Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 24 of 135
Found at i:6537971 original size:162 final size:162
Alignment explanation
Indices: 6537794--6538293 Score: 892
Period size: 162 Copynumber: 3.1 Consensus size: 162
6537784 GGTACTTAAA
*
6537794 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
*
6537859 GATTTAAGGATTAAATTAAAACAAATTAAAAATGATAGGGACTAGATACATAAATAAGCCAAAAA
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
* *
6537924 GTAACACGTGGCAGACTCTGGTGCAGTCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
* *
6537956 AATCAAAGGACTAATTTATAAGTCCTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
* *
6538021 GACTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAAATACATAAATAAGCCAAAAA
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
* * *
6538086 GTGATACGTGGCAGCCTCTGGTACAATCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
6538118 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
*
6538183 GATTTAAGGATTAAATTTAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
6538248 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
6538280 AGTCAAAGGACTAA
1 AGTCAAAGGACTAA
6538294 ATTGAAAACC
Statistics
Matches: 319, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 319 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (162 bp):
AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
Found at i:6539925 original size:18 final size:17
Alignment explanation
Indices: 6539887--6539927 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
6539877 TTCAAATATT
6539887 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
6539904 TTTAAATTTAATAATGAA
1 TTTAAATTTAA-AATAAA
6539922 TTTAAA
1 TTTAAA
6539928 CCTAAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:6540332 original size:76 final size:76
Alignment explanation
Indices: 6540196--6540901 Score: 1097
Period size: 76 Copynumber: 9.2 Consensus size: 76
6540186 TCGAGGCTTC
* * * *
6540196 ATCTTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTAAAG
1 ATCTTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
* *
6540261 AGGACAGAAAATG
64 AGGATAGGAAATG
* * * * * * *
6540274 ATCTTGCTCCTACCTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTTAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
6540339 GATAGGAAATG
66 GATAGGAAATG
* * *
6540350 ATGTTGCTCTTACTTCAATTTCAGAAATAAAGACTTGATATCGAGCTTTACTTCAATTTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAA-TTTCAAGA
6540415 GGATAGGAAATG
65 GGATAGGAAATG
*
6540427 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAA-TTTCAAGA
6540492 GGATAGGAAATG
65 GGATAGGAAATG
* * *
6540504 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTTAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
6540569 GATAGGAAATG
66 GATAGGAAATG
* * *
6540580 ATGTTGCTCTTATTTCAATTTCAGAGATGAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
6540645 GATAGGAAATG
66 GATAGGAAATG
*
6540656 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAA-TTTCAAGA
6540721 GGATAGGAAATG
65 GGATAGGAAATG
* * *
6540733 ATCTTGCTCTTACTTCAATTTAAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
6540798 GATAGGAAATG
66 GATAGGAAATG
6540809 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTT-CAAGA
6540874 GGATAGGAAATG
65 GGATAGGAAATG
* *
6540886 ATCTTGGTCTTTCTTC
1 ATCTTGCTCTTACTTC
6540902 TTACTCTTAC
Statistics
Matches: 582, Mismatches: 43, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
76 312 0.54
77 254 0.44
78 16 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:6540485 original size:153 final size:153
Alignment explanation
Indices: 6540196--6540901 Score: 1110
Period size: 153 Copynumber: 4.6 Consensus size: 153
6540186 TCGAGGCTTC
* * * *
6540196 ATCTTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAA-TTTAAA
1 ATCTTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAA
* * * * * *
6540260 GAGGACAGAAAATGATCTTGCTCCTACCTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTAT
64 GAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTAC
*
6540325 TTTAATTTCAAGAGGATAGGAAATG
129 TTCAATTTCAAGAGGATAGGAAATG
* * *
6540350 ATGTTGCTCTTACTTCAATTTCAGAAATAAAGACTTGATATCGAGCTTTACTTCAATTTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
* * *
6540415 GGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTT
66 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
6540480 CAATTTTCAAGAGGATAGGAAATG
131 CAA-TTTCAAGAGGATAGGAAATG
* *
6540504 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTT-AAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
* * * * *
6540568 GGATAGGAAATGATGTTGCTCTTATTTCAATTTCAGAGATGAAGACTTGATATCCAGCTTTACTT
66 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
6540633 CAATTTCAAGAGGATAGGAAATG
131 CAATTTCAAGAGGATAGGAAATG
*
6540656 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
*
6540721 GGATAGGAAATGATCTTGCTCTTACTTCAATTTAAGAGATAAAGACTTGATATCCAACTCTACTT
66 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
6540786 CAATTTCAAGAGGATAGGAAATG
131 CAATTTCAAGAGGATAGGAAATG
*
6540809 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
* *
6540874 GGATAGGAAATGATCTTGGTCTTTCTTC
66 GGATAGGAAATGATCTTGCTCTTACTTC
6540902 TTACTCTTAC
Statistics
Matches: 512, Mismatches: 37, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
152 107 0.21
153 313 0.61
154 92 0.18
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (153 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGA
GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTT
CAATTTCAAGAGGATAGGAAATG
Found at i:6540675 original size:229 final size:229
Alignment explanation
Indices: 6540199--6540901 Score: 1174
Period size: 229 Copynumber: 3.1 Consensus size: 229
6540189 AGGCTTCATC
* * * *
6540199 TTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAA-TTTAAAGAG
1 TTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGAG
* * * * * * *
6540263 GACAGAAAATGATCTTGCTCCTACCTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTT
64 GATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTC
* *
6540328 AATTTCAAGAGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAAATAAAGACTTGATATCG
129 AATTTCAAGAGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC
6540393 AGCTTTACTTCAATTTTCAAGAGGATAGGAAATGATG
194 AGCTTTACTTCAA-TTTCAAGAGGATAGGAAATGATG
6540430 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGAGGA
6540495 TAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAA
66 TAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAA
* * *
6540560 TTTTAAGAGGATAGGAAATGATGTTGCTCTTATTTCAATTTCAGAGATGAAGACTTGATATCCAG
131 TTTCAAGAGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG
6540625 CTTTACTTCAATTTCAAGAGGATAGGAAATGATG
196 CTTTACTTCAATTTCAAGAGGATAGGAAATGATG
6540659 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGAGGA
*
6540724 TAGGAAATGATCTTGCTCTTACTTCAATTTAAGAGATAAAGACTTGATATCCAACTCTACTTCAA
66 TAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAA
*
6540789 TTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG
131 TTTCAAGAGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG
*
6540854 CTTTACTTCAATTTCCAAGAGGATAGGAAATGATC
196 CTTTACTTCAATTT-CAAGAGGATAGGAAATGATG
* *
6540889 TTGGTCTTTCTTC
1 TTGCTCTTACTTC
6540902 TTACTCTTAC
Statistics
Matches: 446, Mismatches: 24, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
229 259 0.58
230 172 0.39
231 15 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (229 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTTCAAGAGGA
TAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAA
TTTCAAGAGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG
CTTTACTTCAATTTCAAGAGGATAGGAAATGATG
Found at i:6540954 original size:92 final size:90
Alignment explanation
Indices: 6540810--6540985 Score: 246
Period size: 92 Copynumber: 1.9 Consensus size: 90
6540800 TAGGAAATGA
* *
6540810 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCCAAGAG
1 TCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTTTACTTCAATTT-CAAGAG
*
6540875 GATA-GGAAATGATCTTGGTCTTTCT
65 GATATGAAAATGATCTTGGTCTTTCT
* * * *
6540900 TCTTACTCTTACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTC--AGAGACAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
*
6540965 GGATATGAAAATGATGTTGGT
64 GGATATGAAAATGATCTTGGT
6540986 TTGATCTGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 20 0.27
91 10 0.13
92 45 0.60
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (90 bp):
TCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
ATATGAAAATGATCTTGGTCTTTCT
Found at i:6550252 original size:30 final size:29
Alignment explanation
Indices: 6550218--6550548 Score: 106
Period size: 29 Copynumber: 11.3 Consensus size: 29
6550208 CTAAAAATGA
6550218 AATTTTGAAAAGTTCAGGGGGTAAAATGGT
1 AATTTTGAAAAGTT-AGGGGGTAAAATGGT
*
6550248 AATTTTGGTAAAA-TTA-GGGTTAAAAATGG-
1 AATTTT-G-AAAAGTTAGGGGGT-AAAATGGT
* * *
6550277 AATTTTGGAAAGTTTGAGGGTAAAATGGT
1 AATTTTGAAAAGTTAGGGGGTAAAATGGT
* *
6550306 AATTTTTGGTAAAA-CT-GGGGTTAAAAATGG-
1 AA-TTTT-G-AAAAGTTAGGGGGT-AAAATGGT
* * *
6550336 AATTTTGGAAAGCTTA-GGGGTAAGATGAT
1 AATTTTGAAAAG-TTAGGGGGTAAAATGGT
* * *
6550365 AATTTTTGATGAAA--CAGGTGTTAAAAATGG-
1 AA-TTTTGA--AAAGTTAGGGGGT-AAAATGGT
* * * *
6550395 AAATTTGGAAAGTTCGGGGGTAAAATGAT
1 AATTTTGAAAAGTTAGGGGGTAAAATGGT
* *
6550424 AACTTTTGGTAAA---ACGGGGTCAAAATGG-
1 AA-TTTT-GAAAAGTTAGGGGGT-AAAATGGT
* *
6550452 AATTTTGGATAGTTTA-GGGGTAAAATGGT
1 AATTTTGAAAAG-TTAGGGGGTAAAATGGT
* *
6550481 AATTTTTGGTAAAA-AT-GGGGTTAAAATTGG-
1 AA-TTTT-G-AAAAGTTAGGGGGTAAAA-TGGT
* *
6550511 AATTTTGGAAAGCTTA-GGGGTAAGATGGT
1 AATTTTGAAAAG-TTAGGGGGTAAAATGGT
6550540 AATTGTTGA
1 AATT-TTGA
6550549 TGAAACCGAG
Statistics
Matches: 218, Mismatches: 43, Indels: 80
0.64 0.13 0.23
Matches are distributed among these distances:
26 3 0.01
27 16 0.07
28 40 0.18
29 66 0.30
30 56 0.26
31 25 0.11
32 12 0.06
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
AATTTTGAAAAGTTAGGGGGTAAAATGGT
Found at i:6550289 original size:59 final size:57
Alignment explanation
Indices: 6550192--6550607 Score: 451
Period size: 59 Copynumber: 7.1 Consensus size: 57
6550182 TTTTGGAAAC
* * * *
6550192 TTTGGTGAAATTGGGGCTAAAAATGAAATTTTGAAAAGTTCAGGGGGTAAAATGGTAA-T
1 TTTGGT-AAAATGGGGTTAAAAATGGAATTTTGGAAAGTT-A-GGGGTAAAATGGTAATT
* *
6550251 TTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATT
1 TTTGGTAAAA-TGGGGTTAAAAATGGAATTTTGGAAAGTTAG-GGGTAAAATGGTAATT
* *
6550310 TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGCTTAGGGGTAAGATGATAATT
1 TTTGGTAAAA-TGGGGTTAAAAATGGAATTTTGGAAAG-TTAGGGGTAAAATGGTAATT
* * * * * *
6550369 TTTGATGAAACA-GGTGTTAAAAATGGAAATTTGGAAAGTTCGGGGGTAAAATGATAACT
1 TTTGGT-AAA-ATGGGGTTAAAAATGGAATTTTGGAAAGTT-AGGGGTAAAATGGTAATT
* * *
6550428 TTTGGTAAAACGGGG-TCAAAATGGAATTTTGGATAGTTTAGGGGTAAAATGGTAATT
1 TTTGGTAAAATGGGGTTAAAAATGGAATTTTGGAAAG-TTAGGGGTAAAATGGTAATT
* *
6550485 TTTGGTAAAAATGGGGTTAAAATTGGAATTTTGGAAAGCTTAGGGGTAAGATGGTAATT
1 TTTGGT-AAAATGGGGTTAAAAATGGAATTTTGGAAAG-TTAGGGGTAAAATGGTAATT
* * ** * *
6550544 GTTGATGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGCAAAATGGTAATT
1 TTTGGT-AAAATGGGGTTAAAAATGGAATTTTGGAAAG-TTAGGGGTAAAATGGTAATT
6550603 TTTGG
1 TTTGG
6550608 ACAGTCTAGG
Statistics
Matches: 303, Mismatches: 43, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
57 41 0.14
58 35 0.12
59 220 0.73
60 6 0.02
61 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (57 bp):
TTTGGTAAAATGGGGTTAAAAATGGAATTTTGGAAAGTTAGGGGTAAAATGGTAATT
Found at i:6550355 original size:118 final size:117
Alignment explanation
Indices: 6550192--6550607 Score: 498
Period size: 118 Copynumber: 3.5 Consensus size: 117
6550182 TTTTGGAAAC
* * * * * *
6550192 TTTGGTGAAATTGGGGCTAAAAATGAAATTTTGAAAAGTTCAGGGGGTAAAATGGTAA-TTTTGG
1 TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGTTTA-GGGGTAAAATGGTAATTTTTGG
6550256 TAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATT
65 TAAAA-TAGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATT
* * * *
6550310 TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGCTTAGGGGTAAGATGATAATTTTTGAT
1 TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGT
* * * * * * *
6550375 GAAACAGGTGTTAAAAATGGAAATTTGGAAAGTTCGGGGGTAAAATGATAACT
66 AAAATAGG-GTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATT
* *
6550428 TTTGGTAAAAC-GGGG-TCAAAATGGAATTTTGGATAGTTTAGGGGTAAAATGGTAATTTTTGGT
1 TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGT
* * * *
6550491 AAAAATGGGGTTAAAATTGGAATTTTGGAAAGCTT-AGGGGTAAGATGGTAATT
66 -AAAATAGGGTTAAAAATGGAATTTTGGAAAGTTTGA-GGGTAAAATGGTAATT
* * * * * *
6550544 GTTGATGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGCAAAATGGTAATTTTTGG
1 TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
6550608 ACAGTCTAGG
Statistics
Matches: 251, Mismatches: 41, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
116 85 0.34
117 28 0.11
118 138 0.55
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (117 bp):
TTTGGTAAAACTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGT
AAAATAGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATT
Found at i:6550478 original size:175 final size:175
Alignment explanation
Indices: 6550209--6550604 Score: 575
Period size: 175 Copynumber: 2.3 Consensus size: 175
6550199 AAATTGGGGC
* *
6550209 TAAAAAT-GAAATTTTGAAAAGTTCAGGGGGTAAAATGGTAATTTTGGTAAAATTAGGGTTAAAA
1 TAAAAATGGAAA-TTTGGAAAGTTC-GGGGGTAAAATGGTAATTTTGGTAAAA-TAGGGGTAAAA
*
6550273 ATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTAAAACTGGGGTTAAAAATGGAA
63 ATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTAAAAATGGGGTTAAAAATGGAA
*
6550338 TTTTGGAAAGCTTAGGGGTAAGATGATAATTTTTGATGAAACAG-GTGT
128 TTTTGGAAAGCTTAGGGGTAAGATGATAATTGTTGATGAAACAGAG-GT
* * *
6550386 TAAAAATGGAAATTTGGAAAGTTCGGGGGTAAAATGATAACTTTTGGTAAAA-CGGGGTCAAAAT
1 TAAAAATGGAAATTTGGAAAGTTCGGGGGTAAAATGGTAA-TTTTGGTAAAATAGGGGTAAAAAT
* *
6550450 GGAATTTTGGATAGTTT-AGGGGTAAAATGGTAATTTTTGGTAAAAATGGGGTTAAAATTGGAAT
65 GGAATTTTGGAAAGTTTGA-GGGTAAAATGGTAATTTTTGGTAAAAATGGGGTTAAAAATGGAAT
* *
6550514 TTTGGAAAGCTTAGGGGTAAGATGGTAATTGTTGATGAAACCGAGGT
129 TTTGGAAAGCTTAGGGGTAAGATGATAATTGTTGATGAAACAGAGGT
* ** *
6550561 TAAAAATGGAATTTTGGAAAGTTTAGGGGCAAAATGGTAATTTT
1 TAAAAATGGAAATTTGGAAAGTTCGGGGGTAAAATGGTAATTTT
6550605 TGGACAGTCT
Statistics
Matches: 199, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
174 5 0.03
175 145 0.73
176 16 0.08
177 29 0.15
178 4 0.02
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (175 bp):
TAAAAATGGAAATTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTAAAATAGGGGTAAAAATG
GAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTAAAAATGGGGTTAAAAATGGAATTT
TGGAAAGCTTAGGGGTAAGATGATAATTGTTGATGAAACAGAGGT
Found at i:6550608 original size:30 final size:28
Alignment explanation
Indices: 6550211--6550618 Score: 162
