
* * *
7405334 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGT
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAGTTACAAGC
* *
7405378 CTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGAT
7405409 TGAAGATAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 28 0.44
42 5 0.08
43 2 0.03
44 28 0.44
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAGTTACAAGC
Found at i:7405356 original size:181 final size:181
Alignment explanation
Indices: 7405148--7405584 Score: 617
Period size: 181 Copynumber: 2.4 Consensus size: 181
7405138 CTGAAGATAG
* *
7405148 CAAACCTTATCTCCTTGAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGATACAAGTCTTATCTCCCTGAAGT
* *
7405213 TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAG
66 TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGAGTAAAG
* **
7405278 CTATAAATTACAGATCTTATCTCTCTGA-AGTTGCAGTAGAGCAGATCATAT
131 CTATAAATAACAGATCTTATCTCTCTGAGA-TTAAAGTAGAGCAGATCATAT
* *
7405329 TAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGATACAAGTCTTATCTCCCTGAAGT
* * * * *
7405394 TGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACATAGTAAAG
66 TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGAGTAAAG
* *
7405459 TTATAAATAACAGATCTTATCTCTGTGAGATTAAAGTAGAGCAGATCATAT
131 CTATAAATAACAGATCTTATCTCTCTGAGATTAAAGTAGAGCAGATCATAT
** * * ** * *
7405510 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGCGAA-TCTTATTTCCATGAA
1 CAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGATA-C-AAGTCTTATCTCCCTGAA
7405574 GTTGCAGTGGA
64 GTTGCAGTGGA
7405585 ACAGATTAAA
Statistics
Matches: 227, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 199 0.88
182 26 0.11
183 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (181 bp):
CAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGATACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGAGTAAAG
CTATAAATAACAGATCTTATCTCTCTGAGATTAAAGTAGAGCAGATCATAT
Found at i:7405368 original size:92 final size:92
Alignment explanation
Indices: 7405107--7406222 Score: 474
Period size: 92 Copynumber: 12.3 Consensus size: 92
7405097 AAATTACAAG
* * * * * * *
7405107 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAGCAAACCTTATCTCCTTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT---CATATCAAACCTTATCTCCCTGAAGTTGC
* *
7405172 AGTGGAGTAGGTTGAAG-AT--A-CA-AG-
63 AGTGGAGCAGGTTAAAGTATAAATCACAGA
* * * * * * * *
7405196 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT---CATATCAAACCTTATCTCCCTGAAGTTGC
* * *
7405261 AGTGGAACAGATTAAAGCTATAAATTACAGA
63 AGTGGAGCAGGTTAAAG-TATAAATCACAGA
* *
7405292 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATATTAAACCTTATCTCCTTGAAGTTGCAGT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTCATATCAAACCTTATCTCCCTGAAGTTGCAGT
7405356 GGAGCAGGTTAAAGT-T--A-CA-AG-
66 GGAGCAGGTTAAAGTATAAATCACAGA
* * * * * * * * *
7405377 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT---CATATCAAACCTTATCTCCCTGAAGTTGC
* * *
7405442 AGTGGAACATAG-TAAAGTTATAAATAACAGA
63 AGTGGAGCA-GGTTAAAG-TATAAATCACAGA
* ** ** *
7405473 TCTTATCTCTGTG-AGATTAAAGTAGAGCAGA-TCATATCAAGTCTTATCTCCCTGAAGTTGCAA
1 TCTTATCTCTCTGAAG-TTGCAGTAGAGCAGACTCATATCAAACCTTATCTCCCTGAAGTTGCAG
** * *
7405536 TGGAGCAGACTAAAG-AT--AGC-GA-A
65 TGGAGCAGGTTAAAGTATAAATCACAGA
* * * * * * *
7405559 TCTTATTTC-CATGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAACAGACCTTATATCTCTG
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGACT----C-AT--AT--CAAACCTTATCTCCCTG
* *
7405623 AGGTTGCAGT--AG-A-G-T--AG-ATCATATCA-AG-
56 AAGTTGCAGTGGAGCAGGTTAAAGTAT-AAATCACAGA
* * * ** * * *
7405651 TCTTATCTCCCTGAAGTTGCAGT-GAAGCAGACTGAAGATCGCGGATCTTATTTCCCTGAAGTTT
1 TCTTATCTCTCTGAAGTTGCAGTAG-AGCAGACT-CATAT--CAAACCTTATCTCCCTGAAGTTG
* ** ** *
7405715 CAGTAGAATATATTAAAGCTATAAATAACAGA
62 CAGTGGAGCAGGTTAAAG-TATAAATCACAGA
* *
7405747 TCTTATCTCT-TTAAGGTTGCAGTAGAGCAGA-TCATATCAAACCTTATCTCCCTAAAGTTGCAG
1 TCTTATCTCTCTGAA-GTTGCAGTAGAGCAGACTCATATCAAACCTTATCTCCCTGAAGTTGCAG
** * * *
7405810 TGGAATAGATTGAAGCTATAAATAACAGA
65 TGGAGCAGGTTAAAG-TATAAATCACAGA
* * * *
7405839 TCTTATCTCTCCGAAGTTACAGTAGAGCAGA-TAATAGCAAACCTTAT-TCCCCTGAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTCATATCAAACCTTATCT-CCCTGAAGTTGCAG
* *
7405902 TGGGGCAGGTTGAAGT-T--A-CA-AG-
65 TGGAGCAGGTTAAAGTATAAATCACAGA
* * *
7405924 TCTTA-C-CTCATGAAATTGCAGTGGAGCAGACTGAATATAGCAAACCTTATCTCCCTGAAGTTG
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGACT-CATAT--CAAACCTTATCTCCCTGAAGTTG
* * *
7405987 CAATAGAGCAGGTTGAAG-AT--A-CA-AG-
62 CAGTGGAGCAGGTTAAAGTATAAATCACAGA
* * * * * * * * *
7406012 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGATGTTGT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT---CATATCAAACCTTATCTCCCTGAAGTTGC
* * * *
7406077 AGTGGAACAGATTGAAGCTATAAATTACA-A
63 AGTGGAGCAGGTTAAAG-TATAAATCACAGA
* * ** * *
7406107 GTCTTATCTCACTAAAGTTGCAGTAGAGCAGA-TCATATCAAACCTTATCTCTTTAAAGTTGTAG
1 -TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTCATATCAAACCTTATCTCCCTGAAGTTGCAG
* *
7406171 TGGTGCAGGTTAAA-AATAAAT--CA-A
65 TGGAGCAGGTTAAAGTATAAATCACAGA
* * *
7406195 TCTTATCTCCCTGAAGTTGTAGTGGAGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGC
7406223 GGATTGAAGA
Statistics
Matches: 797, Mismatches: 156, Indels: 150
0.72 0.14 0.14
Matches are distributed among these distances:
83 3 0.00
84 17 0.02
85 34 0.04
86 54 0.07
87 30 0.04
88 55 0.07
89 167 0.21
90 14 0.02
91 15 0.02
92 245 0.31
93 9 0.01
94 14 0.02
95 18 0.02
96 121 0.15
97 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (92 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTCATATCAAACCTTATCTCCCTGAAGTTGCAGT
GGAGCAGGTTAAAGTATAAATCACAGA
Found at i:7405530 original size:137 final size:137
Alignment explanation
Indices: 7405373--7405813 Score: 648
Period size: 137 Copynumber: 3.2 Consensus size: 137
7405363 GTTAAAGTTA
* *
7405373 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * * **
7405438 TTGCAGTGGAACATAGTAAAGTTATAAATAACAGATCTTATCTCTGTGAGATTAAAGTAGAGCAG
66 TTGCAGTGGAACATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
7405503 ATCATAT
131 ATCATAT
* * *
7405510 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGCGAATCTTATTTCCATGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
7405575 TTGCAGTGGAACAGATTAAAGCTATAAATAACAGACCTTATATCTCTGAGGTTGCAGTAGAGTAG
66 TTGCAGTGGAACATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
7405640 ATCATAT
131 ATCATAT
* * *
7405647 CAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATCGCGGATCTTATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * * *
7405712 TTTCAGTAGAATATATTAAAGCTATAAATAACAGATCTTATCTCTTTAAGGTTGCAGTAGAGCAG
66 TTGCAGTGGAACATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
7405777 ATCATAT
131 ATCATAT
** *
7405784 CAAACCTTATCTCCCTAAAGTTGCAGTGGA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGA
7405814 ATAGATTGAA
Statistics
Matches: 270, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 270 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (137 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTGCAGTGGAACATATTAAAGCTATAAATAACAGATCTTATCTCTCTGAGGTTGCAGTAGAGCAG
ATCATAT
Found at i:7406427 original size:132 final size:134
Alignment explanation
Indices: 7405969--7406447 Score: 319
Period size: 137 Copynumber: 3.5 Consensus size: 134
7405959 TATAGCAAAC
* * * * * ** ** *
7405969 CTTATCTCCCTGAAGTTGCAATAGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
* ** * * * * * * * * *
7406034 TGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGATGTTGTAGTGGAACAGATTGAAGCTATA
66 TAGAGCAGGTTGAA-ATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGCGGATT--AG--ACA
*
7406099 AATTA-CAAGT
126 GA-TACCAA-T
* * * * * ** *
7406109 CTTATCTCACTAAAGTTGCAGTAGAGCAGATCATA---TCAAACCTTATCTCTTTAAAGTTGTAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
* * * * *
7406171 TGGTGCAGGTTAAAAATAA-ATCAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGACA
66 TAGAGCAGGTT-GAAATAACA--AACCTTATCTCCCTGAAGTTCTAGTGGAGCGGATT--AGACA
* *
7406235 GGCTACGAAT
126 -GATACCAAT
* * * *
7406245 CTTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTCTAAATTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
7406310 TAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGCAGG-TT-GAC-GATA
66 TAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGC-GGATTAGACAGATA
7406372 CCAAT
130 CCAAT
* * * * * *
7406377 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACTAATCC-TATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAC-AAACCTTATCTCCCTAAAGTTGCA
*
7406441 GTGGAGC
65 GTAGAGC
7406448 GGATTAAAAC
Statistics
Matches: 272, Mismatches: 56, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
132 62 0.23
133 4 0.01
134 3 0.01
136 34 0.12
137 63 0.23
138 45 0.17
139 33 0.12
140 28 0.10
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (134 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGCAG
TAGAGCAGGTTGAAATAACAAACCTTATCTCCCTGAAGTTCTAGTGGAGCGGATTAGACAGATAC
CAAT
Found at i:7406466 original size:44 final size:44
Alignment explanation
Indices: 7406193--7406482 Score: 144
Period size: 44 Copynumber: 6.5 Consensus size: 44
7406183 AAAATAAATC
* * * * *
7406193 AATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAGACAGGCTACG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-A--CGACT
* * * * * *
7406242 AATCTTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGCCAC-
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
* * * * * * * **
7406285 AAACCTTATCTCTCTAAATTTGCAGTAGAGCAGGTTGAAATAAC-
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
* * * *
7406329 AAACCTTATCTCCCTGAAGTT-CTAGTGGAGCAGGTT--GACGATACC
1 AATCC-TATCTCCCTGAAGTTGC-AGTGGAGCAGATTAAAACG--ACT
* * * * *
7406374 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
*
7406418 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGA-T
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
*
7406461 GAATCCTATAC-CTCTGAAGTTG
1 -AATCCTAT-CTCCCTGAAGTTG
7406483 TAGTAGTTGC
Statistics
Matches: 192, Mismatches: 39, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 145 0.76
45 5 0.03
46 1 0.01
47 1 0.01
48 2 0.01
49 32 0.17
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGACT
Found at i:7408268 original size:43 final size:43
Alignment explanation
Indices: 7408181--7408472 Score: 392
Period size: 43 Copynumber: 6.8 Consensus size: 43
7408171 TTCATACAAC
* * *
7408181 GCCATCGTCCCAGACGTGGTCTTACATG-TAATCGCAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAAT-ACAAATCGAT
* * * *
7408224 GCCA-CTGTCCCAAACAG-GGTCTTACTCGAAAATATAAATTGAT
1 GCCATC-GTCCCAGAC-GTGGTCTTACACGAAAATACAAATCGAT
*
7408267 GCCATCGTCCCAGACATGGTCTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
* * *
7408310 GTCATCGTCCTAGACGTGGTTTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
* * *
7408353 GTCATCGTCCTAGACGTGGTTTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
*
7408396 GCCATTGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
*
7408439 GCCATCGTCCCAGACATGGTCTTACACGAAAATA
1 GCCATCGTCCCAGACGTGGTCTTACACGAAAATA
7408473 ATGATAAAAA
Statistics
Matches: 222, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.00
43 216 0.97
