Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005686.1 Kokia drynarioides strain JFW-HI SEQ_119882, 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: 2347
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Found at i:375 original size:216 final size:215
Alignment explanation
Indices: 1--822 Score: 1005
Period size: 216 Copynumber: 3.8 Consensus size: 215
* *
1 TCATTTTGTAAATAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
1 TCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* * * * * ** *
66 TGGTTGTTGGACGAACTTACGAAATTTTAAAACTTTTACGAGTTCTTTTTTA-AATCTGGTTCCT
66 TGGTTCTTGGACGAACTTACGAACTTGTCAAACTTTTACGAGTTCTTTTATAGCTTC-AGTTCCT
* * * * *
130 TAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGACCATTCCATGCGAGGGAAATCTC
130 TAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATTCCATGCGAGGGAAATCTC
*
195 ATCATTCGGTCTAACTAGTTTT
195 ATCATTTGGTCTAA-TAGTTTT
* *
217 TCATTTTGTAAACATGTTTTGATCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
1 TCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* *
282 TGGTTCTTGGACGAACATACGAACTTGTCGAACTTTTGA-GAGTTCTTTTATAGCTTCAGTTCCT
66 TGGTTCTTGGACGAACTTACGAACTTGTCAAACTTTT-ACGAGTTCTTTTATAGCTTCAGTTCCT
* * * * * *
346 TAAAGTATGCAAGAAGATCCAATCCTTCGAGCAA-TTTTCTGAAAATTACATTC-ACGGGAAGTC
130 TAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTC-GAACATTCCATGCGA-GGGAAATC
* * *
409 GCATCATTTGGTCTAAAAGGTTTG
193 TCATCATTTGGTCTAATA-GTTTT
* *
433 TCATTTTGTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TT-TCTCT
1 TCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* * * * * * * **
496 TAGTTGTTGGACGAACTT-CTGAACTTATCAAACTTTTACTATTTCTTTTTTAAG-TCCAGTGAC
66 TGGTTCTTGGACGAACTTAC-GAACTTGTCAAACTTTTACGAGTTCTTTTAT-AGCTTCAGTTCC
* * * * *
559 TTAAAGTGTTCAAGACGATACATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCG
129 TTAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATTCCATGCGAGGGAAATC-
624 T-ATCATTTGGTCTAAATAGTTTT
193 TCATCATTTGGTCT-AATAGTTTT
* * * * *
647 TTATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATATTTACGTGAGAATTATGTCTCTCT
1 TCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* *
712 TGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAGCTTCGGTTCCTT
66 TGGTTCTTGGACGAACTTACGAACTTGTCAAACTTTTACGAGTTCTTTTATAGCTTCAGTTCCTT
* *
777 ACAGTATTCAAGACGATCCAATCCTTCGGGCAATTTTTCGAACATT
131 AAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATT
823 TTCAAATCCA
Statistics
Matches: 508, Mismatches: 82, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
213 2 0.00
214 162 0.32
215 22 0.04
216 318 0.63
217 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (215 bp):
TCATTTTGTAAACAAGTTTTGACCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
TGGTTCTTGGACGAACTTACGAACTTGTCAAACTTTTACGAGTTCTTTTATAGCTTCAGTTCCTT
AAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATTCCATGCGAGGGAAATCTCA
TCATTTGGTCTAATAGTTTT
Found at i:803 original size:430 final size:432
Alignment explanation
Indices: 1--813 Score: 1276
Period size: 430 Copynumber: 1.9 Consensus size: 432
* *
1 TCATTTTGTAAATAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
1 TCATTTTGTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* * ** **
66 TGGTTGTTGGACGAACTTACGAAATTTTAAAACTTTTACGAGTTCTTTTTTAAATCTGGTTCCTT
66 TAGTTGTTGGACGAACTTACGAAATTATAAAACTTTTACGAGTTCTTTTTTAAATCCAGTGACTT
* *
131 AAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGACCATTCCATGCGAGGGAAATCTCA
131 AAAGTGTTAAAGACGATACATTCCTTCGAGTAATTTTTCGAACATTCCATGCGAGGGAAATCTCA
* * *
196 TCATTCGGTCTAACTAGTTTTTCATTTTGTAAACATGTTTTGATCTTTGAATTAAAAACTTATTT
196 TCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATATTT
* * *
261 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATACGAACTTGTCGAACTTTTGAGAGTT
261 ACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACATACGAACTTGTCAAACTTTTGAGAGTT
326 CTTTTATAGCTTCAGTTCCTTAAAGTATGCAAGAAGATCCAATCCTTCGAGCAATTTTCTGAAAA
