Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009431.1 Kokia drynarioides strain JFW-HI SEQ_124138, 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: 4091
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Warning! 38 characters in sequence are not A, C, G, or T
Found at i:917 original size:216 final size:213
Alignment explanation
Indices: 1--3823 Score: 3472
Period size: 216 Copynumber: 17.8 Consensus size: 213
* * * * *
1 CAAAAAACTGCTCTAAGGAATGGATTGTCCTTAATACTTTAAGAAACCAAAGTTATTGAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAA-CAAAGTTATAGAAGAACT
* * * * *
66 CATAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACCAAAAGAAAAACAACTCTCACGTAAAT
65 CGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * *
131 AGGTTTTTAATTTCAAAGACCAAAAGTTGTTTA-GAAATGACAAACTATTTAGACAAAATGATGC
128 AAGTTTTTAA-TTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
*
195 GATTTCCCGTGCATGGAATGTT
192 GATTTCCCGAGCATGGAATGTT
*** * * * * * * *
217 TGGAAAATTGCTAGAAGGAATTGATCGT-ATTGAATACTTTATGGAACTGAAGGTT-TAAAAGAA
1 CAAAAAATTGCTCGAAGGAATGGATTGTCA-TGAATACTTTAAGAAAC--AAAGTTATAGAAGAA
* ** * * * * * * *
280 CTTGCGAAACTTCATCAAGTTTAGAAGTTCATCCAAGAACAAAGAGAGAAACAATTCTCATGTAA
63 CTCGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAA
* * * * *
345 ATAAGATTTTAATTTAAATACCAAAAGTTGTTTA-AAAATGGCAAACTATTTAGACCAAATGATA
126 ATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
* *
409 TGATTTCCCGAGCATGCAATGTT
191 CGATTTCCCGAGCATGGAATGTT
* * * * *
432 CGAAAAATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGGAACGAAAGTGATAGATGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAAC-AAAGTTATAGAAGAACT
* * ** * *
497 GGTAAAAGTTTTCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACACCTCTCATGTAAAT
65 CGTAAAAGTTGT-CAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* ** * * *
562 AAGTTTTTCATTCAAAGACCAAAAGTCATTTAGAATATGAC--AGTATTTAGACCAAATGATGCG
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
* *
625 ATTTCTCGAGCATGAAATGTT
193 ATTTCCCGAGCATGGAATGTT
* * * * * *
646 CAAAAAATTACTCTAAGTAATGGATTATCTTGAATACTTTAAGAAATCGAAGTTATAGAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAA-CAAAGTTATAGAAGAACT
* * *
711 CATAAAAGTATGTCAAGTTTGGAAGTTCGTCTAAGAGCCAAGAGAGAAAAACCTCTCACGTAAAT
65 CGTAAAAGT-TGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAAAA-CTCTCACGTAAAT
* * * * * *
776 AGGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAAATGAAAAACTATTTAGACTAAATCATGCA
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
841 ATTTCCCGAGCATGGAATGTT
193 ATTTCCCGAGCATGGAATGTT
* * * * * * *
862 CAAAAAATTACTCGGAGGAATGGATTGTCATGAATACTTTAATGGAGCAAAGTTATTGAACAACA
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAA-GAAACAAAGTTATAGAAGAACT
* * * * * * * *
927 GGTAAAAGTTTGTGAAGTTAGGAAGTTTGTCCATGATCCAAGAGATAATAAATTCTCACGTAAAT
65 CGTAAAAG-TTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAA-AAACTCTCACGTAAAT
* * * * * *
992 AAGTTTTTAATT-AAATGACCAAAAGTTGTATACCAAATGACAAACTATGTAGACAAAATAATGT
128 AAGTTTTTAATTCAAA-GACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
*
1056 GATTTCCCAAGCATGGAATGTT