44 5 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCATCGTCCCAGACGTGGTCTTACACGAAAATACAAATCGAT
Found at i:7419487 original size:28 final size:27
Alignment explanation
Indices: 7419410--7419487 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
7419400 TATAATATGT
* *
7419410 ATAAATTAAAAGGTTAAAATAAATTTGA
1 ATAAATTAAAATGTTAAAAT-AAGTTGA
* *
7419438 ATAAATTAACAATATTGAAATAAGTTGA
1 ATAAATTAA-AATGTTAAAATAAGTTGA
7419466 GATAAATTAAAATGTTAAAATA
1 -ATAAATTAAAATGTTAAAATA
7419488 TTGGAAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 25 0.60
29 17 0.40
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.32
Consensus pattern (27 bp):
ATAAATTAAAATGTTAAAATAAGTTGA
Found at i:7420530 original size:20 final size:18
Alignment explanation
Indices: 7420485--7420545 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
7420475 TATAGGAAAT
* *
7420485 AGAAAGAATCAAAGAAAAC
1 AGAAAGAAAC-AAGAAAAG
7420504 AGTAAAGAAACACAGAGAAAG
1 AG-AAAGAAACA-AGA-AAAG
7420525 AGAAAGAAA-AAGAAAAG
1 AGAAAGAAACAAGAAAAG
7420542 AGAA
1 AGAA
7420546 CCACATTCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 4 0.11
20 17 0.46
21 5 0.14
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (18 bp):
AGAAAGAAACAAGAAAAG
Found at i:7421026 original size:16 final size:17
Alignment explanation
Indices: 7420995--7421027 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7420985 ACTTTTAATA
*
7420995 ATTTTGTTTTTATTTTT
1 ATTTTGTTTATATTTTT
7421012 ATTTT-TTTATATTTTT
1 ATTTTGTTTATATTTTT
7421028 TGTTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTTGTTTATATTTTT
Found at i:7422750 original size:15 final size:16
Alignment explanation
Indices: 7422730--7422763 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7422720 AAGTTAACAA
*
7422730 AAATCATAA-AAAAAT
1 AAATCAAAAGAAAAAT
7422745 AAATCAAAAGAAAAAT
1 AAATCAAAAGAAAAAT
7422761 AAA
1 AAA
7422764 CAGTTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATCAAAAGAAAAAT
Found at i:7437404 original size:15 final size:15
Alignment explanation
Indices: 7437386--7437421 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
7437376 AAATGTAATA
7437386 TGATGAAAAAGGGAT
1 TGATGAAAAAGGGAT
7437401 TGATGAAAAAGGGAT
1 TGATGAAAAAGGGAT
7437416 TGATGA
1 TGATGA
7437422 GTTGAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (15 bp):
TGATGAAAAAGGGAT
Found at i:7450265 original size:15 final size:15
Alignment explanation
Indices: 7450245--7450273 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7450235 TTGAAGTATG
7450245 AAATTCTACTGTTAC
1 AAATTCTACTGTTAC
7450260 AAATTCTACTGTTA
1 AAATTCTACTGTTA
7450274 GATGCAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
AAATTCTACTGTTAC
Found at i:7456836 original size:17 final size:17
Alignment explanation
Indices: 7456810--7456843 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7456800 AAGAGTTATT
* *
7456810 AAAAATTATAGAATATA
1 AAAAAATATAAAATATA
7456827 AAAAAATATAAAATATA
1 AAAAAATATAAAATATA
7456844 TAAATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAAATATAAAATATA
Found at i:7457035 original size:21 final size:22
Alignment explanation
Indices: 7456994--7457035 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7456984 TTATATCAAC
*
7456994 TAAAAATTAACATAAACACAGG
1 TAAAAATTAACATAAAAACAGG
*
7457016 TAAAAATTAAGA-AAAAACAG
1 TAAAAATTAACATAAAAACAG
7457036 ATGAAGACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.17
Consensus pattern (22 bp):
TAAAAATTAACATAAAAACAGG
Found at i:7458631 original size:2 final size:2
Alignment explanation
Indices: 7458624--7458653 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7458614 TTGATTATTT
7458624 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7458654 TTTGATTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7462423 original size:13 final size:13
Alignment explanation
Indices: 7462405--7462429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7462395 CCGTGAATTT
7462405 CATTTCATCCATG
1 CATTTCATCCATG
7462418 CATTTCATCCAT
1 CATTTCATCCAT
7462430 CTTCTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.04, T:0.40
Consensus pattern (13 bp):
CATTTCATCCATG
Found at i:7463993 original size:7 final size:7
Alignment explanation
Indices: 7463981--7464018 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
7463971 AAGGAACACA
7463981 TCAAACT
1 TCAAACT
7463988 TCAAACT
1 TCAAACT
7463995 TCAAACT
1 TCAAACT
7464002 TCAAACT
1 TCAAACT
7464009 TCAAACT
1 TCAAACT
7464016 TCA
1 TCA
7464019 CCACACTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
TCAAACT
Found at i:7470145 original size:131 final size:129
Alignment explanation
Indices: 7469909--7470265 Score: 402
Period size: 131 Copynumber: 2.7 Consensus size: 129
7469899 ATTTTTATAG
*
7469909 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGGTCATGTTCTT
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGATCATGTTC-T
* *
7469974 TAGTAGCGGCGC---TATAAAAAAATGCCGCTAAATGTCATGTTCTTTAGTAGCGGCGCTACA-A
65 T--TAGCGGCGCTTTTTTAAAAAAACGCCGCTAAATGTCATGTTCTTT-G--GCGGCGCTACATA
7470035 AAAAA
125 AAAAA
* *
7470040 ATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAAACGCCGCTACAGATCATGTTCTT
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGATCATGTTCTT
**** ** ** *
7470105 TAGCGGCGCTTTTTTCGCCAAACGCCGCTAAA-GATCATGTTCTTTGGCGGCGCTTTATCCACAA
66 TAGCGGCGCTTTTTTAAAAAAACGCCGCTAAATG-TCATGTTCTTTGGCGGCGCTACATAAAAAA
* * * **
7470169 ACGCCACTAAAGGTAATGTTCTTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGACCATGACC
1 ACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGATCATGTTC
* *
7470234 TTTAGCGGCGCTTTTTT-TAAAAACGCCACTAA
64 TTTAGCGGCGCTTTTTTAAAAAAACGCCGCTAA
7470266 TTTTGGCAGA
Statistics
Matches: 194, Mismatches: 25, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
128 18 0.09
129 21 0.11
130 32 0.16
131 123 0.63
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (129 bp):
ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGATCATGTTCTT
TAGCGGCGCTTTTTTAAAAAAACGCCGCTAAATGTCATGTTCTTTGGCGGCGCTACATAAAAAA
Found at i:7470248 original size:43 final size:42
Alignment explanation
Indices: 7469909--7470248 Score: 335
Period size: 44 Copynumber: 7.9 Consensus size: 42
7469899 ATTTTTATAG
*
7469909 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAA
1 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCACAA
* * ** *
7469951 ACGCCGCTAAAGGTCATGTTCTTTAGTAGCGGCGC-TATAAAAAA
1 ACGCCGCTAAAGATCATGTTC-TT--TAGCGGCGCTTTTCCACAA
* ***** *
7469995 ATGCCGCTAAATG-TCATGTTCTTTAGTAGCGGCGCTACAAAAAAA
1 ACGCCGCTAAA-GATCATGTTC-TT--TAGCGGCGCTTTTCCACAA
* *
7470040 ATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCACAA
1 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCACAA
*
7470082 ACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTTTTTCGC-CAA
1 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGC--TTTTC-CACAA
*
7470126 ACGCCGCTAAAGATCATGTTCTTTGGCGGCGCTTTATCCACAA
1 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT-TCCACAA
* * *
7470169 ACGCCACTAAAGGTAATGTTCTTTTAGCGGCGCTTTTCCGACAA
1 ACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTCC-ACAA
* **
7470213 ACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT
1 ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTT
7470249 TTTAAAAACG
Statistics
Matches: 256, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
42 67 0.26
43 43 0.17
44 110 0.43
45 36 0.14
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (42 bp):
ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCCACAA
Found at i:7470258 original size:87 final size:86
Alignment explanation
Indices: 7469909--7470265 Score: 321
Period size: 87 Copynumber: 4.1 Consensus size: 86
7469899 ATTTTTATAG
* *
7469909 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGGTCATGTTCT
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGATCATG-TCC
* **
7469973 TTAGTAGCGGCGC--TATAAAAAA
65 TT--TAGCGGCGCTTTTTCCAAAA
* * * ** * * *
7469995 ATGCCGCTAAATGTCATGTTCTTTAGTAGCGGCGC--TACAAAAAAAATGCCGCTAAAGGTCATG
1 ACGCCGCTAAAGGTCATGTTC-TT--TAGCGGCGCTTTTC-CGACAAACGCCGCTAAAGATCATG
* *
7470058 TTCTTTAGCGGCGC-TTTTCCACAA
62 TCCTTTAGCGGCGCTTTTTCCAAAA
* * * * *
7470082 ACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTTTTTCGCCAAACGCCGCTAAAGATCATGTTC
1 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTTCCGACAAACGCCGCTAAAGATCATGTCC
* * *
7470147 TTTGGCGGCGCTTTATCCACAA
65 TTTAGCGGCGCTTTTTCCAAAA
* * * *
7470169 ACGCCACTAAAGGTAATGTTCTTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGACCATGACC
1 ACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGATCATGTCC
**
7470234 TTTAGCGGCGCTTTTTTTAAAA
65 TTTAGCGGCGCTTTTTCCAAAA
*
7470256 ACGCCACTAA
1 ACGCCGCTAA
7470266 TTTTGGCAGA
Statistics
Matches: 220, Mismatches: 40, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
84 9 0.04
86 61 0.28
87 107 0.49
88 14 0.06
89 29 0.13
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (86 bp):
ACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGATCATGTCCT
TTAGCGGCGCTTTTTCCAAAA
Found at i:7472385 original size:9 final size:9
Alignment explanation
Indices: 7472371--7473043 Score: 147
Period size: 9 Copynumber: 77.9 Consensus size: 9
7472361 ATAATGTAAT
7472371 TAAGTTATG
1 TAAGTTATG
*
7472380 TAAGTTGTG
1 TAAGTTATG
7472389 T-A-TTAT-
1 TAAGTTATG
*
7472395 TAAAGTTAAG
1 T-AAGTTATG
7472405 T-A-TTATG
1 TAAGTTATG
*
7472412 TAAGTTATT
1 TAAGTTATG
7472421 TAAGTTATG
1 TAAGTTATG
**
7472430 TAAGTGGTG
1 TAAGTTATG
7472439 T-A-TTATG
1 TAAGTTATG
*
7472446 TAAGTTAAG
1 TAAGTTATG
7472455 TAAGTTATG
1 TAAGTTATG
* *
7472464 TAGGCTATG
1 TAAGTTATG
7472473 T-A-TTATG
1 TAAGTTATG
*
7472480 CAAGTTA--
1 TAAGTTATG
7472487 T---TTATG
1 TAAGTTATG
**
7472493 TAAGTGGTG
1 TAAGTTATG
*
7472502 T-A-TTGTG
1 TAAGTTATG
*
7472509 TAAGTTATA
1 TAAGTTATG
7472518 TAAGTTATG
1 TAAGTTATG
* *
7472527 TAGGCTATG
1 TAAGTTATG
*
7472536 T--GTTATC
1 TAAGTTATG
*
7472543 TAAGTT-TT
1 TAAGTTATG
*
7472551 TAAGTTATA
1 TAAGTTATG
7472560 TAAGTTATG
1 TAAGTTATG
* *
7472569 CAAGTTTCTATA
1 TAAG--T-TATG
7472581 TAAGTTTCTATG
1 TAAG--T-TATG
7472593 TAAGTTATG
1 TAAGTTATG
* *
7472602 TAGGTTATTATT
1 TAAG---TTATG
7472614 TAAGTTATG
1 TAAGTTATG
7472623 T-A-TTATG
1 TAAGTTATG
*
7472630 TAAG--A-A
1 TAAGTTATG
* * **
7472636 TAAATAAAA
1 TAAGTTATG
* * *
7472645 AAATTTATT
1 TAAGTTATG
7472654 TAAGTTATG
1 TAAGTTATG
7472663 T-A-TTATG
1 TAAGTTATG
*
7472670 TAAGTGTATATA
1 TAA--GT-TATG
7472682 TAAGTTATG
1 TAAGTTATG
* *
7472691 ATATGATT-TA
1 -TAAG-TTATG
7472701 TAAGTTATG
1 TAAGTTATG
*
7472710 T-A-TAATG
1 TAAGTTATG
7472717 TAAGTTATG
1 TAAGTTATG
*
7472726 AAAGTTATG
1 TAAGTTATG
7472735 T-A-TTATG
1 TAAGTTATG
*
7472742 TAATTTATG
1 TAAGTTATG
*
7472751 TAAGTTGTG
1 TAAGTTATG
7472760 T-A-TTATG
1 TAAGTTATG
* *
7472767 CAAGTCATG
1 TAAGTTATG
* *
7472776 TAGGCTATG
1 TAAGTTATG
7472785 T-A-TTATG
1 TAAGTTATG
7472792 TAAGTTAT-
1 TAAGTTATG
*
7472800 TATGTTATTATG
1 TAAG---TTATG
7472812 TAAGTTATG
1 TAAGTTATG
* *
7472821 AAAGTTATATA
1 TAAG-T-TATG
*
7472832 TAAGTGAT-
1 TAAGTTATG
**
7472840 TAA-AAATG
1 TAAGTTATG
7472848 T-A-TTATG
1 TAAGTTATG
*
7472855 TAATTTATG
1 TAAGTTATG
*
7472864 TAAGTTGTG
1 TAAGTTATG
7472873 T-A-TTATG
1 TAAGTTATG
* *
7472880 CAAGTCATG
1 TAAGTTATG