Period size: 30 Copynumber: 13.9 Consensus size: 28
6550201 ATTGGGGCTA
* * *
6550211 AAAATGAAATTTTGAAAAGTTCAGGGGGT
1 AAAATGGAATTTTGGAAAGTTTA-GGGGT
* *
6550240 AAAATGGTAATTTTGGTAAA-ATTAGGGTT
1 AAAATGG-AATTTTGG-AAAGTTTAGGGGT
6550269 AAAAATGGAATTTTGGAAAGTTT-GAGGGT
1 -AAAATGGAATTTTGGAAAGTTTAG-GGGT
**
6550298 AAAATGGTAATTTTTGGTAAA-ACT-GGGGTT
1 AAAATGG-AA-TTTTGG-AAAGTTTAGGGG-T
*
6550328 AAAAATGGAATTTTGGAAAGCTTAGGGGT
1 -AAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
6550357 AAGATGATAATTTTTGATGAAA---CAGGTGTT
1 AAAATG-GAA-TTTTG--GAAAGTTTAGG-GGT
* **
6550387 AAAAATGGAAATTTGGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAAGTTTAGGGGT
*
6550416 AAAATGATAACTTTTGGTAAA----ACGGGGT
1 AAAATG-GAA-TTTTGG-AAAGTTTA-GGGGT
*
6550444 CAAAATGGAATTTTGGATAGTTTAGGGGT
1 -AAAATGGAATTTTGGAAAGTTTAGGGGT
**
6550473 AAAATGGTAATTTTTGGTAAA-AAT-GGGGTT
1 AAAATGG-AA-TTTTGG-AAAGTTTAGGGG-T
*
6550503 AAAATTGGAATTTTGGAAAGCTTAGGGGT
1 AAAA-TGGAATTTTGGAAAGTTTAGGGGT
* *** *
6550532 AAGATGGTAATTGTTGATGAAA-CCGA-GGTT
1 AAAATGG-AATT-TTG--GAAAGTTTAGGGGT
*
6550562 AAAAATGGAATTTTGGAAAGTTTAGGGGC
1 -AAAATGGAATTTTGGAAAGTTTAGGGGT
* *
6550591 AAAATGGTAATTTTTGGACAGTCTAGGG
1 AAAATGG-AA-TTTTGGAAAGTTTAGGG
6550619 ACCTATAAAA
Statistics
Matches: 291, Mismatches: 42, Indels: 91
0.69 0.10 0.21
Matches are distributed among these distances:
26 2 0.01
27 14 0.05
28 53 0.18
29 88 0.30
30 92 0.32
31 34 0.12
32 8 0.03
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:6550945 original size:162 final size:162
Alignment explanation
Indices: 6550678--6551177 Score: 892
Period size: 162 Copynumber: 3.1 Consensus size: 162
6550668 GGTACCCAGA
* *
6550678 AGTCAAAGGACTAATTTATAAATCTTAAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
6550743 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
* *
6550808 GTGACACGTGGCAACCTCTGGTGCAGTCAGAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
6550840 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
* * *
6550905 GATTTAAGGATTAGATTAAATCAAATTAAAAATGACAGGGACTAGATACATAAATAAGCTAAAAA
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
*
6550970 GTGACACGTGGCAGCCTCTGGTGCAATCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
* * *
6551002 AGTCAAATGACTAATTTATAAGTCTTGAAAAATTCTTAGGTCAATTGGGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
6551067 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
6551132 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
*
6551164 AATCAAAGGACTAA
1 AGTCAAAGGACTAA
6551178 ATTGAAAACC
Statistics
Matches: 321, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 321 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (162 bp):
AGTCAAAGGACTAATTTATAAGTCTTGAAAAATTCTTGGGTCAATTGTGTAATTAAATAAAAGTT
GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAA
GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
Found at i:6552826 original size:18 final size:17
Alignment explanation
Indices: 6552788--6552828 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
6552778 TTCAAATATT
6552788 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
6552805 TTTAAATTTAATAATGAA
1 TTTAAATTTAA-AATAAA
6552823 TTTAAA
1 TTTAAA
6552829 CCTAAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:6554595 original size:101 final size:101
Alignment explanation
Indices: 6554468--6554684 Score: 416
Period size: 101 Copynumber: 2.1 Consensus size: 101
6554458 AATAGTAATC
*
6554468 TCAATATAAAGAAATATAATATTTTTGGGATAATTGTTTTTTATTTTTATGTTTTTTAGATAATC
1 TCAATA-AAATAAATATAATATTTTTGGGATAATTGTTTTTTATTTTTATGTTTTTTAGATAATC
6554533 TTTCATTCCATCGACTTAAACATTAAAATCTTACTTT
65 TTTCATTCCATCGACTTAAACATTAAAATCTTACTTT
6554570 TCAATAAAATAAATATAATATTTTTGGGATAATTGTTTTTTATTTTTATGTTTTTTAGATAATCT
1 TCAATAAAATAAATATAATATTTTTGGGATAATTGTTTTTTATTTTTATGTTTTTTAGATAATCT
6554635 TTCATTCCATCGACTTAAACATTAAAATCTTACTTT
66 TTCATTCCATCGACTTAAACATTAAAATCTTACTTT
6554671 TCAATAAAATAAAT
1 TCAATAAAATAAAT
6554685 TAAACAAAAT
Statistics
Matches: 114, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 108 0.95
102 6 0.05
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (101 bp):
TCAATAAAATAAATATAATATTTTTGGGATAATTGTTTTTTATTTTTATGTTTTTTAGATAATCT
TTCATTCCATCGACTTAAACATTAAAATCTTACTTT
Found at i:6556413 original size:87 final size:87
Alignment explanation
Indices: 6556300--6556462 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
6556290 GACATAATGG
* * *
6556300 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGCGGTGGAGGTGGCGG
1 GGTGGTGGAGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGAGGTGGAGGTGGCGG
6556365 AGACTTATACTTGTAAACTGGA
66 AGACTTATACTTGTAAACTGGA
* *
6556387 GGTGGTGGAGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGAGGTGGTGGTGGGGG
1 GGTGGTGGAGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGAGGTGGAGGTGGCGG
*
6556452 AGACTTGTACT
66 AGACTTATACT
6556463 CATACGGATG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.16, C:0.08, G:0.48, T:0.28
Consensus pattern (87 bp):
GGTGGTGGAGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGAGGTGGAGGTGGCGG
AGACTTATACTTGTAAACTGGA
Found at i:6556438 original size:51 final size:51
Alignment explanation
Indices: 6556383--6556671 Score: 362
Period size: 51 Copynumber: 5.7 Consensus size: 51
6556373 ACTTGTAAAC
* * * *
6556383 TGGAGGTGGTGGAGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGA
1 TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
** * * *
6556434 TGGAGGTGGTGGTGGGGGAGACTTGTACTCATACGGATGCTTAGGTGGGGA
1 TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
** *
6556485 TGGAGGTGGTGGTGGGGGAGACTTGTACTCATACGGATGCTTGGGTGGTGA
1 TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
* *
6556536 TGGTGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTTGGTGGTGA
1 TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
* * * * *
6556587 TGGTGCTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGA
1 TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
* * * * *
6556638 TGGCGTTGGAGGTGGTGGAGACTTATACTTGTAA
1 TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAA
6556672 ACTGGAAGGG
Statistics
Matches: 216, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 216 1.00
ACGTcount: A:0.16, C:0.08, G:0.47, T:0.29
Consensus pattern (51 bp):
TGGAGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
Found at i:6556445 original size:45 final size:45
Alignment explanation
Indices: 6556396--6556853 Score: 225
Period size: 51 Copynumber: 9.9 Consensus size: 45
6556386 AGGTGGTGGA
*
6556396 GGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGAGGTGGT
1 GGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGGA---GGT
** * *
6556444 GGTGGGGGAGACTTGTACTCATACGGATGCTTAGGTGGGGATGGAGGTGGT
1 GGT---GGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGGA---GGT
** * * *
6556495 GGTGGGGGAGACTTGTACTCATACGGATGCTTGGGTGGTGATGGTGGTGGT
1 GGT---GGAGACTTGTACTTGTAAGGATGCTTGGGTGG-G--GATGGAGGT
*
6556546 GGTGGGGGAGACTTGTACTTGTAAGGATGCTTTGGTGGTGATGGTGCTGGAGGT
1 GGT---GGAGACTTGTACTTGTAAGGATGC-TT-G-GGTG--GG-GATGGAGGT
* *
6556600 GGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGCGTTGGAGGT
1 GGTGGAGACTTGTACTTGTAAGGATGCTT--G-GGTG--GG-GATGGAGGT
* **
6556651 GGTGGAGACTTATACTTGTAA--A--C-TGGAAGGGG-T-G-GG-
1 GGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGGAGGT
* * * * *
6556687 GGTGGAGACTTATACTTGTAAGGGTGCTTGGGTGGTGATGGTGGG
1 GGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGGAGGT
* * * * *
6556732 GGTGGGGACTTGTACTCGTAGGGGTG-TT---T-GGG-TGGTGGT
1 GGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGGAGGT
* *
6556771 -G-GGA-ACTTGTACTTGT-AGAGATGCTTGGGTGGTGATGGTGGT
1 GGTGGAGACTTGTACTTGTAAG-GATGCTTGGGTGGGGATGGAGGT
* * *
6556813 GGGGGAGACTTGTACTCGTAAGGATGCTTGGGTGGTGATGG
1 GGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGG
6556854 TGGAGGAGGT
Statistics
Matches: 342, Mismatches: 36, Indels: 67
0.77 0.08 0.15
Matches are distributed among these distances:
35 1 0.00
36 35 0.10
37 6 0.02
38 2 0.01
39 7 0.02
40 5 0.01
41 11 0.03
42 8 0.02
43 4 0.01
44 8 0.02
45 52 0.15
46 3 0.01
47 1 0.00
48 3 0.01
50 2 0.01
51 169 0.49
52 3 0.01
53 1 0.00
54 19 0.06
55 1 0.00
56 1 0.00
ACGTcount: A:0.16, C:0.08, G:0.47, T:0.30
Consensus pattern (45 bp):
GGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGGGATGGAGGT
Found at i:6556773 original size:36 final size:36
Alignment explanation
Indices: 6556726--6556804 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
6556716 GGGTGGTGAT
* * * * *
6556726 GGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTG
1 GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTG
*
6556762 GGTGGTGGTGGGAACTTGTACTTGTAGAGATGCTTG
1 GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTG
6556798 GGTGGTG
1 GGTGGTG
6556805 ATGGTGGTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.11, C:0.08, G:0.49, T:0.32
Consensus pattern (36 bp):
GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTG
Found at i:6556787 original size:81 final size:81
Alignment explanation
Indices: 6556680--6556849 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
6556670 AAACTGGAAG
* * *
6556680 GGGTGGGGGTGGAGACTTATACTTGTA-AGGGTGCTTGGGTGGTGATGGTGG-GGGTGGGGACTT
1 GGGTGGTGGTGGAGACTTATACTTGTAGA-GATGCTTGGGTGGTGATGGTGGTGGG-GGAGACTT
* * *
6556743 GTACTCGTAGGGGTGTTT
64 GTACTCGTAAGGATGCTT
*
6556761 GGGTGGTGGTGG-GAACTTGTACTTGTAGAGATGCTTGGGTGGTGATGGTGGTGGGGGAGACTTG
1 GGGTGGTGGTGGAG-ACTTATACTTGTAGAGATGCTTGGGTGGTGATGGTGGTGGGGGAGACTTG
6556825 TACTCGTAAGGATGCTT
65 TACTCGTAAGGATGCTT
6556842 GGGTGGTG
1 GGGTGGTG
6556850 ATGGTGGAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
80 1 0.01
81 74 0.94
82 4 0.05
ACGTcount: A:0.14, C:0.08, G:0.48, T:0.31
Consensus pattern (81 bp):
GGGTGGTGGTGGAGACTTATACTTGTAGAGATGCTTGGGTGGTGATGGTGGTGGGGGAGACTTGT
ACTCGTAAGGATGCTT
Found at i:6556854 original size:45 final size:45
Alignment explanation
Indices: 6556762--6556856 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 45
6556752 GGGGTGTTTG
*
6556762 GGTGGTGGTGGGAACTTGTACTTGTAGAGATGCTTGGGTGGTGAT
1 GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTGGGTGGTGAT
6556807 GGTGGTGG-GGGAGACTTGTACTCGTA-AGGATGCTTGGGTGGTGAT
1 GGTGGTGGTGGGA-ACTTGTACTCGTAGA-GATGCTTGGGTGGTGAT
6556852 GGTGG
1 GGTGG
6556857 AGGAGGTGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 5 0.11
45 42 0.89
ACGTcount: A:0.15, C:0.07, G:0.47, T:0.31
Consensus pattern (45 bp):
GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTGGGTGGTGAT
Found at i:6556864 original size:213 final size:217
Alignment explanation
Indices: 6556543--6556943 Score: 564
Period size: 213 Copynumber: 1.9 Consensus size: 217
6556533 TGATGGTGGT
* *
6556543 GGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTTGGTGGTGATGGTGCTGGAGGTGGTGGAGA
1 GGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGATGGTGCT-G-GGTGGGGGAGA
* * **
6556608 CTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGCGTTGGAGGTGGTGGAGACTTATACTTGTAAA
64 CTTGTACTCGTAAGGATGCTTGGGTGGTGATGGCGGAGGAGGTGGTGGAGACTTATACTTGTAAA
* * * *
6556673 CTGGAAG-GGGTGGGGGTGGAGACTTATACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGG
129 CAGG-AGTGGGTGGGGGAGGAGACTTATACTTGTAAGGCTCCTTGGGTGGTGATGGTGGGGGTGG
6556737 GGACTTGTACTCGTAGGGGTGTTTG
193 GGACTTGTACTCGTAGGGGTGTTTG
6556762 GGTGGTGGTGGGA-ACTTGTACTTGT-AGAGATGCTTGGGTGGTGAT-G-G-T-GGTGGGGGAGA
1 GGTGGTGG-GGGAGACTTGTACTTGTAAG-GATGCTTGGGTGGTGATGGTGCTGGGTGGGGGAGA
*
6556821 CTTGTACTCGTAAGGATGCTTGGGTGGTGATGGTGGAGGAGGTGGTGGAGACTTATACTTGTAAA
64 CTTGTACTCGTAAGGATGCTTGGGTGGTGATGGCGGAGGAGGTGGTGGAGACTTATACTTGTAAA
* * * * *
6556886 CAGGAGTTGGTGGGGGAGGAGATTTGTACTTGTAAGGCTCCTTGTGTGGTGGTGGTGG
129 CAGGAGTGGGTGGGGGAGGAGACTTATACTTGTAAGGCTCCTTGGGTGGTGATGGTGG
6556944 TGGAGACTTG
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
212 2 0.01
213 116 0.71
216 1 0.01
217 1 0.01
218 3 0.02
219 36 0.22
220 4 0.02
ACGTcount: A:0.16, C:0.08, G:0.46, T:0.30
Consensus pattern (217 bp):
GGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGATGGTGCTGGGTGGGGGAGACT
TGTACTCGTAAGGATGCTTGGGTGGTGATGGCGGAGGAGGTGGTGGAGACTTATACTTGTAAACA
GGAGTGGGTGGGGGAGGAGACTTATACTTGTAAGGCTCCTTGGGTGGTGATGGTGGGGGTGGGGA
CTTGTACTCGTAGGGGTGTTTG
Found at i:6558949 original size:22 final size:22
Alignment explanation
Indices: 6558902--6558949 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
6558892 TGATCTAAGG
* *
6558902 AAAAATAAAAGAAACTGAATTA
1 AAAAATAAAAGAAAATGAACTA
6558924 AAAAATAAAAGAAAATAGAACTA
1 AAAAATAAAAGAAAAT-GAACTA
6558947 AAA
1 AAA
6558950 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATGAACTA
Found at i:6559789 original size:19 final size:19
Alignment explanation
Indices: 6559765--6559807 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6559755 AAATATAAAT
6559765 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
6559784 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
6559803 TAAAT
1 TAAAT
6559808 CCTAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:6560561 original size:104 final size:103
Alignment explanation
Indices: 6560380--6560576 Score: 270
Period size: 104 Copynumber: 1.9 Consensus size: 103
6560370 ATTTTGTGAA
* * *
6560380 TTTTTTCCTTTTTTTTCTTTAAGAATACATTGGACCTTTTGACGCGAAATAAAATGACACCCAAG
1 TTTTTTCCTTTTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATAAAATGAAAACCAAG
* *
6560445 CACTCCATCCCGGTTACTCAGCCTAACATGCTCTCAAT
66 CACTACACCCCGGTTACTCAGCCTAACATGCTCTCAAT
* * * * *
6560483 TTTTTTCTTCTTTTTTTT-TTTTAGAATGCATTAGCCCTTTTGACGCGAAGTGAAATGAAAACCA
1 TTTTTTC--CTTTTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATAAAATGAAAACCA
*
6560547 AGCACTACACCCCGGTTACTCAGTCTAACA
64 AGCACTACACCCCGGTTACTCAGCCTAACA
6560577 CATTCCGAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
103 7 0.09
104 65 0.80
105 9 0.11
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (103 bp):
TTTTTTCCTTTTTTTTCTTTAAGAATACATTAGACCTTTTGACGCGAAATAAAATGAAAACCAAG
CACTACACCCCGGTTACTCAGCCTAACATGCTCTCAAT
Found at i:6560588 original size:104 final size:104
Alignment explanation
Indices: 6560380--6560610 Score: 261
Period size: 104 Copynumber: 2.2 Consensus size: 104
6560370 ATTTTGTGAA
* * * *
6560380 TTTTTTC--CTTTTTTTTCTTTAAGAATACATTGGACCTTTTGACGCGAAATAAAATGACACCCA
1 TTTTTTCTTCTTTTTTTT-TTTTAGAATACATTAGACCTTTTGACGCGAAATAAAATGAAAACCA
* * **
6560443 AGCACTCCATCCCGGTTACTCAGCCTAACATGCTCTCAAT
65 AGCACTACACCCCGGTTACTCAGCCTAACACACTCTCAAT
* * * *
6560483 TTTTTTCTTCTTTTTTTTTTTTAGAATGCATTAGCCCTTTTGACGCGAAGTGAAATGAAAACCAA
1 TTTTTTCTTCTTTTTTTTTTTTAGAATACATTAGACCTTTTGACGCGAAATAAAATGAAAACCAA
* *
6560548 GCACTACACCCCGGTTACTCAGTCTAACACATTC-CGAAT
66 GCACTACACCCCGGTTACTCAGCCTAACACACTCTC-AAT
* * *
6560587 TTATTTATTATTTTCTTTTTTTTA
1 TTTTTTCTTCTTTT-TTTTTTTTA
6560611 TTCGGGTTAG
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
