Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008523.1 Kokia drynarioides strain JFW-HI SEQ_123200, 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: 4519
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Found at i:479 original size:214 final size:214
Alignment explanation
Indices: 2--2694 Score: 2643
Period size: 215 Copynumber: 12.6 Consensus size: 214
1 C
* * * *
2 GAACTTTCCATGCTCGGGAAATCGCATCATTTGTTTTAAATAGTTTG-CATTTTGTAAA-AAGGT
1 GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* *
65 TTGGTTGTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
65 TTGG-TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT-TCTCTTGGTTCTTGGACGAACT
*
130 TTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGAT
128 TTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * * *
195 TCATTCCTTCTAGTAATTTTTC
193 CCATTCCTTCGAGCAATTTTTT
* * * * * *
217 AAACATTCTATGCTCGAGATATCACATCATTTAGTCTAAATAGTTTGTCATTTTGTAAAAAAAGT
1 GAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AAACAAGT
* * * *
282 TTCGTTGTTTGAATTAAAAACTTATTTACGTGAGAATT-TTTTGTCTTGGTTCTTGGACGAACTT
64 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGACGAACTT
* * * ** *
346 TCGAACTTTTCCAACTTTTACGAGTTC-TTTATAACTTCGATTCCAGAAAGTATTCACGACGATC
129 TCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATC
* ** * *
410 CTTTAATTCGAGCAATATTCT
194 CATTCCTTCGAGCAATTTTTT
* ** * * *
431 AAACATTCCATGCTCAGGAAATCATATCATTTGGTCTAAATTGTTTGTCACTTTGTAAAAAAGTT
1 GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * * * * *
496 TTGGTCTTTGCATTAAAAACTTA-TTCCATGAGAATTGTTTCTCTCTCGGTTCTCGGACAAACTT
65 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT-TCTCTTGGTTCTTGGACGAACTT
* * * * * * * *
560 CCAAACTTGCCAAACTTTTATGAATTCTTTTATAATTTCAGTTTCTTAAAGTATTCAAGACGATC
129 TCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATC
*
625 CATTCCATCGAGCAA-TTTTT
194 CATTCCTTCGAGCAATTTTTT
* * * * * *
645 GAACATTCCATTCTCCGAAAATCGCATCATTTAGTCTAAATAGTTTTTAATTTTGCAAACAAGTT
1 GAACATTCCATGCT-CGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * *** * * *
710 TTGGTTTTTAAAACGAAAACTTATTTACGTGAGAATTG-TTTCTCTTGGCTCTTGGATGAACTTC
65 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGACGAACTTT
* * *
774 CGAACTTTTCAAACTCTTACGAGTTCTTTTATAACTT-GGTTCCTTACAGTATTCAAGACGATCC
130 CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* *
838 ATTCCTTCGAGAAATTTTTC
195 ATTCCTTCGAGCAATTTTTT
* * ** *
858 GAACATTCCGTGCTCGGGGAATCGCATCATTTTCTCTAAATAGTTTGTCATTTTGTAAACAACTT
1 GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * * *
923 TTGGTCTTAGAATTAAACACTTATTTACGTGAGGATTGTTCTC-CTTTGGTTCTTGGACGAACTT
65 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTC-TTGGTTCTTGGACGAACTT
* * * * *
987 TCGAAATAGTCAAACTTTTACGAGTTCTTTTACAACTTCGGTTCCTTAAAGTGTTCAAGACAATC
129 TCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATC
* * *
1052 CACTCATTCGAGCAATTTTTC
194 CATTCCTTCGAGCAATTTTTT
** * * * * *
1073 GAACATTCCATTTTCGAAAAATCGCAACATATGGTATAAATAGTTTGTCATTTTGTAAACAACTT
1 GAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * * * * * * *
1138 TTCGTGTTTGAATTCAAAGAAGTTTTTTACATGCGAATTGTTACTCCCTTGGTTCTTGGACGAA-
65 TTGGTCTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTT-TTCTCTTGGTTCTTGGACGAAC
* ** * * * *
1202 TTTATGAACTTGTCAAAAGTTTATGAGATCTTTTATAACTTCGGTTCCTTAAAGTAATCAAGACA