192 GATTTCCCGAGCATGGAATGTT
* *
1078 CAGAAAATTGCTCGAAGGAATGGATTGT-ATGAATACTTTAAAGAATCAAAGTTATAGAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTT-AAGAAACAAAGTTATAGAAGAACT
* * * *** * * *
1142 CGTTAAAGTTTGTCAAGTTTAGAAGTTCATCCAATTTCCAAGAGAG-AGAATTCTCATGTAAATA
65 CGTAAAAG-TTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAAAACTCTCACGTAAATA
* * * ** *
1206 AGTTTTTCATTCAAGGACCAAAAGTTGTTTACCAAATGACAAA-TAGTTTAGAAAAAATTATGCG
129 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGCG
* *
1270 ATTTCCCAAGCATGAAATGTT
193 ATTTCCCGAGCATGGAATGTT
* * * * * *
1291 CGAAAAATTGCTCGAAGGAATGGATCGTCATTAATACTTTATGAAACTGAAGTTATAAAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAAC-AAAGTTATAGAAGAACT
* * * ** * *
1356 CGTAAACGTTTGCCAAGTTTGAAAGTTTATCCAAGAACCAAGATAAAAACAACTCTCA--TAAAT
65 CGTAAAAG-TTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * * * * * * * *
1419 AAGTATTTCATTCAAAGACCAAAACTAGTCTAGAAATTGACAAAGTATTTAGACCAAATGATGTG
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
** *
1484 CCTTCCCGAGCATGTAATGTT
193 ATTTCCCGAGCATGGAATGTT
* * * *
1505 CAAAAAACTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACCAAAGTTATTGAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAA-CAAAGTTATAGAAGAACT
* * * * * * *
1570 CATAAAAGTTCGTTAAGTTTGGAAGTTCATCTAAGAAACAATAGAAAAACAACTCTCACGTAAAT
65 CGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * * ** *
1635 AGGTTTTTAATTCAAGGACCAAAAGTTGTTTA-GAAATGACAAACTATTTAGAAAAAATGATACG
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
*
1699 ATTTCCCGTGCATGGAATGTT
193 ATTTCCCGAGCATGGAATGTT
*** * * ** * ** * * *
1720 TGGAAAATTGCTAGAAGGAATTGATCATTATGAATACTTTTTGGAACTGAAGGTT-TAAAAGAAC
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAAC--AAAGTTATAGAAGAAC
* * * * * * * * *
1784 TTGTGAAACTTCATCAAGTTCGGAAG-T--T-C----A--AAGAGA-AACAATTCTTAAGTAAAT
64 TCGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAAAACTCTCACGTAAAT
* * *
1838 AAGATTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGGA-AAACTATTTAGACCAAATGATGT
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAT-GACAAACTATTTAGACCAAATGATGC
* *
1902 GATTTCCCGAGCATGAAACGTT
192 GATTTCCCGAGCATGGAATGTT
* * * * * *
1924 CAGAAAATTGCTTGAAGGAATGGATTATCATGAATACTTTAAGGAACGAAAGTTATTGATGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAAC-AAAGTTATAGAAGAACT
* * * *** * *
1989 GGTAAAAGTTTTACATGTTCAAAAGTTCGTCCAAGAATCAGGAGAGAAACAACTCTCACGTAAAT
65 CGTAAAAGTTGT-CAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * * *
2054 AAGTTTTTCATTCAAAGACCAAAAGTCGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGCG
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
*
2119 ATTTCTCGAGCATGGAATGTT
193 ATTTCCCGAGCATGGAATGTT
* * *
2140 CAAAAAATTGCTCTAAGGAATGGATTGTCTTGAATACTTGAAGAAATCAAAGTTATAGAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAA-CAAAGTTATAGAAGAACT
* * * * * *
2205 CATAAACGTATGTCTAGTTTGGAAGTTCGTCTAAGAGCCAA-ACGAGAAACAACTCTCACATAAA
65 CGTAAAAGT-TGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGA-GAGAAA-AACTCTCACGTAAA
* * * *
2269 TAGGTTTTAAATTCAAGGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGA-CATAATGATG
