Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014416.1 Kokia drynarioides strain JFW-HI SEQ_129454, 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: 3471
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.27
Warning! 100 characters in sequence are not A, C, G, or T
Found at i:384 original size:216 final size:216
Alignment explanation
Indices: 4--2283 Score: 3015
Period size: 216 Copynumber: 10.6 Consensus size: 216
1 GTT
* * *
4 TTTAATTCAAAGACCAAAACTTGTTTGCAAAACGATAAACTATTTAGACCAAATGATGCGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * *
69 AC-AGGCATGGAATATTCAAAAAATTGTTCGGAA-GAATAGATCGTATTGAATACTTTAAGTATC
66 ACGA-GCATGGAATGTTCGAAAAATTGCTC-GAAGGAATGGATCGTATTGAATACTTTAAGGATC
* * *
132 CGATGTTATAGAAGAACTAGTAAAAGTTTGACAAGTTCAAAAGTTCGTCCAAGAACAAAGAGAGA
129 CGAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGA
*
197 AACAATTCTCACGTAAATAAATA
194 AACAATTCTCACGTAAATAAGTA
*
220 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAAATATTTAGACCAAATGATGTGATTTG
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTT-
* * *
285 C-CGAGCATGGAATGTTCGAAAAATAGCTCGAAGGAATGGATCGTCTTGAATACTTTACGGATCC
65 CACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCC
* * * *
349 GAAGTTATAAAAGACCTAGTAAAAGTTTAACAAGTTCGAAAGTTTGTCCAAAAACAAAGAGAGAA
130 GAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAA
* *
414 ACAATTCTCACATAAATAAGTT
195 ACAATTCTCACGTAAATAAGTA
* * ** *
436 TTTAATTCAAAGACCAAAATTTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * * * * * * *
501 CCGACCATGGAATGTTCCG-AAATTTTCTCTAAGGAATTGATCTTGTTGAATACTTTAGGGAACC
66 ACGAGCATGGAATGTT-CGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCC
* * * * * *
565 AAAGTTAAAAAAAAACTCA-TAAAAGTTTAATAAGTTTC-AAAGTTCGTCCAAGAACAAAGTGAG
130 GAAGTTATAAAAGAACT-AGTAAAAGTTTGACAAG-TTCGAAAGTTCGTCCAAGAACAAAGAGAG
* *
628 AAACAATTCTCACGTAAAGAAGTT
193 AAACAATTCTCACGTAAATAAGTA
* * *
652 TTTAATTCAAAGACCAAAACTTGTTTGCAAAATGATAAACTATTTAGACCAAATGATGCGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * *
717 ACAAGCATGGAATGTTCGAAAAATTGTTCGAAGGAATAGATCGTATTGAATACTTTAAGTATCCG
66 ACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCCG
* * * * *
782 ATGGTATAGAAGAACTAATAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAA
131 AAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
847 CAATTCTCACGTAAATAAGTA
196 CAATTCTCACGTAAATAAGTA
868 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTG
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTT-
* * * ** *
933 C-CGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGATCGCCTTGAATACTTTATGGATCC
65 CACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCC
* *
997 GAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAGAA
130 GAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAA
* *
1062 ACAATTCTCACATAAATAAGTT
195 ACAATTCTCACGTAAATAAGTA
* * * *
1084 TTTAATTCAAAGACCAAAACTTGTTTGCGAAATGATAAACTATTTAGACCAAATGATGCGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * * *
1149 ACAAGCATGGAATGTTCGAAAAATTGTTCGAA-GAATTGTTCGTCTTGAATACTTTAAGTATCCG
66 ACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCCG
* * *
1213 ATGTTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAA
131 AAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
1278 CAATTCTCACGTAAATAAGTA
196 CAATTCTCACGTAAATAAGTA
* *
1299 TTTAATTCAAAGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * *
1364 AC-AGGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTATCC
66 ACGA-GCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCC
* * * * *
1428 GATGTTATAGAAGAACTACTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAGGAACAAACAGAGAA
130 GAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAA
1493 ACAATTCTCACGTAAATAAGTA
195 ACAATTCTCACGTAAATAAGTA
1515 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTG
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTT-
* * * ** *
1580 C-CGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGATCGCCTTGAATACTTTATGGATCC
65 CACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCC
* * *
1644 GAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTTCAAGAACAAAGAGAGAA
130 GAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAA
* * *
1709 AAAATTCTCACATAAATAAGTT
195 ACAATTCTCACGTAAATAAGTA
* * ** *
1731 TTTAATTCAAAGACCAAAATTTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * * * * * *
1796 CCGACCATGGAATGTTCCG-AAATTTTCTCTAAGGAATGGATCTTGTTGAATACTTTAGGGAACC
66 ACGAGCATGGAATGTT-CGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCC
* * * *
1860 AAAGTTAAAAAATAACTCA-TAAAAGTTTGA-TAGTTTC-AAAGTTCGTCCAAGAACAAAGAGAG
130 GAAGTTATAAAAGAACT-AGTAAAAGTTTGACAAG-TTCGAAAGTTCGTCCAAGAACAAAGAGAG
* *
1922 AAACAATTCTCACGTAAAGAAGTT
193 AAACAATTCTCACGTAAATAAGTA
* * * * *
1946 TTTAATTCAAAGACCAAAACTTTTTTACAAAATGATAAACTATTTAGACCAAATGATGCGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * * *
2011 ACAAGCATGGAATGTTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTATTCG
66 ACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCCG
* * * *
2076 ATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAA
131 AAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
2141 CAATTCTCACGTAAATAAGTA
196 CAATTCTCACGTAAATAAGTA
* *
2162 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATTATTTGATTTC
1 TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
* * * * * *
2227 TCGAGCATGGAATGTTC-AGAAATTTGCCCTAAGGAATGGATCTTGTTGAATACTTTA
66 ACGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTA
2284 CNNNNNNNNN
Statistics
Matches: 1806, Mismatches: 233, Indels: 50
0.86 0.11 0.02
Matches are distributed among these distances:
214 4 0.00
215 385 0.21
216 1404 0.78
217 13 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
TTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACTATTTAGACCAAATGATGTGATTTC
ACGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTATTGAATACTTTAAGGATCCG
AAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAA
CAATTCTCACGTAAATAAGTA
Found at i:1178 original size:12 final size:12
Alignment explanation
Indices: 1161--1190 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1151 AAGCATGGAA
1161 TGTTCGAAAAAT
1 TGTTCGAAAAAT
*
1173 TGTTCGAAGAAT
1 TGTTCGAAAAAT
1185 TGTTCG
1 TGTTCG
1191 TCTTGAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (12 bp):
TGTTCGAAAAAT
Found at i:1512 original size:647 final size:647
Alignment explanation
Indices: 1--2248 Score: 3770
Period size: 647 Copynumber: 3.5 Consensus size: 647
* *
1 GTTTTTAATTCAAAGACCAAAACTTGTTTGCAAAACGATAAACTATTTAGACCAAATGATGCGAT
1 GTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGCGAT
* * *
66 TTCACAGGCATGGAATATTCAAAAAATTGTTCGGAAGAATAGATCGTATTGAATACTTTAAGTAT
66 TTCACAAGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
* *
131 CCGATGTTATAGAAGAACTAGTAAAAGTTTGACAAGTTCAAAAGTTCGTCCAAGAACAAAGAGAG
131 CCGATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAG
* *
196 AAACAATTCTCACGTAAATAAATATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAAAT
196 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
* *
261 ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTCGAAAAATAGCTCGAAGGAATGGAT
261 ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGAT
* * * *
326 CGTCTTGAATACTTTACGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTAACAAGTTCGAAAG
326 CGCCTTGAATACTTTATGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAG
* *
391 TTTGTCCAAAAACAAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAT
391 TTCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAT
456 TTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTCCCGACCATGGAATGTTCCGA
456 TTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTCCCGACCATGGAATGTTCCGA
521 AATTTTCTCTAAGGAATTGATCTTGTTGAATACTTTAGGGAACCAAAGTTAAAAAAAAACTCATA
521 AATTTTCTCTAAGGAATTGATCTTGTTGAATACTTTAGGGAACCAAAGTTAAAAAAAAACTCATA
* *
586 AAAGTTTAATAAGTTTCAAAGTTCGTCCAAGAACAAAGTGAGAAACAATTCTCACGTAAAGAA
586 AAAGTTTGA-AAGTTTCAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAGAA
*
649 GTTTTTAATTCAAAGACCAAAACTTGTTTGCAAAATGATAAACTATTTAGACCAAATGATGCGAT
1 GTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGCGAT
* *
714 TTCACAAGCATGGAATGTTCGAAAAATTGTTCGAAGGAATAGATCGTATTGAATACTTTAAGTAT
66 TTCACAAGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
* *
779 CCGATGGTATAGAAGAACTAATAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAG
131 CCGATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAG
844 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
196 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
909 ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGAT
261 ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGAT
974 CGCCTTGAATACTTTATGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAG
326 CGCCTTGAATACTTTATGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAG
*
1039 TTCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAC
391 TTCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAT
* * * * ** * * *
1104 TTGTTTGCGAAATGATAAACTATTTAGACCAAATGATGCGATTTCACAAGCATGGAATGTT-CGA
456 TTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTCCCGACCATGGAATGTTCCG-
* * * * * * * * * * * * *
1168 AAAATTGT-TCGAA-GAATTGTTCGTCTTGAATACTTTAAGTATCCGATGTTATAGAAGAACT-A
520 -AAATTTTCTCTAAGGAATTGATCTTGTTGAATACTTTAGGGAACCAAAGTTAAAAAAAAACTCA
* *
1230 GTAAAAGTTTGACAAG-TTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAT
584 -TAAAAGTTTGA-AAGTTTC-AAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAG
1294 AA
646 AA
* * *
1296 GTATTTAATTCAAAGACCAAAACTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGAT
1 GTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGCGAT
*
1361 TTCACAGGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
66 TTCACAAGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
* * * *
1426 CCGATGTTATAGAAGAACTACTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAGGAACAAACAGAG
131 CCGATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAG
1491 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
196 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
1556 ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGAT
261 ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGAT
1621 CGCCTTGAATACTTTATGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAG
326 CGCCTTGAATACTTTATGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAG
* *
1686 TTCGTTCAAGAACAAAGAGAGAAAAAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAT
391 TTCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAT
1751 TTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTCCCGACCATGGAATGTTCCGA
456 TTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTCCCGACCATGGAATGTTCCGA
* *
1816 AATTTTCTCTAAGGAATGGATCTTGTTGAATACTTTAGGGAACCAAAGTTAAAAAATAACTCATA
521 AATTTTCTCTAAGGAATTGATCTTGTTGAATACTTTAGGGAACCAAAGTTAAAAAAAAACTCATA
*
1881 AAAGTTTGATAGTTTCAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAGAA
586 AAAGTTTGAAAGTTTCAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAGAA
*
1943 GTTTTTAATTCAAAGACCAAAACTTTTTTACAAAATGATAAACTATTTAGACCAAATGATGCGAT
1 GTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGCGAT
*
2008 TTCACAAGCATGGAATGTTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
66 TTCACAAGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
* *
2073 TCGATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAG
131 CCGATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAG
2138 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
196 AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
* *
2203 ATTTAGACCAAATTATTTGATTT-CTCGAGCATGGAATGTTCAGAAA
261 ATTTAGACCAAATGATGTGATTTGC-CGAGCATGGAATGTT-AGAAA
2249 TTTGCCCTAA
Statistics
Matches: 1486, Mismatches: 103, Indels: 22
0.92 0.06 0.01
Matches are distributed among these distances:
646 11 0.01
647 921 0.62
648 547 0.37
649 7 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (647 bp):
GTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGATAAACTATTTAGACCAAATGATGCGAT
TTCACAAGCATGGAATATTCGAAAAATTGTTCGAAAGAATAGATCGTATTGAATACTTTAAGTAT
CCGATGGTATAGAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAG
AAACAATTCTCACGTAAATAAGTATTTAATTCAAAGACCAAAACTTGTTTGCAAAAAGACAAACT
ATTTAGACCAAATGATGTGATTTGCCGAGCATGGAATGTTAGAAAAATAGCTCGAAGGAGTGGAT
CGCCTTGAATACTTTATGGATCCGAAGTTATAAAAGACCTAGTAAAAGTTTGACAAGTTTGAAAG
TTCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAT
TTGTTTACAAAATTACAAACTATTTAGACCAAATGATTTGATTTCCCGACCATGGAATGTTCCGA
AATTTTCTCTAAGGAATTGATCTTGTTGAATACTTTAGGGAACCAAAGTTAAAAAAAAACTCATA
AAAGTTTGAAAGTTTCAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAAGAA
Found at i:3303 original size:214 final size:217
Alignment explanation
Indices: 2841--3465 Score: 765
Period size: 217 Copynumber: 2.9 Consensus size: 217
2831 NNNNNNNNNN
* * * * *
2841 TAGTAAAAGTTTGACAAGTTCGGAAATTCGTCCA-AGAACAAAGAGAGAAACAATTCTCACGTAA
1 TAGTAAAAGTTTAACAAGTACGGAAGTTCGTCTAGAAAACAAAGAGAGAAACAATTCTCACGTAA
* * *
2905 ATAAGTATTTAATTCAAAGATCAAAACTTGTTTGCAAAAAGACAAAACTATTTAGACCAAATGAT
66 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTGCAAAATGAC-AAACTATTTAGACCAAATGAT
*
2970 GCGATTTGCCGAGCATGGAATGTTCGGAAAATAGCTCGAAGGAATGGATCGTCTTGAATACTTTA
130 GCGATTTCCCGAGCATGGAATGTTCGGAAAATAGCTCGAAGGAATGGATCGTCTTGAATACTTTA
* * *
3035 TGGATCCAAAGTTATAAAAGACC
195 CGGAGCCAAAGTTAAAAAAGACC
* * * * *
3058 TAGTAAAAGTTTCACAAGTACGGAAGTTCGTCTA-AGAAC-GA-AGAGAAACAATTCTCACATAT
1 TAGTAAAAGTTTAACAAGTACGGAAGTTCGTCTAGAAAACAAAGAGAGAAACAATTCTCACGTAA
* * *
3120 ATAAGTTTTTAATTCAAAGACCAAAATTTGTTTACAAAATGACAAACTATTTAGACCAAATGATT
66 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTGCAAAATGACAAACTATTTAGACCAAATGATG
* * ** * * * *
3185 TGATTTCCCGAGCATGGAATGTTCGGAAATTTTCTCTAAGGAATGGATCTTTTTGACTACTTTAC
131 CGATTTCCCGAGCATGGAATGTTCGGAAAATAGCTCGAAGGAATGGATCGTCTTGAATACTTTAC
* * *
3250 GGAGCCAAATTTAAAAAATAGC
196 GGAGCCAAAGTTAAAAAAGACC
* * **
3272 TCGTAAAATTTTAACAAGT-TTGAATGTTCGTCTAGAAAACAAAGAGAGAAACAATTCTCACGTA
1 TAGTAAAAGTTTAACAAGTACGGAA-GTTCGTCTAGAAAACAAAGAGAGAAACAATTCTCACGTA
* * * * * *
3336 AATAAGGTTTTAGTACAAAGACCAAAGCTTGTTTGCAAAATGATAAACAATTTAGACCAAATGAT
65 AATAAGTTTTTAATTCAAAGACCAAAACTTGTTTGCAAAATGACAAACTATTTAGACCAAATGAT
* * * * * * *
3401 GCGATTTCCCAAGCATGGAATGTTCGAAAAATTGTTCGAAAGAATAGATCGTCTTCAATACTTTA
130 GCGATTTCCCGAGCATGGAATGTTCGGAAAATAGCTCGAAGGAATGGATCGTCTTGAATACTTTA
3466 AGTATC
Statistics
Matches: 345, Mismatches: 59, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
213 3 0.01
214 118 0.34
215 61 0.18
216 2 0.01
217 161 0.47
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (217 bp):
TAGTAAAAGTTTAACAAGTACGGAAGTTCGTCTAGAAAACAAAGAGAGAAACAATTCTCACGTAA
ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTGCAAAATGACAAACTATTTAGACCAAATGATG
CGATTTCCCGAGCATGGAATGTTCGGAAAATAGCTCGAAGGAATGGATCGTCTTGAATACTTTAC
GGAGCCAAAGTTAAAAAAGACC
Done.