103 8 0.07
104 81 0.76
105 18 0.17
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (104 bp):
TTTTTTCTTCTTTTTTTTTTTTAGAATACATTAGACCTTTTGACGCGAAATAAAATGAAAACCAA
GCACTACACCCCGGTTACTCAGCCTAACACACTCTCAAT
Found at i:6561266 original size:4 final size:4
Alignment explanation
Indices: 6561257--6561312 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
6561247 TCCTGGACAA
*
6561257 AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAAA AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT
6561306 AAAT AAA
1 AAAT AAA
6561313 AATAATTGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
3 5 0.11
4 31 0.69
5 8 0.18
6 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:6565379 original size:21 final size:21
Alignment explanation
Indices: 6565353--6565392 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6565343 ATAGATGCCT
*
6565353 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTACTTTTGAAAATCCA
*
6565374 CAGTTTACTTTTGGAAATC
1 CAGTTTACTTTTGAAAATC
6565393 TATAGATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
CAGTTTACTTTTGAAAATCCA
Found at i:6566990 original size:22 final size:22
Alignment explanation
Indices: 6566943--6566990 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
6566933 TGATCTAAGG
* *
6566943 AAAAATAAAAGAAACTGAATTA
1 AAAAATAAAAGAAAATGAACTA
6566965 AAAAATAAAAGAAAATAGAACTA
1 AAAAATAAAAGAAAAT-GAACTA
6566988 AAA
1 AAA
6566991 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATGAACTA
Found at i:6567830 original size:19 final size:19
Alignment explanation
Indices: 6567806--6567848 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6567796 AAATATAAAT
6567806 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
6567825 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
6567844 TAAAT
1 TAAAT
6567849 TCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:6567879 original size:5 final size:5
Alignment explanation
Indices: 6567869--6567897 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6567859 AATATTTTTA
6567869 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
6567898 CCAAGTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:6570641 original size:16 final size:17
Alignment explanation
Indices: 6570617--6570658 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6570607 AATCTAAAAA
*
6570617 TAAAATAAAAT-AATTT
1 TAAATTAAAATCAATTT
*
6570633 TAAATTAAAATCTATTT
1 TAAATTAAAATCAATTT
*
6570650 TAATTTAAA
1 TAAATTAAA
6570659 TGTCCATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTAAAATCAATTT
Found at i:6571964 original size:11 final size:11
Alignment explanation
Indices: 6571948--6571980 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
6571938 CTTATTGATC
6571948 ATTTTTAATTT
1 ATTTTTAATTT
6571959 ATTTTTAATTT
1 ATTTTTAATTT
6571970 ATTTTTAATTT
1 ATTTTTAATTT
6571981 GCCCTTGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTTAATTT
Found at i:6572205 original size:25 final size:25
Alignment explanation
Indices: 6572155--6572205 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
6572145 TTTTCATTTT
* **
6572155 AATTCAATCCATTTTTTTTTTTAAA
1 AATTCAATCCATTTGTTTTTAAAAA
6572180 AATTCGAAT-CATTTGTTTTTAAAAA
1 AATTC-AATCCATTTGTTTTTAAAAA
6572205 A
1 A
6572206 GAAAGGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (25 bp):
AATTCAATCCATTTGTTTTTAAAAA
Found at i:6576206 original size:5 final size:5
Alignment explanation
Indices: 6576193--6576254 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
6576183 GGCATCTTTT
*
6576193 AAAAG AAAAA AAAAG AAAAG -AAAG AAAAAG AAAAG AAAAG AAAAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG --AAAAG
6576240 AAGAAG AAAAG AAAA
1 AA-AAG AAAAG AAAA
6576255 AGGAAGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 4 0.08
5 32 0.64
6 9 0.18
7 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:6576208 original size:10 final size:10
Alignment explanation
Indices: 6576193--6576268 Score: 73
Period size: 10 Copynumber: 7.3 Consensus size: 10
6576183 GGCATCTTTT
6576193 AAAAGAAAAA
1 AAAAGAAAAA
6576203 AAAAG-AAAA
1 AAAAGAAAAA
*
6576212 GAAAGAAAAA
1 AAAAGAAAAA
6576222 GAAAAGAAAAGAA
1 -AAAAG-AAA-AA
*
6576235 AAAAGAAGAAG
1 AAAAGAA-AAA
6576246 AAAAGAAAAA
1 AAAAGAAAAA
**
6576256 GGAAGAAAAA
1 AAAAGAAAAA
6576266 AAA
1 AAA
6576269 GTCAAGATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
9 8 0.15
10 20 0.38
11 14 0.26
12 9 0.17
13 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:6576211 original size:15 final size:15
Alignment explanation
Indices: 6576193--6576268 Score: 91
Period size: 15 Copynumber: 4.9 Consensus size: 15
6576183 GGCATCTTTT
6576193 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
*
6576208 AAAAGAAAGAAAAAG
1 AAAAGAAAAAAAAAG
6576223 AAAAGAAAAGAAAAAAG
1 AAAAG-AAA-AAAAAAG
6576240 AAGAAGAAAAGAAAAAG
1 AA-AAGAAAA-AAAAAG
*
6576257 -GAAGAAAAAAAA
1 AAAAGAAAAAAAA
6576269 GTCAAGATGA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
14 4 0.07
15 26 0.48
16 4 0.07
17 17 0.31
18 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:6577888 original size:28 final size:28
Alignment explanation
Indices: 6577857--6577920 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
6577847 AAAATACGAT
6577857 TTTTGGATACCT-GAGGCGAAAATGGTAA
1 TTTTGGAT-CCTCGAGGCGAAAATGGTAA
** * *
6577885 TTTTCGGATGTTCGGGGGGAAAATGGTAA
1 TTTT-GGATCCTCGAGGCGAAAATGGTAA
6577914 TTTTGGA
1 TTTTGGA
6577921 AACGGTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.33
Consensus pattern (28 bp):
TTTTGGATCCTCGAGGCGAAAATGGTAA
Found at i:6577929 original size:15 final size:16
Alignment explanation
Indices: 6577909--6577938 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6577899 GGGGGAAAAT
6577909 GGTAA-TTTTGGAAAC
1 GGTAATTTTTGGAAAC
6577924 GGTAATTTTTGGAAA
1 GGTAATTTTTGGAAA
6577939 AATTGAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (16 bp):
GGTAATTTTTGGAAAC
Found at i:6578036 original size:29 final size:30
Alignment explanation
Indices: 6577977--6578048 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
6577967 TGTTTGGGGT
*
6577977 AAATGGTAATTTTTATACATCTGAGGGT-A
1 AAATGGTAATTTTTATACATCTAAGGGTAA
*
6578006 AAATGGTAATTTTT-TACAAT-TCAAGGTTAA
1 AAATGGTAATTTTTATAC-ATCT-AAGGGTAA
6578036 AAATGG-AATTTTT
1 AAATGGTAATTTTT
6578049 GGAAAGTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 4 0.11
29 27 0.71
30 7 0.18
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (30 bp):
AAATGGTAATTTTTATACATCTAAGGGTAA
Found at i:6578039 original size:30 final size:30
Alignment explanation
Indices: 6578025--6578083 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
6578015 TTTTTTACAA
6578025 TTCAAGGTTAAAAATGGAATTTTTGGAAAG
1 TTCAAGGTTAAAAATGGAATTTTTGGAAAG
**
6578055 TTCGGGGTTAAAAATGGAATTTTTGGAAA
1 TTCAAGGTTAAAAATGGAATTTTTGGAAA
6578084 AAGGATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.34
Consensus pattern (30 bp):
TTCAAGGTTAAAAATGGAATTTTTGGAAAG
Found at i:6578123 original size:30 final size:30
Alignment explanation
Indices: 6578089--6578220 Score: 126
Period size: 30 Copynumber: 4.5 Consensus size: 30
6578079 GGAAAAAGGA
* *
6578089 TCAAAATATGATTTTTGGAAAATTTGGGGG
1 TCAAAATATGATTTTTAGAAAATTCGGGGG
* * *
6578119 TCAAAATATAATTTTTA-AGAAGTTCGGGTG
1 TCAAAATATGATTTTTAGA-AAATTCGGGGG
* *
6578149 TTAAAATATGATTTTTAGAAAATTC-GAGG
1 TCAAAATATGATTTTTAGAAAATTCGGGGG
* * * * *
6578178 TCAAAATGTAATTTTAAG-AAGTTCGAGGG
1 TCAAAATATGATTTTTAGAAAATTCGGGGG
6578207 TCAAAATATGATTT
1 TCAAAATATGATTT
6578221 CTGAACAGTT
Statistics
Matches: 80, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
28 5 0.06
29 31 0.39
30 43 0.54
31 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (30 bp):
TCAAAATATGATTTTTAGAAAATTCGGGGG
Found at i:6578215 original size:58 final size:60
Alignment explanation
Indices: 6578089--6578220 Score: 189
Period size: 58 Copynumber: 2.2 Consensus size: 60
6578079 GGAAAAAGGA
* * *
6578089 TCAAAATATGATTTTTGGAAAATTTGGGGGTCAAAATATAATTTTTAAGAAGTTCGGGTG
1 TCAAAATATGATTTTTAGAAAATTTCGAGGTCAAAATATAATTTTTAAGAAGTTCGGGTG
* *
6578149 TTAAAATATGATTTTTAGAAAA-TTCGAGGTCAAAATGTAA-TTTTAAGAAGTTCGAGG-G
1 TCAAAATATGATTTTTAGAAAATTTCGAGGTCAAAATATAATTTTTAAGAAGTTCG-GGTG
6578207 TCAAAATATGATTT
1 TCAAAATATGATTT
6578221 CTGAACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
58 28 0.43
59 17 0.26
60 20 0.31
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (60 bp):
TCAAAATATGATTTTTAGAAAATTTCGAGGTCAAAATATAATTTTTAAGAAGTTCGGGTG
Found at i:6579883 original size:11 final size:10
Alignment explanation
Indices: 6579845--6579902 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
6579835 ATTGGACATT
6579845 AATTTAAATA
1 AATTTAAATA
6579855 AATTTAAACTTA
1 AATTTAAA--TA
*
6579867 ATTTTATAATA
1 AATTTA-AATA
6579878 AATTTAAAT-
1 AATTTAAATA
6579887 --TTTAAATA
1 AATTTAAATA
6579895 AATTTAAA
1 AATTTAAA
6579903 CTTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 7 0.17
10 17 0.43
11 7 0.17
12 7 0.17
13 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (10 bp):
AATTTAAATA
Found at i:6579908 original size:23 final size:23
Alignment explanation
Indices: 6579847--6579908 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
6579837 TGGACATTAA
6579847 TTTAAATAAATTTAAACTT-AAT
1 TTTAAATAAATTTAAACTTAAAT
*
6579869 TTT--AT-AA--TAAATTTAAAT
1 TTTAAATAAATTTAAACTTAAAT
6579887 TTTAAATAAATTTAAACTTAAA
1 TTTAAATAAATTTAAACTTAAA
6579909 ATAATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 2 0.06
20 4 0.12
21 2 0.06
22 3 0.09
23 9 0.28
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAATAAATTTAAACTTAAAT
Found at i:6579914 original size:16 final size:17
Alignment explanation
Indices: 6579859--6579937 Score: 97
Period size: 17 Copynumber: 4.7 Consensus size: 17
6579849 TAAATAAATT
* * *
6579859 TAAACTTAATTTTATAA
1 TAAATTTAAATTTAAAA
*
6579876 TAAATTTAAATTTTAAA
1 TAAATTTAAATTTAAAA
*
6579893 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
6579910 T-AATTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
6579926 TAAATTTAAATT
1 TAAATTTAAATT
6579938 CTGTTGGGCC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.27
17 38 0.73
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:6581473 original size:50 final size:50
Alignment explanation
Indices: 6581419--6581661 Score: 260
Period size: 49 Copynumber: 4.9 Consensus size: 50
6581409 TTGAGGTCGC
*
6581419 AACGGTAAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTACGACCGT
1 AACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTACGACCGT
* * * * *
6581469 AACGGTGAACCC-AGTACCAT-GAAGATTTGAAGGGAAATGTTACGATCGT
1 AACGGTGAACCCGA-TACCTTAGAAGATGTGATGGGAAAGGTTACGACCGT
* * *
6581518 AATGGTGAACCC-AGTACCTTAGAAGATGTGATGGGAAAGGTTACGGCCGC
1 AACGGTGAACCCGA-TACCTTAGAAGATGTGATGGGAAAGGTTACGACCGT
* * * * * * **
6581568 AACAGTGAACCCGGTGCCAT-GAAGATTTGAAGGGAAAGGTTACGGTCGT
1 AACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTACGACCGT
* * *
6581617 AACGATGAACCTGAAACCTTAGAAGATGTGATGGGAAAGGTTACG
1 AACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTACG
6581662 GCCACAATGA
Statistics
Matches: 157, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
49 82 0.52
50 75 0.48
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (50 bp):
AACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGTTACGACCGT
Found at i:6581511 original size:49 final size:49
Alignment explanation
Indices: 6581384--6581720 Score: 266
Period size: 50 Copynumber: 6.8 Consensus size: 49
6581374 TGGGTTTCAT
* * ** * *
6581384 TACCACGAAGATATGAAGGGAAAGGTTGA-GGTCGCAACGGTAAACCC-G
1 TACCATGAAGATGTGAAGGGAAAGGTT-ACGACCGTAACGGTGAACCCAG
* *
6581432 ATACCTTAGAAGATGTGATGGGAAAGGTTACGACCGTAACGGTGAACCCAG
1 -TACCAT-GAAGATGTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCAG
* * * *
6581483 TACCATGAAGATTTGAAGGGAAATGTTACGATCGTAATGGTGAACCCAG
1 TACCATGAAGATGTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCAG
* * * * * *
6581532 TACCTTAGAAGATGTGATGGGAAAGGTTACGGCCGCAACAGTGAACCCGG
1 TACCAT-GAAGATGTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCAG
* * ** * *
6581582 TGCCATGAAGATTTGAAGGGAAAGGTTACGGTCGTAACGATGAA-CCTG
1 TACCATGAAGATGTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCAG
* * * * ** * ** *
6581630 AAACCTTAGAAGATGTGATGGGAAAGGTTACGGCCACAATGACGAACCCTG
1 -TACCAT-GAAGATGTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCAG
* * *
6581681 TACCATGAATATTTGAAGGGAAAGGTTAAGACCGTAACGG
1 TACCATGAAGATGTGAAGGGAAAGGTTACGACCGTAACGG
6581721 CAAAATTGGT
Statistics
Matches: 227, Mismatches: 54, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
48 3 0.01
49 108 0.48
50 111 0.49
51 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (49 bp):
TACCATGAAGATGTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCAG
Found at i:6581555 original size:99 final size:99
Alignment explanation
Indices: 6581384--6581720 Score: 426
Period size: 99 Copynumber: 3.4 Consensus size: 99
6581374 TGGGTTTCAT
* * * * *
6581384 TACCACGAAGATATGAAGGGAAAGGTTGA-GGTCGCAACGGTAAACCCGATACCTTAGAAGATGT
1 TACCATGAAGATTTGAAGGGAAAGGTT-ACGATCGTAACGGTGAACCCGATACCTTAGAAGATGT
* *
6581448 GATGGGAAAGGTTACGACCGTAACGGTGAACCCAG
65 GATGGGAAAGGTTACGGCCGCAACGGTGAACCCAG
* *
6581483 TACCATGAAGATTTGAAGGGAAATGTTACGATCGTAATGGTGAACCC-AGTACCTTAGAAGATGT
1 TACCATGAAGATTTGAAGGGAAAGGTTACGATCGTAACGGTGAACCCGA-TACCTTAGAAGATGT
* *
6581547 GATGGGAAAGGTTACGGCCGCAACAGTGAACCCGG
65 GATGGGAAAGGTTACGGCCGCAACGGTGAACCCAG
* * * * *
6581582 TGCCATGAAGATTTGAAGGGAAAGGTTACGGTCGTAACGATGAACCTGAAACCTTAGAAGATGTG
1 TACCATGAAGATTTGAAGGGAAAGGTTACGATCGTAACGGTGAACCCGATACCTTAGAAGATGTG
* * ** *
6581647 ATGGGAAAGGTTACGGCCACAATGACGAACCCTG
66 ATGGGAAAGGTTACGGCCGCAACGGTGAACCCAG
* * *
6581681 TACCATGAATATTTGAAGGGAAAGGTTAAGACCGTAACGG
1 TACCATGAAGATTTGAAGGGAAAGGTTACGATCGTAACGG
6581721 CAAAATTGGT
Statistics
Matches: 205, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
98 2 0.01
99 202 0.99
100 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (99 bp):
TACCATGAAGATTTGAAGGGAAAGGTTACGATCGTAACGGTGAACCCGATACCTTAGAAGATGTG
ATGGGAAAGGTTACGGCCGCAACGGTGAACCCAG
Found at i:6581809 original size:49 final size:49
Alignment explanation
Indices: 6581747--6582211 Score: 235
Period size: 49 Copynumber: 9.5 Consensus size: 49
6581737 AAAAACATGA
* * ** *
6581747 AGGGAAAGATTTAAGCCGTAACGACGGATCTAATACCACGAAGCTATGG
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
* * * * * ** * *
6581796 AGGGAAAGGTTTAAGTCACAACGGCAAACCTTGTACCTTGGAAAC-ATGA
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACC-ACGAAGCTATGG
6581845 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
* * * * * * * *
6581894 AGAGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTA-GAAAC-ATGA
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACC--ACGAAGCTATGG
* * * *** * *
6581943 AGGGAAAGATTGAAGTCGCAATGTTGAATCTGGTACCACGAAGATATGG