127 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCA-AATGATG
* *
2333 CGATTTCCCGTGCTTGGAATGTT
191 CGATTTCCCGAGCATGGAATGTT
*** * * * * * *
2356 GGGAAAATTCCTCGAAGGAATGAATCT-TCATGAATACTTTAAGGAACTGAAGTTTTAAAAGAAC
1 CAAAAAATTGCTCGAAGGAATGGAT-TGTCATGAATACTTTAAGAAAC-AAAGTTATAGAAGAAC
* * * *
2420 TCGTAAAACTTCGTCATGTTCGGAAGTTCGTCCAAG-ACCAAAGAGAGAAAAAACTCTCACATAA
64 TCGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACC-AAGAGAG-AAAAACTCTCACGTAA
* *
2484 ATAACTTTTTAATTTATAA-ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
126 ATAAGTTTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
* *
2548 GTGATTTCTCGAGCATGGAATGTT
190 GCGATTTCCCGAGCATGGAATGTT
* * * * * *
2572 CAAAAAATTACTCGAAGGAGTGGATTGTCATGAATACTTTAATGAATCAAAGTTACAAAACAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAA-GAAACAAAGTTATAGAAGAACT
* * * * * * * * *
2637 GGTAAAATTTTGTGAAGTTAGGAAGTTTGTCCATGATCCAAGAGATAATAAATTCTCACGTAAAT
65 CGTAAAA-GTTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAA-AAACTCTCACGTAAAT
* * ** * *
2702 AAGTTTTTAATT-AAATGACCAAAAGTTGTATACCAAATGACAAACTAAGTAGACAAAATGATGT
128 AAGTTTTTAATTCAAA-GACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
2766 GATTTCCCTG-GCATGGAATGTT
192 GATTTCCC-GAGCATGGAATGTT
* * * * * *
2788 CAGAAAATTGCTCGAAGGAATGGATCGTCATGAAAACTTTAAAGAATCGAAGTTATAGAAGAAGT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTT-AAGAAACAAAGTTATAGAAGAACT
* * * * * * * *
2853 CGTCAAAGTTTATCAAGTTTAGAAGTTCATCCAATATCCAAGAGAGAAACAATTCTCATGTAAAT
65 CGTAAAAG-TTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * * * ** *
2918 AAGTTTTTCATTCAAAGCCCAAAAGTTGCTTACCAAATGACAAA-TAGTTTAGAAAAAAAATGGT
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAG--ACCAAATGAT
* ** *
2982 GCGATTTCCCAAGCATTAAATTTT
190 GCGATTTCCCGAGCATGGAATGTT
* * * * * * * * *
3006 CGAAAAATTTCTCGACGGAAAGGATCGTCATGAATACTTTATTG-AACTGAAGTTATAAAATAAC
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTA-AGAAAC-AAAGTTATAGAAGAAC
* ** * *
3070 TCGTAAAAGCTTGCCAAGTTCAGAAGTTCGTCCATGAACCAAGATAGAAAGAACTCTCACGTAAG
64 TCGTAAAAG-TTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAA-
* * * * *
3135 A-AAGTTTTTCATTCAGAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATG
126 ATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
* * *
3199 TGATTTCCCGAGTATGTAATGTT
191 CGATTTCCCGAGCATGGAATGTT
* * * * * *
3222 CAAAAAATTGCTCTAA-GAATGGGTTGTCCTTAATACTTTAAGAAACCGAAGTTATTGAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAA-CAAAGTTATAGAAGAACT
* * * *
3286 CGTAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAAAACTCTCATGTAAATA
65 CGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAAAACTCTCACGTAAATA
* * * * *
3351 GGGTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATTTAGACAAAATGATGCGA
129 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * * *
3416 TTTACTGTGCATGGATTGCT
194 TTTCCCGAGCATGGAATGTT
* * * * *** * *
3436 CGAAAAATTACTGGAAGGAATGGATCGTCATGAATACTTTAAGGAATTGAAGTTTTAAAAGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAA-GAAACAAAGTTATAGAAGAACT
* * * * * * ** * *
