Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013836.1 Kokia drynarioides strain JFW-HI SEQ_128864, whole genome shotgun sequence
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: 21009
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Found at i:261 original size:50 final size:49
Alignment explanation
Indices: 178--272 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 49
168 TGCATGACTT
* *
178 GATTTAATGATGCATTTAACTAAAATGGGAGTTAGATAATGCATGATAG
1 GATTTAATGATGCATTTAACTAAAATGGAAGTTACATAATGCATGATAG
* * *
227 GATTT-ATGATGCATATTTAACTAACATGTAAGTTACTTAATGCATG
1 GATTTAATGATGC--ATTTAACTAAAATGGAAGTTACATAATGCATG
273 TCATTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 7 0.18
49 5 0.13
50 27 0.69
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.36
Consensus pattern (49 bp):
GATTTAATGATGCATTTAACTAAAATGGAAGTTACATAATGCATGATAG
Found at i:537 original size:17 final size:17
Alignment explanation
Indices: 506--538 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
496 CAAACACTTA
506 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
523 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
539 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:2311 original size:216 final size:214
Alignment explanation
Indices: 1905--2660 Score: 937
Period size: 216 Copynumber: 3.5 Consensus size: 214
1895 AAGATCGTTC
*
1905 AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* ** *
1970 GAAAATGACAAAGTATTTAGACCAAATGATGCGATTTTCGGAGCATAGAATGTTCAAAAAATTGC
66 GAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTCCCAGCATGGAATGTTCAAAAAATTGC
* * * * * *
2035 TCAACGGAATGGATTGTCCTCAATGCTTTAAGAAATCT-AAGTTATTGAAGAACTCGTAAAAGTT
130 TTAA-GGAATGGATTGTCATGAATACTTTAAGGAA-CTGAAGTTATAGAAGAACTCGTAAAAGTT
2099 AGTCAAGTTTGGAAGTTCATCT
193 AGTCAAGTTTGGAAGTTCATCT
* *
2121 AAGAACCAAGAGA-AAACAACTCTCACGTAAATAGGTTTTTAATTCAAAGACCACAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * *
2185 CAAAATGACAAACTATTTAGA-CATAATGATGCGATTTCCCATGCTTGGAATGTTCGGAAAAATT
66 GAAAATGACAAACTATTTAGACCA-AATGATGCGATTTCCCA-GCATGGAATGTTC-AAAAAATT
* * *
2249 TCTTGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGT
128 GCTT-AAGGAATGGATTGTCATGAATACTTTAAGGAACTGAAGTTATAGAAGAACTCGTAAAAGT
*** * * *
2314 TTCCCAAGTTCGGAAGTTCTTCC
192 TAGTCAAGTTTGGAAGTTCATCT
* *
2337 AGGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTCA
1 AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * ** *
2402 GAAAATGATAAAGTATTTAGAGCAAATGATGCGATTTCTTGAGCATGGGATGTTCAAAAAATTGC
66 GAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CCAGCATGGAATGTTCAAAAAATTGC
* * *
2467 TCTAAGGAATGGATTGTCTTGAATACTTTAA-GAAATCGAAGTTATAGAAGAACTCATAAAAGTT
130 T-TAAGGAATGGATTGTCATGAATACTTTAAGGAACT-GAAGTTATAGAAGAACTCGTAAAAG--
* * *
2531 TGTCGTCAAGTTTGGAAGTTCGTAT
191 T-TAGTCAAGTTTGGAAGTTCATCT
* * * * * *
2556 AAGAACCAAGGGAGAAATAACTCTTACATAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTCTA
1 AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
*
2621 GAAAATGACAAACTTTTTAGA-CATAATGATGCGATTTCCC
66 GAAAATGACAAACTATTTAGACCA-AATGATGCGATTTCCC
2661 GTGCTTGGAA
Statistics
Matches: 463, Mismatches: 63, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
214 7 0.02
215 94 0.20
216 157 0.34
217 94 0.20
218 6 0.01
219 105 0.23
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (214 bp):
AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
GAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAGCATGGAATGTTCAAAAAATTGCT
TAAGGAATGGATTGTCATGAATACTTTAAGGAACTGAAGTTATAGAAGAACTCGTAAAAGTTAGT
CAAGTTTGGAAGTTCATCT
Found at i:6265 original size:216 final size:214
Alignment explanation
Indices: 5451--13367 Score: 7875
Period size: 216 Copynumber: 36.8 Consensus size: 214
5441 TTAAAACACA
* *
5451 AGCATGGAATATTC-AGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAAGAACTGAA
1 AGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * ** * * * *
5515 GTTATAGAAGAACTCGTCAAAGTTTGTCAAGTTTAGAAGTTCATACAATATCCAAGAGAGAAACA
65 GTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * * * *
5580 ATTGTCATGTAAATAAGTTTTTCATTCAAAGGCCAAATGTTGTTTACCAAATGACAAA-TAGTTT
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTT
* **
5644 AGAAAAAATGATGCGATTTACAA