326 CTTTTATAGCTTCAGTTCCTTAAAGTATGCAAGAAGATCCAATCCTTCGAGCAATTTTCTGAAAA
391 TTACATTCACGGGAAGTCGCATCATTTGGTCTAAAAGGTTTG
391 TTACATTCACGGGAAGTCGCATCATTTGGTCTAAAAGGTTTG
433 TCATTTTGTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TT-TCTCT
1 TCATTTTGTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* * * * *
496 TAGTTGTTGGACGAACTT-CTGAACTTATCAAACTTTTACTATTTCTTTTTTAAGTCCAGTGACT
66 TAGTTGTTGGACGAACTTAC-GAAATTATAAAACTTTTACGAGTTCTTTTTTAAATCCAGTGACT
* *
560 TAAAGTGTTCAAGACGATACATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCGT
130 TAAAGTGTTAAAGACGATACATTCCTTCGAGTAATTTTTCGAACATTCCATGCGAGGGAAATC-T
* *
625 -ATCATTTGGTCTAAATAGTTTTTTATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATAT
194 CATCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATAT
* *
689 TTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTT-ACGA
259 TTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACATACGAACTTGTCAAACTTTTGA-GA
* * * * *
753 GTTCTTTTATAGCTTCGGTTCCTTACAGTATTCAAGACGATCCAATCCTTCGGGCAATTTT
323 GTTCTTTTATAGCTTCAGTTCCTTAAAGTATGCAAGAAGATCCAATCCTTCGAGCAATTTT
814 TCGAACATTT
Statistics
Matches: 346, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
429 2 0.01
430 287 0.83
431 3 0.01
432 54 0.16
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (432 bp):
TCATTTTGTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
TAGTTGTTGGACGAACTTACGAAATTATAAAACTTTTACGAGTTCTTTTTTAAATCCAGTGACTT
AAAGTGTTAAAGACGATACATTCCTTCGAGTAATTTTTCGAACATTCCATGCGAGGGAAATCTCA
TCATTCGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATATTT
ACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACATACGAACTTGTCAAACTTTTGAGAGTT
CTTTTATAGCTTCAGTTCCTTAAAGTATGCAAGAAGATCCAATCCTTCGAGCAATTTTCTGAAAA
TTACATTCACGGGAAGTCGCATCATTTGGTCTAAAAGGTTTG
Found at i:1068 original size:279 final size:279
Alignment explanation
Indices: 558--1101 Score: 759
Period size: 279 Copynumber: 1.9 Consensus size: 279
548 AGTCCAGTGA
* **
558 CTTAAAGTGTTCAAGACGATACATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATC
1 CTTAAAGTGTTAAAGACGATACATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATC
* * * *
623 GTATCATTTGGTCTAAATAGTTTTTTATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATA
66 GCATCATTTGGTCTAAATAGTTTTTCATTTCGTAAACAAGTTTTGATCTTCGAATTAAAAACATA
* * * **
688 TTTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGA
131 TTTACATGAGAATTATGTCTCTCTTGGTTCTTGGACGAAATTCCGAAATTGAAAAACTTTTACGA
* * ** * * * *
753 GTTCTTTTATAGCTTCGGTTCCTTACAGTATTCAAGACGATCCAATCCT-TCGGGCAATTTTTCG
196 GTTCGTTTATAGCTTCAGTTAATTAAAGGATTCAAGACGATCC-ATCCTCTCGAGCAATTTTGCG
817 AACATTTTCAAATCCAATTC
260 AACATTTTCAAATCCAATTC
* * *
837 CTTAAAGTGTTAAATACGATCCATTCCTTCGAGTAATTTTGCGAACATTCCATGTGAGGGAAATC
1 CTTAAAGTGTTAAAGACGATACATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATC
* *
902 GCATCATTTGGTTTAAATAGTTTTTCATTTCGTAAACAAGTTCTT-ATCTTCGAATTAAAAACTT
66 GCATCATTTGGTCTAAATAGTTTTTCATTTCGTAAACAAGTT-TTGATCTTCGAATTAAAAACAT
* * * *
966 ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAATTCTGAAATTGAAAAACTTTTATG
130 ATTTACATGAGAATTATGTCTCTCTTGGTTCTTGGACGAAATTCCGAAATTGAAAAACTTTTACG
* * * *
1031 AGTTCGTTTATAGCTTCATTTAATTAAAGGGTTCAAGACGATCCATTCTCTCGAGTAATTTTGCG
195 AGTTCGTTTATAGCTTCAGTTAATTAAAGGATTCAAGACGATCCATCCTCTCGAGCAATTTTGCG
1096 AACATT
260 AACATT
1102 CCATGCGAGG
Statistics
Matches: 230, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
278 4 0.02
279 224 0.97
280 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (279 bp):
CTTAAAGTGTTAAAGACGATACATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATC
GCATCATTTGGTCTAAATAGTTTTTCATTTCGTAAACAAGTTTTGATCTTCGAATTAAAAACATA
TTTACATGAGAATTATGTCTCTCTTGGTTCTTGGACGAAATTCCGAAATTGAAAAACTTTTACGA
GTTCGTTTATAGCTTCAGTTAATTAAAGGATTCAAGACGATCCATCCTCTCGAGCAATTTTGCGA
ACATTTTCAAATCCAATTC
Found at i:1243 original size:216 final size:215
Alignment explanation
Indices: 838--1480 Score: 833
Period size: 216 Copynumber: 3.0 Consensus size: 215