* *
7472889 TAGGCTATG
1 TAAGTTATG
7472898 T-A-TTATG
1 TAAGTTATG
7472905 TAAGTTATG
1 TAAGTTATG
* *
7472914 AAAGTTTTATA
1 TAAG--TTATG
*
7472925 TAAGTGAT-
1 TAAGTTATG
**
7472933 TAA-AAATG
1 TAAGTTATG
7472941 T-A-TTATG
1 TAAGTTATG
* *
7472948 TAATTTATT
1 TAAGTTATG
7472957 TAAGTTATG
1 TAAGTTATG
*
7472966 TAAGTTGTG
1 TAAGTTATG
7472975 T-A-TTATG
1 TAAGTTATG
* *
7472982 CAAGTCATG
1 TAAGTTATG
* *
7472991 TAGGCTATG
1 TAAGTTATG
7473000 T-A-TTATG
1 TAAGTTATG
7473007 TAAGTTAT-
1 TAAGTTATG
*
7473015 TATGTTATTATG
1 TAAG---TTATG
7473027 TAAGTTATG
1 TAAGTTATG
*
7473036 AAAGTTAT
1 TAAGTTAT
7473044 ATATAAGTTA
Statistics
Matches: 476, Mismatches: 115, Indels: 146
0.65 0.16 0.20
Matches are distributed among these distances:
4 3 0.01
6 5 0.01
7 91 0.19
8 52 0.11
9 254 0.53
10 10 0.02
11 25 0.05
12 36 0.08
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7472400 original size:25 final size:24
Alignment explanation
Indices: 7472369--7472465 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
7472359 GTATAATGTA
* *
7472369 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTATGTATT
7472393 ATTAAAGTTAAGT-A-TTATGTAAGTT
1 ATT-AAGTTAAGTAAGTTATGT-A-TT
* **
7472418 ATTTAAGTTATGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTATGTATT
7472443 ATGTAAGTTAAGTAAGTTATGTA
1 AT-TAAGTTAAGTAAGTTATGTA
7472466 GGCTATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 5 0.09
24 6 0.10
25 39 0.67
26 4 0.07
27 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTATGTATT
Found at i:7472447 original size:34 final size:33
Alignment explanation
Indices: 7472404--7472564 Score: 136
Period size: 34 Copynumber: 4.9 Consensus size: 33
7472394 TTAAAGTTAA
*
7472404 GTATTATGTAAGTTATTTAAGTTATGTAAGTGGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT-AT
** *
7472438 GTATTATGTAAGTTAAGTAAGTTATGTAGGCTAT
1 GTATTATGTAAGTTATTTAAGTTATGTAAG-TAT
* *
7472472 GTATTATGCAAGTTA--T---TTATGTAAGTGGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT-AT
* * *
7472501 GTATTGTGTAAGTTATATAAGTTATGTAGGCTAT
1 GTATTATGTAAGTTATTTAAGTTATGTAAG-TAT
* * *
7472535 GTGTTATCTAAGTT-TTTAAGTTATATAAGT
1 GTATTATGTAAGTTATTTAAGTTATGTAAGT
7472565 TATGCAAGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 22 0.22
31 1 0.01
32 2 0.02
33 12 0.12
34 62 0.61
35 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.45
Consensus pattern (33 bp):
GTATTATGTAAGTTATTTAAGTTATGTAAGTAT
Found at i:7472548 original size:63 final size:62
Alignment explanation
Indices: 7472425--7472552 Score: 197
Period size: 63 Copynumber: 2.0 Consensus size: 62
7472415 GTTATTTAAG
7472425 TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTTAT
1 TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTT-T
* *
7472488 TTATGTAAGTGGTGTATTGTGTAAGTTATA-TAAGTTATGTAGGCTATGTGTTAT-CTAAGTTT
1 TTATGTAAGTGGTGTATTATGTAAGTTA-AGTAAGTTATGTAGGCTATGTATTATGC-AAGTTT
7472550 TTA
1 TTA
7472553 AGTTATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
62 5 0.08
63 55 0.90
64 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.45
Consensus pattern (62 bp):
TTATGTAAGTGGTGTATTATGTAAGTTAAGTAAGTTATGTAGGCTATGTATTATGCAAGTTT
Found at i:7472673 original size:16 final size:16
Alignment explanation
Indices: 7472649--7472777 Score: 72
Period size: 16 Copynumber: 8.0 Consensus size: 16
7472639 ATAAAAAAAT
*
7472649 TTATTTAAGTTATGTA
1 TTATGTAAGTTATGTA
7472665 TTATGTAAG---TGTA
1 TTATGTAAGTTATGTA
*
7472678 -TATATAAGTTATGATA
1 TTATGTAAGTTATG-TA
* *
7472694 TGATTTATAAGTTATGTA
1 T--TATGTAAGTTATGTA
* *
7472712 TAATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
7472729 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
7472745 TTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
7472762 TTATGCAAGTCATGTA
1 TTATGTAAGTTATGTA
7472778 GGCTATGTAT
Statistics
Matches: 87, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
12 7 0.08
13 4 0.05
15 2 0.02
16 45 0.52
17 4 0.05
18 13 0.15
19 12 0.14
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:7472730 original size:25 final size:25
Alignment explanation
Indices: 7472701--7472828 Score: 131
Period size: 25 Copynumber: 5.3 Consensus size: 25
7472691 ATATGATTTA
*
7472701 TAAGTTATGTATAATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
7472726 AAAGTTATGTATTATGTAATTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
7472751 TAAGTTGTGTATTATGCAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
7472776 TAGGCTATGTATTATGTAAGTTAT-
1 TAAGTTATGTATTATGTAAGTTATG
*
7472800 T-A--TGT-TATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
7472821 AAAGTTAT
1 TAAGTTAT
7472829 ATATAAGTGA
Statistics
Matches: 82, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
20 15 0.18
21 2 0.02
22 1 0.01
24 3 0.04
25 61 0.74
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:7472810 original size:20 final size:19
Alignment explanation
Indices: 7472781--7472819 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
7472771 TCATGTAGGC
7472781 TATGTATTATGTAAGTTAT
1 TATGTATTATGTAAGTTAT
7472800 TATGTTATTATGTAAGTTAT
1 TATG-TATTATGTAAGTTAT
7472820 GAAAGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TATGTATTATGTAAGTTAT
Found at i:7472852 original size:113 final size:113
Alignment explanation
Indices: 7472732--7473061 Score: 468
Period size: 113 Copynumber: 3.0 Consensus size: 113
7472722 TATGAAAGTT
7472732 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
7472797 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAA
66 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAA
7472845 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
* * * * * * * *
7472910 TATGAAAGTT-TTATATAAGTGATTAAA--AATGTATTA-TG--T---A
66 TAT-TATGTTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAA
* *
7472950 A--T-TTATTTAAGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
*
7473012 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAA
66 TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAA
7473060 AT
1 AT
7473062 ATATATATAA
Statistics
Matches: 187, Mismatches: 19, Indels: 24
0.81 0.08 0.10
Matches are distributed among these distances:
101 4 0.02
102 75 0.40
103 1 0.01
104 6 0.03
105 3 0.02
107 1 0.01
108 1 0.01
110 4 0.02
111 6 0.03
113 82 0.44
114 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.45
Consensus pattern (113 bp):
ATGTATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
TATTATGTTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAA
Found at i:7472854 original size:43 final size:43
Alignment explanation
Indices: 7472805--7472964 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
7472795 GTTATTATGT
7472805 TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATG
1 TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATG
* * * * ***
7472848 TATTATGTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATG
1 TATTATGTAAGTTATGAAAG-T-TATA-TAT--AAGTGAT-TA-AAAATG
*
7472898 TATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATG
1 TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATG
* **
7472941 TATTATGTAATTTATTTAAGTTAT
1 TATTATGTAAGTTATGAAAGTTAT
7472965 GTAAGTTGTG
Statistics
Matches: 92, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 41 0.45
44 3 0.03
45 9 0.10
46 3 0.03
47 3 0.03
48 9 0.10
49 3 0.03
50 21 0.23
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (43 bp):
TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATG
Found at i:7472874 original size:25 final size:25
Alignment explanation
Indices: 7472845--7473043 Score: 96
Period size: 25 Copynumber: 8.1 Consensus size: 25
7472835 GTGATTAAAA
*
7472845 ATGTATTATGTAATTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* * * * *
7472870 GTGTATTATGCAAGTCATGTAGGCT
1 ATGTATTATGTAAGTTATGTAAGTT
*
7472895 ATGTATTATGTAAGTTATGAAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* **
7472920 -T-TA-TA--TAAGTGAT-TAA-AA
1 ATGTATTATGTAAGTTATGTAAGTT
* *
7472938 ATGTATTATGTAATTTATTTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* * *
7472963 ATGTAAGTTGTGT-A-TTATGCAAGTC
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
7472988 ATGTAGGCTATGT-A-TTATGTAAGTTATT
1 ATGTA--TTATGTAAGTTATGTAAG---TT
*
7473016 ATGTTATTATGTAAGTTATGAAAGTT
1 ATG-TATTATGTAAGTTATGTAAGTT
7473042 AT
1 AT
7473044 ATATAAGTTA
Statistics
Matches: 128, Mismatches: 30, Indels: 31
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.02
20 9 0.07
21 2 0.02
22 2 0.02
23 8 0.06
24 5 0.04
25 68 0.53
26 6 0.05
27 10 0.08
28 5 0.04
29 10 0.08
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (25 bp):
ATGTATTATGTAAGTTATGTAAGTT
Found at i:7472925 original size:93 final size:97
Alignment explanation
Indices: 7472800--7473014 Score: 339
Period size: 102 Copynumber: 2.2 Consensus size: 97
7472790 TGTAAGTTAT
7472800 TATGTTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGT-A-A-T-TT
1 TATG-TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATATTATT
7472861 ATGTAAGTTGTGTATTATGCAAGTCATGTAGGC
65 ATGTAAGTTGTGTATTATGCAAGTCATGTAGGC
*
7472894 TATGTATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATGTATTATGTAATTTATTTA
1 TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAA--TA-TT-
7472959 AGTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGC
62 A-TTATGTAAGTTGTGTATTATGCAAGTCATGTAGGC
7472996 TATGTATTATGTAAGTTAT
1 TATGTATTATGTAAGTTAT
7473015 TATGTTATTA
Statistics
Matches: 111, Mismatches: 1, Indels: 10
0.91 0.01 0.08
Matches are distributed among these distances:
93 50 0.45
94 5 0.05
97 1 0.01
99 1 0.01
102 54 0.49
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (97 bp):
TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATATTATTA
TGTAAGTTGTGTATTATGCAAGTCATGTAGGC
Found at i:7473025 original size:20 final size:20
Alignment explanation
Indices: 7472996--7473056 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
7472986 TCATGTAGGC
7472996 TATG-TATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
7473015 TATGTTATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
* * *
7473035 GAAAGTTA-TATATAAGTTAT
1 -TATGTTATTATGTAAGTTAT
7473055 TA
1 TA
7473057 AAAATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TATGTTATTATGTAAGTTAT
Found at i:7473064 original size:20 final size:20
Alignment explanation
Indices: 7473027--7473068 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7473017 TGTTATTATG
**
7473027 TAAGTTATGAAAGTTATATA
1 TAAGTTATGAAAAATATATA
*
7473047 TAAGTTATTAAAAATATATA
1 TAAGTTATGAAAAATATATA
7473067 TA
1 TA
7473069 TAAATTTTTA
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAGTTATGAAAAATATATA
Found at i:7476097 original size:105 final size:106
Alignment explanation
Indices: 7475903--7476177 Score: 353
Period size: 106 Copynumber: 2.6 Consensus size: 106
7475893 GCAAAATATT
*
7475903 ATTTCATTTTGAGCAAAATGACGCCGTTTTGCTATGCAAAAA-ATTTATTATTTTGTTTTTT-TA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAAAATA-TT-TTATTTTGTTTTTTATA
* *
7475966 AATTGATTTATTTTTGGTGGCC-TTTTTAGGGAAAACGCCGCA
64 AATTGATTTATTTTTGGCGGCCTTTTTTAGGAAAAACGCCGCA
* *
7476008 ATTTCAATTTGAACAAAATGACGTCGTTTTGCTATGCACAAAATATTTTATTTTGTTTTTTATAA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCA-AAAATATTTTATTTTGTTTTTTATAA