127 TTT-CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG
*
1267 ATCCATTCCTTCAAGCAATTTTTT
191 ATCCATTCCTTCGAGCAATTTTTT
* * * * *
1291 GATCATTCCATGCTCGGGAAATCGCATCATTCGATCTAAATTGTTTGACATTTTGTAAACAAGTT
1 GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * *
1356 TTGTTCTTTGAAATAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTTCTTGGACGAACTT
65 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT-TCTCTTGGTTCTTGGACGAAC-T
* * * * * * * **
1421 TTACGAGTTCTT-CCATAAC--TT-C-AGTTC-CTTA-AAGTCTTCAAG-ACGATTCATTTATT-
128 TT-CGA--ACTTGTCA-AACTTTTACGAGTTCTTTTATAA--CTTC-GGTTC-CTTAAAGTATTC
* ***
1477 -AGA-GA---ATT-TTTC---CAAACATTT
185 AAGACGATCCATTCCTTCGAGCAATTTTTT
* ** * * * * *
1498 ---CA-TGC-T-C-GAGATATCGCATCATTTGGTCTAAATAATTTTTCATTTGGTAAACAACTTT
1 GAACATTCCATGCTCGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTT
* * * * *
1556 TGGACTTTGAATTAAAATCTTATTTACATGAGAATTG-TTTGTCTTGGTTCTTGGACGAACTTCC
66 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGACGAACTTTC
* * * * *
1620 AAACTTGTCCAACTTTTACGAGTTCTTCTATAACTTCGATTCCATAAAGTATTCAAGACGATCCA
131 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
** *
1685 TTAATTCGAGCAATTTTCT
196 TTCCTTCGAGCAATTTTTT
* * * *
1704 AAACGTTCCATGCTCAGGAAATTGTATCATTTGGTCTAAATTA-TTTGTCATTTTGTAAACAAGT
1 GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAA-TAGTTTGTCATTTTGTAAACAAGT
* * *
1768 TTTGGTCTTTGCATTAAAAACTTA-TTCCGTGAGAATTGTTTCTCTCTCGGTTCTTGGACGAACT
64 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT-TCTCTTGGTTCTTGGACGAACT
* * * * * *
1832 TCCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTTGGTTCCTTAAACTGTTCAAGACGAT
128 TTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
*
1897 CCATTCCATT-AAGCAA-TTTTT
193 CCATTCC-TTCGAGCAATTTTTT
* * * *
1918 GAACATTCTATTCTCTGGAAATCGCATCACTTAGTCTAAATAGTATT-TCATTTTGTAAACAAGT
1 GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGT-TTGTCATTTTGTAAACAAGT
* * ** * *
1982 TTTGCTCTTTAAAACAAAAACTTATTTACGTGAGAATTG-TTTCTCTTGGCTCTTGGATGAAC-T
64 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGACGAACTT
* * * * *
2045 TCTGAACTTTTCAAA-TTGTTACGAATTCTTTTATAACTT-GGATACTTACAGTATTCAAGACGA
129 TC-GAACTTGTCAAACTT-TTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGA
2108 TCCATTCCTTCGAGCAATTTTTT
192 TCCATTCCTTCGAGCAATTTTTT
* *
2131 GAACATTCCATGCTCCGGAAATCGCATCATTTGCTCTAAATAGTTTGTCATTTTGTAAACAACTT
1 GAACATTCCATGCT-CGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * * * * * * *
2196 TTGGTCTTAGAATTAAACACTTATTTACGTGAGGATTGTTCTCCCTTGGTTTTTGGATGAACTTC
65 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGACGAACTTT
* * * * * * *
2261 CGAAATAGGCAAACTTTTACGAGTTCATTTACAACTTCGGTTCCTTAACGTATTCAAGATGATCC
130 CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* *
2326 ACTCCTTCGAGCAATTTTTC
195 ATTCCTTCGAGCAATTTTTT
** * * * *
2346 GAACATTCCATTTTCGGAAAATAGCATCATTTGGTATAAAAAGTTTGTCATTTTGTAAACAACTT
1 GAACATTCCATGCTCGG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* * * * * * *
2411 TTTGTGTTTGAATTAAAAGAAGTTTTTTACATGGGAATTGTTTCTCTCTTGGTTCTTGGACAAAC
65 TTGGTCTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTTT-TCTCTTGGTTCTTGGACGAAC
* *
2476 -TTCTGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATG
127 TTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG
* *
2540 ATCCATTTCTTCAAGCAATTTTTT
191 ATCCATTCCTTCGAGCAATTTTTT
* * * * * *