828 ATCCAATTCC
* *
838 TTAAAGTGTTAAATACGATCCATTCCTTCGAGTAATTTTGCGAACATTCCATGTGAGGGAAATCG
1 TTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATCG
* * *
903 CATCATTTGGTTTAAATAGTTTTTCATTTCGTAAACAAGTTCTTATCTTCGAATTAAAAACTTAT
66 CATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTT-TTATCTTTGAATTAAAAACTTAT
* * * * **
968 TTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAATTCTGAAATTGAAAAACTTTTATGAG
130 TTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTATGAG
*
1033 TTCGTTTATAGCTTC-ATTTAA
195 TTCTTTTATAGCTTCGA-TTAA
* *
1054 TTAAAGGGTTCAAGACGATCCATT-CTCTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATC
1 TTAAAGTGTTAAAGACGATCCATTCCT-TCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATC
* * **
1118 GCATTATTTGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAATTTTA
65 GCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTT-ATCTTTGAATTAAAAACTTA
* * *
1183 TTAACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTACGA
129 TTTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTATGA
**
1248 GTTCTTTTATAGCTTCGATTCC
194 GTTCTTTTATAGCTTCGATTAA
** * * * ** * * ** *
1270 TTAAAGTAATAAAGACGGTCCATTCCTTCGAGCAGTTTTTTGAACAATCCATTCTCGGGAAATCA
1 TTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATCG
* *
1335 TATCATTTGGTGTAAATAGTTTTTCATTTTGTAAACAAGTTTTTATCTTTGAATTAAAAACTTAT
66 CATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAG-TTTTATCTTTGAATTAAAAACTTAT
* * * *
1400 TTACGTGACAATTGTGACTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTGTTACTG-
130 TTACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA-TGA
*
1464 GTTCTTTTATAACTTCG
194 GTTCTTTTATAGCTTCG
1481 GTATTGTTTC
Statistics
Matches: 370, Mismatches: 51, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
215 4 0.01
216 358 0.97
217 8 0.02
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (215 bp):
TTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAATCG
CATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTATCTTTGAATTAAAAACTTATT
TACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTATGAGT
TCTTTTATAGCTTCGATTAA
Found at i:1272 original size:495 final size:493
Alignment explanation
Indices: 361--1315 Score: 1330
Period size: 495 Copynumber: 1.9 Consensus size: 493
351 TATGCAAGAA
*
361 GATCCAATCCTTCGAGCAATTTTCTGAAAATTACATTCACGGGAAGTCGCATCATTTGGTCTAAA
1 GATCCAATCCTTCGAGCAATTTTCTGAAAATTACATTCACGGGAAATCGCATCATTTGGTCTAAA
* * * *
426 AGGTTTGTCATTTTGTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
66 AGGTTTGTCATTTCGTAAACAAGTTCTGACCTTCGAATTAAAAACTTATTTACATGAGAATTGTT
* * * * * * *
491 TCTCTTAGTTGTTGGACGAACTTCTGAACTTATCAAACTTTTACTATTTCTTTTTTAAGTCCAGT
131 TCTCTTAGTTCTTGGACGAAATTCTGAAATTATAAAACTTTTACTAGTTCGTTTATAAGTCCAGT
* * **
556 GACTTAAAGTGTTCAAGACGATACATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAA
196 GAATTAAAGGGTTCAAGACGATACATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAA
* * *
621 TCGTATCATTTGGTCTAAATAGTTTTTTATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACA
261 TCGCATCATTTGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACA
* *
686 TATTTACGTGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTAC
326 TATTAACATGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTAC
* * * * *
751 GAGTTCTTTTATAGCTTCGGTTCCTTACAGTATTCAAGACGATCCAATCCTTCGGGCAATTTTTC
391 GAGTTCTTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGATCCAATCCTTCGAGCAATTTTTC
816 GAACATTTTCAAATCCAATTCCTTAAAGTGTTAAATAC
456 GAACATTTTCAAATCCAATTCCTTAAAGTGTTAAATAC
* * * * * *
854 GATCCATTCCTTCGAGTAATTTTGC-GAACATTCCATGTGA-GGGAAATCGCATCATTTGGTTTA
1 GATCCAATCCTTCGAGCAATTTT-CTGAAAATTACAT-TCACGGGAAATCGCATCATTTGGTCTA
* * *
917 AATA-GTTTTTCATTTCGTAAACAAGTTCTTATCTTCGAATTAAAAACTTATTTACATGAGAATT
64 AA-AGGTTTGTCATTTCGTAAACAAGTTCTGACCTTCGAATTAAAAACTTATTTACATGAGAATT
*
981 GTTTCTCTCTTGGTTCTTGGACGAAATTCTGAAATTGA-AAAACTTTTA-TGAGTTCGTTTAT-A
128 G-TT-TCTCTTAGTTCTTGGACGAAATTCTGAAATT-ATAAAACTTTTACT-AGTTCGTTTATAA