193 AGACAAAATGATGCGATTT-CCC
* * * *
5667 AG-AAGGAAATGTTCGGAAAATTGCTCGAAGGAATGAATCGTCATGAATACTTTATGGAACTGAA
1 AGCATGG-AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * * * * * * *
5731 GTTATGAAGAATTCGAAAAAGTTTTGCCAAAGTTCGAAAGTCCATCCAAGAACCAAGATAGAAAC
65 GTTTTAAAGAACTCGTAAAAG-TTTGTC-AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * * *
5796 AACTCTCACGTAAATAAGTTTTTCATTCAAAGGCCAAAAGTTGTTTAGAAAATGACAAAGTATTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
*
5861 AGACCAAATGATGCGATTTCCC
193 AGACAAAATGATGCGATTTCCC
* * * * * *
5883 GAGCATGGAATGTTCAAAAAATTGCTCTG-A-GAATGGCTTGTCCTGAATACTTTAAGAAACCGA
1 -AGCATGGAATGTTCGAAAAATTGCTC-GAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* * * * * *
5946 AGTTATTGAAGAATTCGT-AAAGTTTGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAAC
64 AGTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
*
6010 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
*
6075 AGACATAATGATGCGATTTCCC
193 AGACAAAATGATGCGATTTCCC
* * * ** * *
6097 ATGCTTCGAATGTTCGGAAATATTTTTCGAAGGATTGGATCGTCATGAATACTTTAAGGAGCTGA
1 A-GCATGGAATGTTC-GAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* * *
6162 AGTTTTAAAGAACTCGTAAAACTTTGTCAAATTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACA
64 AGTTTTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * *
6227 ACTCTCAAGTAAATAACTTTTTAATTTATAGGCCAAAAGTTGTTTACAAAATGACAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* * * * *
6292 GACTAAATTATGCAATGTCCTG
194 GACAAAATGATGCGATTTCC-C
* * * * * * * * *
6314 AGCGTGGAATGTTTGGAAAATTACTCGAAGGAATGGGTTGTTATGAATACTTTAATGAA-TCAAA
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT-GAA
* * * * * * ** * *
6378 GTTATAGAACAACTGGTAAAAGTTTGTGAAGTTCGAAAGTTTGTCCTTGATCCAAGAGATAATA-
65 GTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA-AC
* * * * * *
6442 AATTCTCACATGAATAAGTTTTTAATTCAATGACCAAAAGTTGTATACCAAATGACAAACTATTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
**
6507 AGACAAAATGATGTTATTTCCC
193 AGACAAAATGATGCGATTTCCC
* * * *
6529 AAGCATGGAATATTCAAAAAATTGCTCGAAGGAATGGATCGTCATGGATACTTTAAAGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * ** * * * *
6594 GTTATAGAAGAACTTGTCAAAGTTTGTCAAGTTTAGAAGTTCATCCAATATCTAAGAGAGAAACA
65 GTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * *
6659 ATTCTCATGTAAATAAGTTTCTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TAGTTT
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTT
* * *
6723 AGAAAAAATGACGCGATTTCCA
193 AGACAAAATGATGCGATTTCCC
* *
6745 ACGCATGAAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTATGGAACTGAA
1 A-GCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * *
6810 GTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTCAGAAGTTCGTCCAAGAACCAAGATAGAAACA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * * *
6875 ACCCTCACGTAATTAAGTTTTTCATTCAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
*
6940 GACCAAATGATGCGATTTCCC
194 GACAAAATGATGCGATTTCCC
* * * * ** * * *
6961 GAGCATGGAATGTTCAAAAAATTGC-CTTAAGGAATGGCTTGTCCCGAATACTGTAAGAAACTAA
1 -AGCATGGAATGTTCGAAAAATTGCTC-GAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* ** * * * *
7025 AGTTATTGAAGAACTCGTAGGAGTTTGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAAC
64 AGTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * * *
7090 AACTCTCACGTAAATAGGTTTTTAATTCAAATACCAAAAGTTGTTTAGAAAATGACGAACTATTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
7155 AGACAAAATGATGCGATTTCCC
193 AGACAAAATGATGCGATTTCCC
* *
7177 GTGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * ** * * *
7242 GTTTTAAAAGAACTTGCAAAACTTCATCAAATTCGAAAGTTCGTCCAAGAACAAAGAGAG-AACA
65 GTTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* ** * * *
7306 ATTCTCACGTAAATAAAATTTTAATTTAAAGACCAAATGTTGTTTACAAAATAACAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
**
7371 GACCCAATGATGCGATTTCCC
194 GACAAAATGATGCGATTTCCC
* * *
7392 GAGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTATGGAATTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * *
7457 GTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTCGAAAGTTCGTCCAAGAACCAAGATAGAAACA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * *
7522 ACCCTCACGTAATTAAGTTTTTAATTCAAAGACCAAAAGTTTTTTAGAAAATGACAAAGTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
*
7587 GACCAAATGATGCGATTTCCC
194 GACAAAATGATGCGATTTCCC
* * * * * * *
7608 GAG-ATGGAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCTTGATTACTTTAA-CAAATCGA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT-GA
* * * * *
7671 AGTTATAGAAGAACTCGTAAAAGTTTTTCAAGTTTGGAAATTCGTCTAAGAACCAAGAGAGAAAC
64 AGTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * * * * *
7736 AATTCTCACGTAAATAGGTTTCTAATTCGAAGACCAAAAGTTGTTTAGAAAATGACAAACTAGTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
* *
7801 AGACATAATGATGCGATTTCTCG
193 AGACAAAATGATGCGATTTC-CC
* * * * * *
7824 TGCTTGTAATGTTCGAAAAATTTCTCGAAGGAATGGATCATCATGAATACTTTAAGGAACTAAAG
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAG
* * * * * *
7889 TTTTAAAAGAACTTGTAAAACTTCGTCAAGTTCGAAAGTTCATCCAAGAACAAAGAGAGAAACAA
66 TTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAA
* * * * * * * *
7954 GTGTCACGTAAATGACTTTTCAATTTATAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAC
130 CTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
* * *
8019 ACTAAATTATGCGATTTCTCG
195 ACAAAATGATGCGATTTC-CC
* * * * * * *
8040 ACCATAGAATGTTCGAAAAATTACTCGAAGGAATGGATTGTCATGAATACTGTAATGAAGC-AAA
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAA-CTGAA
** * * * * * * *
8104 GTAATAGAACAATTGGTAAAAGTTTG-CGAAGTTCGAAAGTTCGTCCATGATCCAAGAGATAATA
65 GTTTTA-AAGAACTCGTAAAAGTTTGTC-AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA-A
* * * * * *
8168 -AATTCTCACATAAATAATTTTTTAATTTAATGACCAAAAGTTGTATACAAAATGACAAACTATT
127 CAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATT
* *
8232 TAGACAAAATAATGTGATTTCCC
192 TAGACAAAATGATGCGATTTCCC
* * * * * *
8255 AAGCATGGAATGTT-TAGAAAATTGCTCGAAGGAATGGATTGACATGAATACTTTAAAGACCCGA
1 -AGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* * * ** * * * *
8319 AGTTATAGAAGAACTCGTCAAAGTTTGTTAAGTTTAGAAGTTCATCCAATATCCAAGAGAGAAAA
64 AGTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * * * * *
8384 AATTCTCATGTAAATAAGATTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGA-AAAATAGTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TT
*
8448 TAGAAAAAATGATGCGATTTCCC
192 TAGACAAAATGATGCGATTTCCC
* * *
8471 AAGCATGAAATGTTCGGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTATGGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * * * * * *
8536 GTTATAAAAGAACTCGAAAAAGTTTGCCAAGTCCGGAAGTTCTTTCAAGAACCAAGATAGAAACG
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * * * *
8601 ACTCTCACATAAATAAGTTTTTCATTGAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTT
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* *
8666 GACCAAATGATGCGATTTCCTG
194 GACAAAATGATGCGATTTCC-C
* * * * * * *
8688 AGCATGGAATGTTCAAAAAATTCCTCTG-A-GAATGGCTTGTCTTGAATACTTTAAGAAACCGAA
1 AGCATGGAATGTTCGAAAAATTGCTC-GAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * * *
8751 GTTATTGAAGAACTCGT-AAAGTTTGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * *
8815 ACTCTCACGTAAATAGGTTATTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
*
8880 GACATAATGATGCGATTTCCC
194 GACAAAATGATGCGATTTCCC
* * *
8901 ATGCTTGGAATGTTCGGAAAAATTTCTTGAAGGAATGGATCGTCATGAATCGTCATGAATACTTT
1 A-GCATGGAATGTTC-GAAAAATTGCTCGAAGG-A---AT-G----G-ATCGTCATGAATACTTT
* * * *
8966 AAGGAACTGAAGTTTTAAAAGAACTCGTAAAACTTTGTCAAATTCGGAAGTTCATCCAAGAACAA
54 AAGGAACTGAAGTTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCA
* * * * *
9031 AGAGAGAAACAACTCTCACGTAAATAACTTTTTAATTTATAGGCCAAAAGTTGTTTACAAAATTA
118 AGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGA
* * * * *
9096 CAAACTATTTAGACTAAATTATTCAATGTCCC
183 CAAACTATTTAGACAAAATGATGCGATTTCCC
* * * * * * *
9128 GAGCGTGGAATGTTCGAAAAATTACTCAAAGGAATGGGTTGTTATGAATACTTTAAGGAACTAAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
** * * * *
9193 GTTATTAAA-AACTCGTAAAAGTTTCCCAAGTTCAGAAGTTCATCCAGGAACGAAGAGAGAAACA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * *
9257 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-TTTAGAAAATGACAGAGTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* **
9321 GACCAAATGATGCGATTTCTTG
194 GACAAAATGATGCGATTTC-CC
* * * * *
9343 AGCATGGAATGTTC-AAAAATTTGCTCTAAGGAATGGATTGTCTTGAATACTTTAA-GAAATCAA