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
* * ** * * * * * *
6581992 AGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTCAAAAAC-ATGC
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCAC-GAAGCTATGG
* * * * * * * *
6582041 TGGGAAAGATTGAAGCCGCAATGACGAATCTGGTACCATGAAGATATGG
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
* * * * * * * * *
6582090 AGGGAAAGGTTTAAGTCGTAATGGCGAACCTTGTACCTGA-GAAAC-ATGC
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACC--ACGAAGCTATGG
* * ** * *
6582139 TGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCAC-AAGATATGG
1 AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
*
6582187 AGGGAAATG-TTTAAGTCGCAACGGC
1 AGGGAAA-GATTTAAGCCGCAACGGC
6582212 GAACGTTGTA
Statistics
Matches: 307, Mismatches: 96, Indels: 27
0.71 0.22 0.06
Matches are distributed among these distances:
47 4 0.01
48 31 0.10
49 257 0.84
50 13 0.04
51 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (49 bp):
AGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATGG
Found at i:6581882 original size:98 final size:98
Alignment explanation
Indices: 6581729--6582254 Score: 658
Period size: 98 Copynumber: 5.4 Consensus size: 98
6581719 GGCAAAATTG
* * * * * ** *
6581729 GTACCTTAAAAAACATGAAGGGAAAGATTTAAGCCGTAACGACGGATCTAATACCACGAAGCTAT
1 GTACCTT-AGAAACATGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATAT
* *
6581794 GGAGGGAAAGGTTTAAGTCACAACGGCAAACCTT
65 GGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTT
* * * * *
6581828 GTACCTTGGAAACATGAAGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCACGAAGCTATG
1 GTACCTTAGAAACATGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATG
*
6581893 GAGAGAAAGGTTTAAGTCGCAACGGCGAACCTT
66 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTT
* * **
6581926 GTACCTTAGAAACATGAAGGGAAAGATTGAAGTCGCAATGTTGAATCTGGTACCACGAAGATATG
1 GTACCTTAGAAACATGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATG
*
6581991 GAGGGAAAGGTTTAAGTCGCAACGGGGAACCTT
66 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTT
* * ** * * *
6582024 GTACCTCAAAAACATGCTGGGAAAGATTGAAGCCGCAATGACGAATCTGGTACCATGAAGATATG
1 GTACCTTAGAAACATGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATG
* *
6582089 GAGGGAAAGGTTTAAGTCGTAATGGCGAACCTT
66 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTT
* ** *
6582122 GTACCTGAGAAACATGCTGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCAC-AAGATATG
1 GTACCTTAGAAACATGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATG
* *
6582186 GAGGGAAATGTTTAAGTCGCAACGGCGAACGTT
66 GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTT
* * ** *
6582219 GTACCTCAAAAATTTGACAGGGAAAGATTAAAGCCG
1 GTACCTTAGAAACATGA-AGGGAAAGATTGAAGCCG
6582255 TAATGGCAAA
Statistics
Matches: 377, Mismatches: 49, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
97 49 0.13
98 321 0.85
99 7 0.02
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (98 bp):
GTACCTTAGAAACATGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATG
GAGGGAAAGGTTTAAGTCGCAACGGCGAACCTT
Found at i:6582304 original size:196 final size:196
Alignment explanation
Indices: 6581739--6582323 Score: 602
Period size: 196 Copynumber: 3.0 Consensus size: 196
6581729 GTACCTTAAA
* * ** * ** *
6581739 AAACATGAAGGGAAAGATTTAAGCCGTAACGACGGATCTAATACCACGAAGCTATGGAGGGAAAG
1 AAACATGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGAGGGAAAG
* * *** * * * *
6581804 GTTTAAGTCACAACGGCAAACCTTGTACCTTGGAAACATGAAGGGAAAGATTTAAGCCGCAACGG
66 GTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAACATGCAGGGAAAGATTAAAGCCGCAATGA
** * * * * * * * *
6581869 CAAATCT-AGTACCACGAAGCTATGGAGAGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTT
131 CAAATCTGA-TACCATAAAGATACGAAGGGAAAGATTAAAGTCGTAACGGCGAACCTTGTACCTG
6581933 AG
195 AG
* * *
6581935 AAACATGAAGGGAAAGATTGAAGTCGCAATGTTGAATCTGGTACCACGAAGATATGGAGGGAAAG
1 AAACATGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGAGGGAAAG
* * *
6582000 GTTTAAGTCGCAACGGGGAACCTTGTACCTCAAAAACATGCTGGGAAAGATTGAAGCCGCAATGA
66 GTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAACATGCAGGGAAAGATTAAAGCCGCAATGA
* * * * * * * *
6582065 CGAATCTGGTACCATGAAGATATGGAGGGAAAGGTTTAAGTCGTAATGGCGAACCTTGTACCTGA
131 CAAATCTGATACCATAAAGATACGAAGGGAAAGATTAAAGTCGTAACGGCGAACCTTGTACCTGA
6582130 G
196 G
** *
6582131 AAACATGCTGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCAC-AAGATATGGAGGGAAAT
1 AAACATGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGAGGGAAAG
* ** *
6582195 GTTTAAGTCGCAACGGCGAACGTTGTACCTCAAAAATTTGACAGGGAAAGATTAAAGCCGTAATG
66 GTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAACATG-CAGGGAAAGATTAAAGCCGCAATG
* * * * * * * *
6582260 GCAAATTTTATACCCTAAAG-T-CGAAGAGGAGCAGATTAAAGTCGTAACGGTGAATCTTATACC
130 ACAAATCTGATACCATAAAGATACGAAG-GGA-AAGATTAAAGTCGTAACGGCGAACCTTGTACC
6582323 T
193 T
6582324 CGAAGTTACA
Statistics
Matches: 327, Mismatches: 58, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
194 3 0.01
195 56 0.17
196 268 0.82
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (196 bp):
AAACATGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGAGGGAAAG
GTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAACATGCAGGGAAAGATTAAAGCCGCAATGA
CAAATCTGATACCATAAAGATACGAAGGGAAAGATTAAAGTCGTAACGGCGAACCTTGTACCTGA
G
Found at i:6582566 original size:40 final size:40
Alignment explanation
Indices: 6582511--6582587 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
6582501 AAGTTACATC
* *
6582511 ACCACCTAATCTCTTACCTCGATCATGGGGCAGATTGAAA
1 ACCACCAAATCTCTTACCTCGATCATGGGACAGATTGAAA
*
6582551 ACCACCAAATCTCTTACCTTGATCATGGGACAGATTG
1 ACCACCAAATCTCTTACCTCGATCATGGGACAGATTG
6582588 GAACCGTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
ACCACCAAATCTCTTACCTCGATCATGGGACAGATTGAAA
Found at i:6583096 original size:16 final size:17
Alignment explanation
Indices: 6583072--6583115 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
6583062 AATCCAAAAA
*
6583072 TAAAATAAAAT-AATTT
1 TAAATTAAAATCAATTT
*
6583088 TAAATTAAAATCCATTT
1 TAAATTAAAATCAATTT
6583105 TACAATTAAAA
1 TA-AATTAAAA
6583116 ACTCAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 6 0.25
18 8 0.33
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTAAAATCAATTT
Found at i:6583640 original size:3 final size:3
Alignment explanation
Indices: 6583632--6583656 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6583622 AATAAACATA
6583632 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6583657 GATTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6583975 original size:2 final size:2
Alignment explanation
Indices: 6583970--6584002 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6583960 TTCTTAAAAA
6583970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6584003 ATAAAAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6584909 original size:98 final size:96
Alignment explanation
Indices: 6584760--6585027 Score: 294
Period size: 99 Copynumber: 2.7 Consensus size: 96
6584750 CTTTTTTAAA
* *
6584760 AAAGATTTTAAATCTTTTTCATTAACAATTTCTATCCG-TTTTTAAATCTAATTCTTTTACTTTT
1 AAAGATTTTAAATCTTTTTTATTAAC-ATTTCTACCCGTTTTTTAAATCTAATTCTTTTACTTTT
*
6584824 TATATCTTTT-AAAATAA-CCTATTTATTTTTT
65 TTTATCTTTTAAAAATAATCC-ATTTATTTTTT
* * *
6584855 AAAGATTTCAAATCCTTTTTTGTTAAGCATCTCTACCCGTTTTTTAAAATCTAATTCTTTTA-TT
1 AAAGATTTTAAAT-CTTTTTTATTAA-CATTTCTACCCGTTTTTT-AAATCTAATTCTTTTACTT
* *
6584919 TTTTTATTTTTTTAAAAATAATCCCTTTATTTTTT
63 TTTTTA-TCTTTTAAAAATAATCCATTTATTTTTT
* * * * *
6584954 -TAGATTTTAAATCTTTTTTATTAATCGTTTTTACCTGTTTTTTTTTAAATTTAATTCTTTTACT
1 AAAGATTTTAAATCTTTTTTATTAA-CATTTCTACCCG---TTTTTTAAATCTAATTCTTTTACT
6585018 TTTTTTATCT
62 TTTTTTATCT
6585028 CTTTCAGAAT
Statistics
Matches: 144, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
95 12 0.08
96 19 0.13
97 32 0.22
98 31 0.22
99 34 0.24
100 16 0.11
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.57
Consensus pattern (96 bp):
AAAGATTTTAAATCTTTTTTATTAACATTTCTACCCGTTTTTTAAATCTAATTCTTTTACTTTTT
TTATCTTTTAAAAATAATCCATTTATTTTTT
Found at i:6584948 original size:31 final size:32
Alignment explanation
Indices: 6584894--6584955 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
6584884 TCTCTACCCG
* * *
6584894 TTTTTTAAAATCTAATTCTTTTATTTTTTTAT
1 TTTTTTAAAATATAATCCCTTTATTTTTTTAT
6584926 TTTTTTAAAA-ATAATCCCTTTATTTTTTTA
1 TTTTTTAAAATATAATCCCTTTATTTTTTTA
6584956 GATTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (32 bp):
TTTTTTAAAATATAATCCCTTTATTTTTTTAT
Found at i:6585044 original size:98 final size:96
Alignment explanation
Indices: 6584760--6585044 Score: 251
Period size: 98 Copynumber: 2.9 Consensus size: 96
6584750 CTTTTTTAAA
* * * *
6584760 AAAGATTTTAAAT-CTTTTTCATTAA-CAATTTCTATCCG--TTTTTAAATCTAATTCTTTTACT
1 AAAGATTTCAAATCCTTTTTTATTAAGC-ATCTCTACCCGTTTTTTTAAATCTAATTCTTTTACT
* *
6584821 TTTTATATCTTTTAAAATAACCTATTTATTTTTT
65 TTTTTTATCTTTTAAAATTACC--TTTATTTTTT
* *
6584855 AAAGATTTCAAATCCTTTTTTGTTAAGCATCTCTACCCGTTTTTTAAAATCTAATTCTTTTA-TT
1 AAAGATTTCAAATCCTTTTTTATTAAGCATCTCTACCCGTTTTTTTAAATCTAATTCTTTTACTT
* *
6584919 TTTTTATTTTTTTAAAAATAATCCCTTTATTTTTT
66 TTTTTA-TCTTTT-AAAAT--TACCTTTATTTTTT
* * * * * * * *
6584954 -TAGATTTTAAAT-CTTTTTTATTAATCGTTTTTACCTGTTTTTTTTTAAATTTAATTCTTTTAC
1 AAAGATTTCAAATCCTTTTTTATTAAGCATCTCTACCCG--TTTTTTTAAATCTAATTCTTTTAC
*
6585017 TTTTTTTATCTCTTTCAGAATTACCTTT
64 TTTTTTTATCT-TTT-AAAATTACCTTT
6585045 TAATTTTGTG
Statistics
Matches: 154, Mismatches: 24, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
95 12 0.08
96 19 0.12
97 27 0.18
98 41 0.27
99 38 0.25
100 15 0.10
101 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.57
Consensus pattern (96 bp):
AAAGATTTCAAATCCTTTTTTATTAAGCATCTCTACCCGTTTTTTTAAATCTAATTCTTTTACTT
TTTTTATCTTTTAAAATTACCTTTATTTTTT
Found at i:6586733 original size:27 final size:27
Alignment explanation
Indices: 6586695--6586746 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
6586685 TGCAACTGTG
6586695 CTTAAATGCTAGCAAGAAGAGTAAGTT
1 CTTAAATGCTAGCAAGAAGAGTAAGTT
6586722 CTTAAATGCTAGCAAGAAGAGTAAG
1 CTTAAATGCTAGCAAGAAGAGTAAG
6586747 GATACATCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (27 bp):
CTTAAATGCTAGCAAGAAGAGTAAGTT
Found at i:6587321 original size:70 final size:71
Alignment explanation
Indices: 6587203--6587347 Score: 247
Period size: 70 Copynumber: 2.1 Consensus size: 71
6587193 ATCTTACATA
* * *
6587203 AATACTTGTCAAACACATGAACCAATTTAAGTAACGTTATTAGTCCAAGATGAAAGTGGCAACTA
1 AATACTTGTCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
6587268 ATGTTG
66 ATGTTG
*
6587274 AATA-TTGTCAAACACATGAACCAATTTGACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
1 AATACTTGTCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
6587338 ATGTTG
66 ATGTTG
6587344 AATA
1 AATA
6587348 AGAAGCCCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
70 66 0.94
71 4 0.06
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (71 bp):
AATACTTGTCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
ATGTTG
Found at i:6587607 original size:46 final size:47
Alignment explanation
Indices: 6587503--6587592 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
6587493 TTTATGTTTA
* *
6587503 AAAGATGTG-TTTTTGGGTAAATTTTAAAAGATGGTTTTTATTTATC
1 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
6587549 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
1 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
6587593 CTCTTTCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 9 0.22
47 32 0.78
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (47 bp):
AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
Found at i:6588749 original size:45 final size:45
Alignment explanation
Indices: 6588651--6588752 Score: 71
Period size: 51 Copynumber: 2.1 Consensus size: 45
6588641 AAACTGGAGG
* * * * *
6588651 TGGTGGAGGTGGTGACTTGTACTTGTAAGGG-TGCTTGGTTGGGGA
1 TGGTGGTGGTGGGGACTTGTACTCGT-AGGGATGCTTGGGTGGTGA
* *
6588696 TGGAGGTGGTGGTGGAGGAGACTTGTACCCGTAGGGATGCTTGGGTGGTGG
1 T---GGTGGTGGT-G-GG-GACTTGTACTCGTAGGGATGCTTGGGTGGTGA
6588747 TGGTGG
1 TGGTGG
6588753 AGACTTATAC
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
45 1 0.02
48 13 0.30
49 1 0.02
50 5 0.12
51 23 0.53
ACGTcount: A:0.13, C:0.08, G:0.50, T:0.29
Consensus pattern (45 bp):
TGGTGGTGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGA
Found at i:6588818 original size:39 final size:39
Alignment explanation
Indices: 6588700--6588917 Score: 120
Period size: 45 Copynumber: 5.4 Consensus size: 39
6588690 TGGGGATGGA
* **
6588700 GGTGGTGGTGGAGGAGACTTGTACCCGT-AGGGATGCTTG
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGG-TGCTTG
* ** **
6588739 GGTGGTGGTGGTGGAGACTTATACTTGTAA-ACTG--AA
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG
* *
6588775 GGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTG
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG
* ** *
6588814 GGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTG
1 GGT-G-G-TGGT---GGTGGAGACTTGTACTTGTAAGGGTGCTTG
* * * *
6588859 GGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTG
1 GGT-G-G-TGGT---GGTGGAGACTTGTACTTGTAAGGGTGCTTG
*
6588904 GGTGGTGATGGTGG
1 GGTGGTGGTGGTGG
6588918 TGGAGGCGGG
Statistics
Matches: 145, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
36 27 0.19
37 2 0.01
38 2 0.01
39 32 0.22
40 2 0.01
41 1 0.01
42 6 0.04
43 1 0.01
44 1 0.01
45 71 0.49
ACGTcount: A:0.14, C:0.08, G:0.49, T:0.29
Consensus pattern (39 bp):
GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG
Found at i:6588826 original size:45 final size:45
Alignment explanation
Indices: 6588777--6589054 Score: 362
Period size: 45 Copynumber: 6.1 Consensus size: 45
6588767 AAACTGAAGG
* * *
6588777 TGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6588822 TGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6588867 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6588912 TGGTGGTGGAGGCGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
1 TGGT-G-GG-GGTGGGGACTTGTACTCGTAAGGG-TGCTTGGGTGGTGA
* * *
6588960 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* * *
6589005 TGGTGGTGGTGGGGACTTGTACTTGT-AGGGATGCTTGGATGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGG-TGCTTGGGTGGTGA
6589050 TGGTG
1 TGGTG
6589055 AAGGAGGTGG
Statistics
Matches: 205, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
44 3 0.01
45 156 0.76
46 6 0.03
47 6 0.03
48 34 0.17
ACGTcount: A:0.12, C:0.06, G:0.51, T:0.31
Consensus pattern (45 bp):
TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
Found at i:6588878 original size:126 final size:126
Alignment explanation
Indices: 6588615--6589031 Score: 416
Period size: 126 Copynumber: 3.2 Consensus size: 126
6588605 CATAATGGGG
* * *
6588615 TGGTGGTGGTGGAGACTTGTACTTGTAAACTGGAGGTGGTGGAGGTGGTGACTTGTACTTGTAAG