* * * *
1043 GCTTCATTTAATTAAAGGGTTCAAGACGATCCATT-CTCTCGAGTAATTTTGCGAACATTCCATG
189 G-TCCAGTGAATTAAAGGGTTCAAGACGATACATTCCT-TCGAGTAATTTTGCGAACATTCCATG
*
1107 CGAGGGAAATCGCATTATTTGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGATCTTTGAA
252 CGAGGGAAATCGCATCATTTGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGATCTTTGAA
*** * *
1172 TTAAAATTTTATTAACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCG
317 TTAAAAACATATTAACATGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCA
* *
1237 AACTTTTACGAGTTCTTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGGTCCATTCCTTCGAG
382 AACTTTTACGAGTTCTTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGATCCAATCCTTCGAG
* *
1302 CAGTTTTTTGAACA
447 CAATTTTTCGAACA
1316 ATCCATTCTC
Statistics
Matches: 403, Mismatches: 50, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
493 107 0.27
494 11 0.03
495 284 0.70
496 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (493 bp):
GATCCAATCCTTCGAGCAATTTTCTGAAAATTACATTCACGGGAAATCGCATCATTTGGTCTAAA
AGGTTTGTCATTTCGTAAACAAGTTCTGACCTTCGAATTAAAAACTTATTTACATGAGAATTGTT
TCTCTTAGTTCTTGGACGAAATTCTGAAATTATAAAACTTTTACTAGTTCGTTTATAAGTCCAGT
GAATTAAAGGGTTCAAGACGATACATTCCTTCGAGTAATTTTGCGAACATTCCATGCGAGGGAAA
TCGCATCATTTGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACA
TATTAACATGAGAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTAC
GAGTTCTTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGATCCAATCCTTCGAGCAATTTTTC
GAACATTTTCAAATCCAATTCCTTAAAGTGTTAAATAC
Found at i:1664 original size:505 final size:505
Alignment explanation
Indices: 978--1976 Score: 1433
Period size: 505 Copynumber: 2.0 Consensus size: 505
968 TTACATGAGA
* **
978 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTCTGAAATTGAAAAACTTTTATGAGTTCGTTTATA
1 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGAAAAACTTTTACAAGTTCGTTTATA
* * * * *
1043 GCTTCATTTAATTAAAGGGTTCAAGACGATCCATTCTCTCGAGTAATTTTGCGAACATTCCATGC
66 GCTTCAGTTAATTAAAGGATTCAAGACGATCCATACTCTCGAGTAATTTTGCAAACAATCCATGC
* *
1108 GAGGGAAATCGCATTATTTGGTCTAAATAGTTTCTCATTTTGTAAACAAGTTTTGATCTTTGAAT
131 GAGGGAAATCGCATCATTTGGTCTAAATAATTTCTCATTTTGTAAACAAGTTTTGATCTTTGAAT
** *
1173 TAAAATTTTATTAACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGA
196 TAAAAACTTATTAACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCGA
* *
1238 ACTTTTACGAGTTCTTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGGTCCATTCCTTCGAGC
261 ACTTTTACGAGTTATTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGGTCCAATCCTTCGAGC
* * * * * * ** *
1303 AGTTTTTTGAACAATCCATTCTCGGGAAATCATATCATTTGGTGTAAATAGTTTTTCATTTTGTA
326 AATTTTCTGAACAATACATTCTCGGGAAATCATAGCATTTGGTCTAAAAAAATTTTCACTTTGTA
* * *
1368 AACAAGTTTTTATCTTTGAATTAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGG
391 AACAAGTTTTGACCTTCGAATTAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGG
* *
1433 ACGAACTTCCGAACTTGTCAAACTGTTACTGGTTCTTTTATAACTTCGGT
456 ACAAACTTCCGAACTTGTCAAACTGTTACTAGTTCTTTTATAACTTCGGT
* *
1483 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGACAAACTTTTACAAGTTCGTTTGTA
1 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGAAAAACTTTTACAAGTTCGTTTATA
* * * * * *
1548 GCTTCAGTTCATTAAAGTATTCAAGACGATCCATACTTTCTAGTAGTTTTTCAAACAATCCA-GT
66 GCTTCAGTTAATTAAAGGATTCAAGACGATCCATACTCTCGAGTAATTTTGCAAACAATCCATG-
** * * *
1612 CTCGGGAAATCGTATCATTTGGTCTAAATAATTTTTCATTTTGTAGACAAGTTTTGATCTTTGAA
130 CGAGGGAAATCGCATCATTTGGTCTAAATAATTTCTCATTTTGTAAACAAGTTTTGATCTTTGAA
* *
1677 TTAAAAACTTATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCG
195 TTAAAAACTTATTAACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCG
* *
1742 AACTTTTACGAGTTATTTTATAGCTTCGGTTCCTTAAAGTAATCAAGACGGTCCAATCCTTCGAG
260 AACTTTTACGAGTTATTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGGTCCAATCCTTCGAG
* * * * *
1807 CAATTTTCTGAACATTATATTCTTGGGAAGTCGTAGCATTTGGTCTAAAAAAATTTTCACTTTGT