2564 GATCATTCCATGCTCGAGAAATCGCAACATTCGATCTAAATTGTTTGACATTTTGTAAACAAGTT
1 GAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT
* *
2629 TTGGTCTTTGAGTTAAAAACTTATTTACGTGAGAATTGCTTCTCTCTTGGTTCTTGGACGAACTT
65 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTTCTCTTGGTTCTTGGACGAACTT
2694 T
129 T
2695 TATGAGTTCT
Statistics
Matches: 2002, Mismatches: 393, Indels: 164
0.78 0.15 0.06
Matches are distributed among these distances:
193 6 0.00
194 1 0.00
195 4 0.00
196 9 0.00
197 29 0.01
198 7 0.00
199 76 0.04
201 1 0.00
202 4 0.00
203 5 0.00
204 2 0.00
206 5 0.00
207 6 0.00
209 1 0.00
210 5 0.00
211 6 0.00
212 87 0.04
213 319 0.16
214 445 0.22
215 464 0.23
216 102 0.05
217 91 0.05
218 317 0.16
219 5 0.00
220 5 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (214 bp):
GAACATTCCATGCTCGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTT
TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTCTCTTGGTTCTTGGACGAACTTTC
GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
TTCCTTCGAGCAATTTTTT
Found at i:889 original size:427 final size:429
Alignment explanation
Indices: 1--4495 Score: 4121
Period size: 427 Copynumber: 10.6 Consensus size: 429
* * * *
1 CGAACTTTCCATGCTCGGGAAATCGCATCATTTGTTTTAAATAGTTTG-CATTTTGTAAA-AAGG
1 CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAGT
* *
64 TTTGGTTGTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
66 TTTGG-TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
* *
129 TTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTT-GGTTCCTTAAAGTATTCAAGACG
130 TTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGACG
* * * * * * * *
193 ATTCATTCCTTCTAGTAATTTTTCAAACATTCTATGCTC-GAGATATCACATCATTTAGTCTAAA
194 ATCCATTCCTTCGAGCAATTTTT-GAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAAA
* * * * * *
257 TAGTTTGTCATTTTGTAAAAAAAG-TTTCGTTGTTTGAATTAAAAACTTATTTACGTGAGAATTT
257 TAGTTTTTCATTTTGT-AAACAAGTTTTGGTT-TTTAAAATAAAAACTTATTTACGTGAGAATTG
* * * *
321 TTTGTCTTGGTTCTTGGACGAACTTTCGAACTTTTCCAACTTTTACGAGTTC-TTTATAACTTCG
320 TTTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* ** * * ** *
385 ATTCCAGAAAGTATTCACGACGATCCTTTAATTCGAGCAA-TATT
385 GTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * ** * * * *
429 CTAAACATTCCATGCTCAGGAAATCATATCATTTGGTCTAAATTGTTTGTCACTTTGTAAAAAAG
1 C-GAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAG
* * * * * *
494 TTTTGGTCTTTGCATTAAAAACTTA-TTCCATGAGAATTGTTTCTCTCTCGGTTCTCGGACAAAC
65 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC
* * * * *
558 TTCCAAACTTGCCAAACTTTTATGAATTCTTTTATAATTTCAGTTTCTTAAAGTATTCAAGACGA
130 TTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACGA
* * * *
623 TCCATTCCATCGAGCAATTTTTGAACATTCCATTCTCCGAAAATCGCATCATTTAGTCTAAATAG
195 TCCATTCCTTCGAGCAATTTTTGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAATAG
* * **
688 TTTTTAATTTTGCAAACAAGTTTTGGTTTTTAAAACGAAAACTTATTTACGTGAGAATTGTTTCT
260 TTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAATAAAAACTTATTTACGTGAGAATTGTTTCT
* * * *
753 CTTGGCTCTTGGATGAACTTCCGAACTTTTCAAACTCTTACGAGTTCTTTTATAACTT-GGTTCC
325 CTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCC
* *
817 TTACAGTATTCAAGACGATCCATTCCTTCGAGAAATTTTT
390 TTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * ** *
857 CGAACATTCCGTGCTCGGGGAATCGCATCATTTTCTCTAAATAGTTTGTCATTTTGTAAACAACT