1 TGGTGGTGGTGGAGACTTGTACTTGTAAACTGAAGGTGGTGGGGGTGGAGACTTGTACTTGTAAG
* * * * *
6588680 GGTGCTTGGTTGGGGATGGAGGTGGTGGTGGAGGAGACTTGTACCCGTAGGGATGC-T---TGG-
66 GGTGCTTGGGTGGTGAT---GGTGGGGGT-G-GG-GACTTGTACTCGTAGGGGTGCTTGGGTGGT
6588740 G-
125 GA
* *
6588741 TGGTGGTGGTGGAGACTTATACTTGTAAACTGAAGGTGGTGGGGGTGGAGAATTGTACTTGTAAG
1 TGGTGGTGGTGGAGACTTGTACTTGTAAACTGAAGGTGGTGGGGGTGGAGACTTGTACTTGTAAG
*
6588806 GGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTGGGTGGTGA
66 GGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
* * * *** **
6588867 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACT
1 TGGTGGTGGTGGAGACTTGTACTTGTA-AACTG--AAGGTGGTG--GG-GGTGGA------GACT
* *
6588932 TGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTT
54 TGTACTTGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTT
6588996 GGGTGGTGA
118 GGGTGGTGA
*
6589005 TGGTGGTGGTGGGGACTTGTACTTGTA
1 TGGTGGTGGTGGAGACTTGTACTTGTA
6589032 GGGATGCTTG
Statistics
Matches: 246, Mismatches: 26, Indels: 26
0.83 0.09 0.09
Matches are distributed among these distances:
120 18 0.07
121 3 0.01
122 1 0.00
123 8 0.03
124 3 0.01
125 1 0.00
126 98 0.40
127 2 0.01
129 7 0.03
131 2 0.01
132 6 0.02
137 4 0.02
138 93 0.38
ACGTcount: A:0.14, C:0.07, G:0.48, T:0.31
Consensus pattern (126 bp):
TGGTGGTGGTGGAGACTTGTACTTGTAAACTGAAGGTGGTGGGGGTGGAGACTTGTACTTGTAAG
GGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
Found at i:6588941 original size:138 final size:138
Alignment explanation
Indices: 6588775--6589054 Score: 436
Period size: 138 Copynumber: 2.0 Consensus size: 138
6588765 GTAAACTGAA
* *
6588775 GGTGGTGGGGGTGGAGAATTGTACTTGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGGGGACT
1 GGTGGTGGAGGCGGAGAATTGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGACT
* *
6588839 TGTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTG
65 TGTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTG
*
6588904 GGTGGTGAT
130 GATGGTGAT
* * *
6588913 GGTGGTGGAGGCGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
1 GGTGGTGGAGGCGGAGAATTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
* * * *
6588978 GTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGTACTTGTAGGGATGCTTGG
66 GTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGG
6589043 ATGGTGAT
131 ATGGTGAT
6589051 GGTG
1 GGTG
6589055 AAGGAGGTGG
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
137 4 0.03
138 125 0.97
ACGTcount: A:0.11, C:0.06, G:0.51, T:0.31
Consensus pattern (138 bp):
GGTGGTGGAGGCGGAGAATTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
GTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGG
ATGGTGAT
Found at i:6589064 original size:93 final size:90
Alignment explanation
Indices: 6588777--6589054 Score: 421
Period size: 90 Copynumber: 3.1 Consensus size: 90
6588767 AAACTGAAGG
* * * * *
6588777 TGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
** *
6588842 ACTCATAGGGGTGCTTGGGTGGTGA
66 ACTTGTAGGGATGCTTGGGTGGTGA
* *
6588867 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGT---GGTGGGGACT
6588932 TGTACTTGTAGGGATGCTTGGGTGGTGA
63 TGTACTTGTAGGGATGCTTGGGTGGTGA
*
6588960 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
*
6589025 ACTTGTAGGGATGCTTGGATGGTGA
66 ACTTGTAGGGATGCTTGGGTGGTGA
6589050 TGGTG
1 TGGTG
6589055 AAGGAGGTGG
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
90 87 0.51
93 85 0.49
ACGTcount: A:0.12, C:0.06, G:0.51, T:0.31
Consensus pattern (90 bp):
TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
ACTTGTAGGGATGCTTGGGTGGTGA
Found at i:6589096 original size:138 final size:136
Alignment explanation
Indices: 6588813--6589096 Score: 365
Period size: 138 Copynumber: 2.1 Consensus size: 136
6588803 AAGGGTGCTT
6588813 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTG
1 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTG
* * * ** *
6588878 GGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACTTGTACTTGTAG
66 GGGACTTGTACTCGTAGGGATGCTTGGATGGTGATGGTGAAGGAGGCGGGGACTTATACTTGTA-
* **
6588943 GGATGCTT
130 -GATACAG
* * * *
6588951 GGGTGGTGATGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTG
1 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTG
* *
6589016 GGGACTTGTACTTGTAGGGATGCTTGGATGGTGATGGTGAAGGAGGTGGTGGAGACTTATACTTG
66 GGGACTTGTACTCGTAGGGATGCTTGGATGGTGATGGTGAAGGAGG-CG-GG-GACTTATACTTG
6589081 TA-A-ACAG
128 TAGATACAG
6589088 GGGTTGGTG
1 GGG-TGGTG
6589097 GGGGAGGAGA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
137 4 0.03
138 107 0.84
139 1 0.01
140 2 0.02
141 13 0.10
ACGTcount: A:0.13, C:0.07, G:0.50, T:0.30
Consensus pattern (136 bp):
GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGCTTGGGTGGTGATGGTGGGGGTG
GGGACTTGTACTCGTAGGGATGCTTGGATGGTGATGGTGAAGGAGGCGGGGACTTATACTTGTAG
ATACAG
Found at i:6591267 original size:17 final size:17
Alignment explanation
Indices: 6591247--6591286 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
6591237 TGAACCCATT
*
6591247 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
6591264 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
6591281 TTTAAA
1 TTTAAA
6591287 ACAAATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:6592439 original size:78 final size:78
Alignment explanation
Indices: 6592349--6592541 Score: 210
Period size: 78 Copynumber: 2.5 Consensus size: 78
6592339 TTGAAGATTT
* * * * *
6592349 CGATCTCTTACCCCGAGCCT-AGGACAGATCATCATCAGCCAATCTTTTATCC-CGAGCCTGGGG
1 CGATCTTTTACCCCGAGCCTGA-GACAAATCACCATCAACCAATCTCTTA-CCTCGAGCCTGGGG
* *
6592412 CAGATTGCAGCCGTC
64 CAGATTGCAACCATC
** * *
6592427 CGATCTTTTACCCTAAGCCTGAGACAAATCACCATCAACCAATCTCTTACCTCGAGCTTGGGGTA
1 CGATCTTTTACCCCGAGCCTGAGACAAATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCA
*
6592492 GATTGCAACCATT
66 GATTGCAACCATC
* * * *
6592505 CGATCTTTTACCTCGAGCTTGGGGCAAATCACCATCA
1 CGATCTTTTACCCCGAGCCTGAGACAAATCACCATCA
6592542 GCTGCTTGGG
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
77 2 0.02
78 92 0.97
79 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (78 bp):
CGATCTTTTACCCCGAGCCTGAGACAAATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCA
GATTGCAACCATC
Found at i:6592593 original size:63 final size:63
Alignment explanation
Indices: 6592482--6592605 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
6592472 CTTACCTCGA
* * *
6592482 GCTTGGGGTAGATTGCAACCATTCGATCTTTTACCTCGAGCTTGGGGCAAATCACCATCAGCT
1 GCTTGGGGCAGATTGCAACCATTCGATCTTTTACCTCGAGCCTAGGGCAAATCACCATCAGCT
*** *
6592545 GCTTGGGGCAGATTGTGGCCATTCGATCTTTTACC-CTGAGCCTAGGGCAGATCACCATCAG
1 GCTTGGGGCAGATTGCAACCATTCGATCTTTTACCTC-GAGCCTAGGGCAAATCACCATCAG
6592606 TCAATCTCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 52 0.98
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (63 bp):
GCTTGGGGCAGATTGCAACCATTCGATCTTTTACCTCGAGCCTAGGGCAAATCACCATCAGCT
Found at i:6592618 original size:39 final size:39
Alignment explanation
Indices: 6592570--6593126 Score: 317
Period size: 39 Copynumber: 14.3 Consensus size: 39
6592560 TGGCCATTCG
*
6592570 ATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* * **
6592609 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* * *
6592648 ATCTCTTA-CCTCGAGCTTGGGGTAGATTGCAGCCAT---TCA
1 ATCTCTTACCCT-GAGCCTAGGGCAGA-T-CA-CCATCAGTCA
* * * * **
6592687 ATCTTTTACCCCGAGCCTGGGGTAGATCACCATCAACCA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* * *
6592726 ATCTCTTA-CCTCGAGCCTAGGGCAGATTA-CAGTCATTCG
1 ATCTCTTACCCT-GAGCCTAGGGCAGATCACCA-TCAGTCA
* * *
6592765 ATCTCTTACCCCGAG-CTAGGGCGGATCACCATCAGACA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* *
6592803 ATCTTTTACCCTGAGCCT-GAGGCAGATTGCAGCCATC---CG
1 ATCTCTTACCCTGAGCCTAG-GGCAGA-T-CA-CCATCAGTCA
** * *
6592842 ATCTCTTACCCCAAG-TTTGAGGCAGATCACCATCAGTCA
1 ATCTCTTACCCTGAGCCTAG-GGCAGATCACCATCAGTCA
* ** * * * **
6592881 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTTG
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* * * * * * **
6592920 ATCTTTTACCCCGAGTCTGGGGTAGATCACCATAAACCA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* *
6592959 ATCTCTT-GCCTCGAGCCTAGGGCAGATTGCAGCCAT---TCG
1 ATCTCTTACCCT-GAGCCTAGGGCAGA-T-CA-CCATCAGTCA
* * * *
6592998 ATCTTTTACCCTGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
* * *
6593037 ATCTCTTA-CCTCGAGCCTGGGGTAGATTGCAGCCAT---TCG
1 ATCTCTTACCCT-GAGCCTAGGGCAGA-T-CA-CCATCAGTCA
* * *
6593076 ATCTCTTACCCCGAGCCTAAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
6593115 ATCTCTTACCCT
1 ATCTCTTACCCT
6593127 AAGCATGAGG
Statistics
Matches: 395, Mismatches: 85, Indels: 76
0.71 0.15 0.14
Matches are distributed among these distances:
36 17 0.04
37 8 0.02
38 45 0.11
39 285 0.72
40 15 0.04
41 8 0.02
42 17 0.04
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCTGAGCCTAGGGCAGATCACCATCAGTCA
Found at i:6592661 original size:141 final size:141
Alignment explanation
Indices: 6592407--6592669 Score: 330
Period size: 141 Copynumber: 1.9 Consensus size: 141
6592397 ATCCCGAGCC
*
6592407 TGGGGCAGATTGCAGCCGTCCGATCTTTTACCCTAAGCCTGAGACAAATCACCATCAACCAATCT
1 TGGGGCAGATTGCAGCCATCCGATCTTTTACCCTAAGCCTGAGACAAATCACCATCAACCAATCT
* * * ** ** * *
6592472 CTTACCTCGAGCTTGGGGTAGATTGCAACCATTCGATCTTTTACCTCGAGCTTGGGGCAAATCAC
66 CTTACCCCGAGCCTGGGGCAGATCACAACCAACCAATCTCTTACCTCGAGCTTGGGGCAAATCAC
6592537 CATCAGCTGCT
131 CATCAGCTGCT
** * * * * **
6592548 TGGGGCAGATTGTGGCCATTCGATCTTTTACCCTGAGCCT-AGGGCAGATCACCATCAGTCAATC
1 TGGGGCAGATTGCAGCCATCCGATCTTTTACCCTAAGCCTGA-GACAAATCACCATCAACCAATC
* *
6592612 TCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCTTGGGG
65 TCTTACCCCGAGCCTGGGGCAGATCACAACCAACCAATCTCTTACCTCGAGCTTGGGG
6592670 TAGATTGCAG
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
140 1 0.01
141 100 0.99
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (141 bp):
TGGGGCAGATTGCAGCCATCCGATCTTTTACCCTAAGCCTGAGACAAATCACCATCAACCAATCT
CTTACCCCGAGCCTGGGGCAGATCACAACCAACCAATCTCTTACCTCGAGCTTGGGGCAAATCAC
CATCAGCTGCT
Found at i:6592697 original size:78 final size:78
Alignment explanation
Indices: 6592609--6593124 Score: 660
Period size: 78 Copynumber: 6.6 Consensus size: 78
6592599 CCATCAGTCA
* *
6592609 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCTTGGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGA
*
6592674 TTGCAGCCATTCA
66 TTGCAGCCATTCG
* * *
6592687 ATCTTTTACCCCGAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGA
* *
6592752 TTACAGTCATTCG
66 TTGCAGCCATTCG
* * * *
6592765 ATCTCTTACCCCGAG-CTAGGGCGGATCACCATCAGA-CAATCTTTTACC-CTGAGCCTGAGGCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCA-ACCAATCTCTTACCTC-GAGCCTGGGGCA
*
6592827 GATTGCAGCCATCCG
64 GATTGCAGCCATTCG
* ** * ** * *
6592842 ATCTCTTACCCCAAGTTTGAGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGA
* *
6592907 TTGCAACCATTTG
66 TTGCAGCCATTCG
* * * * * *
6592920 ATCTTTTACCCCGAGTCTGGGGTAGATCACCATAAACCAATCTCTTGCCTCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGA
6592985 TTGCAGCCATTCG
66 TTGCAGCCATTCG
* * * * *
6592998 ATCTTTTACCCTGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCCTGGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGA
6593063 TTGCAGCCATTCG
66 TTGCAGCCATTCG
** *
6593076 ATCTCTTACCCCGAGCCTAAGGCAGATCACCATCAGCCAATCTCTTACC
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACC
6593125 CTAAGCATGA
Statistics
Matches: 377, Mismatches: 56, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
76 1 0.00
77 63 0.17
78 312 0.83
79 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGA
TTGCAGCCATTCG
Found at i:6593126 original size:117 final size:116
Alignment explanation
Indices: 6592570--6593126 Score: 439
Period size: 117 Copynumber: 4.8 Consensus size: 116
6592560 TGGCCATTCG
* * * * *
6592570 ATCTTTTACCCTGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCCTGGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGTAGATCACCAT-A-CCAATCTCTTACCCCGAGCCTAGGGCAGA
* * * *
6592635 TCACCATCAACCAATCTCTTA-CCTCGAGCTTGGGGTAGATTGCAGCCAT--TCA
64 TCACCATCAGCCAATCTCTTACCCT-GAGCTTAGGGCAGATTGCA-CCATCAGCA
*
6592687 ATCTTTTACCCCGAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTAGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGTAGATCACCAT--ACCAATCTCTTACCCCGAGCCTAGGGCAGA
* ** * * *
6592752 TTA-CAGTCATTCGATCTCTTACCCCGAGC-TAGGGCGGA-T-CACCATCAGACA
64 TCACCA-TCAGCCAATCTCTTACCCTGAGCTTAGGGCAGATTGCACCATCAG-CA
* * * * * * *
6592803 ATCTTTTACCCTGAGCCTGAGGCAGATTGCAGCCAT-CCGATCTCTTACCCCAAG-TTTGAGGCA
1 ATCTTTTACCCCGAGCCTGGGGTAGA-T-CA-CCATACCAATCTCTTACCCCGAGCCTAG-GGCA
* * * **
6592866 GATCACCATCAGTCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATTTG--
62 GATCACCATCAGCCAATCTCTTACCCTGAGCTTAGGGCAGATTGC-ACCATCAGCA
* * *
6592920 ATCTTTTACCCCGAGTCTGGGGTAGATCACCATAAACCAATCTCTTGCCTCGAGCCTAGGGCAGA
1 ATCTTTTACCCCGAGCCTGGGGTAGATCACCAT--ACCAATCTCTTACCCCGAGCCTAGGGCAGA
* *
6592985 TTGCAGCCATTC-G---ATCTTTTACCCTGAGCTTGGGGCAGA-T-CACCATCAGCCA
64 -T-CA-CCA-TCAGCCAATCTCTTACCCTGAGCTTAGGGCAGATTGCACCATCAG-CA
* * * * *
6593037 ATCTCTTACCTCGAGCCTGGGGTAGATTGCAGCCAT-TCGATCTCTTACCCCGAGCCTAAGGCAG
1 ATCTTTTACCCCGAGCCTGGGGTAGA-T-CA-CCATACCAATCTCTTACCCCGAGCCTAGGGCAG
6593101 ATCACCATCAGCCAATCTCTTACCCT
63 ATCACCATCAGCCAATCTCTTACCCT
6593127 AAGCATGAGG
Statistics
Matches: 352, Mismatches: 55, Indels: 66
0.74 0.12 0.14
Matches are distributed among these distances:
113 6 0.02
114 16 0.05
115 8 0.02
116 80 0.23
117 207 0.59
118 10 0.03
119 9 0.03
120 14 0.04
121 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (116 bp):
ATCTTTTACCCCGAGCCTGGGGTAGATCACCATACCAATCTCTTACCCCGAGCCTAGGGCAGATC
ACCATCAGCCAATCTCTTACCCTGAGCTTAGGGCAGATTGCACCATCAGCA
Found at i:6593600 original size:17 final size:17
Alignment explanation
Indices: 6593560--6593598 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
6593550 TGAACCCATT
*
6593560 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
6593577 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
6593593 TTTAAA
1 TTTAAA
6593599 ATAAATAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:6595327 original size:29 final size:30
Alignment explanation
Indices: 6595270--6595625 Score: 206
Period size: 29 Copynumber: 12.1 Consensus size: 30
6595260 TATTTTGTTT
* *
6595270 AAAAATTACATTTTAAACCTTAAAC-TTCC
1 AAAAATTACATTTTAACCCTCAAACTTTCC
*
6595299 AAAAATTACA-TTTAACCCTTAAACTTTCC
1 AAAAATTACATTTTAACCCTCAAACTTTCC
* * **
6595328 AAAAAATACATCTTGGCCC-CAAACTTTCC
1 AAAAATTACATTTTAACCCTCAAACTTTCC
* * *
6595357 AAAAATTACATTTTGATCCTCGAAC-TTCC
1 AAAAATTACATTTTAACCCTCAAACTTTCC
*
6595386 AAAAATTACATTTTCACACCT-AAACTTTTCC
1 AAAAATTACATTTTAAC-CCTCAAAC-TTTCC
* * * *
6595417 -AAAGTTACATTTTTACACCTAAAATTTTCC
1 AAAAATTACATTTTAAC-CCTCAAACTTTCC
*
6595447 -AAAATTATATTTTAATCCC-CAAACTTCTCC
1 AAAAATTACATTTTAA-CCCTCAAACTT-TCC
**
6595477 -AAAATCCCATTTTAACCC-CAAACTTCTCC