325 CAATTTTCTGAACAATACATTCTCGGGAAATCATAGCATTTGGTCTAAAAAAATTTTCACTTTGT
* * * ** * * *
1872 AAATAAGTTTTGGCCTTCGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTTGTTGTTG
390 AAACAAGTTTTGACCTTCGAATTAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTG
* *
1937 GACAAACTTTCGAACTTGTCAAACTTTTACTAGTTCTTTT
455 GACAAACTTCCGAACTTGTCAAACTGTTACTAGTTCTTTT
1977 TTAAACCCAG
Statistics
Matches: 432, Mismatches: 61, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
504 1 0.00
505 431 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (505 bp):
ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGAAAAACTTTTACAAGTTCGTTTATA
GCTTCAGTTAATTAAAGGATTCAAGACGATCCATACTCTCGAGTAATTTTGCAAACAATCCATGC
GAGGGAAATCGCATCATTTGGTCTAAATAATTTCTCATTTTGTAAACAAGTTTTGATCTTTGAAT
TAAAAACTTATTAACATGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCGA
ACTTTTACGAGTTATTTTATAGCTTCGATTCCTTAAAGTAATAAAGACGGTCCAATCCTTCGAGC
AATTTTCTGAACAATACATTCTCGGGAAATCATAGCATTTGGTCTAAAAAAATTTTCACTTTGTA
AACAAGTTTTGACCTTCGAATTAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGG
ACAAACTTCCGAACTTGTCAAACTGTTACTAGTTCTTTTATAACTTCGGT
Found at i:1719 original size:289 final size:289
Alignment explanation
Indices: 1194--1771 Score: 827
Period size: 289 Copynumber: 2.0 Consensus size: 289
1184 TAACATGAGA
* * * * * * *
1194 ATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTACGAGTTCTTTTATA
1 ATTGTGTCTCTCTTGGTTCTTGGACGAAATTACGAAATTGACAAACTTTTACAAGTTCGTTTATA
* * * ** *
1259 GCTTCGATTCCTTAAAGTAATAAAGACGGTCCATTCCTTCGAGCAGTTTTTTGAACAATCCATTC
66 GCTTCGATTCATTAAAGTAATAAAGACGATCCATACCTTCGAGCAGTTTTTCAAACAATCCAGTC
* * *
1324 TCGGGAAATCATATCATTTGGTGTAAATAGTTTTTCATTTTGTAAACAAGTTTTTATCTTTGAAT
131 TCGGGAAATCATATCATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGATCTTTGAAT
*
1389 TAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAA
196 TAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAA
*
1454 ACTGTTACTG-GTTCTTTTATAACTTCGGT
261 ACTGTTAC-GAGTTATTTTATAACTTCGGT
* * *
1483 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGACAAACTTTTACAAGTTCGTTTGTA
1 ATTGTGTCTCTCTTGGTTCTTGGACGAAATTACGAAATTGACAAACTTTTACAAGTTCGTTTATA
* * * * *
1548 GCTTC-AGTTCATTAAAGTATTCAAGACGATCCATACTTTCTAGTAGTTTTTCAAACAATCCAGT
66 GCTTCGA-TTCATTAAAGTAATAAAGACGATCCATACCTTCGAGCAGTTTTTCAAACAATCCAGT
* *
1612 CTCGGGAAATCGTATCATTTGGTCTAAATAATTTTTCATTTTGTAGACAAGTTTTGATCTTTGAA
130 CTCGGGAAATCATATCATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGATCTTTGAA
* * *
1677 TTAAAAACTTATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCG
195 TTAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCA
* *
1742 AACTTTTACGAGTTATTTTATAGCTTCGGT
260 AACTGTTACGAGTTATTTTATAACTTCGGT
1772 TCCTTAAAGT
Statistics
Matches: 254, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
288 2 0.01
289 252 0.99
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (289 bp):
ATTGTGTCTCTCTTGGTTCTTGGACGAAATTACGAAATTGACAAACTTTTACAAGTTCGTTTATA
GCTTCGATTCATTAAAGTAATAAAGACGATCCATACCTTCGAGCAGTTTTTCAAACAATCCAGTC
TCGGGAAATCATATCATTTGGTCTAAATAATTTTTCATTTTGTAAACAAGTTTTGATCTTTGAAT
TAAAAACTTATTTACGTGACAATTGTGACTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAA
ACTGTTACGAGTTATTTTATAACTTCGGT
Found at i:1882 original size:216 final size:216
Alignment explanation
Indices: 1483--2347 Score: 932
Period size: 216 Copynumber: 4.0 Consensus size: 216
1473 TAACTTCGGT
* * * * * *
1483 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAA-TTGACAAACTTTTACAAGTTCGTTTGT
1 ATTGTGTCTCTCTTGGTTCTTGGACGAACTT-TCAAACTTGTCAAACTTTTACAAGTTCTTTTAT
* * * * * * * * *
1547 AGCTTCAGTTCATTAAAGTATTCAAGACGATCC-ATACTTTCTAGTAGTTTTTCAAACAATCCAG
65 AGCTTCAGTTCCTTAAAGTATTCAAGACGATCCAAT-CCTTCGAGCAATTTTTCGAACATTACAT
* * * *
1611 TCTCGGGAAATCGTATCATTTGGTCTAAATAATTTTTCATTTTGTAGACAAGTTTTGATCTTTGA
129 TCTCGGGAAATCGCATCATTTGGTCTAAAAAATTTTTCATTTTGTAAACAAGTTTTGACCTTTGA
1676 ATTAAAAACTTATTTACGTGAGA
194 ATTAAAAACTTATTTACGTGAGA
* * * *