* * * *
7476073 ATTGATTTATTTTT-GCGGCGTTTTTTATGAAAAACGCTGCT
65 ATTGATTTATTTTTGGCGGCCTTTTTTAGGAAAAACGCCGCA
* * * * *
7476114 ATTTGATTTTAAACAAAATGACGCCGTTTTACTATGCAAATA-ATTTTATTTTTATTTTTTATAA
1 ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAAAATATTTTA-TTTTGTTTTTTATAA
7476178 TTTTATTTTT
Statistics
Matches: 149, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
104 6 0.04
105 70 0.47
106 72 0.48
107 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (106 bp):
ATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCAAAAATATTTTATTTTGTTTTTTATAAA
TTGATTTATTTTTGGCGGCCTTTTTTAGGAAAAACGCCGCA
Found at i:7476178 original size:21 final size:21
Alignment explanation
Indices: 7476153--7476192 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7476143 TACTATGCAA
7476153 ATAATTTTATTTTTATTTTTT
1 ATAATTTTATTTTTATTTTTT
7476174 ATAATTTTATTTTTATTTT
1 ATAATTTTATTTTTATTTT
7476193 GCTATAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
ATAATTTTATTTTTATTTTTT
Found at i:7476198 original size:22 final size:21
Alignment explanation
Indices: 7476153--7476199 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7476143 TACTATGCAA
*
7476153 ATAATTTTATTTTTATTTTTT
1 ATAATTTTATTTTTATTTTCT
7476174 ATAATTTTATTTTTATTTTGCT
1 ATAATTTTATTTTTATTTT-CT
7476196 ATAA
1 ATAA
7476200 AACCGCCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
ATAATTTTATTTTTATTTTCT
Found at i:7476762 original size:7 final size:7
Alignment explanation
Indices: 7476742--7476790 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
7476732 AACATTAAAT
7476742 CCCTAAC
1 CCCTAAC
* *
7476749 TCTTAAC
1 CCCTAAC
7476756 CCCTAAC
1 CCCTAAC
**
7476763 ATCTAAC
1 CCCTAAC
7476770 CCCTAAAC
1 CCCT-AAC
7476778 CCCTAAC
1 CCCTAAC
7476785 CCCTAA
1 CCCTAA
7476791 ACCTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:7476785 original size:15 final size:15
Alignment explanation
Indices: 7476752--7476793 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
7476742 CCCTAACTCT
**
7476752 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
7476766 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
7476781 TAACCCCTAAACC
1 TAACCCCTAAACC
7476794 TTAAATCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:7476812 original size:21 final size:22
Alignment explanation
Indices: 7476753--7476814 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
7476743 CCTAACTCTT
** * *
7476753 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACCCCTAAACCTTA
7476775 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACCCCTAAACCTTA
* *
7476797 AATCCC-AACCCTTAAACC
1 AACCCCTAACCCCTAAACC
7476815 ATAATTCCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCCTAAACCTTA
Found at i:7477058 original size:14 final size:15
Alignment explanation
Indices: 7477039--7477081 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7477029 CCCTAACTTT
*
7477039 TAACCCC-AAACGTC
1 TAACCCCTAAACCTC
*
7477053 TAACCCCTAACCCTC
1 TAACCCCTAAACCTC
*
7477068 TAACCCTTAAACCT
1 TAACCCCTAAACCT
7477082 TAAATCTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.21
Consensus pattern (15 bp):
TAACCCCTAAACCTC
Found at i:7477093 original size:21 final size:20
Alignment explanation
Indices: 7477069--7477109 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
7477059 CTAACCCTCT
*
7477069 AACCCTTAAACCTTAAATCTC
1 AACCCTTAAACCAT-AATCTC
7477090 AACCCTTAAACCATAATCTC
1 AACCCTTAAACCATAATCTC
7477110 TAATCCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (20 bp):
AACCCTTAAACCATAATCTC
Found at i:7477437 original size:114 final size:114
Alignment explanation
Indices: 7477229--7477559 Score: 423
Period size: 115 Copynumber: 2.9 Consensus size: 114
7477219 TTTTTTGCGA
* * **
7477229 CGCTTTACTAAAAAACTCTGCTAAATCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTT
1 CGCTTTCCTAAAAAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTT
* *
7477294 TATTTTGCGGCGCTTCATTAAAAACGCCGCTAAATCCCTGAGCATTAGCGG
65 TA-TTTGCGGCGCTTCATAAAAAACGCCGCTAAATCCCTCAGCATTAGCGG
* * *
7477345 CGC-TTCCTAAAAAACGCCACTAAATCCGCGAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGTTT
1 CGCTTTCCTAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTT
* * *
7477409 ATGTTGCGGCGCTTCATCAAAAACGCCGCTAAAGCCCTCAGCCTTAGCGG
66 AT-TTGCGGCGCTTCATAAAAAACGCCGCTAAATCCCTCAGCATTAGCGG
* * * *
7477459 CGCTTTCTTAAGAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTC
1 CGCTTTCCTAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-GT-
* * * *
7477524 TT-TTTGCGGCGCTGCCTAAAAAACGTCACTAAATCC
64 TTATTTGCGGCGCTTCATAAAAAACGCCGCTAAATCC
7477560 GCGAAAGCTC
Statistics
Matches: 187, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
113 1 0.01
114 83 0.44
115 95 0.51
116 6 0.03
117 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (114 bp):
CGCTTTCCTAAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTT
ATTTGCGGCGCTTCATAAAAAACGCCGCTAAATCCCTCAGCATTAGCGG
Found at i:7477531 original size:115 final size:112
Alignment explanation
Indices: 7477236--7477536 Score: 413
Period size: 114 Copynumber: 2.6 Consensus size: 112
7477226 CGACGCTTTA
* *
7477236 CTAAAAAACTCTGCTAAATCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTATTTTG
1 CTAAAAAACGCCGCTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG-TT-TTTTG
* * *
7477301 CGGCGCTTCATTAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTC
63 CGGCGCTTCATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTC
* * * *
7477351 CTAAAAAACGCCACTAAATCCGCGAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGTTTATGTTGC
1 CTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTT-T-TTGC
*
7477416 GGCGCTTCATCAAAAACGCCGCTAAAGCCCTCAGCCTTAGCGGCGCTTTC
64 GGCGCTTCATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGC-TTC
* * *
7477466 TTAAGAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGC
1 CTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA-GT-TTTTTGC
7477531 GGCGCT
64 GGCGCT
7477537 GCCTAAAAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
112 1 0.01
113 3 0.02
114 79 0.48
115 76 0.46
116 3 0.02
117 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (112 bp):
CTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTGCGG
CGCTTCATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGGCGCTTC
Found at i:7477557 original size:73 final size:73
Alignment explanation
Indices: 7477471--7477702 Score: 322
Period size: 73 Copynumber: 3.2 Consensus size: 73
7477461 CTTTCTTAAG
*
7477471 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGCGGCGC
7477536 TGCCTAAA
66 TGCCTAAA
* * * *
7477544 AAACGTCACTAAATCCGCGAAAGCTCAGAAAACGGCGTCGTTGGCCTTA-GTTTATTTTGCGGCG
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTCT-TTTTGCGGCG
* *
7477608 CTTCCTAAG
65 CTGCCTAAA
* * *
7477617 AAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGTCGTTGGACTTATGTCTTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGCGGCGC
** *
7477682 TTTCTCAA
66 TGCCTAAA
*
7477690 AAACGCCGCTAAA
1 AAACGCCACTAAA
7477703 GACCTGAGCA
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
72 3 0.02
73 133 0.96
74 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (73 bp):
AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTATGTCTTTTTGCGGCGC
TGCCTAAA
Found at i:7481758 original size:25 final size:25
Alignment explanation
Indices: 7481728--7481786 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
7481718 TACAGTTGTG
* *
7481728 CTGCTAGAAATATATTGCAGAA-ATA
1 CTGCTAGAAATATAGTGCA-AATAAA
*
7481753 CTGCTAGAATTATAGTGCAAATAAA
1 CTGCTAGAAATATAGTGCAAATAAA
7481778 CTGCTAGAA
1 CTGCTAGAA
7481787 GCGGACTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (25 bp):
CTGCTAGAAATATAGTGCAAATAAA
Found at i:7493154 original size:17 final size:17
Alignment explanation
Indices: 7493132--7493166 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7493122 TTTATTACTA
7493132 TTTTT-ATTATATACACT
1 TTTTTAATT-TATACACT
7493149 TTTTTAATTTATACACT
1 TTTTTAATTTATACACT
7493166 T
1 T
7493167 GTACCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTATACACT
Found at i:7493874 original size:109 final size:109
Alignment explanation
Indices: 7493682--7493985 Score: 452
Period size: 109 Copynumber: 2.8 Consensus size: 109
7493672 TTTTCGATTG
* *
7493682 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* *
7493747 CGTTCAACCAAATGGCTAAATATCATTTTAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
* * *
7493791 AGGCAATATTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTATAGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* *
7493856 CATTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
* * *
7493900 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTGGGTTTCGA--TTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* * *
7493962 CGTTTAACCAAATTGCCAAATATC
66 CGTTCAACCAAATAGCTAAATATC
7493986 CTATTGAATT
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
106 25 0.14
108 24 0.14
109 127 0.72
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (109 bp):
AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
Found at i:7495396 original size:19 final size:20
Alignment explanation
Indices: 7495356--7495399 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
7495346 GTCTCTTTAG
* *
7495356 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
7495375 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
7495394 GCATTA
1 GCATTA
7495400 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:7500229 original size:85 final size:86
Alignment explanation
Indices: 7500076--7501042 Score: 1359
Period size: 85 Copynumber: 11.2 Consensus size: 86
7500066 AACAGATCAG
*
7500076 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
7500141 ATTGGTTGCAGTGGAGCTGGT
66 ATTGGTTGCAGTGGAGCTGGT
* * *
7500162 TAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
*
7500226 ATTGGTTACAGTGGAGCTGGT
66 ATTGGTTGCAGTGGAGCTGGT
* * *
7500247 TGAAGATAGTAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAAC-AAGCCTTGCCT
* *
7500312 CCATCGGTTGCAGTGGAGCTGGT
64 TCATTGGTTGCAGTGGAGCTGGT
7500335 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
7500400 ATTGGTTGCAGTGGAGCTGGT
66 ATTGGTTGCAGTGGAGCTGGT
* * *
7500421 TAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAATCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
*
7500485 ATTGGTTACAGTGGAGCTGGT
66 ATTGGTTGCAGTGGAGCTGGT
* * *
7500506 TGAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAAC-AAGCCTTGCCT
* *
7500571 CCATCGGTTGCAGTGGAGCTGGT
64 TCATTGGTTGCAGTGGAGCTGGT
7500594 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
7500659 ATTGGTTGCAGTGGAGCTGGT
66 ATTGGTTGCAGTGGAGCTGGT
* * *
7500680 TAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
*
7500744 ATTGGTTACAGTGGAGCTGGT
66 ATTGGTTGCAGTGGAGCTGGT
* *
7500765 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAAC-AAGCCTTGCCT
* *
7500830 CCATCGGTTGCAGTGGAGCTGGT
64 TCATTGGTTGCAGTGGAGCTGGT
* *
7500853 TGAAGATAGCAAATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCCTTGCCT-
* * * ** *
7500918 TC-TCGGGTGTAGAAGAGTTGGT
64 TCATTGGTTGCAGTGGAGCTGGT
* * * * ** * * * * * *
7500940 TGAAGACAACTGATTTTATCTTCCTGCGTTGACAGTGAAGCAGGTCGAAGACAAACCTTACCTCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCT-T