1 AGCATGGAATGTTCGAAAAA-TTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT-GA
* * * * * *
9406 AATTATAGAAGAACTTGTAAAAGTTTGTAAAGTTTGGAAGTTCGTCTAAGAACCAAGAGAGAAAC
64 AGTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* *
9471 AACTCTCACGTAAATAGGTTTTTAATTCGAAGACCAAAAGTTGTTT-----A-G--AAA--A--T
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
9524 -GAC--AA--A--C-ATTTCCC
193 AGACAAAATGATGCGATTTCCC
* * * * *
9538 ATGCTTGGAATGTTCGAAAAAAATTTCTTGAAGGAATGAATCGTCATGAATACTTTGAGGAACTG
1 A-GCATGGAATGTTCG--AAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTG
* * * * *
9603 AAGTTTTAAAAGAACTCGTAAAACTTTGTCAAGTTTGGAAGTTCATCCAAGAACAAAGGGAGAAA
63 AAGTTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAA
* * * * *
9668 CAACTCTCACGTAAATAACTTTTTAATTTATAGGCCAAAAGTTGTTTACAAAATGACAAACTAGT
127 CAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATT
* * *
9733 TAGACTAAATTATGCGATGTCCC
192 TAGACAAAATGATGCGATTTCCC
* * * * *
9756 GAGCATGGAATGTTC-AGAAAATTACTCGAAGGAATGGATTGTTATGAATACTTTAATGAAC-CA
1 -AGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* * * * * * ** * * *
9819 GAGTTATAGAACAACTGGTAAAAGTTTGTGAAGTTCGAAAGTTTGTCCTTGATCCAAGAGATAGT
64 -AGTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGA-A
* * * * *
9884 A-AATTCTCA--AAAATATGTTTTTAATTCAAAGACCAAAAGTTTTTTACCAAATGACAAACTAT
126 ACAACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT
* *
9946 TTAGAAAAAATGATACGATTTCCC
191 TTAGACAAAATGATGCGATTTCCC
* * *
9970 AAGCATGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCGTCATGAATAC--TGAGGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * * * * * ** *
10033 GTTCTAAAAGAACTTGTAAAAGCTCGTCAGGTTTGAAAGTTCACCCAAGAACGAAGAGAGAAACA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * * *
10098 ATTCTCACGTAATTATGTTTTTAATTCAAAGACCGAAAGTTTTTTTTACCAAATGACAAACTATT
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAG--TTGTTTACAAAATGACAAACTATT
* * *
10163 TAGAAAAAATGTTTCGATTTCCC
192 TAGACAAAATGATGCGATTTCCC
* * * * *
10186 AAGCATGGAATGATCGAAAAATTCCTCGAAGGAATGGATCGTCACGAATACTGTAAGGAACTCAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* ** * * *
10251 GTTTTAAAAGAACTAGTAAAAGTTTGTCAAGTTCAAAAGTTCGTCCAAGATCTAAGATAGAAACA
65 GTTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * *
10316 ATTCTCCCGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTTCAAAATGAAAAACCATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* * *
10381 GACCAAATTATGCAATTTCCC
194 GACAAAATGATGCGATTTCCC
* ** * *
10402 GAGCTTGGAATGTTCTG-AAAATTTATTGAAGGAATGGATCGTCATGAATACTTTAAGGAACAGA
1 -AGCATGGAATGTTC-GAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* * * * *
10466 AGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAAT
64 AGTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * *
10531 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACGAAAAGTTATTTAGAAAATGACAAACTATTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
** * *
10596 AGACCTAATGATGTGATTTCCTA
193 AGACAAAATGATGCGATTTCC-C
* * * ** * * *
10619 AGCATGGAATGTTCAAAAAATTGCTTGAAAGAATGGATTTTCCTTAATACTTTAAAGAA-TCGAA
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT-GAA
* * * *
10683 GTTATAGAAGAACTCGTAACAGTTTGTCAAGTTTGGAAGTTCGTCCAAGAATCAAGAGAGAAACA
65 GTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * *
10748 ACTCCCACGTAAATAAGTTTTTAATTCAAAGAACAAAAGTTTTTTAGAAAATGACAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
*
10813 GACAAAATAATGCGATTTCCC
194 GACAAAATGATGCGATTTCCC
* ** * * ** *
10834 GAGCATGGAATGTTTGGGAAATTGCTCAAAGGAATGGATCGTCATGAATACTTCAAAAAACGGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * * * * *
10899 GTTATAAAAGAACACATAAAAGTCTT-CCAAGTTCGAAAGTTCGTGCAAGAACTAAGAGAGAAAC
65 GTT-TTAAAGAACTCGTAAAAGT-TTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * *
10963 AACTCTCACGTAAACAAATTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
**
11028 AGACCTAATGATGCGATTTCCC
193 AGACAAAATGATGCGATTTCCC
* * * * * * *
11050 GAGCATAGAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCCTAAATACTTGAAGGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
** * * * * * *
11115 GTTAAAGAAGAACTCATAAAAGTTTGTCAATTTCGGATGGTCGTCCAAGAACCATGAGAGAAAGA