3501 TGCAAAACTTCATCAAGTTCGAAAGTTCGTCCAAGAATAAAGAGAGAAACAATTCTCACATAAAT
65 CGTAAAAGTT-GTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * * * **
3566 AAGATTTTAATTTAAATACCAAAAGTTGTTTACAAAATGGCAAACTATTTAGACCAAATGATTTG
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
*
3631 ATTTCCCGAGCATGCAATGTT
193 ATTTCCCGAGCATGGAATGTT
** * * * *
3652 CGGAAAATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGTAACGAAAGTAATAGATGAACT
1 CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAAC-AAAGTTATAGAAGAACT
* * ** *
3717 AGTAAAAGTTTTCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTTACGTAAAT
65 CGTAAAAGTTGT-CAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-AACTCTCACGTAAAT
* * *
3782 AAGTTTTTCATTCAAAGACCAAAAGTCGTTTAGAAAATGACA
128 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACA
3824 NNNNNNNNNN
Statistics
Matches: 2923, Mismatches: 596, Indels: 176
0.79 0.16 0.05
Matches are distributed among these distances:
203 47 0.02
204 106 0.04
205 8 0.00
207 2 0.00
208 1 0.00
212 4 0.00
213 120 0.04
214 519 0.18
215 533 0.18
216 1374 0.47
217 38 0.01
218 168 0.06
219 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (213 bp):
CAAAAAATTGCTCGAAGGAATGGATTGTCATGAATACTTTAAGAAACAAAGTTATAGAAGAACTC
GTAAAAGTTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAAAACTCTCACGTAAATAAG
TTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
TCCCGAGCATGGAATGTT
Found at i:2918 original size:864 final size:859
Alignment explanation
Indices: 119--3823 Score: 4135
Period size: 864 Copynumber: 4.3 Consensus size: 859
109 GAAAAACAAC
* *
119 TCTCACGTAAATAGGTTTTTAATTTCAAA-GACCAAAAGTTGTTTA-GAAATGACAAACTATTTA
1 TCTCACGTAAATAAGTTTTTAATTT-AAATGACCAAAAGTTGTTTACAAAATGACAAACTATTTA
* * ** * * *
182 GACAAAATGATGCGATTTCCCGTGCATGGAATGTTTGGAAAATTGCTAGAAGGAATTGATCGT-A
65 GACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCA
** * * ** * *
246 TTGAATACTTTATGGAACTGAAGGTT-TAAAAGAACTTGCGAAACTTCATCAAGTTTAGAAGTTC
130 -TGAATACTTTAAAGAAC-GAA-GTTATAGAAGAACTCGTAAAAGTT-TTCAAGTTTAGAAGTTC
* * * * * *
310 ATCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGATTTTAATTTAAATACCAAAAGTTG
191 ATCCAAGATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTG
* ** ** * *
375 TTTA-AAAATGGCAAACTA-TTTAGACCAAATGATATGATTTCCCGAGCATGCAATGTTCGAAAA
256 TTTACAAAATGACAAA-TAGTTTAGAAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAA
* * * * * * *
438 ATTGCTTGAAGGAATGGATTGTCATGAATACTTTAAGGAACGAAAGTGATAGATGAACTGGTAAA
320 ATTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGAAACGAAAGTTATAAAAGAACTCGTAAA
* * **
503 AGTTTTCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACACCTCTCATGTAAATAAGTTT
385 AG-TTGCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACATAAATAAGTTT
*
568 TTCATTCAAAGACCAAAAGTCA-TTTAGAATATGAC--AGTATTTAGACCAAATGATGCGATTTC
449 TTCATTCAAAGACCAAAAGT-AGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGCGATTTC
* * * * * * *
630 TCGAGCATGAAATGTTCAAAAAATTACTCTAAGTAATGGATTATCTTGAATACTTTAAGAAATCG
513 CCGAGCATGTAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACCG
* * *
695 AAGTTATAGAAGAACTCATAAAAGTAT-GTCAAGTTTGGAAGTTCGTCTAAGAGCCAAGAGAGAA