* *
7501005 C-TCGGTTGTAGTGGAGCTGGT
65 CATTGGTTGCAGTGGAGCTGGT
*
7501026 TGAAGAATTGCAGATCT
1 TGAAG-ATAGCAGATCT
7501043 GATCTCCCGG
Statistics
Matches: 793, Mismatches: 77, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
85 243 0.31
86 223 0.28
87 103 0.13
88 224 0.28
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (86 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
ATTGGTTGCAGTGGAGCTGGT
Found at i:7500542 original size:259 final size:259
Alignment explanation
Indices: 7500076--7500916 Score: 1594
Period size: 259 Copynumber: 3.2 Consensus size: 259
7500066 AACAGATCAG
*
7500076 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
7500141 ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGT-AGA
66 ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAA-TCAGA
*
7500205 TCGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGTAGATCTTGCCTTC
130 TCGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
7500270 CTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
195 CTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
7500335 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
7500400 ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAATCAGAT
66 ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAATCAGAT
*
7500465 CGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAACAGATCTTGCCTTCC
131 CGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
7500530 TGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
196 TGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
7500594 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
*
7500659 ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGAT
66 ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAATCAGAT
*
7500724 CGAAAACAAGCTTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
131 CGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
7500789 TGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
196 TGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
* *
7500853 TGAAGATAGCAAATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCCTTGCCT
7500917 CTCTCGGGTG
Statistics
Matches: 572, Mismatches: 8, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
258 1 0.00
259 560 0.98
260 11 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (259 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
ATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAATCAGAT
CGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
TGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGT
Found at i:7503012 original size:17 final size:17
Alignment explanation
Indices: 7502990--7503024 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7502980 TTTATTACTA
7502990 TTTTT-ATTATATACACT
1 TTTTTAATT-TATACACT
7503007 TTTTTAATTTATACACT
1 TTTTTAATTTATACACT
7503024 T
1 T
7503025 GTACCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTATACACT
Found at i:7503732 original size:109 final size:109
Alignment explanation
Indices: 7503540--7503843 Score: 452
Period size: 109 Copynumber: 2.8 Consensus size: 109
7503530 TTTTCGATTG
* *
7503540 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* *
7503605 CGTTCAACCAAATGGCTAAATATCATTTTAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
* * *
7503649 AGGCAATATTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTATAGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* *
7503714 CATTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
* * *
7503758 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTGGGTTTCGA--TTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* * *
7503820 CGTTTAACCAAATTGCCAAATATC
66 CGTTCAACCAAATAGCTAAATATC
7503844 CTATTGAATT
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
106 25 0.14
108 24 0.14
109 127 0.72
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (109 bp):
AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
Found at i:7505634 original size:3 final size:3
Alignment explanation
Indices: 7505626--7505699 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
7505616 CTTAGTCCCT
* * * *
7505626 TTA TTA TTA TTA TTA TTTA GTTCA TTG TTT TTA TTG CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* *
7505674 ATG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
7505700 GTTTCTACAT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
3 49 0.86
4 7 0.12
5 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7509284 original size:17 final size:18
Alignment explanation
Indices: 7509262--7509298 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7509252 TTATTCTTTT
7509262 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
7509279 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
7509297 AT
1 AT
7509299 ACTGTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:7510030 original size:9 final size:9
Alignment explanation
Indices: 7510016--7510103 Score: 65
Period size: 9 Copynumber: 9.6 Consensus size: 9
7510006 TTCATACTAG
7510016 AAAAAAAAT
1 AAAAAAAAT
7510025 AAAAAAAAT
1 AAAAAAAAT
*
7510034 CAAAAAAAT
1 AAAAAAAAT
*
7510043 --CAAAAAT
1 AAAAAAAAT
*
7510050 CAAAAAAAT
1 AAAAAAAAT
7510059 AAAAAAAAT
1 AAAAAAAAT
*
7510068 CAAAGTCAAAAT
1 -AAA--AAAAAT
*
7510080 AGAAAAAAAG
1 A-AAAAAAAT
7510090 AAAAAGAAA-
1 AAAAA-AAAT
7510099 AAAAA
1 AAAAA
7510104 GAAGAAAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
7 6 0.09
9 40 0.62
10 11 0.17
11 1 0.02
12 7 0.11
ACGTcount: A:0.81, C:0.06, G:0.05, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:7510048 original size:25 final size:25
Alignment explanation
Indices: 7510019--7510071 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
7510009 ATACTAGAAA
*
7510019 AAAAATAAAAAAAATCAAAAAAATC
1 AAAAATAAAAAAAATAAAAAAAATC
*
7510044 AAAAATCAAAAAAATAAAAAAAATC
1 AAAAATAAAAAAAATAAAAAAAATC
7510069 AAA
1 AAA
7510072 GTCAAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (25 bp):
AAAAATAAAAAAAATAAAAAAAATC
Found at i:7510064 original size:16 final size:16
Alignment explanation
Indices: 7510017--7510064 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
7510007 TCATACTAGA
7510017 AAAAAAATAAAAAAAATC
1 AAAAAAAT--AAAAAATC
*
7510035 AAAAAAATCAAAAATC
1 AAAAAAATAAAAAATC
7510051 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
7510065 AATCAAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAAAATAAAAAATC
Found at i:7510093 original size:6 final size:6
Alignment explanation
Indices: 7510084--7510119 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
7510074 CAAAATAGAA
7510084 AAAAAG AAAAAG AAAAA- AAAGAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG
7510120 GAGAGGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.11
6 22 0.79
7 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:7510108 original size:18 final size:17
Alignment explanation
Indices: 7510082--7510118 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
7510072 GTCAAAATAG
7510082 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
7510099 AAAAAGAAGAAAAAGAAA
1 AAAAA-AAGAAAAAGAAA
7510117 AA
1 AA
7510119 GGAGAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:7514805 original size:46 final size:46
Alignment explanation
Indices: 7514741--7514912 Score: 260
Period size: 46 Copynumber: 3.8 Consensus size: 46
7514731 AGTGATAAGT
* *
7514741 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
* * *
7514787 GCTACGCTTATCTTATCAAGTGAGAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
7514833 GCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
7514878 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
7514913 ATCATATGTA
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
43 12 0.10
44 5 0.04
45 18 0.16
46 81 0.70
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
Found at i:7515663 original size:50 final size:49
Alignment explanation
Indices: 7515512--7516283 Score: 822
Period size: 50 Copynumber: 15.5 Consensus size: 49
7515502 GGGGTGTTAC
* * * *
7515512 AGCTACAACGGCGGATGTCACTTCCCTGACATTGCAATCAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAAAAGATTGA
* * * * * * * ** * *
7515561 GGCCACAACGGCGAATCTTA-TTTCCAGGCGGTGCAGTGGAACAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-GAAAAGATTGA
*
7515610 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAA-AAGATTGA
* * * *
7515660 AGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAACAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAAAAGATTGA
*
7515710 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAA-AAGATTGA
* * * *
7515760 AGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAACAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAAAAGATTGA
*
7515810 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAA-AAGATTGA
* * * * *
7515860 AGCTACAACAGCGGATCTTACTT-TCTTAGCGTTGCAGTGGAACAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAAAAGATTGA
*
7515910 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TGAAAAGATTGA
* ** * *
7515960 AGCTACAACAGCGGATCTTACTTTCCT-AGTGTTGCAGTGGAACAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAAAAGATTGA
*
7516010 AGCTACAA-AGCGGATCTTACTTCCCTGACATTGCAATTAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAAAAGATTGA
* * * *
7516058 AGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAACAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAAAAGATTGA
* *
7516108 AGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TGAAAAGATTGA
* * * * ** *
7516158 AGCTACAACAGTGGATCTTACTTTCCT-AGCGTTGCAGTGGAGCAGATTAA
1 AGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAAT-GAAAAGATTGA
** *
7516208 AGCTACAACAGTAGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TGAAAAGATTGA
*
7516258 AGCTACAACAGCGAATCTTACTTCCC
1 AGCTACAACAGCGGATCTTACTTCCC
7516284 AGGCGATGCA
Statistics
Matches: 596, Mismatches: 100, Indels: 53
0.80 0.13 0.07
Matches are distributed among these distances:
48 29 0.05
49 102 0.17
50 449 0.75
51 16 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (49 bp):
AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATGAAAAGATTGA
Found at i:7516248 original size:398 final size:398
Alignment explanation
Indices: 7515512--7516418 Score: 1385
Period size: 398 Copynumber: 2.3 Consensus size: 398
7515502 GGGGTGTTAC
* *
7515512 AGCTACAACGGCGGATGTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAAT
1 AGCTACAACGGCGGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAAGCCACAACGGCGAAT
*
7515577 CTTA-TTTCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
66 CTTACTTTCCTA-G-GATGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
7515640 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
129 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
* *
7515705 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACA
194 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
* *
7515770 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCC
259 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAACAGCAGATCTTACTTCC
* * ** * *
7515835 CTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-GCGTTGCAGTG