65 GTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
*
11180 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* *
11245 GGA-ATAATGATGTGATTTCCC
194 -GACAAAATGATGCGATTTCCC
* * * * * * *
11266 GTGCTTGGAATGTTTGAAAAATTGGTCGACGGAATGGATCGTCAAGAATACTTTAAGGAACTGAT
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * * *
11331 GTTTTAAAAGAACTCGTAAAACTTCGTCAAGTTCGGTAGTTCGTCCAAGAACAAAAAGAGAAACA
65 GTTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * *
11396 ACTCTCACGTAAATAACTTTTTAATTTATAGACCAAAAGTTGTTTACAAAATCATAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* * *
11461 GACTAAATTATGCGATTTCCTG
194 GACAAAATGATGCGATTTCC-C
* * * * **
11483 AGCATGGAATGTTCGAAAAATTACTCGAAGGAATGGATTGTCATGAATGCTTTAATGAACCAAAG
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAG
* * * * * * * * * *
11548 TTATAGAACAAGTGGTAAAAGTTTGTAAAGTTTGGAAGTTTGTCCATGATCCAAGAGATAATA-A
66 TTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA-ACA
* * * * *
11612 ATTCTCACGTAAATAAGTTTTTAATTCAATGACCAAAAGTTGTATACCAAATGATAAACTATTTA
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
*
11677 GACAAAATGATGTGATTTCCC
194 GACAAAATGATGCGATTTCCC
* *
11698 AAGCATGGAATGTTC-AGAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAAGAACTGA
1 -AGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGA
* * * ** * * *
11762 AGTTATAGAAGAACTCATCAAAGTTTGTCAAGTTTAGAAGTTCATCCAATATCCAAGAGAGAAAC
64 AGTTTTA-AAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC
* * * *
11827 AATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAA-TAGTT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TT
* *
11891 TAGAAAAAATGATGTGATTTCCC
192 TAGACAAAATGATGCGATTTCCC
* * * *
11914 AAGCATGAAATGTTTGGAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTATGGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * ** * * *
11979 GTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTCAAAAATTCGTCCAAGAAACAAGATAGAAACA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * * *
12044 ACTCTCACGTAAATAAGTCTTTCATTCAAAGACCAAAA-TTAGTTTAGAAAATGTCAAAGTATTT
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT-GTTTACAAAATGACAAACTATTT
* *
12108 AGACCAAATGATGCGATTTCCTA
193 AGACAAAATGATGCGATTTCC-C
** * * * * *
12131 AGCATGGAATGTTTAAAAAATTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACCGAAG
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAG
* * * * * *
12196 TTATTGAAGAACTCATAAAAGTTTGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAACAA
66 TT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAA
* * *
12261 CTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGATTAGAAAATGACAAACTATTTAG
130 CTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
* *
12326 ACAAAATGATGCGTTTTCCTG
195 ACAAAATGATGCGATTTCC-C
* * ** * *
12347 TGCATGGAATGTTTGGGAAATTGCTCGAAGGAATGGATCGTCATGTATACTTTAAGGAACTAAAG
1 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAG
* * * ** * *
12412 TTTTAAAAGAACTTGCAAAACTTCATCAAGTTCGAAAGTTCGT-CAAGAACAAAGAGAGAAACAA
66 TTTT-AAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAA
* * *
12476 TTCTCATGTAAATAAGATTTTAAATT-AAAGACCAAAAGTTGTTTACAAAATGACTAAA-TATTT
130 CTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAC-AAACTATTT
*
12539 AGACCAAATGATGCGATTTCCC
193 AGACAAAATGATGCGATTTCCC
* *
12561 GAGCATGGAATGTTCGAAAAATTGCTCGAAGTAATGGATCATCATGAATACTTTAAGGAACTGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* ** *
12626 GTTATAAAAGAACTCGTAAAAGTTTCCCAAGTTCGGAAGTTCGTCCAGGAA-CAGAGAGAGAAAC
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCA-AGAGAGAAAC
** * *
12690 AACTCTCACGTAAATAAGTGCTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGATAAACTA-TT
128 AACTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTT
**
12754 --------T-ATGCGA--AGCC
193 AGACAAAATGATGCGATTTCCC
* * * *
12765 TGACATGGATTGTTCGAAAAATTGCTCGAAGGAATGGATTGTCATGACTACTTTAAGGAACT-AA
1 AG-CATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* * * ** * **
12829 TGTTTTAAAAGAACTCGAAAAAAGTTCGTTAAGTTCAAAAGTTCATCCAAGAAGAAAGAGAGAAA
65 -GTTTT-AAAGAACTCG-TAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAA
* * * * *
12894 TAATTCTCGCGTAAATAAGATTTTT-ATTCAAAGACCAAAAGTTTTTTACCAAATGACAAACTAT
127 CAACTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT
*