1 AAAAATTACATTTTAACCCTCAAACTT-TCC
* * * *
6595506 -AAAATTATGATCTT-ACCCTCGAAC-ATCC
1 AAAAATTA-CATTTTAACCCTCAAACTTTCC
* * * *
6595534 AAAAATTACCGTTTT-GCCCCCAAA-TTTCT
1 AAAAATTA-CATTTTAACCCTCAAACTTTCC
* *
6595563 AAAAATCACATTTTCAA-CCTCAAATTTTCC
1 AAAAATTACATTTT-AACCCTCAAACTTTCC
* * * * * *
6595593 AAGAGTTAAATTTTAATCC-CAAATTTTTC
1 AAAAATTACATTTTAACCCTCAAACTTTCC
6595622 AAAA
1 AAAA
6595626 TTTCAATTTT
Statistics
Matches: 259, Mismatches: 51, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
28 21 0.08
29 142 0.55
30 88 0.34
31 8 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCTCAAACTTTCC
Found at i:6595427 original size:30 final size:30
Alignment explanation
Indices: 6595382--6595459 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
6595372 ATCCTCGAAC
*
6595382 TTCCAAAAATTACATTTTCACACCTAAACTT
1 TTCC-AAAATTACATTTTCACACCTAAAATT
* *
6595413 TTCCAAAGTTACATTTTTACACCTAAAATT
1 TTCCAAAATTACATTTTCACACCTAAAATT
*
6595443 TTCCAAAATTATATTTT
1 TTCCAAAATTACATTTT
6595460 AATCCCCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 38 0.90
31 4 0.10
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (30 bp):
TTCCAAAATTACATTTTCACACCTAAAATT
Found at i:6595633 original size:29 final size:30
Alignment explanation
Indices: 6595583--6595647 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
6595573 TTTTCAACCT
*
6595583 CAAATTTTCCAAGAGTTAAATTTTAAT-CC
1 CAAATTTTCCAAAAGTTAAATTTTAATCCC
* * * *
6595612 CAAATTTTTCAAAATTTCAATTTTGATCCC
1 CAAATTTTCCAAAAGTTAAATTTTAATCCC
6595642 CAAATT
1 CAAATT
6595648 CCTCAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (30 bp):
CAAATTTTCCAAAAGTTAAATTTTAATCCC
Found at i:6596535 original size:47 final size:46
Alignment explanation
Indices: 6596466--6596555 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 46
6596456 CACATGTTTA
* *
6596466 AAAGATGTGTTTTTGGGTAAATTTTAAAAGATGGTTTTTATTTATC
1 AAAGATGTGTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
6596512 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
1 AAAGATGTG-TTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
6596556 TTCTTTCCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 9 0.22
47 32 0.78
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (46 bp):
AAAGATGTGTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
Found at i:6597545 original size:30 final size:30
Alignment explanation
Indices: 6597457--6597733 Score: 227
Period size: 30 Copynumber: 9.4 Consensus size: 30
6597447 GTCGAGGTTA
* *
6597457 AAAATGGAATTTT-GGAAAATTT-GGGGTC
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTC
*
6597485 AAAATGGTAATTTT-GGAAAGTTTA-GGGTT
1 AAAAT-GTAATTTTAGGAAAGTTTAGGGGTC
* *
6597514 AAAATCTAATTTTAGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTC
* * * *
6597544 AAAATGCAATTTTCA-TAAAGTTTAAGGGTT
1 AAAATGTAATTTT-AGGAAAGTTTAGGGGTC
6597574 AAAATGTAATTTTTA-GAAAGTTTTA-GGGTC
1 AAAATGTAA-TTTTAGGAAAG-TTTAGGGGTC
* * *
6597604 AAAATGTAATTTTTA-GAAATTTTTGGGGTT
1 AAAATGTAA-TTTTAGGAAAGTTTAGGGGTC
* **
6597634 AAAATGTAA-TTTCGAGAAAGTTTTTGGGTC
1 AAAATGTAATTTTAG-GAAAGTTTAGGGGTC
* * * *
6597664 AAAATGTAATTTTGGGAGAGTTTTGAGGTC
1 AAAATGTAATTTTAGGAAAGTTTAGGGGTC
*
6597694 AAAATGTAATTTTCA-GAAAGTTTTGGGGTC
1 AAAATGTAATTTT-AGGAAAGTTTAGGGGTC
6597724 --AATGTAATTT
1 AAAATGTAATTT
6597734 CTGAACAGTC
Statistics
Matches: 212, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
28 25 0.12
29 37 0.17
30 137 0.65
31 13 0.06
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTAGGAAAGTTTAGGGGTC
Found at i:6597593 original size:60 final size:59
Alignment explanation
Indices: 6597452--6597733 Score: 254
Period size: 60 Copynumber: 4.8 Consensus size: 59
6597442 GCGAAGTCGA
* * * *
6597452 GGTTAAAAATGGAA-TTTTGGAAAATTT-GGGGTCAAAATGGTAATTTT-GGAAAGTTTAG
1 GGTT-AAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAAT-GTAATTTTCAGAAAGTTTAG
* * * *
6597510 GGTTAAAATCTAA-TTTTAGGAAAGTTTAGGGGTTAAAATGCAATTTTCATAAAGTTTAAG
1 GGTTAAAATGTAATTTTTA-GAAAGTTTAGGGGTCAAAATGTAATTTTCAGAAAGTTT-AG
* * *
6597570 GGTTAAAATGTAATTTTTAGAAAGTTTTA-GGGTCAAAATGTAATTTTTAGAAATTTTTGG
1 GGTTAAAATGTAATTTTTAGAAAG-TTTAGGGGTCAAAATGTAATTTTCAGAAA-GTTTAG
** ** ** * *
6597630 GGTTAAAATGTAATTTCGAGAAAGTTTTTGGGTCAAAATGTAATTTTGGGAGAGTTTTG
1 GGTTAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATGTAATTTTCAGAAAGTTTAG
* * *
6597689 AGGTCAAAATGTAATTTTCAGAAAGTTTTGGGGTC--AATGTAATTT
1 -GGTTAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATGTAATTT
6597734 CTGAACAGTC
Statistics
Matches: 188, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
57 11 0.06
58 28 0.15
59 24 0.13
60 113 0.60
61 12 0.06
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (59 bp):
GGTTAAAATGTAATTTTTAGAAAGTTTAGGGGTCAAAATGTAATTTTCAGAAAGTTTAG
Found at i:6597614 original size:90 final size:89
Alignment explanation
Indices: 6597480--6597722 Score: 296
Period size: 90 Copynumber: 2.7 Consensus size: 89
6597470 GGAAAATTTG
* * *
6597480 GGGTCAAAATGGTAA-TTTTGGAAAG-TTTAGGGTTAAAATCTAATTTTAGGAAAGTTTAGGGGT
1 GGGTCAAAAT-GTAATTTTTGGAAAGTTTTAGGGTCAAAATGTAATTTTA-GAAAGTTTTGGGGT
*
6597543 TAAAATGCAATTTTC-ATAAAGTTTAA
64 TAAAATGCAA-TTTCGAGAAAGTTTAA
* * *
6597569 GGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATGTAATTTTTAGAAATTTTTGGGGTT
1 GGGTCAAAATGTAATTTTTGGAAAGTTTTAGGGTCAAAATGTAA-TTTTAGAAAGTTTTGGGGTT
* **
6597634 AAAATGTAATTTCGAGAAAGTTTTT
65 AAAATGCAATTTCGAGAAAGTTTAA
* *
6597659 GGGTCAAAATGTAATTTTGGGAGAGTTTT-GAGGTCAAAATGTAATTTTCAGAAAGTTTTGGGGT
1 GGGTCAAAATGTAATTTTTGGAAAGTTTTAG-GGTCAAAATGTAATTTT-AGAAAGTTTTGGGGT
6597723 CAATGTAATT
Statistics
Matches: 133, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
88 4 0.03
89 27 0.20
90 97 0.73
91 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (89 bp):
GGGTCAAAATGTAATTTTTGGAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAGTTTTGGGGTTA
AAATGCAATTTCGAGAAAGTTTAA
Found at i:6599509 original size:6 final size:6
Alignment explanation
Indices: 6599498--6599581 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
6599488 AATATAATTG
* *
6599498 AATTTA AATTTA AA-ATA AATTTA AATAAGTA AATTTA AATTTA AGA--TA
1 AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTTA AATTTA A-ATTTA
* *
6599546 AATTTA AATTTA AAATTA AA-TTA AAATT- AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
6599582 CTTCTAATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
4 1 0.02
5 16 0.25
6 41 0.64
7 1 0.02
8 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:6599516 original size:11 final size:11
Alignment explanation
Indices: 6599502--6599581 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
6599492 TAATTGAATT
6599502 TAAATTTAAAA
1 TAAATTTAAAA
6599513 TAAATTTAAATAA
1 TAAATTT-AA-AA
*
6599526 GTAAATTTAAAT
1 -TAAATTTAAAA
* ** *
6599538 TTAAGATAAATT
1 TAAATTTAAA-A
6599550 TAAATTTAAAA
1 TAAATTTAAAA
6599561 TTAAA-TTAAAA
1 -TAAATTTAAAA
*
6599572 TTAATTTAAA
1 TAAATTTAAA
6599582 CTTCTAATTA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
10 3 0.06
11 25 0.46
12 15 0.28
13 4 0.07
14 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:6599518 original size:17 final size:17
Alignment explanation
Indices: 6599498--6599573 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
6599488 AATATAATTG
6599498 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
6599515 AATTTAAA--T-AAGTA
1 AATTTAAATTTAAAATA
*
6599529 AATTTAAATTTAAGATA
1 AATTTAAATTTAAAATA
6599546 AATTTAAATTTAAAATTA
1 AATTTAAATTTAAAA-TA
*
6599564 AATTAAAATT
1 AATTTAAATT
6599574 AATTTAAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.24
15 1 0.02
16 1 0.02
17 25 0.50
18 11 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:6599916 original size:91 final size:91
Alignment explanation
Indices: 6599763--6600586 Score: 959
Period size: 91 Copynumber: 9.0 Consensus size: 91
6599753 CTGGACTTGA
* ** * * * * *
6599763 TGCTTCATCTTGCTCTTACTACAGCTTCAAAGGGATAAAGGTTTGATATCCATCTTTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
*
6599828 TTCAAGAGGATTGGAAATGATGTTGG
66 TTCAAGAGGATAGGAAATGATGTTGG
* * * * * *
6599854 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTCTGCTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
* * *
6599919 TTCGAGAAGATTGGAAAATGATGTCT-G
66 TTCAAGAGGATAGG-AAATGATGT-TGG
* * * * *
6599946 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTTTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
* * *
6600011 TTCGAGAGGATAGAAAATGATGTCGG
66 TTCAAGAGGATAGGAAATGATGTTGG
* * * * * * *
6600037 TGCTTCCTCTTGCTCTTACTTTAATTTCAGAGAGATAAAGACTTGATATCCAGCTCTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
* *
6600102 TTCGAGAGGATAGGAAATGATGTCGG
66 TTCAAGAGGATAGGAAATGATGTTGG
* * * * *
6600128 TGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAACTTTACTTCAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
* * * *
6600193 TTCGAGAAGATTGAAAAATGATGTTGG
66 TTCAAGAGGATAG-GAAATGATGTTGG
* * * * * *
6600220 TGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGCTATCCAGCTTTATTTCAAT
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
* *
6600285 TTCAAGAGGATAGGAAAAGATGTCGG
66 TTCAAGAGGATAGGAAATGATGTTGG
* * *
6600311 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAAT
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
6600376 TTCAAGAGGATAGGAAAATGATGTTGG
66 TTCAAGAGGATAGG-AAATGATGTTGG
* * * * * *
6600403 TGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAGGTTTACTTCAAT
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
* * *
6600468 TTCAAGAGGATAGGAAAAGATGTCGA
66 TTCAAGAGGATAGGAAATGATGTTGG
* * * *
6600494 TGCTTCATCTTGCTCTTACTTCAAGTTCAAAGGGACGAAA-GATTGTTATCCAGCTTTACTTCAA
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGAC-AAAGGCTTGATATCCAGCTTTACTTCAA
*
6600558 TTTCAAGAGGATAGGAAAATGATGTTGG
65 CTTCAAGAGGATAGG-AAATGATGTTGG
6600586 T
1 T
6600587 TGATCTGATC
Statistics
Matches: 654, Mismatches: 72, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
91 390 0.60
92 263 0.40
93 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (91 bp):
TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGCTTTACTTCAAC
TTCAAGAGGATAGGAAATGATGTTGG
Found at i:6600071 original size:183 final size:182
Alignment explanation
Indices: 6599763--6600586 Score: 1020
Period size: 183 Copynumber: 4.5 Consensus size: 182
6599753 CTGGACTTGA
* ** * * * * * *
6599763 TGCTTCATCTTGCTCTTACTACAGCTTCAAAGGGATAAAGGTTTGATATCCATCTTTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAACTTTACTTCAAC
* * * * *
6599828 TTCAAGAGGATTGGAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGATAAA
66 TTCAAGAGGATAGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGAGACAAA
* * * * *
6599893 GACTTGATATCCAGCTCTGCTACAACTTCGAGAAGATTGGAAAATGATGTCTG
131 GACTTGATATCCAGCTCTACTACAACTTCAAGAGGATAGGAAAA-GATGTCGG
* * * * *
6599946 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTTTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAACTTTACTTCAAC
* * * * * * *
6600011 TTCGAGAGGATAGAAAATGATGTCGGTGCTTCCTCTTGCTCTTACTTTAATTTCAGAGAGATAAA
66 TTCAAGAGGATAGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGAGACAAA
* *
6600076 GACTTGATATCCAGCTCTACTACAACTTCGAGAGGATAGGAAATGATGTCGG
131 GACTTGATATCCAGCTCTACTACAACTTCAAGAGGATAGGAAAAGATGTCGG
* * *
6600128 TGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAAGGCTTGTTATCCAACTTTACTTCAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAACTTTACTTCAAC
* * * * *
6600193 TTCGAGAAGATTGAAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGA
66 TTCAAGAGGATAG-AAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGAGACAA
* * * * * *
6600258 AGGCTTGCTATCCAGCTTTATTTCAATTTCAAGAGGATAGGAAAAGATGTCGG
130 AGACTTGATATCCAGCTCTACTACAACTTCAAGAGGATAGGAAAAGATGTCGG
* * *
6600311 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAAT
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAACTTTACTTCAAC
* *
6600376 TTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGA
66 TTCAAGAGGATA-GAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGAGACAA
* * * * * * *
6600441 AGGCTTGTTATCCAGGTTTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGA
130 AGACTTGATATCCAGCTCTACTACAACTTCAAGAGGATAGGAAAAGATGTCGG
* * * *
6600494 TGCTTCATCTTGCTCTTACTTCAAGTTCAAAGGGACGAAA-GATTGTTATCCAGCTTTACTTCAA
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGAC-AAAGGCTTGTTATCCAACTTTACTTCAA
*
6600558 TTTCAAGAGGATAGGAAAATGATGTTGGT
65 CTTCAAGAGGATA-GAAAATGATGTTGGT
6600587 TGATCTGATC
Statistics
Matches: 578, Mismatches: 60, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
182 75 0.13
183 500 0.87
184 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (182 bp):
TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAACTTTACTTCAAC
TTCAAGAGGATAGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGAGACAAA
GACTTGATATCCAGCTCTACTACAACTTCAAGAGGATAGGAAAAGATGTCGG
Found at i:6600295 original size:274 final size:274
Alignment explanation
Indices: 6599763--6600582 Score: 1090
Period size: 274 Copynumber: 3.0 Consensus size: 274
6599753 CTGGACTTGA
* ** * * *
6599763 TGCTTCATCTTGCTCTTACTACAGCTTCAAAGGGATAAAGGTTTGATATCCATCTTTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGATAAAGGCTTGATATCCAGCTTTACTACAAC
* * * * **
6599828 TTCAAGAGGATTGGAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGATAAA
66 TTCAAGAGGATAGGAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAA
* * * * *
6599893 GACTTGATATCCAGCTCTGCTACAACTTCGAGAAGATTGGAAAATGATGTCT-GTGCTTCATCTT
131 GGCTTGTTATCCAGCTTTACTTCAACTTCGAGAAGATTGGAAAATGATGT-TGGTGCTTCATCTT
* ** * * * * *
6599957 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTTTACTACAACTTCGAGAGGAT
195 GCTCTTACTTCAA-TTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
6600022 A-GAAAATGATGTCGG
259 AGGAAAATGATGTCGG
* * * * *
6600037 TGCTTCCTCTTGCTCTTACTTTAATTTCAGAGAGATAAAGACTTGATATCCAGCTCTACTACAAC
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGATAAAGGCTTGATATCCAGCTTTACTACAAC
* *
6600102 TTCGAGAGGATAGGAAATGATGTCGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAA
66 TTCAAGAGGATAGGAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAA
* * *
6600167 GGCTTGTTATCCAACTTTACTTCAACTTCGAGAAGATTGAAAAATGATGTTGGTGCTTCATCTTA
131 GGCTTGTTATCCAGCTTTACTTCAACTTCGAGAAGATTGGAAAATGATGTTGGTGCTTCATCTTG
* *
6600232 CTCTTACTTCAATTCCAGAGGGACGAAGGCTTGCTATCCAGCTTTATTTCAATTTCAAGAGGATA
196 CTCTTACTTCAATT-CAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATA
6600297 GGAAAA-GATGTCGG
260 GGAAAATGATGTCGG
** * * *
6600311 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAAT
1 TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGATAAAGGCTTGATATCCAGCTTTACTACAAC
6600376 TTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGA
66 TTCAAGAGGATAGG-AAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGA
* * * * * * *