324 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGGCGATGCAGCG
7515899 GAACAGATTGA
388 GAACAGATTGA
* * * * * *
7515910 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACGGCGGATCTCACTTCCCTGACATTGCAA-TCAAAAGATTGAAGCCACAACGGCGAA
*
7515975 TCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACAA-AGCGGATCTTACTTCCCTGAC
65 TCTTACTTTCCTAG-GATGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGAC
7516039 ATTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
129 ATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
7516103 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
194 ATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACA
* * *
7516168 GTGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAGATTAAAGCTACAACAGTAGATCTTACTTCC
259 GCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAACAGCAGATCTTACTTCC
7516233 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGG
324 CTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGG
*
7516298 AATAGATTGA
389 AACAGATTGA
** * * * ** * *
7516308 AGCTATGACGGTGAATCTCGCTTCCCCAACATCGCAACTCAAAAGATTGAAGCCACAATGGCGAA
1 AGCTACAACGGCGGATCTCACTTCCCTGACATTGCAA-TCAAAAGATTGAAGCCACAACGGCGAA
* *
7516373 TCTTAC-TTCCTAGGAAATGCAGCGGAACAGATTGAAGCTACGACAG
65 TCTTACTTTCCTAGG--ATGCAGTGGAACAGATTGAAGCTACAACAG
7516419 TGAATCTCAT
Statistics
Matches: 459, Mismatches: 43, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
396 1 0.00
397 11 0.02
398 352 0.77
399 61 0.13
400 33 0.07
401 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (398 bp):
AGCTACAACGGCGGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAAGCCACAACGGCGAAT
CTTACTTTCCTAGGATGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACAT
TGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
TGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGC
GGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTAAAGCTACAACAGCAGATCTTACTTCCCT
GACATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGGAA
CAGATTGA
Found at i:7516324 original size:50 final size:48
Alignment explanation
Indices: 7516251--7516482 Score: 160
Period size: 50 Copynumber: 4.7 Consensus size: 48
7516241 GCAATTAAAA
* * * *
7516251 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGGAAT
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCA-AC-ATGCAGCGGAAT
* ** * ** *
7516301 AGATTGAAGCTATGACGGTGAATCTCGCTTCCCCAACATCGCAACTCAAA
1 AGATTGAAGCTACGACGGTGAATCTTACTT-CCCAACAT-GCAGCGGAAT
* * * * * * *
7516351 AGATTGAAGCCACAATGGCGAATCTTACTTCCTAGGAAATGCAGCGGAAC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCCCA--ACATGCAGCGGAAT
* * * * *
7516401 AGATTGAAGCTACGACAGTGAATCTCATTTCCCCAACATTGCA-AGTACAT
1 AGATTGAAGCTACGACGGTGAATCTTACTT-CCCAACA-TGCAGCGGA-AT
*
7516451 AGATTGAAGCCACGACGGTGAATCTTACTTCC
1 AGATTGAAGCTACGACGGTGAATCTTACTTCC
7516483 TGAAATTGTA
Statistics
Matches: 135, Mismatches: 40, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
49 11 0.08
50 114 0.84
51 10 0.07
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (48 bp):
AGATTGAAGCTACGACGGTGAATCTTACTTCCCAACATGCAGCGGAAT
Found at i:7516483 original size:100 final size:99
Alignment explanation
Indices: 7515512--7516460 Score: 1316
Period size: 100 Copynumber: 9.5 Consensus size: 99
7515502 GGGGTGTTAC
* * * * * * * *
7515512 AGCTACAACGGCGGATGTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAAT
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAACAGCGGAT
*
7515577 CTTA-TTTCC-AGGCGGTGCAGTGGAACAGATTGA
66 CTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGA
7515610 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACAACAGCGGA
7515675 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
65 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
7515710 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACAACAGCGGA
7515775 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
65 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
7515810 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAA-AAGATTGAAGCTACAACAGCGGA
*
7515875 TCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGA
65 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
7515910 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAAAGATTGAAGCTACAACAGCGGA
*
7515975 TCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGA
65 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
7516010 AGCTACAA-AGCGGATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAACAGCGGAT
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAACAGCGGAT
7516074 CTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
66 CTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
* *
7516108 AGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGTGGA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAAAGATTGAAGCTACAACAGCGGA
* *
7516173 TCTTACTTTCCTAGCGTTGCAGTGGAGCAGATTAA
65 TCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
** *
7516208 AGCTACAACAGTAGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGAA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT-AAAAGATTGAAGCTACAACAGCGGA
* * * *
7516273 TCTTAC-TTCCCAGGCGATGCAGCGGAATAGATTGA
65 TCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGA
** * * * ** ** * * * ** *
7516308 AGCTATGACGGTGAATCTCGCTTCCCCAACATCGCAACTCAAAAGATTGAAGCCACAATGGCGAA
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TTAAAAGATTGAAGCTACAACAGCGGA
* *
7516373 TCTTAC-TTCCTAG-GAAATGCAGCGGAACAGATTGA
65 TCTTACTTTCCTAGCG--TTGCAGTGGAACAGATTGA
* * * * * ** * *
7516408 AGCTACGACAGTGAATCTCATTTCCCCAACATTGCAAGTACATAGATTGAAGC
1 AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTA-AAAGATTGAAGC
7516461 CACGACGGTG
Statistics
Matches: 788, Mismatches: 52, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
98 105 0.13
99 90 0.11
100 589 0.75
101 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (99 bp):
AGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAGATTGAAGCTACAACAGCGGAT
CTTACTTTCCTAGCGTTGCAGTGGAACAGATTGA
Found at i:7516754 original size:44 final size:44
Alignment explanation
Indices: 7516705--7516835 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 44
7516695 CCACGAAGAG
*
7516705 TCACAAATCCTATCTCCCTGAAGTTGCAATAGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
* *
7516749 TCACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
* ** *
7516793 TGATGAATCCTATACT-TCTGAAGTTGCAGTAG-GTCGGATTAAA
1 TCACAAATCCTAT-CTCCCTGAAGTTGCAGTAGAG-CGGATTAAA
7516836 TCTACCATAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.01
44 73 0.96
45 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (44 bp):
TCACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
Found at i:7518418 original size:15 final size:15
Alignment explanation
Indices: 7518367--7518428 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
7518357 CCCTTTATTA
*
7518367 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
7518381 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
7518397 CTATTATTATTAATG
1 TTATTATTATTAATG
*
7518412 TTATTATTATTATTG
1 TTATTATTATTAATG
7518427 TT
1 TT
7518429 TCTACATTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:7518425 original size:30 final size:30
Alignment explanation
Indices: 7518368--7518426 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
7518358 CCTTTATTAT
* * *
7518368 TATTATTATTTAGTTCATTGTTTTTATTGC
1 TATTATTATTAAGTTCATTATTATTATTGC
7518398 TATTATTATTAATGTT-ATTATTATTATTG
1 TATTATTATTAA-GTTCATTATTATTATTG
7518427 TTTCTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (30 bp):
TATTATTATTAAGTTCATTATTATTATTGC
Found at i:7522297 original size:20 final size:21
Alignment explanation
Indices: 7522250--7522298 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
7522240 TACCAAAAGC
7522250 AAATAAAATAAAAATTAGAAA
1 AAATAAAATAAAAATTAGAAA
* * *
7522271 ACA-AAAATTAAACTTA-AAA
1 AAATAAAATAAAAATTAGAAA
7522290 AAATAAAAT
1 AAATAAAAT
7522299 GCAATAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAAATTAGAAA
Found at i:7522727 original size:14 final size:14
Alignment explanation
Indices: 7522708--7522735 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7522698 TTGATCCTTA
7522708 GAAATCCCTAAATT
1 GAAATCCCTAAATT
7522722 GAAATCCCTAAATT
1 GAAATCCCTAAATT
7522736 ATGTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
GAAATCCCTAAATT
Found at i:7523447 original size:30 final size:30
Alignment explanation
Indices: 7523403--7523519 Score: 162
Period size: 30 Copynumber: 3.9 Consensus size: 30
7523393 CAAGAGCTGG
* * *
7523403 CACATGAGCGTGTGGCTAGCCCCTGTGGCT
1 CACACGAGCATGTGGCTAGCCCGTGTGGCT
* *
7523433 CACACGAGCATGTGGCCAGCCTGTGTGGCT
1 CACACGAGCATGTGGCTAGCCCGTGTGGCT
* *
7523463 CACACGGGCATGTGGCTAGCCCTTGTGGCT
1 CACACGAGCATGTGGCTAGCCCGTGTGGCT
*
7523493 CACACGAGCATGTGGCTTGCCCGTGTG
1 CACACGAGCATGTGGCTAGCCCGTGTG
7523520 AAAATGCTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (30 bp):
CACACGAGCATGTGGCTAGCCCGTGTGGCT
Found at i:7523448 original size:17 final size:17
Alignment explanation
Indices: 7523426--7523509 Score: 53
Period size: 17 Copynumber: 5.4 Consensus size: 17
7523416 GGCTAGCCCC
7523426 TGTGGCTCACACGAGCA
1 TGTGGCTCACACGAGCA
*
7523443 TGTGGC-CAGC-C-TG--
1 TGTGGCTCA-CACGAGCA
*
7523456 TGTGGCTCACACGGGCA
1 TGTGGCTCACACGAGCA
*
7523473 TGTGGCT-AGC-C---CT
1 TGTGGCTCA-CACGAGCA
7523486 TGTGGCTCACACGAGCA
1 TGTGGCTCACACGAGCA
7523503 TGTGGCT
1 TGTGGCT
7523510 TGCCCGTGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 24
0.65 0.05 0.30
Matches are distributed among these distances:
13 16 0.31
14 5 0.10
15 2 0.04
16 5 0.10
17 23 0.45
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (17 bp):
TGTGGCTCACACGAGCA
Found at i:7524690 original size:3 final size:3
Alignment explanation
Indices: 7524682--7524766 Score: 170
Period size: 3 Copynumber: 28.3 Consensus size: 3
7524672 ATACTACAAA
7524682 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
7524730 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
7524767 TCTAATAATT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:7524959 original size:26 final size:25
Alignment explanation
Indices: 7524922--7524989 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
7524912 AAATAGAGCC
*
7524922 AGATCTTCAAAAATATGATTATATG
1 AGATCTTTAAAAATATGATTATATG
* *
7524947 AGATCTTTAAAAAGATGATTATCTG
1 AGATCTTTAAAAATATGATTATATG
7524972 AGATCTTTTAATAAATAT
1 AGATC-TTTAA-AAATAT
7524990 TATGAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 27 0.73
26 5 0.14
27 5 0.14
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (25 bp):
AGATCTTTAAAAATATGATTATATG
Found at i:7525942 original size:23 final size:23
Alignment explanation
Indices: 7525916--7525960 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7525906 GGAAACAGAA
* *
7525916 AAAATATTGGTTATAATAAAAAG
1 AAAATATTGGTTAGAAGAAAAAG
*
7525939 AAAATATTTGTTAGAAGAAAAA
1 AAAATATTGGTTAGAAGAAAAA
7525961 CTTCTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (23 bp):
AAAATATTGGTTAGAAGAAAAAG
Found at i:7528653 original size:41 final size:39
Alignment explanation
Indices: 7528565--7528653 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 39
7528555 TTTATCTTTA
*
7528565 GCGGCGTTTATGAAAAATGACGCTATTGCTTTACCTTTT