12958 TTAGACAAAATGACGCGATTTCCC
191 TTAGACAAAATGATGCGATTTCCC
* * * *
12982 GAGCATGGAATGTTCGAAAAATTGGTCGAAGGAATGGATCGTCAAGAATATTTTAAGGAAATGAA
1 -AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAA
* ** * * * *
13047 GTTATAAAAGAACTTATAAAAGTTTGTTAAGTTCTGATGTTCGTCCAAGAACCAAGAGAGAAGCA
65 GTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACA
* * * **** *
13112 ATTCTCAGGTAAAAAAAAAATTAATTCAAAG-CTCAAATGTTGTTTACAAAATGAC-AACTATTT
129 ACTCTCACGTAAATAAGTTTTTAATTCAAAGAC-CAAAAGTTGTTTACAAAATGACAAACTATTT
* ** * *
13175 AGACCAAATGATATGAGTTCCTG
193 AGACAAAATGATGCGATTTCC-C
* * * * *
13198 ATCATGG-ATAGTTCGAAAAAATAT-CTCGAAGGAATGGATCTTCTTGAATATTTTATGGAA-TC
1 AGCATGGAAT-GTTCG-AAAAAT-TGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACT-
* * * * * *
13260 GAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGATCCAAGAGAGAA
62 GAAGTT-TTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA
* *
13325 ACAATTATCACGTAAATAAGTTTTTAATTCATAA-ACCAAAAGT
126 ACAACTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAAAAGT
13368 AGTGATTTGA
Statistics
Matches: 6363, Mismatches: 1153, Indels: 370
0.81 0.15 0.05
Matches are distributed among these distances:
195 1 0.00
196 17 0.00
197 1 0.00
198 123 0.02
199 11 0.00
201 2 0.00
203 8 0.00
204 71 0.01
205 85 0.01
206 16 0.00
207 1 0.00
208 3 0.00
210 2 0.00
211 5 0.00
212 57 0.01
213 17 0.00
214 475 0.07
215 931 0.15
216 3983 0.63
217 243 0.04
218 124 0.02
219 1 0.00
220 2 0.00
221 2 0.00
222 2 0.00
225 4 0.00
226 50 0.01
227 125 0.02
228 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (214 bp):
AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGGAACTGAAG
TTTTAAAGAACTCGTAAAAGTTTGTCAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAAC
TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGA
CAAAATGATGCGATTTCCC
Found at i:15259 original size:181 final size:181
Alignment explanation
Indices: 14952--15313 Score: 462
Period size: 181 Copynumber: 2.0 Consensus size: 181
14942 TAGAGAGAAA
* * *
14952 CAATTCTCACGTAATTAAGTTTTTAATTCAAAGACCAGAAGTTGTTTACAAAATGAAAAACTATT
1 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATT
* * *
15017 TAGACTAAATGATGCGAGTTCTCGAGCATGGAATGTTCAAAAAAATTCACAAAGGAATGGATCGT
66 TAGACCAAATGATGCGAGTTCTCAAGCATGGAAAGTTCAAAAAAATTCACAAAGGAATGGATCGT
* *
15082 CATGAA-CACTTTAAGGAATTGAAGTAATAAAAGAACCCGTAAAAGTTTGTC
131 CATGAATCA-TTTAAGGAATCGAAGTAATAAAAGAACCCATAAAAGTTTGTC
* *
15133 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAACTGACAAACTATT
1 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATT
* * * * * *
15198 TAGACCAAATGATGTC-ATTTC-CTAAGTATGGAAAGTTC-AAAATATTGCTCGAAGTAATGGAT
66 TAGACCAAATGATG-CGAGTTCTC-AAGCATGGAAAGTTCAAAAAAATT-CACAAAGGAATGGAT
* * * * * *
15260 TGTCATGAATTATTTAAGGAATCGAAGTTATAGAAGAACTCATAAATGTTTGTC
128 CGTCATGAATCATTTAAGGAATCGAAGTAATAAAAGAACCCATAAAAGTTTGTC
15314 AAGTTTGGAA
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
180 8 0.05
181 145 0.94
182 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (181 bp):
CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATT
TAGACCAAATGATGCGAGTTCTCAAGCATGGAAAGTTCAAAAAAATTCACAAAGGAATGGATCGT
CATGAATCATTTAAGGAATCGAAGTAATAAAAGAACCCATAAAAGTTTGTC
Found at i:15537 original size:215 final size:216
Alignment explanation
Indices: 15133--16001 Score: 1183
Period size: 215 Copynumber: 4.0 Consensus size: 216
15123 AAAGTTTGTC
*
15133 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTA-CAAACTGACAAACTAT
1 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAA-TGACAAACTAT
* * * * * * **
15197 TTAGACCAAATGATGTCATTTCCTAAGTATGGAAAGTTCAAAATATTGCTCGAAGTAATGGATTG
65 TTAGACCAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCA
* * * * *
15262 TCATGAATTA-TTTAAGGAATCGAAGTTATAGAAGAACTCATAAATGTTTGTCAAGTTTGGAAGT
130 TCATGAA-TACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTTGGAAGT
* * *
15326 TTGTCCAAGATCCAAGATAGAAA
194 TCGTCCAAGAACCAAGAGAGAAA
* * *
15349 CAATTCCCATGTAAATAAGTTTTTAATTCAAAGA-AAAAAGTTGTTTACCAAATGACAAACTATT
1 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATT
* * **
15413 TAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATTGT
66 TAGACCAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCAT
* * * * *