1699 ATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCGAACTTTTACGAGTTATTTTATA
1 ATTGTGTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACAAGTTCTTTTATA
* * * *
1764 GCTTCGGTTCCTTAAAGTAATCAAGACGGTCCAATCCTTCGAGCAA-TTTTCTGAACATTATATT
66 GCTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTC-GAACATTACATT
* * * * * * * * *
1828 CTTGGGAAGTCGTAGCATTTGGTCTAAAAAAATTTTCACTTTGTAAATAAGTTTTGGCCTTCGAA
130 CTCGGGAAATCGCATCATTTGGTCTAAAAAATTTTTCATTTTGTAAACAAGTTTTGACCTTTGAA
1893 TTAAAAACTTATTTACGTGAGA
195 TTAAAAACTTATTTACGTGAGA
* * * * * * * *
1915 ATTGTTTCTCTTTTTGTTGTTGGACAAACTTTCGAACTTGTCAAACTTTTACTAGTTCTTTTTTA
1 ATTGTGTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACAAGTTCTTTTAT-
* * * * * * * *
1980 AAC-CCAGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCAAGTAATTTTTCGAACATTCCATG
65 AGCTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATTACATT
** * * ** * * *
2044 CGAGGAAAATTGCATCATTTGGGGTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAA
130 CTCGGGAAATCGCATCATTTGGTCTAAAAAATTTTTCATTTTGTAAACAAGTTTTGACCTTTGAA
* **
2109 TTAAAAACTTATTTAAGTGTCA
195 TTAAAAACTTATTTACGTGAGA
* * * * *
2131 ATTGTGTCTCCCTT-GCTCTTGGACGAACTTTCGAACTTGTCGAACTTTTACCAGTTCTTTTATA
1 ATTGTGTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACAAGTTCTTTTATA
* * *
2195 GCTTC-GTTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGCAATCTTCCGAACATTACATC
66 GCTTCAG-TTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATTACATT
* * ** * * *
2259 CTCGAGAAATCACATCATTTGGTCTAAAATGTTTGTCATTTTGTAAATAAGTTTTGGCCTTTGAA
130 CTCGGGAAATCGCATCATTTGGTCTAAAAAATTTTTCATTTTGTAAACAAGTTTTGACCTTTGAA
2324 TTAAAAACTTATTTACGTGAGA
195 TTAAAAACTTATTTACGTGAGA
2346 AT
1 AT
Statistics
Matches: 529, Mismatches: 113, Indels: 15
0.81 0.17 0.02
Matches are distributed among these distances:
214 3 0.01
215 173 0.33
216 344 0.65
217 9 0.02
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (216 bp):
ATTGTGTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACAAGTTCTTTTATA
GCTTCAGTTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGCAATTTTTCGAACATTACATTC
TCGGGAAATCGCATCATTTGGTCTAAAAAATTTTTCATTTTGTAAACAAGTTTTGACCTTTGAAT
TAAAAACTTATTTACGTGAGA
Found at i:1953 original size:721 final size:715
Alignment explanation
Indices: 53--2200 Score: 2491
Period size: 721 Copynumber: 3.0 Consensus size: 715
43 TTACGTGAGA
* * * * *
53 ATTGTTTCTCTCTTGGTTGTTGGACGAACTTACGAAATTTTA-AAACTTTTACGAGTTCTTTTTT
1 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTATGAAA-TTGACAAACTTTTACAAGTTC-ATTTT
* * *
117 AAATCTGGTTCCTTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGACCATTCCA-T
64 AATTC-AGTTCCTTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGAACATTCCAGT
* * *
181 GCGAGGGAAATC-TCATCATTCGGTCTAACTAGTTTTTCATTTTGTAAACATGTTTTGATCTTTG
128 -CGAGGGAAATCGT-ATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTG
* * *
245 AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATACGAACTTGT
191 AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGT
*
310 CGAACTTTTGAGAGTTCTTTTATAGCTTCAGTTCCTTAAAGTATGCAAGAAGATCCAATCCTTCG
256 CGAACTTTT-AGAGTTCTTTTATAGCTTCAGTTCCTTAAAGTAT-CAAGACGATCCAATCCTTCG
* * * *
375 AGCAATTTTCTGAAAATTACATTCACGGGAAGTCGCATCATTTGGTCTAAAAGGTTTGTCATTTT
319 AGCAATTTTCTGAACATTACATTCAAGGGAAGTCGCATCATTTGGTCTAAAAAGTTTCTCATTTT
*
440 GTAAACAAGTTCTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC-TTAGTTGTT
384 GTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTAGTTGTT
* * **
504 GGACGAAC-TTCTGAACTTATCAAACTTTTACTATTTCTTTTTTAAG-TCCAGTGACTTAAAGTG
449 GGACGAACTTTC-GAACTTGTCAAACTTTTACTAGTTCTTTTTTAAGCTCCAGTTCCTTAAAGTG
*
567 TTCAAGACGATACATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCGTATCATTT
513 TTCAAGACGATCCATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCGTATCATTT
* * *
632 GGTCTAAATAGTTTTTTATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACATATTTACGTGA
578 GGTGTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTACGTGA
* *