6600441 AGGCTTGTTATCCAGGTTTACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGATGCTTCATCTT
130 AGGCTTGTTATCCAGCTTTACTTCAACTTCGAGAAGATTGGAAAATGATGTTGGTGCTTCATCTT
* * * *
6600505 GCTCTTACTTCAAGTTCAAAGGGACGAAAGATTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
195 GCTCTTACTTCAA-TTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
6600570 AGGAAAATGATGT
259 AGGAAAATGATGT
6600583 TGGTTGATCT
Statistics
Matches: 476, Mismatches: 64, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
273 3 0.01
274 374 0.79
275 99 0.21
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (274 bp):
TGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGATAAAGGCTTGATATCCAGCTTTACTACAAC
TTCAAGAGGATAGGAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTCCAGAGGGACGAA
GGCTTGTTATCCAGCTTTACTTCAACTTCGAGAAGATTGGAAAATGATGTTGGTGCTTCATCTTG
CTCTTACTTCAATTCAGAGGGACGAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
GAAAATGATGTCGG
Found at i:6611381 original size:17 final size:18
Alignment explanation
Indices: 6611344--6611378 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6611334 TAAATGGAAC
*
6611344 CGAAAATTTTAAGGTTTT
1 CGAAAACTTTAAGGTTTT
*
6611362 CGAAAACTTTATGGTTT
1 CGAAAACTTTAAGGTTT
6611379 CGATCAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (18 bp):
CGAAAACTTTAAGGTTTT
Found at i:6612435 original size:6 final size:6
Alignment explanation
Indices: 6612424--6612485 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
6612414 AATATAATTG
* *
6612424 AATTTA AATTTA AA-ATA AATTTA AATAAGTA AATTTA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTTA AATTTA AATTTA
*
6612473 AAATT- AATTTA AA
1 AATTTA AATTTA AA
6612486 CTTCTAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 8 0.17
6 33 0.72
8 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:6612451 original size:10 final size:11
Alignment explanation
Indices: 6612428--6612485 Score: 62
Period size: 11 Copynumber: 4.9 Consensus size: 11
6612418 TAATTGAATT
6612428 TAAATTTAAAA
1 TAAATTTAAAA
6612439 TAAATTTAAATAA
1 TAAATTT-AA-AA
*
6612452 GTAAATTTAAATT
1 -TAAATTTAAA-A
6612465 TAAATTTAAAA
1 TAAATTTAAAA
*
6612476 TTAATTTAAA
1 TAAATTTAAA
6612486 CTTCTAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 16 0.40
12 13 0.32
13 4 0.10
14 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:6613153 original size:48 final size:48
Alignment explanation
Indices: 6613082--6613336 Score: 193
Period size: 48 Copynumber: 5.6 Consensus size: 48
6613072 AATTGGAAGT
*
6613082 GGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGA
1 GGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGA
* * * *
6613130 GGTGGTGGTGGAGACTTATACTTGTAA----AC-----T-G-GA-GGT
1 GGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGA
*
6613166 GGTGGGGGTGGAGAAC-TGTCCTTGTAAGGGTGCTTGGGTGGTGAT---
1 GGTGGGGGTGGAG-ACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGA
* ** * *
6613211 GGTGGGGGTGGGGACTTGTACTCATAAGGGTGTTTGGGTGGTGATGGT
1 GGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGA
* * *
6613259 GGTGGAGGCGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGAA
1 GGTGGGGGTGGAGACTTGTACTTGTAAGGG-TGCTTGGGTGGTGAT-G-G-A
* * *
6613310 GGAGGTGGTGGAGACTTATACTTGTAA
1 GGTGGGGGTGGAGACTTGTACTTGTAA
6613337 ACAAGGGTTG
Statistics
Matches: 161, Mismatches: 24, Indels: 40
0.72 0.11 0.18
Matches are distributed among these distances:
36 23 0.14
37 4 0.02
38 1 0.01
39 1 0.01
40 1 0.01
44 3 0.02
45 38 0.24
46 1 0.01
47 6 0.04
48 60 0.37
49 1 0.01
50 1 0.01
51 20 0.12
52 1 0.01
ACGTcount: A:0.16, C:0.07, G:0.47, T:0.29
Consensus pattern (48 bp):
GGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGA
Found at i:6613190 original size:84 final size:84
Alignment explanation
Indices: 6613046--6613221 Score: 273
Period size: 84 Copynumber: 2.1 Consensus size: 84
6613036 ATGGGGGGGT
* *
6613046 GGTGGTGGTGGAGACTTGTACTTGTAAATTGGAAGTGGTGGGGGTGGAGACTTGTACTTGTAAGG
1 GGTGGTGGTGGAGACTTATACTTGTAAACTGGAAGTGGTGGGGGTGGAGACTTGTACTTGTAAGG
6613111 GTGCTTGGGTGGGGATGGA
66 GTGCTTGGGTGGGGATGGA
* *
6613130 GGTGGTGGTGGAGACTTATACTTGTAAACTGGAGGTGGTGGGGGTGGAGAAC-TGTCCTTGTAAG
1 GGTGGTGGTGGAGACTTATACTTGTAAACTGGAAGTGGTGGGGGTGGAG-ACTTGTACTTGTAAG
* *
6613194 GGTGCTTGGGTGGTGATGGT
65 GGTGCTTGGGTGGGGATGGA
*
6613214 GGGGGTGG
1 GGTGGTGG
6613222 GGACTTGTAC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 82 0.98
85 2 0.02
ACGTcount: A:0.16, C:0.07, G:0.48, T:0.29
Consensus pattern (84 bp):
GGTGGTGGTGGAGACTTATACTTGTAAACTGGAAGTGGTGGGGGTGGAGACTTGTACTTGTAAGG
GTGCTTGGGTGGGGATGGA
Found at i:6613220 original size:45 final size:45
Alignment explanation
Indices: 6613165--6613307 Score: 173
Period size: 45 Copynumber: 3.1 Consensus size: 45
6613155 AAACTGGAGG
* *
6613165 TGGTGGGGGTGGAGAAC-TGTCCTTGTAAGGGTGCTTGGGTGGTGA
1 TGGTGGGGGTGG-GGACTTGTACTTGTAAGGGTGCTTGGGTGGTGA
** *
6613210 TGGTGGGGGTGGGGACTTGTACTCATAAGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTTGTAAGGGTGCTTGGGTGGTGA
*
6613255 TGGTGGTGGAGGCGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
1 TGGT-G-GG-GGTGGGGACTTGTACTTGTAAGGG-TGCTTGGGTGGTGA
6613303 TGGTG
1 TGGTG
6613308 AAGGAGGTGG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
44 3 0.04
45 40 0.48
46 1 0.01
47 7 0.08
48 33 0.39
ACGTcount: A:0.13, C:0.08, G:0.50, T:0.30
Consensus pattern (45 bp):
TGGTGGGGGTGGGGACTTGTACTTGTAAGGGTGCTTGGGTGGTGA
Found at i:6617389 original size:51 final size:51
Alignment explanation
Indices: 6617324--6617648 Score: 254
Period size: 51 Copynumber: 6.7 Consensus size: 51
6617314 AGTAGACATA
* * *
6617324 ATGG-GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGATTGGGTAGTG
1 ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
* * * * *
6617374 ATGGCGGTGGAGGTGGCGGAGAGTTATACTTGTAA----ACTGGAGGTGGTG
1 ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG-GGTGGTG
* * * *
6617422 --GG-GGTGGAGACT--T-G-TACTTGTA--AG----GGTGCTTGGGTGGGG
1 ATGGCGGTGGAG-GTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
* * ** * *
6617461 ATGGCGGTGGTGGTGGGGGAGACTTGTACTCATACGGATGCTTGGGTGGTG
1 ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
* * * * *
6617512 ATGGTGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTTGGTGGTG
1 ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
* * *
6617563 ATGGTGCTGGAGTTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
1 ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
* *
6617614 ATGGCGTTGGAGGTGGTGGAGACTTATACTTGTAA
1 ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAA
6617649 ACTGGAAGGG
Statistics
Matches: 216, Mismatches: 40, Indels: 37
0.74 0.14 0.13
Matches are distributed among these distances:
39 6 0.03
40 4 0.02
41 3 0.01
42 11 0.05
43 1 0.00
44 1 0.00
45 14 0.06
46 3 0.01
47 2 0.01
48 6 0.03
50 4 0.02
51 161 0.75
ACGTcount: A:0.16, C:0.08, G:0.46, T:0.30
Consensus pattern (51 bp):
ATGGCGGTGGAGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTG
Found at i:6617473 original size:45 final size:45
Alignment explanation
Indices: 6617417--6617833 Score: 287
Period size: 51 Copynumber: 9.1 Consensus size: 45
6617407 AAACTGGAGG
* * *
6617417 TGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
** *
6617462 TGGCGGTGGTGGTGGGGGAGACTTGTACTCATACGGATGCTTGGGTGGTGA
1 T---GGTGGTGGT---GGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
*
6617513 TGGTGGTGGTGGTGGGGGAGACTTGTACTTGTAAGGATGCTTTGGTGGTGA
1 ---TGGTGGTGGT---GGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
*
6617564 TGGTGCTGGAGTTGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGA
1 T-G-G-T-G-G-TGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
* ** *
6617615 TGGCGTTGGAGGTGGTGGAGACTTATACTTGTAA--A--C-TGGAAGG-GG
1 T-G-G-T---GGTGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
* *
6617660 TGG-GGT--TGGAGACTTATACTTGTAAGCATGCTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
* * * * *
6617702 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTG-TT---TGG-G-
1 TGGTGGTGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
6617741 TGGTGGT-G-GGA-ACTTGTACTTGT-AGAGATGCTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAAG-GATGCTTGGGTGGTGA
* *
6617783 TGGTGGTGGGGGAGACTTGTACTCGTAAGGATGCTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
6617828 TGGTGG
1 TGGTGG
6617834 AGGAGGTGGT
Statistics
Matches: 299, Mismatches: 36, Indels: 74
0.73 0.09 0.18
Matches are distributed among these distances:
35 1 0.00
36 33 0.11
37 4 0.01
38 5 0.02
39 6 0.02
40 5 0.02
41 9 0.03
42 11 0.04
43 4 0.01
44 6 0.02
45 54 0.18
46 7 0.02
47 1 0.00
48 9 0.03
49 1 0.00
50 1 0.00
51 133 0.44
52 2 0.01
53 2 0.01
54 5 0.02
ACGTcount: A:0.15, C:0.08, G:0.46, T:0.31
Consensus pattern (45 bp):
TGGTGGTGGTGGAGACTTGTACTTGTAAGGATGCTTGGGTGGTGA
Found at i:6617509 original size:87 final size:87
Alignment explanation
Indices: 6617328--6617490 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 87
6617318 GACATAATGG
* *
6617328 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGATTGGGTAGTGATGGCGGTGGAGGTGGCGG
1 GGTGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGATTGGGTAGGGATGGCGGTGGAGGTGGCGG
* *
6617393 AGAGTTATACTTGTAAACTGGA
66 AGACTTATACTTGCAAACTGGA
* * * *
6617415 GGTGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGATGGCGGTGGTGGTGGGGG
1 GGTGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGATTGGGTAGGGATGGCGGTGGAGGTGGCGG
*
6617480 AGACTTGTACT
66 AGACTTATACT
6617491 CATACGGATG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.16, C:0.07, G:0.48, T:0.28
Consensus pattern (87 bp):
GGTGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGATTGGGTAGGGATGGCGGTGGAGGTGGCGG
AGACTTATACTTGCAAACTGGA
Found at i:6617750 original size:36 final size:36
Alignment explanation
Indices: 6617703--6617781 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
6617693 GGGTGGTGAT
* * * * *
6617703 GGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTG
1 GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTG
*
6617739 GGTGGTGGTGGGAACTTGTACTTGTAGAGATGCTTG
1 GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTG
6617775 GGTGGTG
1 GGTGGTG
6617782 ATGGTGGTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.11, C:0.08, G:0.49, T:0.32
Consensus pattern (36 bp):
GGTGGTGGTGGGAACTTGTACTCGTAGAGATGCTTG
Found at i:6617772 original size:81 final size:82
Alignment explanation
Indices: 6617657--6617826 Score: 240
Period size: 81 Copynumber: 2.1 Consensus size: 82
6617647 AAACTGGAAG
* *
6617657 GGGTGG-GGTTGGAGACTTATACTTGTAAGCATGCTTGGGTGGTGATGGTGG-GGGTGGGGACTT
1 GGGTGGTGGTGGGAGACTTATACTTGTAAGCATGCTTGGGTGGTGATGGTGGTGGG-GGAGACTT
* * *
6617720 GTACTCGTAGGGGTGTTT
65 GTACTCGTAAGGATGCTT
*
6617738 GGGTGGTGGTGGGA-ACTTGTACTTGTAGAG-ATGCTTGGGTGGTGATGGTGGTGGGGGAGACTT
1 GGGTGGTGGTGGGAGACTTATACTTGTA-AGCATGCTTGGGTGGTGATGGTGGTGGGGGAGACTT
6617801 GTACTCGTAAGGATGCTT
65 GTACTCGTAAGGATGCTT
6617819 GGGTGGTG
1 GGGTGGTG
6617827 ATGGTGGAGG
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
81 69 0.86
82 11 0.14
ACGTcount: A:0.14, C:0.08, G:0.46, T:0.31
Consensus pattern (82 bp):
GGGTGGTGGTGGGAGACTTATACTTGTAAGCATGCTTGGGTGGTGATGGTGGTGGGGGAGACTTG
TACTCGTAAGGATGCTT
Found at i:6621347 original size:3 final size:3
Alignment explanation
Indices: 6621341--6621377 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6621331 TTGGTTGTTG
6621341 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6621378 TTGGTATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6621604 original size:16 final size:17
Alignment explanation
Indices: 6621580--6621621 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6621570 AATCCAAAAA
*
6621580 TAAAATAAAAT-AATTT
1 TAAATTAAAATCAATTT
*
6621596 TAAATTAAAATCCATTT
1 TAAATTAAAATCAATTT
*
6621613 TAATTTAAA
1 TAAATTAAA
6621622 TATCTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTAAAATCAATTT
Found at i:6621703 original size:35 final size:36
Alignment explanation
Indices: 6621664--6621731 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
6621654 AAAAACTCAA
6621664 ACCAACCCAAATCCTAAAACTA-CCCAAA-ACCCATT
1 ACCAACCCAAA-CCTAAAACTAGCCCAAATACCCATT
*
6621699 ACCAACCCAAACCTAAACCTAGCCCAAATACCC
1 ACCAACCCAAACCTAAAACTAGCCCAAATACCC
6621732 TAATCGACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 9 0.30
35 17 0.57
36 4 0.13
ACGTcount: A:0.44, C:0.43, G:0.01, T:0.12
Consensus pattern (36 bp):
ACCAACCCAAACCTAAAACTAGCCCAAATACCCATT
Found at i:6621743 original size:35 final size:35
Alignment explanation
Indices: 6621655--6621731 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
6621645 TTACAATTAA
*
6621655 AAAACTCA-AACCAACCCAAATCCTAAAACTACCC
1 AAAACCCATAACCAACCCAAATCCTAAAACTACCC
* *
6621689 AAAACCCATTACCAACCCAAA-CCTAAACCTAGCCC
1 AAAACCCATAACCAACCCAAATCCTAAAACTA-CCC
6621724 AAATACCC
1 AAA-ACCC
6621732 TAATCGACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 16 0.43
35 17 0.46
36 4 0.11
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.12
Consensus pattern (35 bp):
AAAACCCATAACCAACCCAAATCCTAAAACTACCC
Found at i:6622198 original size:3 final size:3
Alignment explanation
Indices: 6622190--6622234 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
6622180 GATAAACATA
6622190 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6622235 GATTTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6627048 original size:78 final size:77
Alignment explanation
Indices: 6626937--6627358 Score: 408
Period size: 78 Copynumber: 5.4 Consensus size: 77
6626927 TGAGTCTGGG
* * *
6626937 CAGATCATCATCATCCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCTGTCCGATCTTTTAC
1 CAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCTAT-CGATCTTTTAC
**
6627002 CCTAAGCCTAAGA
65 CCCGAGCCTAAGA
* * * * ** * * * *
6627015 CAAATCACTATCAACCAATTTCTTACCCTGAGCCTAAGGCATATTGTAGCCAATAGATCTTTTAC
1 CAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAG-CTATCGATCTTTTAC
* ** *
6627080 CCCGAGCTTGGGG
65 CCCGAGCCTAAGA
* * *
6627093 TAGATCACCAT-AAGCCAATCTCTTACCCCGAGCCTGGAGCAGATTGCAGCAATTCGATCTTTTA
1 CAGATCACCATCAA-CCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCTA-TCGATCTTTTA
* * *
6627157 CCCTGAGCTTGAGGA
64 CCCCGAGCCT-AAGA
* *
6627172 -AGATCACCATCAACCAATCTCTTACCCCGAG-ATCGGGGCAGATAT-TAG-TCATTCGATCTTT
1 CAGATCACCATCAACCAATCTCTTACCCCGAGCCT-GGGGCAGAT-TGCAGCT-A-TCGATCTTT
*
6627233 TACCCCGAGCCTGAGA
62 TACCCCGAGCCTAAGA
* **
6627249 CAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAG-TCATCCAATCCCTTA
1 CAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCT-AT-CGATCTTTTA
6627313 CCCCGAGCC-AAGA
64 CCCCGAGCCTAAGA
*
6627326 CAGATCACCATCAACCAATCTTTTACCCCGAGC
1 CAGATCACCATCAACCAATCTCTTACCCCGAGC
6627359 AATCAAAAAA
Statistics
Matches: 284, Mismatches: 48, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
77 45 0.16
78 231 0.81
79 8 0.03
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (77 bp):
CAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCTATCGATCTTTTACC
CCGAGCCTAAGA
Found at i:6627230 original size:156 final size:154
Alignment explanation
Indices: 6626915--6627358 Score: 484
Period size: 156 Copynumber: 2.9 Consensus size: 154
6626905 TGAAGATTCC
* * * * * *
6626915 GATCTCTTACCCTGAGTCTG-GGCAGATCATCATCATCCAATCTCTTACCCCGAGCCTGGGGCAG
1 GATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAG
* * * * * *
6626979 ATTGCAGCTGTCCGATCTTTTACCCTAAGCCTAAGACAAATCACTATCAACCAATTTCTTACCCT
66 ATTGCAGC-ATCCGATCTTTTACCCTGAG-CTAAGACAGATCACCATCAACCAATCTCTTACCCC
*
6627044 GAGCCTAAGGCATATTGTAGCCAATA
129 GAGCCTAAGGCAGATTGTAGCCAATA
* * ** *
6627070 GATCTTTTACCCCGAGCTTGGGGTAGATCACCAT-AAGCCAATCTCTTACCCCGAGCCTGGAGCA
1 GATCTTTTACCCCGAGCCTGAGACAGATCACCATCAA-CCAATCTCTTACCCCGAGCCTGGGGCA
* *
6627134 GATTGCAGCAATTCGATCTTTTACCCTGAGCTTGAGGA-AGATCACCATCAACCAATCTCTTACC
65 GATTGCAGC-ATCCGATCTTTTACCCTGAGC-T-AAGACAGATCACCATCAACCAATCTCTTACC
* ** * * *
6627198 CCGAG-ATCGGGGCAGATAT-TAGTCATTC
127 CCGAGCCT-AAGGCAGAT-TGTAGCCAATA
6627226 GATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAG
1 GATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAG
* ** * * *
6627291 ATTGCAGTCATCCAATCCCTTACCCCGAGCCAAGACAGATCACCATCAACCAATCTTTTACCCCG
66 ATTGCAG-CATCCGATCTTTTACCCTGAGCTAAGACAGATCACCATCAACCAATCTCTTACCCCG
6627356 AGC
130 AGC
6627359 AATCAAAAAA
Statistics
Matches: 242, Mismatches: 37, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
154 3 0.01
155 49 0.20
156 183 0.76
157 7 0.03
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (154 bp):
GATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCAG
ATTGCAGCATCCGATCTTTTACCCTGAGCTAAGACAGATCACCATCAACCAATCTCTTACCCCGA
GCCTAAGGCAGATTGTAGCCAATA
Found at i:6627344 original size:38 final size:39
Alignment explanation
Indices: 6627071--6627358 Score: 187
Period size: 39 Copynumber: 7.4 Consensus size: 39
6627061 TAGCCAATAG
* * * **
6627071 ATCTTTTACCCCGAGCTTGGGGTAGATCACCAT-AAGCCA
1 ATCTCTTACCCCGAGCCTGAGACAGATCACCATCAA-CCA
** * * *
6627110 ATCTCTTACCCCGAGCCTG-GAGCAGAT-TGCAGCAATTCG
1 ATCTCTTACCCCGAGCCTGAGA-CAGATCACCATCAA-CCA
* * *
6627149 ATCTTTTACCCTGAGCTTGAGGA-AGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGA-GACAGATCACCATCAACCA
* * * ** ** *
6627188 ATCTCTTACCCCGAG-ATCGGGGCAGAT-ATTAGTCATTCG
1 ATCTCTTACCCCGAGCCT-GAGACAGATCACCA-TCAACCA
*
6627227 ATCTTTTACCCCGAGCCTGAGACAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGAGACAGATCACCATCAACCA
* * ** *
6627266 ATCTCTTACCCCGAGCCTGGGGCAGAT-TGCAGTCATCCA
1 ATCTCTTACCCCGAGCCTGAGACAGATCACCA-TCAACCA
* *
6627305 ATCCCTTACCCCGAGCC-AAGACAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGAGACAGATCACCATCAACCA
*
6627343 ATCTTTTACCCCGAGC
1 ATCTCTTACCCCGAGC
6627359 AATCAAAAAA
Statistics
Matches: 185, Mismatches: 52, Indels: 25
0.71 0.20 0.10
Matches are distributed among these distances:
38 35 0.19
39 140 0.76
40 8 0.04
41 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGAGACAGATCACCATCAACCA
Found at i:6628399 original size:30 final size:30
Alignment explanation
Indices: 6628364--6628605 Score: 228
Period size: 30 Copynumber: 8.1 Consensus size: 30
6628354 ATTTTGTTTG
6628364 AAAATTACATTTTAACCCCTAAACTTTCCA
1 AAAATTACATTTTAACCCCTAAACTTTCCA
6628394 AAAATTACATTTTAACCCCTAAACTTTCCA
1 AAAATTACATTTTAACCCCTAAACTTTCCA
6628424 AAAATTACATTTTAACCCCTAAACTTTCCA
1 AAAATTACATTTTAACCCCTAAACTTTCCA
* * * *
6628454 AAAATTATATTTTGA-TCCTCAAAC-ATCCA
1 AAAATTACATTTTAACCCCT-AAACTTTCCA
* * * *
6628483 ATAATTGCATTTTTACCCCCAAACTTTTCC-
1 AAAATTACATTTTAACCCCTAAAC-TTTCCA
* * * *
6628513 AAAGTCACATTTTTACCCTTAAACTTTTCC-
1 AAAATTACATTTTAACCCCTAAAC-TTTCCA
* *
6628543 AAAATTATATTTTAA-CCCTCGAACTTCTCC-
1 AAAATTACATTTTAACCCCT-AAACTT-TCCA
** *
6628573 AAAATCCCATTTTGACCCC-AAACTTCTCCA
1 AAAATTACATTTTAACCCCTAAACTT-TCCA
6628603 AAA
1 AAA
6628606 TTATGATCTT
Statistics
Matches: 176, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
29 36 0.20
30 134 0.76
31 6 0.03
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTCCA
Found at i:6628523 original size:89 final size:89
Alignment explanation
Indices: 6628390--6628605 Score: 231
Period size: 89 Copynumber: 2.4 Consensus size: 89
6628380 CCCTAAACTT
* *
6628390 TCCAAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTACATTTTAACCCCTAAAC-TTTCCA
1 TCCAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATCACATTTTAACCCCTAAACTTTTCC-
6628454 AAAATTATATTTTGATCCTCAAACA
65 AAAATTATATTTTGATCCTCAAACA
* * * * * *
6628479 TCCAATAATTGCATTTTTACCCCCAAACTTTTCC-AAAGTCACATTTTTACCCTTAAACTTTTCC
1 TCCAAAAATTACATTTTAACCCCCAAAC-TTTCCAAAAATCACATTTTAACCCCTAAACTTTTCC
* * * *
6628543 AAAATTATATTTTAACCCTCGAACT
65 AAAATTATATTTTGATCCTCAAACA
* ** *
6628568 TCTCCAAAATCCCATTTTGA-CCCCAAACTTCTCCAAAA
1 TC-CAAAAATTACATTTTAACCCCCAAACTT-TCCAAAA
6628606 TTATGATCTT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
88 2 0.02
89 78 0.74
90 25 0.24
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (89 bp):
TCCAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATCACATTTTAACCCCTAAACTTTTCCA
AAATTATATTTTGATCCTCAAACA
Found at i:6630145 original size:70 final size:71
Alignment explanation
Indices: 6630027--6630171 Score: 238
Period size: 70 Copynumber: 2.1 Consensus size: 71
6630017 ATCTTACATA
* * *
6630027 AATACTTGTCAAACACATGAACCAATTTAAGTAACGTTATTAGTCCAAGATGAAAGTGGCAACTA
1 AATACTTGTCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
6630092 ATGTTG
66 ATGTTG
* *
6630098 AATA-TTGTCAAACATATGAACCAATTTGACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
1 AATACTTGTCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
6630162 ATGTTG
66 ATGTTG
6630168 AATA
1 AATA
6630172 AGAAGCCCAA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
70 65 0.94
71 4 0.06
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (71 bp):
AATACTTGTCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
ATGTTG
Found at i:6631568 original size:51 final size:51
Alignment explanation
Indices: 6631476--6631574 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
6631466 ACTTGTAAAC
* *
6631476 TGGACGTGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGGGA
1 TGGACGTGGTGGGGGAGGAGACTTGTACTCGTAAGGGTGCTTGGGTGGGGA
* *
6631527 TGGAGGTGGTGGTGGAGGAGACTTGTACTCGT-AGGGATGCTTGGGTGG
1 TGGACGTGGTGGGGGAGGAGACTTGTACTCGTAAGGG-TGCTTGGGTGG
6631575 TGGAGACTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.14, C:0.08, G:0.51, T:0.27
Consensus pattern (51 bp):
TGGACGTGGTGGGGGAGGAGACTTGTACTCGTAAGGGTGCTTGGGTGGGGA
Found at i:6631633 original size:120 final size:114
Alignment explanation
Indices: 6631452--6631690 Score: 343
Period size: 120 Copynumber: 2.0 Consensus size: 114
6631442 GGGGTGGTGA
* * *
6631452 TGGTGGAGACTTGTACTTGTAAACTGGACGTGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCT
1 TGGTGGAGACTTATACTTGTAAACTGAACGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCT
* *
6631517 TGGGTGGGGATGGAGGTGGTGGTGGAGGAGACTTGTACTCGTAGGGATGCTTGGG
66 TGGGTGGGGAT---GGTGGGGGT-G-GG-GACTTGTACTCATAGGGATGCTTGGG
*
6631572 TGGTGGAGACTTATACTTGTAAACTGAAGGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCT
1 TGGTGGAGACTTATACTTGTAAACTGAACGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCT
* * *
6631637 TGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGG
66 TGGGTGGGGATGGTGGGGGTGGGGACTTGTACTCATAGGGATGCTTGGG
6631686 TGGTG
1 TGGTG
6631691 ATGGTGGGGG
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
114 28 0.25
115 2 0.02
116 1 0.01
117 8 0.07
120 71 0.65
ACGTcount: A:0.17, C:0.08, G:0.46, T:0.30
Consensus pattern (114 bp):
TGGTGGAGACTTATACTTGTAAACTGAACGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCT
TGGGTGGGGATGGTGGGGGTGGGGACTTGTACTCATAGGGATGCTTGGG
Found at i:6631667 original size:45 final size:45
Alignment explanation
Indices: 6631602--6631879 Score: 344
Period size: 45 Copynumber: 6.1 Consensus size: 45
6631592 AAACTGAAGG
* * *
6631602 TGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* * *
6631647 TGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* * *
6631692 TGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6631737 TGGTGGTGGAGGCGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
1 TGGT-G-GG-GGTGGGGACTTGTACTCGTAAGGG-TGCTTGGGTGGTGA
* * * *
6631785 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGATGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6631830 TGGTGGTGGTGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGG-TGCTTGGGTGGTGA
6631875 TGGTG
1 TGGTG
6631880 AAGGAGGTGG
Statistics
Matches: 204, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
44 3 0.01
45 156 0.76
46 6 0.03
47 6 0.03
48 33 0.16
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.32
Consensus pattern (45 bp):
TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
Found at i:6631780 original size:138 final size:138
Alignment explanation
Indices: 6631600--6631879 Score: 436
Period size: 138 Copynumber: 2.0 Consensus size: 138
6631590 GTAAACTGAA
* *
6631600 GGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
1 GGTGGTGGAGGCGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
* * *
6631665 GTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGG
66 GTACTCATAGGGGTGTTTGGATGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGATGCTTGG
6631730 GTGGTGAT
131 GTGGTGAT
* * *
6631738 GGTGGTGGAGGCGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATT
1 GGTGGTGGAGGCGGAGAATTGTACTTGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGGGGACT
* * **
6631802 TGTACTCGTAGGGGTGTTTGGATGGTGATGGTGGTGGTGGGGACTTGTACTTGTAGGGATGCTTG
65 TGTACTCATAGGGGTGTTTGGATGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGATGCTTG
6631867 GGTGGTGAT
130 GGTGGTGAT
6631876 GGTG
1 GGTG
6631880 AAGGAGGTGG
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
137 4 0.03
138 125 0.97
ACGTcount: A:0.12, C:0.06, G:0.51, T:0.31
Consensus pattern (138 bp):
GGTGGTGGAGGCGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
GTACTCATAGGGGTGTTTGGATGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGATGCTTGG
GTGGTGAT
Found at i:6631889 original size:93 final size:90
Alignment explanation
Indices: 6631602--6631879 Score: 403
Period size: 90 Copynumber: 3.1 Consensus size: 90
6631592 AAACTGAAGG
* * * * *
6631602 TGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
** * *
6631667 ACTCATAGGGGTGTTTGGGTGGTGA
66 ACTTGTAGGGATGCTTGGGTGGTGA
* * *
6631692 TGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGT---GGTGGGGACT
6631757 TGTACTTGTAGGGATGCTTGGGTGGTGA
63 TGTACTTGTAGGGATGCTTGGGTGGTGA
* *
6631785 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGATGGTGATGGTGGTGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
6631850 ACTTGTAGGGATGCTTGGGTGGTGA
66 ACTTGTAGGGATGCTTGGGTGGTGA
6631875 TGGTG
1 TGGTG
6631880 AAGGAGGTGG
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
90 87 0.51
93 82 0.49
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.32
Consensus pattern (90 bp):
TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
ACTTGTAGGGATGCTTGGGTGGTGA
Found at i:6631921 original size:138 final size:136
Alignment explanation
Indices: 6631638--6631921 Score: 365
Period size: 138 Copynumber: 2.1 Consensus size: 136
6631628 AAGGGTGCTT
*
6631638 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTG
1 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGATGGTGATGGTGGGGGTG
* * ** *
6631703 GGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACTTGTACTTGTAG
66 GGGACTTGTACTCATAGGGATGCTTGGGTGGTGATGGTGAAGGAGGCGGGGACTTATACTTGTA-
* **
6631768 GGATGCTT
130 -GATACAG
* * *
6631776 GGGTGGTGATGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGATGGTGATGGTGGTGGTG
1 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGATGGTGATGGTGGGGGTG
** *
6631841 GGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGAAGGAGGTGGTGGAGACTTATACTTG
66 GGGACTTGTACTCATAGGGATGCTTGGGTGGTGATGGTGAAGGAGG-CG-GG-GACTTATACTTG
6631906 TA-A-ACAG
128 TAGATACAG
6631913 GGGTTGGTG
1 GGG-TGGTG
6631922 GGGGAGGAGA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
137 4 0.03
138 107 0.84
139 1 0.01
140 2 0.02
141 13 0.10
ACGTcount: A:0.13, C:0.06, G:0.50, T:0.31
Consensus pattern (136 bp):
GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGATGGTGATGGTGGGGGTG
GGGACTTGTACTCATAGGGATGCTTGGGTGGTGATGGTGAAGGAGGCGGGGACTTATACTTGTAG
ATACAG
Found at i:6634093 original size:17 final size:17
Alignment explanation
Indices: 6634073--6634112 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
6634063 TGAACCCATT
*
6634073 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
6634090 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
6634107 TTTAAA
1 TTTAAA
6634113 ACAAATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:6637816 original size:45 final size:45
Alignment explanation
Indices: 6637765--6637852 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
6637755 AACTGGAAGG
**
6637765 GGTGGGGGTGGAGACTTATACTTGTAAGGGTGCTTGGGTGGTGAT
1 GGTGGGGGTGGAGACTTATACTCATAAGGGTGCTTGGGTGGTGAT
* * * *
6637810 GGTGGGGGTGGGGACTTGTACTCATATGGGTGTTTGGGTGGTG
1 GGTGGGGGTGGAGACTTATACTCATAAGGGTGCTTGGGTGGTG
6637853 GTGGGAACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.12, C:0.07, G:0.49, T:0.32
Consensus pattern (45 bp):
GGTGGGGGTGGAGACTTATACTCATAAGGGTGCTTGGGTGGTGAT
Found at i:6637981 original size:87 final size:86
Alignment explanation
Indices: 6637687--6637987 Score: 300
Period size: 87 Copynumber: 3.5 Consensus size: 86
6637677 TGGAGGTGGT
* *
6637687 GGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGCGTTGGAGGTGGTGGAGACTTATACTT
1 GGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGTGGAGGTGGTGGAGACTTATACTT
* *
6637752 GTAAACTGGAAG-GGGTGGGGG
66 GTAAACAGG-AGTTGGTGGGGG
* *
6637773 TGGAGACTTATACTTGTAAGGGTGCTTGGGTGGTGATGGT-G-GG-GGT-G-GG-GACTTGTAC-
1 -GGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGTGGAGGTGGTGGAGACTTATACT
* * ** *
6637831 T-CATATGGGTGTTTGGGTGGTGGTG
65 TGTAAACAGGAG-TT-GGTGG-GG-G
*
6637856 GGA-ACTTGTACTTGT-AGAGATGCTTGGGTGGTGATGGTGGTGGAGGTGGTGGAGACTTATACT
1 GGAGACTTGTACTTGTAAG-GGTGCTTGGGTGGTGATGGTGGTGGAGGTGGTGGAGACTTATACT
6637919 TGTAAACAGGAGTTGGTGGGGG
65 TGTAAACAGGAGTTGGTGGGGG
* * * * *
6637941 AGGAGATTTGTACTTGTAAGGCTCCTTGTGTGGTGGTGGTGGTGGAG
1 -GGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGTGGAG
6637988 ACTTGTAATG
Statistics
Matches: 174, Mismatches: 23, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
78 1 0.01
79 4 0.02
80 3 0.02
81 43 0.25
82 8 0.05
83 4 0.02
84 6 0.03
85 4 0.02
86 7 0.04
87 84 0.48
88 5 0.03
89 5 0.03
ACGTcount: A:0.17, C:0.08, G:0.45, T:0.31
Consensus pattern (86 bp):
GGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGTGGAGGTGGTGGAGACTTATACTT
GTAAACAGGAGTTGGTGGGGG
Done.