578 AAGTTATTGAAGAACTCATAAAAGT-TCGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGA-AA
* * *
759 AAACCTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTCACAAAATGAAAAACTAT
641 AAAACTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTAT
* * * * *
824 TTAGACTAAATCATGCAATTTCCCGAGCATGGAATGTTCAAAAAATTACTCGGAGGAATGGATTG
706 TTAGACAAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTACTCGAAGGAATGGATCG
* * ** * * ** *
889 TCATGAATACTTTAATGGAGCAAAGTTATTGAACAACAGGTAAAAGTTTGTGAAGTTAGGAAGTT
771 TCATGAATACTTTAATGAATCAAAGTTATAAAACAACTGGTAAAACTTCATCAAGTTAGGAAGTT
954 TGTCCATGATCCAAGAGATAATAAAT
836 TGTCCATGAT-CAAGAGATAA-AAAT
* * *
980 TCTCACGTAAATAAGTTTTTAA-TTAAATGACCAAAAGTTGTATACCAAATGACAAACTATGTAG
1 TCTCACGTAAATAAGTTTTTAATTTAAATGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
* *
1044 ACAAAATAATGTGATTTCCCAAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGT-AT
66 ACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCAT
* *
1108 GAATACTTTAAAGAATCAAAGTTATAGAAGAACTCGTTAAAGTTTGTCAAGTTTAGAAGTTCATC
131 GAATACTTTAAAGAA-CGAAGTTATAGAAGAACTCGTAAAAGTTT-TCAAGTTTAGAAGTTCATC
** * *
1173 CAATTTCCAAGAGAG--AGAATTCTCATGTAAATAAGTTTTTCATTCAAGGACCAAAAGTTGTTT
194 CAAGATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTT
* *
1236 ACCAAATGACAAATAGTTTAGAAAAAATTATGCGATTTCCCAAGCATGAAATGTTCGAAAAATTG
259 ACAAAATGACAAATAGTTTAGAAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAAATTG
* * *
1301 CTCGAAGGAATGGATCGTCATTAATACTTTATGAAACTG-AAGTTATAAAAGAACTCGTAAACGT
324 CTCGAAGGAATGGATCGTCATGAATACTTTAAGAAAC-GAAAGTTATAAAAGAACTCGTAAAAG-
* ** * * *
1365 TTGCCAAGTT-TGAAAGTTTATCCAAGAACCAAGATAAAAACAACTCT--CATAAATAAGTATTT
387 TTGCCAAGTTCAG-AAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACATAAATAAGTTTTT
* * * * **
1427 CATTCAAAGACCAAAACTAGTCTAGAAATTGACAAAGTATTTAGACCAAATGATGTGCCTTCCCG
451 CATTCAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGCGATTTCCCG
* *
1492 AGCATGTAATGTTCAAAAAACTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACCAAAG
516 AGCATGTAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACCGAAG
* * *
1557 TTATTGAAGAACTCATAAAAGTTCGTTAAGTTTGGAAGTTCATCTAAGAAACAATAGAAAAACAA
581 TTATTGAAGAACTCATAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAA-AA
* *
1622 CTCTCACGTAAATAGGTTTTTAATTCAAGGACCAAAAGTTGTTTA-GAAATGACAAACTATTTAG
645 CTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
* * * *** * * * * *
1686 AAAAAATGATACGATTTCCCGTGCATGGAATGTTTGGAAAATTGCTAGAAGGAATTGATCATTAT
710 ACAAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTACTCGAAGGAATGGATCGTCAT
* * * * * * *
1751 GAATACTTT-TTGGAACTGAAGGTT-TAAAAGAACTTGTGAAACTTCATCAAGTTCGGAAG--T-
775 GAATACTTTAAT-GAA-TCAAAGTTATAAAACAACTGGTAAAACTTCATCAAGTTAGGAAGTTTG
*
1811 T-C---A--AAGAGA-AACAAT
838 TCCATGATCAAGAGATAAAAAT
* * *
1826 TCTTAAGTAAATAAGATTTTAATTTAAA-GACCAAAAGTTGTTTACAAAATGGA-AAACTATTTA
1 TCTCACGTAAATAAGTTTTTAATTTAAATGACCAAAAGTTGTTTACAAAAT-GACAAACTATTTA
* * * * *
1889 GACCAAATGATGTGATTTCCCGAGCATGAAACGTTCAGAAAATTGCTTGAAGGAATGGATTATCA
65 GACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCA
* * * * * * * *