1 GCGGCGTTTATGAAAAATGACGCTATTGCTTTACATTTT
** * *
7528604 GCAACGTTTATGAGAAAAATGCCGCTATTGTTTTACATTTT
1 GCGGCGTTTAT--GAAAAATGACGCTATTGCTTTACATTTT
7528645 GCGGCGTTT
1 GCGGCGTTT
7528654 TCAATCCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 9 0.22
41 32 0.78
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (39 bp):
GCGGCGTTTATGAAAAATGACGCTATTGCTTTACATTTT
Found at i:7549020 original size:44 final size:44
Alignment explanation
Indices: 7548957--7549087 Score: 253
Period size: 44 Copynumber: 3.0 Consensus size: 44
7548947 CTGTTTTTAG
7548957 TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAA
1 TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAA
7549001 TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAA
1 TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAA
*
7549045 TTTCTCACTTAAACTCTGATTAGTGTGGGTTATTTTAATATTA
1 TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTA
7549088 TTTGACCTAC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 86 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.48
Consensus pattern (44 bp):
TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAA
Found at i:7550555 original size:12 final size:12
Alignment explanation
Indices: 7550533--7550596 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
7550523 TTTCTTTAGT
7550533 TTATT-TTATTA
1 TTATTGTTATTA
**
7550544 ACATTGTTATTA
1 TTATTGTTATTA
*
7550556 TTATTTTTATTA
1 TTATTGTTATTA
*
7550568 TTATTGTTATTG
1 TTATTGTTATTA
*
7550580 TTA-TATTATATA
1 TTATTGTTAT-TA
7550592 TTATT
1 TTATT
7550597 ATATCTACAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
11 8 0.20
12 32 0.78
13 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:7550558 original size:3 final size:3
Alignment explanation
Indices: 7550550--7550598 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
7550540 ATTAACATTG
* * *
7550550 TTA TTA TTA TTT TTA TTA TTA TTG TTA TTG TTA -TA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
7550595 TTA T
1 TTA T
7550599 ATCTACATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7550567 original size:24 final size:24
Alignment explanation
Indices: 7550536--7550583 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7550526 CTTTAGTTTA
7550536 TTTTATTAACATTGTTATTATTAT
1 TTTTATTAACATTGTTATTATTAT
** *
7550560 TTTTATTATTATTGTTATTGTTAT
1 TTTTATTAACATTGTTATTATTAT
7550584 ATTATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTATTAACATTGTTATTATTAT
Found at i:7550761 original size:34 final size:33
Alignment explanation
Indices: 7550697--7550765 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
7550687 TTTTATTATC
**
7550697 TTATTTTCATAATTTTCACATACATATATATTT
1 TTATTTTCATAATTTAAACATACATATATATTT
* * *
7550730 TTATATTTCATGATTTAAACATGCATGTATATTT
1 TTAT-TTTCATAATTTAAACATACATATATATTT
7550764 TT
1 TT
7550766 TGTATGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (33 bp):
TTATTTTCATAATTTAAACATACATATATATTT
Found at i:7554217 original size:73 final size:73
Alignment explanation
Indices: 7554130--7554315 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
7554120 ACAACTTGAC
7554130 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7554195 CACTAACA
66 CACTAACA
7554203 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7554268 CACTAACA
66 CACTAACA
*
7554276 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
7554316 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:7554324 original size:3 final size:3
Alignment explanation
Indices: 7554316--7554347 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7554306 ATTACATCCA
7554316 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7554348 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7558651 original size:73 final size:73
Alignment explanation
Indices: 7558564--7558749 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
7558554 ACAACTTGAC
*
7558564 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAT
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7558629 CACTAACA
66 CACTAACA
7558637 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
7558702 CACTAACA
66 CACTAACA
*
7558710 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
7558750 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:7558758 original size:3 final size:3
Alignment explanation
Indices: 7558750--7558778 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7558740 ATTACATCCA
7558750 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7558779 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7569620 original size:2 final size:2
Alignment explanation
Indices: 7569608--7569641 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7569598 AAATGACGGG
* *
7569608 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7569642 TGAATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7571348 original size:19 final size:17
Alignment explanation
Indices: 7571324--7571383 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
7571314 TAATTAATAT
*
7571324 ATTTTTAATAATTTTAATA
1 ATTTTT-ATATTTTTAA-A
*
7571343 ATTTTTTTATTTTTAAA
1 ATTTTTATATTTTTAAA
7571360 ATTTTTTATATTTTTTAAA
1 A-TTTTTATA-TTTTTAAA
7571379 ATTTT
1 ATTTT
7571384 AATTTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.06
18 19 0.53
19 15 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTATATTTTTAAA
Found at i:7571365 original size:27 final size:26
Alignment explanation
Indices: 7571323--7571375 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
7571313 TTAATTAATA
7571323 TATTTTTAATAATTTTAATAATTTTTT
1 TATTTTTAATAATTTTAAT-ATTTTTT
*
7571350 TATTTTTAA-AATTTTTTATATTTTTT
1 TATTTTTAATAA-TTTTAATATTTTTT
7571376 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (26 bp):
TATTTTTAATAATTTTAATATTTTTT
Found at i:7581478 original size:59 final size:60
Alignment explanation
Indices: 7581339--7581489 Score: 139
Period size: 59 Copynumber: 2.5 Consensus size: 60
7581329 GTTTAACTCC
* * * * * *
7581339 AAAAAAGTT-TAGACCCCAATGTGGGAACAATTGCAAGTTTAGGAACTAACTTAGACCCCC
1 AAAAAAGTTCAAG-CCCCAATATGAGAACAATTGCAAGTTCAGGAACTAACTTAGACACCA
* * * * * *
7581399 CAAAATGTTCAAACCTCAATATGAGAACAATTGTCACGTTCAGGGACTAACTT-GA-ACCA
1 AAAAAAGTTCAAGCCCCAATATGAGAACAATTG-CAAGTTCAGGAACTAACTTAGACACCA
7581458 AAAAAAGTTCAAGCCCCAATAT-AGGAACAATT
1 AAAAAAGTTCAAGCCCCAATATGA-GAACAATT
7581490 ACCTAATTCA
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
58 1 0.01
59 28 0.39
60 26 0.36
61 17 0.24
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (60 bp):
AAAAAAGTTCAAGCCCCAATATGAGAACAATTGCAAGTTCAGGAACTAACTTAGACACCA
Found at i:7582456 original size:24 final size:24
Alignment explanation
Indices: 7582423--7582469 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7582413 GCCCATCACT
* *
7582423 CACACGCAGCGCAACCTCATGTAC
1 CACACCCAGCGCAACCGCATGTAC
*
7582447 CACACCCAGCGCCACCGCATGTA
1 CACACCCAGCGCAACCGCATGTA
7582470 TCAAATCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.45, G:0.17, T:0.11
Consensus pattern (24 bp):
CACACCCAGCGCAACCGCATGTAC
Found at i:7584991 original size:21 final size:21
Alignment explanation
Indices: 7584958--7585002 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
7584948 ATACATGAAT
7584958 AATTTAAATATATATAATAATA
1 AATTTAAATATATATAATAA-A
*
7584980 AATTTAAA-ATATATATTAAA
1 AATTTAAATATATATAATAAA
7585000 AAT
1 AAT
7585003 AAAAAATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTAAATATATATAATAAA
Found at i:7584993 original size:23 final size:23
Alignment explanation
Indices: 7584958--7585005 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7584948 ATACATGAAT
*
7584958 AATTTAAATATATA-TAATAATA
1 AATTTAAATATATATTAAAAATA
7584980 AATTTAAAATATATATTAAAAATA
1 AATTT-AAATATATATTAAAAATA
7585004 AA
1 AA
7585006 AAATGCCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 9 0.39
24 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTAAATATATATTAAAAATA
Found at i:7589818 original size:114 final size:115
Alignment explanation
Indices: 7589609--7589827 Score: 245
Period size: 114 Copynumber: 1.9 Consensus size: 115
7589599 AATCATTTGA
* * **
7589609 AAAAGGAATTGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGTTTTTGGTGCTTTTTTTTT
1 AAAAGGAATTGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGGTTCTGGTGCTTTTGCTTT
**
7589674 CTGAAGTTGAGAAATTTGTTGATTGAATTGTGTTTGTGTTCTTGGTTTCTC
66 CTGAAGTTGAGAAATTTGTTGATT-AATTGTAATTGTGTTCTTGGTTTCTC
* *
7589725 AAAA-GAA-TGTTGC-TTTGATGACAATTTCTTATTATTCT-ATTCTGGGTTCTGGTTCTTTCTG
1 AAAAGGAATTGTTGCTTTTGATGACAATTTCTT-TT-TTATAATTCT-GGTTCTGGTGCTTT-TG
*
7589786 CTTT-T-AAGTTGAGAATTTTGTTGCTATT-ATTGTAATTGTGTT
62 CTTTCTGAAGTTGAGAAATTTGTTG--ATTAATTGTAATTGTGTT
7589828 ATAGCCAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
113 17 0.19
114 42 0.48
115 18 0.20
116 11 0.12
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (115 bp):
AAAAGGAATTGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGGTTCTGGTGCTTTTGCTTT
CTGAAGTTGAGAAATTTGTTGATTAATTGTAATTGTGTTCTTGGTTTCTC
Found at i:7605666 original size:92 final size:90
Alignment explanation
Indices: 7605433--7605694 Score: 269
Period size: 93 Copynumber: 2.8 Consensus size: 90
7605423 ACAAGTCACT
* *
7605433 GCATCTTCACTAAATTAAGATTCAAGAGGAAGTGCTTCAGTTTGGTTTGGTTTTGGACTCCACTA
1 GCATCTTCACTAAA-T-AGA-TCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACT-CACTG
*
7605498 ATCCTTTGAAAACATCAAAAGATACATCA
62 ATCCTTTGAAAGCATCAAAAGATACATCA
* * **
7605527 -CATCTTCACTAGATAAAGGTTCATA-AGGAAGCACTTCAGTTTGGTTTTGTTTTGGACTCAGCT
1 GCATCTTCACTA-A-ATA-GATCA-AGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTCA-CT
* * *
7605590 GATCCCTTGAAAGCAT-AAAAGGTGCATCGCA
61 GATCCTTTGAAAGCATCAAAAGATACAT--CA
* ** *
7605621 GCATCTTCACTAAATAGATCACGAGGAAGTGCTTCAACTTGGTTTTGTTTTGGACTCAAATGATC
1 GCATCTTCACTAAATAGATCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTC-ACTGATC
7605686 CTTTGAAAG
65 CTTTGAAAG
7605695 TACTAAAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
92 58 0.42
93 63 0.45
94 6 0.04
95 12 0.09
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (90 bp):
GCATCTTCACTAAATAGATCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTCACTGATCC
TTTGAAAGCATCAAAAGATACATCA
Found at i:7605875 original size:15 final size:15
Alignment explanation
Indices: 7605857--7605888 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7605847 CTCGCTAGAC
7605857 GGTTCATGTTTGAAA
1 GGTTCATGTTTGAAA
*
7605872 GGTTCATGTTTGGAA
1 GGTTCATGTTTGAAA
7605887 GG
1 GG
7605889 ACAACTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (15 bp):
GGTTCATGTTTGAAA
Found at i:7607916 original size:6 final size:6
Alignment explanation
Indices: 7607905--7607964 Score: 120
Period size: 6 Copynumber: 10.0 Consensus size: 6
7607895 AGCTGAACCC
7607905 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
7607953 TATATT TATATT
1 TATATT TATATT
7607965 ATCTTAAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:7616294 original size:13 final size:13
Alignment explanation
Indices: 7616276--7616301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7616266 TCCTTTTACT
7616276 ATATATTTTGTAG
1 ATATATTTTGTAG
7616289 ATATATTTTGTAG
1 ATATATTTTGTAG