697 GAATTATGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTA
643 CAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACG-GTTCTTTTA
762 TAGCTTCGG
707 TAGCTTCGG
** * ** * ** * ** ** * *
771 -TTCCTT-AC-AGT-ATTC-AAGACGATCCAAT--CCTTCGGGC-AA-TTTTTCGAA---CATTT
1 ATTGTTTCTCTCTTGGTTCTTGGACGAACTTATGAAATT--GACAAACTTTTAC-AAGTTCATTT
* * * *
824 TCAAATCCAATTCCTTAAAGTGTTAAATACGATCCATTCCTTCGAGTAATTTTGCGAACATTCCA
63 T--AATTCAGTTCCTTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGAACATTCCA
* * *
889 TGT-GAGGGAAATCGCATCATTTGGTTTAAATAGTTTTTCATTTCGTAAACAAGTTCTT-ATCTT
126 -GTCGAGGGAAATCGTATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTT-TTGATCTT
* * * *
952 CGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAATTCTGAAA-T
189 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC-CAAACT
*** * * ** *
1016 TGAAAAACTTTTATGAGTTCGTTTATAGCTTCATTTAATTAAAGGGT-TCAAGACGATCC-ATTC
253 TGTCGAACTTTTA-GAGTTCTTTTATAGCTTCAGTTCCTTAAA--GTATCAAGACGATCCAATCC
* * * * * * *
1079 TCTCGAGTAATTTTGC-GAACATTCCATGCGAGGGAAATCGCATTATTTGGTCTAAATAGTTTCT
315 T-TCGAGCAATTTT-CTGAACATTACATTCAAGGGAAGTCGCATCATTTGGTCTAAAAAGTTTCT
** ** * * *
1143 CATTTTGTAAACAAGTTTTGATCTTTGAATTAAAATTTTATTAACATGAGAATTGTGTCTCTCTT
378 CATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TT
* * * * * * *
1208 GGTTCTTGGACGAACTTCCGAACTTGTCGAACTTTTACGAGTTCTTTTAT-AGCTTC-GATTCCT
442 AGTTGTTGGACGAACTTTCGAACTTGTCAAACTTTTACTAGTTCTTTTTTAAGCTCCAG-TTCCT
** * * * * * * ** *
1271 TAAAGTAATAAAGACGGTCCATTCCTTCGAGCAGTTTTTTGAACAATCCATTCTCGGGAAATCAT
506 TAAAGTGTTCAAGACGATCCATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCGT
*
1336 ATCATTTGGTGTAAATAGTTTTTCATTTTGTAAACAAGTTTTTATCTTTGAATTAAAAACTTATT
571 ATCATTTGGTGTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATT
* *
1401 TACGTGACAATTGTGACTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTGTTACTGGT
636 TACGTGACAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTAC-GGT
*
1466 TCTTTTATAACTTCGG
700 TCTTTTATAGCTTCGG
* *
1482 TATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGACAAACTTTTACAAGTTCGTTTGT
1 -ATTGTTTCTCTCTTGGTTCTTGGACGAACTTATGAAATTGACAAACTTTTACAAGTTCATTT-T
* * * * * * * * * *
1547 AGCTTCAGTTCATTAAAGTATTCAAGACGATCCATACTTTCTAGTAGTTTTTCAAACAATCCAGT
64 A-ATTCAGTTCCTTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGAACATTCCAGT
** * *
1612 CTCGGGAAATCGTATCATTTGGTCTAAATAATTTTTCATTTTGTAGACAAGTTTTGATCTTTGAA
128 CGAGGGAAATCGTATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAA
*
1677 TTAAAAACTTATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCG
193 TTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCG
* * *
1742 AACTTTTACGAGTTATTTTATAGCTTCGGTTCCTTAAAGTAATCAAGACGGTCCAATCCTTCGAG
258 AACTTTTA-GAGTTCTTTTATAGCTTCAGTTCCTTAAAGT-ATCAAGACGATCCAATCCTTCGAG
* ** * * * *
1807 CAATTTTCTGAACATTATATTCTTGGGAAGTCGTAGCATTTGGTCTAAAAAAATTT-TCACTTTG
321 CAATTTTCTGAACATTACATTCAAGGGAAGTCGCATCATTTGGTCT-AAAAAGTTTCTCATTTTG
* * *
1871 TAAATAAGTTTTGGCCTTCGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTTGTTGTT
385 TAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC-TTTAGTTGTT
* *
1936 GGACAAACTTTCGAACTTGTCAAACTTTTACTAGTTCTTTTTTAAAC-CCAGTTCCTTAAAGTGT
449 GGACGAACTTTCGAACTTGTCAAACTTTTACTAGTTCTTTTTTAAGCTCCAGTTCCTTAAAGTGT
* * * * *
2000 TCAAGACGATCCATTCCTTCAAGTAATTTTTCGAACATTCCATGCGAGGAAAATTGCATCATTTG
514 TCAAGACGATCCATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCGTATCATTTG
* * *
2065 GGGTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTAAGTGTC
579 GTGTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTACGTGAC
* * * * *
2130 AATTGTGTCTCCCTT-GCTCTTGGACGAACTTTCGAACTTGTCGAACTTTTACCAGTTCTTTTAT
644 AATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTA-CGGTTCTTTTAT
2194 AGCTTCG
708 AGCTTCG
2201 TTTCCTTAAA
Statistics
Matches: 1167, Mismatches: 214, Indels: 96
0.79 0.14 0.06
Matches are distributed among these distances:
708 9 0.01
709 303 0.26