1954 TGAATACTTTAAGGAACGAAAGTTATTGATGAACTGGTAAAAGTTTTACATGTTCAAAAGTTCGT
130 TGAATACTTTAAAGAACG-AAGTTATAGAAGAACTCGTAAAAGTTTT-CAAGTTTAGAAGTTCAT
* * * *
2019 CCAAGAAT-CAGGAGAGAAACAACTCTCACGTAAATAAGTTTTTCATTCAAAGACCAAAAGTCGT
193 CCAAG-ATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGT
* ** * * * *
2083 TTAGAAAATGACAAAGTA-TTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCAAAAAA
257 TTACAAAATGACAAA-TAGTTTAGAAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAAA
* * * * * *
2147 TTGCTCTAAGGAATGGATTGTCTTGAATACTTGAAGAAATC-AAAGTTATAGAAGAACTCATAAA
321 TTGCTCGAAGGAATGGATCGTCATGAATACTTTAAGAAA-CGAAAGTTATAAAAGAACTCGTAAA
* * * ** * * *
2211 CGTATGTCTAGTTTGGAAGTTCGTCTAAGAGCCAA-ACGAGAAACAACTCTCACATAAATAGGTT
385 AGT-TGCCAAGTTCAGAAGTTCGTCCAAGAACCAAGA-GAGAAACAACTCTCACATAAATAAGTT
** * * *
2275 TTAAATTCAAGGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGA-CATAATGATGCGATTT
448 TTTCATTCAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCA-AATGATGCGATTT
* * * *** * * * * *
2339 CCCGTGCTTGGAATGTTGGGAAAATTCCTCGAAGGAATGAATCT-TCATGAATACTTTAAGGAAC
512 CCCGAGCATGTAATGTTCAAAAAATTGCTCTAAGGAATGGAT-TGTCCTGAATACTTTAAGAAAC
* * * * * * * *
2403 TGAAGTT-TTAAAAGAACTCGTAAAACTTCGTCATGTTCGGAAGTTCGTCCAAG-ACCAAAGAGA
576 CGAAGTTATT-GAAGAACTCATAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACC-AAGAGA
* ** *
2466 GAAAAAACTCTCACATAAATAACTTTTTAATTTATAA-ACCAAAAGTTGTTTACAAAATGACAAA
639 -AAAAAACTCTCACGTAAATAGGTTTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGACAAA
* * * *
2530 CTATTTAGACCAAATGATGTGATTTCTCGAGCATGGAATGTTCAAAAAATTACTCGAAGGAGTGG
702 CTATTTAGACAAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTACTCGAAGGAATGG
* * * ** *
2595 ATTGTCATGAATACTTTAATGAATCAAAGTTACAAAACAACTGGTAAAATTTTGTGAAGTTAGGA
767 ATCGTCATGAATACTTTAATGAATCAAAGTTATAAAACAACTGGTAAAACTTCATCAAGTTAGGA
2660 AGTTTGTCCATGATCCAAGAGATAATAAAT
832 AGTTTGTCCATGAT-CAAGAGATAA-AAAT
* * **
2690 TCTCACGTAAATAAGTTTTTAA-TTAAATGACCAAAAGTTGTATACCAAATGACAAACTAAGTAG
1 TCTCACGTAAATAAGTTTTTAATTTAAATGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
*
2754 ACAAAATGATGTGATTTCCCTG-GCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATCGTCA
66 ACAAAATGATGTGATTTCCC-GAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCA
* * *
2818 TGAAAACTTTAAAGAATCGAAGTTATAGAAGAAGTCGTCAAAGTTTATCAAGTTTAGAAGTTCAT
130 TGAATACTTTAAAGAA-CGAAGTTATAGAAGAACTCGTAAAAGTTT-TCAAGTTTAGAAGTTCAT
* * *
2883 CCAATATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGCCCAAAAGTTGCT
193 CCAAGATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTT
* * * *
2948 TACCAAATGACAAATAGTTTAGAAAAAAAATGGTGCGATTTCCCAAGCATTAAATTTTCGAAAAA
258 TACAAAATGACAAATAGTTTAG--AAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAAA
* * * * *
3013 TTTCTCGACGGAAAGGATCGTCATGAATACTTTATTG-AACTG-AAGTTATAAAATAACTCGTAA
321 TTGCTCGAAGGAATGGATCGTCATGAATACTTTA-AGAAAC-GAAAGTTATAAAAGAACTCGTAA
* * * *
3076 AAGCTTGCCAAGTTCAGAAGTTCGTCCATGAACCAAGATAGAAAGAACTCTCACGTAAGA-AAGT
384 AAG-TTGCCAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACATAA-ATAAGT
* *
3140 TTTTCATTCAGAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGTGATTT
447 TTTTCATTCAAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGCGATTT
* * *
3205 CCCGAGTATGTAATGTTCAAAAAATTGCTCTAA-GAATGGGTTGTCCTTAATACTTTAAGAAACC
512 CCCGAGCATGTAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACC
*
3269 GAAGTTATTGAAGAACTCGTAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAA
577 GAAGTTATTGAAGAACTCATAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAA
* * * *
3334 AAACTCTCATGTAAATAGGGTTTTCATTCAAAGACCAAAAGTTGTTTACCAAATGACAAACTATT
642 AAACTCTCACGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATT
* * * * * * *
3399 TAGACAAAATGATGCGATTTACTGTGCATGGATTGCTCGAAAAATTACTGGAAGGAATGGATCGT
707 TAGACAAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTACTCGAAGGAATGGATCGT
* ** * * * * * * *
3464 CATGAATACTTTAAGGAATTGAAGTTTTAAAAGAACTTGCAAAACTTCATCAAGTTCGAAAGTTC
772 CATGAATACTTTAATGAATCAAAGTTATAAAACAACTGGTAAAACTTCATCAAGTTAGGAAGTTT
* * *
3529 GTCCAAGAATAAAGAGAGAAACAAT
837 GTCCATG-ATCAAGAGATAAA-AAT
* * *
3554 TCTCACATAAATAAGATTTTAATTTAAAT-ACCAAAAGTTGTTTACAAAATGGCAAACTATTTAG
1 TCTCACGTAAATAAGTTTTTAATTTAAATGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
* * * * *
3618 ACCAAATGATTTGATTTCCCGAGCATGCAATGTTCGGAAAATTGCTTGAAGGAATGGATTGTCAT
66 ACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCAT
* * * * *
3683 GAATACTTT-AAGTAACGAAAGTAATAGATGAACTAGTAAAAGTTTTCCAAGTTCAGAAGTTCGT
131 GAATACTTTAAAG-AACG-AAGTTATAGAAGAACTCGTAAAAGTTTT-CAAGTTTAGAAGTTCAT
* * * * *
3747 CCAAGAACCAAGAGAGAAACAACTCTTACGTAAATAAGTTTTTCATTCAAAGACCAAAAGTCGTT
193 CCAAGATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTT
*
3812 TAGAAAATGACA
258 TACAAAATGACA
3824 NNNNNNNNNN
Statistics
Matches: 2352, Mismatches: 412, Indels: 157
0.81 0.14 0.05
Matches are distributed among these distances:
846 109 0.05
847 72 0.03
848 9 0.00
849 181 0.08
850 10 0.00
851 202 0.09
852 111 0.05
853 1 0.00
854 2 0.00
855 2 0.00
856 3 0.00
857 40 0.02
858 152 0.06
859 330 0.14
860 79 0.03
861 93 0.04
862 6 0.00
863 23 0.01
864 627 0.27
865 85 0.04
866 209 0.09
867 6 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (859 bp):
TCTCACGTAAATAAGTTTTTAATTTAAATGACCAAAAGTTGTTTACAAAATGACAAACTATTTAG
ACAAAATGATGTGATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTGTCAT
GAATACTTTAAAGAACGAAGTTATAGAAGAACTCGTAAAAGTTTTCAAGTTTAGAAGTTCATCCA
AGATCCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTCATTCAAAGACCAAAAGTTGTTTAC
AAAATGACAAATAGTTTAGAAAAAATGATGCGATTTCCCAAGCATGAAATGTTCGAAAAATTGCT
CGAAGGAATGGATCGTCATGAATACTTTAAGAAACGAAAGTTATAAAAGAACTCGTAAAAGTTGC
CAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAACTCTCACATAAATAAGTTTTTCATTC
AAAGACCAAAAGTAGTTTAGAAAATGACAAAGTATTTAGACCAAATGATGCGATTTCCCGAGCAT
GTAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCCTGAATACTTTAAGAAACCGAAGTTATT
GAAGAACTCATAAAAGTTCGTCAAGTTTGGAAGTTCATCTAAGAACCAAGAGAAAAAAACTCTCA
CGTAAATAGGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACAAAA
TGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTACTCGAAGGAATGGATCGTCATGAATAC
TTTAATGAATCAAAGTTATAAAACAACTGGTAAAACTTCATCAAGTTAGGAAGTTTGTCCATGAT
CAAGAGATAAAAAT
Done.