7616302 GTATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATATATTTTGTAG
Found at i:7616998 original size:20 final size:20
Alignment explanation
Indices: 7616945--7617016 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
7616935 AAATATTAAA
*
7616945 TTAA-ATTAAA-TAATTATC
1 TTAATATTAAATTTATTATC
* *
7616963 TTAATAGT-ATTTTATTAAT-
1 TTAATATTAAATTTATT-ATC
7616982 TTAATATTAAATTTATTATC
1 TTAATATTAAATTTATTATC
7617002 TTAATATTAAATTTA
1 TTAATATTAAATTTA
7617017 ATTTAATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.11
19 15 0.34
20 24 0.55
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (20 bp):
TTAATATTAAATTTATTATC
Found at i:7617073 original size:62 final size:59
Alignment explanation
Indices: 7617002--7617118 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
7616992 ATTTATTATC
* * *
7617002 TTAATATTAAATTTAATT-TAATGTTTATCTTATAGATAAATATTCTATTTATTTAATAAGAT
1 TTAATATTAAATTT-ATTATAATATTTATC--A-AGATAAATATTATATTAATTTAATAAGAT
7617064 TTAATATTAAATTTATTATAATATTTATCAAGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTATTATAATATTTATCAAGATAAATATTATATTAATTTAATA
7617119 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
59 23 0.45
60 1 0.02
61 3 0.06
62 24 0.47
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTATTATAATATTTATCAAGATAAATATTATATTAATTTAATAAGAT
Found at i:7621698 original size:9 final size:9
Alignment explanation
Indices: 7621647--7621774 Score: 50
Period size: 9 Copynumber: 13.9 Consensus size: 9
7621637 ACTTTATAAA
7621647 AATTTTCTAT
1 AATTTT-TAT
7621657 -ATTTTATAT
1 AATTTT-TAT
7621666 ACATTTTTCAT
1 A-ATTTTT-AT
*
7621677 GATTTTTA-
1 AATTTTTAT
*
7621685 CATTTTTAT
1 AATTTTTAT
*
7621694 AATTTATAT
1 AATTTTTAT
* *
7621703 AAATTTGA-
1 AATTTTTAT
**
7621711 ACCTTTTA-
1 AATTTTTAT
7621719 AATATTTTAT
1 AAT-TTTTAT
7621729 AATTCTTTAT
1 AATT-TTTAT
*
7621739 -ATATATTAT
1 AAT-TTTTAT
* *
7621748 GAATCTCTAT
1 -AATTTTTAT
7621758 AATTTTTAT
1 AATTTTTAT
*
7621767 GATTTTTA
1 AATTTTTA
7621775 ATATAAAATA
Statistics
Matches: 88, Mismatches: 20, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
8 13 0.15
9 47 0.53
10 19 0.22
11 9 0.10
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (9 bp):
AATTTTTAT
Found at i:7626291 original size:29 final size:29
Alignment explanation
Indices: 7626242--7626322 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
7626232 TGGTCCTATT
*
7626242 TTTTTTAATTTCTT-TTA-AATTACCCCCA
1 TTTTTTAGTTT-TTATTACAATTACCCCCA
* *
7626270 TTTTTTCGTTTTTAATT-CAATTTA-GCCCA
1 TTTTTTAGTTTTT-ATTACAA-TTACCCCCA
7626299 TTTTTTAGTTTTTATTACAATTAC
1 TTTTTTAGTTTTTATTACAATTAC
7626323 GCCATACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
27 2 0.05
28 15 0.35
29 23 0.53
30 3 0.07
ACGTcount: A:0.23, C:0.16, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTTTAGTTTTTATTACAATTACCCCCA
Found at i:7626632 original size:16 final size:16
Alignment explanation
Indices: 7626611--7626644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7626601 CATATTGTAC
* *
7626611 ATATATATGTATTTGA
1 ATATATACGTATATGA
7626627 ATATATACGTATATGA
1 ATATATACGTATATGA
7626643 AT
1 AT
7626645 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:7629013 original size:22 final size:22
Alignment explanation
Indices: 7628988--7629030 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7628978 ATAAGTTCCT
*
7628988 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
7629010 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
7629031 GAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:7630623 original size:5 final size:5
Alignment explanation
Indices: 7630613--7630661 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
7630603 GGAAGATGGT
*
7630613 TTTTA TTTTA TTTTA TTTTA TTTTA TGTTTTA TGCTTTA TTATA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA --TTTTA T--TTTA TTTTA TTTTA
7630662 ATTAATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 28 0.74
7 10 0.26
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:7631620 original size:109 final size:109
Alignment explanation
Indices: 7631425--7631623 Score: 249
Period size: 109 Copynumber: 1.8 Consensus size: 109
7631415 GAAAAAAAAA
* ** *
7631425 ATCATATGCCTTAGTCATCGCCAAAGTCTTGGCGAAATGATGTAGCACGTCCTTGGTCCACTCCC
1 ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGAAATGATATAGCACGTCCTTGGTCCACTCCC
* * * *
7631490 AAATATTTGTTGATGTTTCCAAAAATCTCGAAGTAAGCTTGAGC
66 AAAGATTTGTCGAAGTCTCCAAAAATCTCGAAGTAAGCTTGAGC
* * *
7631534 ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGGAATGATATAGCACGT-CTTCGGTTCGC-CC
1 ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGAAATGATATAGCACGTCCTT-GGTCCACTCC
**
7631597 TTTAAGATTTGTCGAAGTCTCCAAAAA
65 -CAAAGATTTGTCGAAGTCTCCAAAAA
7631624 ATCTTGAGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
108 5 0.07
109 70 0.93
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (109 bp):
ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGAAATGATATAGCACGTCCTTGGTCCACTCCC
AAAGATTTGTCGAAGTCTCCAAAAATCTCGAAGTAAGCTTGAGC
Found at i:7631943 original size:16 final size:15
Alignment explanation
Indices: 7631900--7631947 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
7631890 TGATAAGTTG
7631900 AAAAAAAAAAGTAAAA
1 AAAAAAAAAAG-AAAA
**
7631916 AAAAATCCAAAGAAAA
1 AAAAA-AAAAAGAAAA
7631932 AAGAAAAAAAAGAAAA
1 AA-AAAAAAAAGAAAA
7631948 GAAGTTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.83, C:0.04, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:7643975 original size:20 final size:18
Alignment explanation
Indices: 7643947--7643987 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7643937 TAAAAGATAG
7643947 ATAAAATT-AA-T-AACT
1 ATAAAATTAAATTAAACT
7643962 ATAAAATTAAATTAAACT
1 ATAAAATTAAATTAAACT
7643980 ATAAAATT
1 ATAAAATT
7643988 TAAAACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 1 0.04
18 12 0.52
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTAAATTAAACT
Found at i:7644532 original size:31 final size:31
Alignment explanation
Indices: 7644497--7644564 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
7644487 ATTTGATTTG
* *
7644497 ATTATACATATTAAAATTTGATTTTAAATT-A
1 ATTATACAAATAAAAATTTGATTTT-AATTCA
*
7644528 ATTATATAAATAAAAATTTGATTTTAATTCA
1 ATTATACAAATAAAAATTTGATTTTAATTCA
7644559 ATTATA
1 ATTATA
7644565 AATCTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTATACAAATAAAAATTTGATTTTAATTCA
Found at i:7644620 original size:93 final size:93
Alignment explanation
Indices: 7644513--7644693 Score: 247
Period size: 93 Copynumber: 1.9 Consensus size: 93
7644503 CATATTAAAA
* * * *
7644513 TTTGATTTTAAATTAATTATATAAATAAAAATTTGA-TTTTAATTCAATTATAAATCTTTAGAAA
1 TTTGATTTCAAATTAATTATACAAAT-AAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAA
*
7644577 AACAAATAAGTTATGTTATTTAATAATTT
65 AACAAATAAGTTAAGTTATTTAATAATTT
* * * * *
7644606 TTTGATTTCGAATTAATTATACAAATAAAATTTTAGTTTTGATTCAATTATAAACCATTATAAAT
1 TTTGATTTCAAATTAATTATACAAATAAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAAA
*
7644671 ATAAATAAGTTAAGTTATTTAAT
66 ACAAATAAGTTAAGTTATTTAAT
7644694 GACTTAGGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 8 0.11
93 68 0.89
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (93 bp):
TTTGATTTCAAATTAATTATACAAATAAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAAA
ACAAATAAGTTAAGTTATTTAATAATTT
Found at i:7651301 original size:34 final size:34
Alignment explanation
Indices: 7651241--7651307 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
7651231 TCACTATAAT
*
7651241 CAAATAGTGATAATGCAACTATAATAACAACAACA
1 CAAATAGTGATAAT-CAACAATAATAACAACAACA
*
7651276 CAAATAGATGATAAT-AACAATAATAATAACAA
1 CAAATAG-TGATAATCAACAATAATAACAACAA
7651308 TTATGACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.52
35 7 0.24
36 7 0.24
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.21
Consensus pattern (34 bp):
CAAATAGTGATAATCAACAATAATAACAACAACA
Found at i:7651416 original size:21 final size:21
Alignment explanation
Indices: 7651377--7651416 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7651367 TTTAAAGGGC
*
7651377 AAAAATGTAAATAATAAAATT
1 AAAAATGTAAATAACAAAATT
7651398 AAAAATGCTAAA-AACAAAA
1 AAAAATG-TAAATAACAAAA
7651417 ATACACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATGTAAATAACAAAATT
Found at i:7656471 original size:29 final size:29
Alignment explanation
Indices: 7656433--7656517 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 29
7656423 TTTTATGTGT
*
7656433 AATTTAATACATAAACTTTGATTTGGTGC
1 AATTTGATACATAAACTTTGATTTGGTGC
*
7656462 AATTTGATACATGAAAC-TTGAATTGTGGTTC
1 AATTTGATACAT-AAACTTTG-ATT-TGGTGC
*
7656493 -ATATGTATACATTAAACTTTGATTT
1 AATTTG-ATACA-TAAACTTTGATTT
7656518 TAGTTAAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
29 14 0.30
30 12 0.26
31 17 0.36
32 4 0.09
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (29 bp):
AATTTGATACATAAACTTTGATTTGGTGC
Found at i:7659076 original size:15 final size:14
Alignment explanation
Indices: 7659058--7659108 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
7659048 ATTTTAAAAA
7659058 TTAAAAAAAAGTATT
1 TTAAAAAAAA-TATT
*
7659073 TTAAAATTAAAA-AAT
1 TTAAAA--AAAATATT
*
7659088 TAAAAAAAAATATT
1 TTAAAAAAAATATT
7659102 TTAAAAA
1 TTAAAAA
7659109 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 13 0.45
17 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
TTAAAAAAAATATT
Found at i:7659076 original size:31 final size:31
Alignment explanation
Indices: 7659038--7659130 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 31
7659028 GGCCCATTTT
*
7659038 TATTTTAAAAATTTTAAAAATTAAAAAAAAG
1 TATTTTAAAAATTTTAAAAATTAAAAAAAAA
*
7659069 TATTTT-AAAA-TTAAAAAATTAAAAAAAAA
1 TATTTTAAAAATTTTAAAAATTAAAAAAAAA
* * *
7659098 TATTTTAAAAATATTTTAAATTTTAAAAAAAA
1 TATTTTAAAAAT-TTTAAAAATTAAAAAAAAA
7659130 T
1 T
7659131 TAAAAAAGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 23 0.43
30 8 0.15
31 6 0.11
32 16 0.30
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATTTTAAAAATTAAAAAAAAA
Found at i:7659159 original size:10 final size:11
Alignment explanation
Indices: 7659093--7659158 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
7659083 AAAATTAAAA
7659093 AAAAATATTTT
1 AAAAATATTTT
7659104 AAAAATATTTT
1 AAAAATATTTT
7659115 ---AA-ATTTT
1 AAAAATATTTT
* * *
7659122 AAAAAAAATTA
1 AAAAATATTTT
*
7659133 AAAAAGTA-TGT
1 AAAAA-TATTTT
7659144 AAAAATATTTT
1 AAAAATATTTT
7659155 AAAA
1 AAAA
7659159 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
10 4 0.09
11 31 0.72
12 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:7659167 original size:41 final size:40
Alignment explanation
Indices: 7659063--7659173 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 40
7659053 AAAAATTAAA
* *
7659063 AAAAAGTATTTTAAAATTAAAAAATTAAA-AAAAAATATTTT
1 AAAAA-TATTTTAAAATTAAAAAA-AAAATAAAAAATATTGT
* * *
7659104 AAAAATATTTTAAATTTTAAAAAAAATTAAAAAAGTA-TGT
1 AAAAATATTTTAAAATTAAAAAAAAAATAAAAAA-TATTGT
7659144 AAAAATATTTTAAAATTAAAAAAATAAATA
1 AAAAATATTTTAAAATTAAAAAAA-AAATA
7659174 TATTTATTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 46 0.78
41 11 0.19
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAATATTTTAAAATTAAAAAAAAAATAAAAAATATTGT
Done.