710 14 0.01
711 242 0.21
712 6 0.01
713 11 0.01
714 3 0.00
715 2 0.00
716 4 0.00
717 13 0.01
718 4 0.00
719 9 0.01
720 57 0.05
721 474 0.41
722 16 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (715 bp):
ATTGTTTCTCTCTTGGTTCTTGGACGAACTTATGAAATTGACAAACTTTTACAAGTTCATTTTAA
TTCAGTTCCTTAAAGTGTTAAAGACGATCCATTCCTTCGAGTAATTTTTCGAACATTCCAGTCGA
GGGAAATCGTATCATTTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTA
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCGAAC
TTTTAGAGTTCTTTTATAGCTTCAGTTCCTTAAAGTATCAAGACGATCCAATCCTTCGAGCAATT
TTCTGAACATTACATTCAAGGGAAGTCGCATCATTTGGTCTAAAAAGTTTCTCATTTTGTAAACA
AGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTAGTTGTTGGACGAA
CTTTCGAACTTGTCAAACTTTTACTAGTTCTTTTTTAAGCTCCAGTTCCTTAAAGTGTTCAAGAC
GATCCATTCCTTCGAGTAATTTTTTGAACATTCCATGCGAGGGAAATCGTATCATTTGGTGTAAA
TAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTACGTGACAATTGTG
TCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGGTTCTTTTATAGCTTCGG
Found at i:2304 original size:431 final size:432
Alignment explanation
Indices: 1483--2347 Score: 1168
Period size: 432 Copynumber: 2.0 Consensus size: 432
1473 TAACTTCGGT
1483 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGACAAACTTTTACAAGTTCGTTTGTA
1 ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGACAAACTTTTACAAGTTCGTTTGTA
* * * * *
1548 GCTTCAGTTCATTAAAGTATTCAAGACGATCCATACTTTCTAGTAGTTTTTCAAACAATCCAGTC
66 ACTCCAGTTCATTAAAGTATTCAAGACGATCCATACCTTCAAGTAATTTTTCAAACAATCCAGTC
* * * *
1613 TCGGGAAATCGTATCATTTGGTCTAAATAATTTTTCATTTTGTAGACAAGTTTTGATCTTTGAAT
131 GCGGGAAATCGCATCATTTGGGCTAAATAATTTTTCATTTTGTAAACAAGTTTTGATCTTTGAAT
* * * *
1678 TAAAAACTTATTTACGTGAGAATTGTGTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCGA
196 TAAAAACTTATTTAAGTGACAATTGTGTCTCCCTTGGCTCTTGGACGAACTTCCAAACTTGTCGA
* *
1743 ACTTTTACGAGTTATTTTATAGCTTCGGTTCCTTAAAGTAATCAAGACGGTCCAATCCTTCGAGC
261 ACTTTTACCAGTTATTTTATAGCTTCGGTTCCTTAAAGTAATCAAGACGATCCAATCCTTCGAGC
* * * * * * * **
1808 AATTTTCTGAACATTATATTCTTGGGAAGTCGTAGCATTTGGTCTAAAAAAATTTTCACTTTGTA
326 AATCTTCCGAACATTACATCCTCGAGAAATCACAGCATTTGGTCTAAAAAAATTTTCACTTTGTA
1873 AATAAGTTTTGGCCTTCGAATTAAAAACTTATTTACGTGAGA
391 AATAAGTTTTGGCCTTCGAATTAAAAACTTATTTACGTGAGA
* * * * * * * *
1915 ATTGTTTCTCTTTTTGTTGTTGGAC-AAACTT-TCGAACTTGTCAAACTTTTACTAGTTCTTTTT
1 ATTGTTTCTCTCTTGGTTCTTGGACGAAA-TTAT-GAAATTGACAAACTTTTACAAGTTCGTTTG
* * * * *
1978 TAAAC-CCAGTTCCTTAAAGTGTTCAAGACGATCCATTCCTTCAAGTAATTTTTCGAACATTCCA
64 T-AACTCCAGTTCATTAAAGTATTCAAGACGATCCATACCTTCAAGTAATTTTTCAAACAATCCA
* * *
2042 -T-GCGAGGAAAATTGCATCATTTGGGGTAAATAGTTTTTCATTTTGTAAACAAGTTTTGATCTT
128 GTCGCG-GG-AAATCGCATCATTTGGGCTAAATAATTTTTCATTTTGTAAACAAGTTTTGATCTT
* * *
2105 TGAATTAAAAACTTATTTAAGTGTCAATTGTGTCTCCCTT-GCTCTTGGACGAACTTTCGAACTT
191 TGAATTAAAAACTTATTTAAGTGACAATTGTGTCTCCCTTGGCTCTTGGACGAACTTCCAAACTT
* * *
2169 GTCGAACTTTTACCAGTTCTTTTATAGCTTCGTTTCCTTAAAGTATTCAAGACGATCCAATCCTT
256 GTCGAACTTTTACCAGTTATTTTATAGCTTCGGTTCCTTAAAGTAATCAAGACGATCCAATCCTT
* ** *
2234 CGAGCAATCTTCCGAACATTACATCCTCGAGAAATCACATCATTTGGTCT-AAAATGTTTGTCAT
321 CGAGCAATCTTCCGAACATTACATCCTCGAGAAATCACAGCATTTGGTCTAAAAAAATTT-TCAC
*
2298 TTTGTAAATAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGA
385 TTTGTAAATAAGTTTTGGCCTTCGAATTAAAAACTTATTTACGTGAGA
2346 AT
1 AT
Statistics
Matches: 376, Mismatches: 51, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
430 9 0.02
431 180 0.48
432 185 0.49
433 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (432 bp):
ATTGTTTCTCTCTTGGTTCTTGGACGAAATTATGAAATTGACAAACTTTTACAAGTTCGTTTGTA
ACTCCAGTTCATTAAAGTATTCAAGACGATCCATACCTTCAAGTAATTTTTCAAACAATCCAGTC
GCGGGAAATCGCATCATTTGGGCTAAATAATTTTTCATTTTGTAAACAAGTTTTGATCTTTGAAT
TAAAAACTTATTTAAGTGACAATTGTGTCTCCCTTGGCTCTTGGACGAACTTCCAAACTTGTCGA
ACTTTTACCAGTTATTTTATAGCTTCGGTTCCTTAAAGTAATCAAGACGATCCAATCCTTCGAGC
AATCTTCCGAACATTACATCCTCGAGAAATCACAGCATTTGGTCTAAAAAAATTTTCACTTTGTA
AATAAGTTTTGGCCTTCGAATTAAAAACTTATTTACGTGAGA
Done.