15478 CATGAATACTTTAAGGAACCGACGTTA-AAGAAGAACTTGTAACAGTTTGGCATGTTTGGAAGTT
131 CATGAATACTTTAAGGAACCGAAGTTATAA-AAGAACTCGTAAAAGTTTGCCAAGTTTGGAAGTT
* * *
15542 CATCCAAGATCCAAGCGAGAAA
195 CGTCCAAGAACCAAGAGAGAAA
* *
15564 TAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTTTT
1 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATT
* * * *
15629 TAGACCAAATGATGCGATTTCCCAAGCGTAGAATGTTCAGAAAATTGCTCGAAGGAATGGATCAT
66 TAGACCAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCAT
** * **
15694 CATGAATACTTTAAGGAACTAAAGTTATAAAAGAACTTGTAAAAGTTTGCCAAGTTCAGAAGTTC
131 CATGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTTGGAAGTTC
* *
15759 GTCCAAGAACCAAAAGTGAAA
196 GTCCAAGAACCAAGAGAGAAA
* *
15780 CAATTCTCACGTAAATAAG-TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGTCAAACTATT
1 CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATT
** * * *
15844 TAGATGAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATATG-TAGAAGGAATGGATCA
66 TAGACCAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAAT-TGCTCGAAGGAATGGATCA
*
15908 TCATGAATACTTTAAGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTTGGAAGTT
130 TCATGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTTGGAAGTT
15973 CGTCCAAGAACCAAGAGAGAAA
195 CGTCCAAGAACCAAGAGAGAAA
15995 CAATTCT
1 CAATTCT
16002 TGATGTGAGC
Statistics
Matches: 579, Mismatches: 68, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
214 3 0.01
215 364 0.63
216 210 0.36
217 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (216 bp):
CAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATT
TAGACCAAATGATGTGATTTCCCAAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCAT
CATGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGCCAAGTTTGGAAGTTC
GTCCAAGAACCAAGAGAGAAA
Found at i:15945 original size:431 final size:431
Alignment explanation
Indices: 15133--16001 Score: 1216
Period size: 431 Copynumber: 2.0 Consensus size: 431
15123 AAAGTTTGTC
15133 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAACTGACAAACTATT
1 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAACTGACAAACTATT
* * * * **
15198 TAGACCAAATGATGTCATTTCCTAAGTATGGAAAGTTCAAAATATTGCTCGAAGTAATGGATTGT
66 TAGACCAAATGATGTCATTTCCCAAGCATAGAAAGTTCAAAATATTGCTCGAAGGAATGGATCAT
* * * * ** *
15263 CATGAATTATTTAAGGAATCGAAGTTATAGAAGAACTCATAAATGTTTGTCAAGTTTGGAAGTTT
131 CATGAATTATTTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGCCAAGTTCAGAAGTTC
* * *
15328 GTCCAAGATCCAAGATAGAAACAATTCCCATGTAAATAAGTTTTTAATTCAAAGAAAAAAGTTGT
196 GTCCAAGAACCAAAATAGAAACAATTCCCACGTAAATAAGTTTTTAATTCAAAGAAAAAAGTTGT
*
15393 TTACCAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAAT
261 TTACAAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAAT
* ** * * *
15458 TGCTCGAAGGAATGGATTGTCATGAATACTTTAAGGAACCGACGTTAAAGAAGAACTTGTAACAG
326 TGCTAGAAGGAATGGATCATCATGAATACTTTAAGGAACCGAAGTTAAAGAAGAACTCGTAAAAG
* * * *
15523 TTTGGCATGTTTGGAAGTTCATCCAAGATCCAAGCGAGAAA
391 TTTGCCAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAA
* * *
15564 TAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACCAAA-TGACAAACTTT
1 CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTA-CAAACTGACAAACTAT
* *
15628 TTAGACCAAATGATG-CGATTTCCCAAGCGTAGAATGTTCAGAAA-ATTGCTCGAAGGAATGGAT
65 TTAGACCAAATGATGTC-ATTTCCCAAGCATAGAAAGTTCA-AAATATTGCTCGAAGGAATGGAT
**
15691 CATCATGAA-TACTTTAAGGAA-CTAAAGTTATAAAAGAACTTGTAAAAGTTTGCCAAGTTCAGA
128 CATCATGAATTA-TTTAAGGAATC-AAAGTTATAAAAGAACTCATAAAAGTTTGCCAAGTTCAGA
* *
15754 AGTTCGTCCAAGAACCAAAAGT-GAAACAATTCTCACGTAAATAAG-TTTTAATTCAAAGACCAA
191 AGTTCGTCCAAGAACCAAAA-TAGAAACAATTCCCACGTAAATAAGTTTTTAATTCAAAGA-AAA
* **
15817 AAGTTGTTTACAAAATGTCAAACTATTTAGATGAAATGATGTGATTTCCCGAGCATGGAATGTTC
254 AAGTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTC
* *
15882 AGAAAATATG-TAGAAGGAATGGATCATCATGAATACTTTAAGGAACTGAAGTTATAA-AAGAAC
319 AAAAAAT-TGCTAGAAGGAATGGATCATCATGAATACTTTAAGGAACCGAAGTTA-AAGAAGAAC
*
15945 TCGTAAAAGTTTGCCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA
382 TCGTAAAAGTTTGCCAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAA
15995 CAATTCT
1 CAATTCT
16002 TGATGTGAGC
Statistics
Matches: 386, Mismatches: 43, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
430 18 0.05
431 356 0.92
432 12 0.03
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (431 bp):
CAATTCTCACGTAAATAAGTTATTAATTCAAAGACCAAAAGTTGTTTACAAACTGACAAACTATT
TAGACCAAATGATGTCATTTCCCAAGCATAGAAAGTTCAAAATATTGCTCGAAGGAATGGATCAT
CATGAATTATTTAAGGAATCAAAGTTATAAAAGAACTCATAAAAGTTTGCCAAGTTCAGAAGTTC
GTCCAAGAACCAAAATAGAAACAATTCCCACGTAAATAAGTTTTTAATTCAAAGAAAAAAGTTGT
TTACAAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAAT
TGCTAGAAGGAATGGATCATCATGAATACTTTAAGGAACCGAAGTTAAAGAAGAACTCGTAAAAG
TTTGCCAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAA
Found at i:16374 original size:48 final size:48
Alignment explanation
Indices: 16315--16484 Score: 243
Period size: 48 Copynumber: 3.5 Consensus size: 48
16305 ATTAAGTGTT
* * *
16315 TTTTTTTTGTTAAATGCATCTTTGTTTAATAATCTTCATCATTAAGTG
1 TTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCATCATTAACTG
* * *
16363 TTTTGTTTGTTAAATGCATCTGTGTTTAGTAATCTGCATTATTAACTG
1 TTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCATCATTAACTG
* * *
16411 TTTTGTTTGTTAAATGCATCTTTGTTTAGA-AATATGCATTATTAACTA
1 TTTTGTTTGTTAAATGCATCTTTGTTTA-ATAATCTGCATCATTAACTG
16459 TTTTGTTTGTTAAATGCATCTTTGTT
1 TTTTGTTTGTTAAATGCATCTTTGTT
16485 AAATGCCTTG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (48 bp):
TTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCATCATTAACTG
Found at i:17021 original size:79 final size:79
Alignment explanation
Indices: 16923--17086 Score: 233
Period size: 79 Copynumber: 2.1 Consensus size: 79
16913 TTCATTAAGG
** * * *
16923 AGAAA-TGCCATACCTTTTTAGCTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTTCC
1 AGAAATTGCCATACCTTTTTAAATACATCAAATCCTAATGAAGAGACATGACTCATTAGCTTCCC
*
16987 TACAATAGTTAAAA
66 TACAAGAGTTAAAA
* *
17001 ACGAAATTGCCATGCC-TTTTAAATACATCAAATCCTAATGAAGAGATATGACTCATTAGCTTCC
1 A-GAAATTGCCATACCTTTTTAAATACATCAAATCCTAATGAAGAGACATGACTCATTAGCTTCC
17065 CTACAAGAGTTAAAA
65 CTACAAGAGTTAAAA
17080 AGAAATT
1 AGAAATT
17087 TGTGTTTGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 7 0.09
79 61 0.80
80 8 0.11
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (79 bp):
AGAAATTGCCATACCTTTTTAAATACATCAAATCCTAATGAAGAGACATGACTCATTAGCTTCCC
TACAAGAGTTAAAA
Found at i:18252 original size:15 final size:16
Alignment explanation
Indices: 18232--18265 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18222 TGAACTTGTT
18232 GAAAGGACTCA-AAGG
1 GAAAGGACTCATAAGG
*
18247 GAAAGGCCTCATAAGG
1 GAAAGGACTCATAAGG
18263 GAA
1 GAA
18266 GATCACCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.15, G:0.32, T:0.09
Consensus pattern (16 bp):
GAAAGGACTCATAAGG
Found at i:19429 original size:47 final size:50
Alignment explanation
Indices: 19368--19517 Score: 114
Period size: 50 Copynumber: 3.0 Consensus size: 50
19358 GTGCATTATG
* * *
19368 TAATGACATCCATTAA-T-TC-T-CATGATTAGTTAAGTTTGCATCATAAA
1 TAATGACATCCATTAAGTAACTTACATG-TTAGTTAAATATGCATCATAAA
* *
19415 TAATGGCATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAA
1 TAATGACATCCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAA
** ** * *
19465 TCCT-ATCATGAATTATGTAACTCT-CATGTTAGTTAAAGTTTGCATCATTAAA
1 TAATGA-CATCCATTAAGTAACT-TACATGTTAGTTAAA-TATGCATCA-TAAA
19517 T
1 T
19518 CAAGTCATGC
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
47 14 0.17
48 1 0.01
49 1 0.01
50 50 0.60
51 13 0.15
52 5 0.06
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (50 bp):
TAATGACATCCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAA
Found at i:19458 original size:50 final size:50
Alignment explanation
Indices: 19385--19536 Score: 164
Period size: 50 Copynumber: 3.0 Consensus size: 50
19375 ATCCATTAAT
* *
19385 TCTCATGATTAGTTAAGTTTGCATCATAAATAATGGCATGCATTAAGTAAC
1 TCTCATG-TTAGTTAAATTTGCATCATAAATAATGTCATGCATTAAGTAAC
* ** * * *
19436 T-TACATGTTAGTTAAATATGCATCATAAATCCTATCATGAATTATGTAAC
1 TCT-CATGTTAGTTAAATTTGCATCATAAATAATGTCATGCATTAAGTAAC
*
19486 TCTCATGTTAGTTAAAGTTTGCATCATTAAATCAA-GTCATGCATTTAGTAA
1 TCTCATGTTAGTTAAA-TTTGCATCA-TAAAT-AATGTCATGCATTAAGTAA
19537 TCCATTAGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
50 50 0.62
51 14 0.17
52 17 0.21
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (50 bp):
TCTCATGTTAGTTAAATTTGCATCATAAATAATGTCATGCATTAAGTAAC
Done.