1 CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAGT
* * *
922 TTTGGTCTTAGAATTAAACACTTATTTACGTGAGGATTG-TTCTC-CTTTGGTTCTTGGACGAAC
66 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TTGGTTCTTGGACGAAC
* * * * * *
985 TTTCGAAA-TAGTCAAACTTTTACGAGTTCTTTTACAACTTCGGTTCCTTAAAGTGTTCAAGACA
130 -TTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACG
* * ** * * * *
1049 ATCCACTCATTCGAGCAATTTTTCGAACATTCCATTTTCGAAAAATCGCAACATATGGTATAAAT
194 ATCCATTCCTTCGAGCAATTTTT-GAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* * * * * * * * * *
1114 AGTTTGTCATTTTGTAAACAACTTTTCGTGTTTGAATTCAAAGAAGTTTTTTACATGCGAATTGT
258 AGTTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAAT-AAA-AACTTATTTACGTGAGAATTGT
* * ** ** * *
1179 TACTCCCTTGGTTCTTGGACGAATTTATGAACTTGTCAAAAGTTTATGAGATCTTTTATAACTTC
321 T--TCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
* * *
1244 GGTTCCTTAAAGTAATCAAGACAATCCATTCCTTCAAGCAATTTTT
384 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * * * *
1290 TGATCATTCCATGCTCGGGAAATCGCATCATTCGATCTAAATTGTTTGACATTTTGTAAACAAGT
1 CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAGT
* * *
1355 TTTGTTCTTTGAAATAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTTCTT-G--G----
66 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
** * * *
1413 -----AC--G---AACTTTTACGAGTTCTTCCATAACTTCAGTTCCTTAAAGTCTTCAAGACGAT
131 TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACGAT
* ** * * * *
1468 TCATTTATTAGAG-AATTTTTCCAAACATTTCATGCTC-GAGATATCGCATCATTTGGTCTAAAT
196 CCATTCCTTCGAGCAATTTTT--GAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAAAT
* * * ** * * * *
1531 AATTTTTCATTTGGTAAACAACTTTTGGACTTTGAATTAAAATCTTATTTACATGAGAATTGTTT
258 AGTTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAATAAAAACTTATTTACGTGAGAATTGTTT
* * * * *
1596 GTCTTGGTTCTTGGACGAACTTCCAAACTTGTCCAACTTTTACGAGTTCTTCTATAACTTCGATT
323 CTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT
* **
1661 CCATAAAGTATTCAAGACGATCCATTAATTCGAGCAA-TTTT
388 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * * * * *
1702 CTAAACGTTCCATGCTCAGGAAATTGTATCATTTGGTCTAAATTA-TTTGTCATTTTGTAAACAA
1 C-GAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAA-TAGTTTGTCATTTTGTAAACAA
* * *
1766 GTTTTGGTCTTTGCATTAAAAACTTA-TTCCGTGAGAATTGTTTCTCTCTCGGTTCTTGGACGAA
64 GTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA
* * *
1830 CTTCCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTT-GGTTCCTTAAACTGTTCAAGAC
129 CTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGAC
* * * * *
1894 GATCCATTCCATT-AAGCAATTTTTGAACATTCTATTCTCTGG-AAATCGCATCACTTAGTCTAA
193 GATCCATTCC-TTCGAGCAATTTTTGAACATTCCATGCTC-GGAAAATCGCATCATTTGGTCTAA
* * * *
1957 ATAGTATTTCATTTTGTAAACAAGTTTTGCTCTTTAAAACAAAAACTTATTTACGTGAGAATTGT
256 ATAGTTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAATAAAAACTTATTTACGTGAGAATTGT
* * * * *
2022 TTCTCTTGGCTCTTGGATGAACTTCTGAACTTTTCAAA-TTGTTACGAATTCTTTTATAACTT-G
321 TTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTT-TTACGAGTTCTTTTATAACTTCG
* * *
2085 GATACTTACAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
385 GTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * * *
2130 TGAACATTCCATGCTCCGGAAATCGCATCATTTGCTCTAAATAGTTTGTCATTTTGTAAACAACT
1 CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAGT
* * * * * *
2195 TTTGGTCTTAGAATTAAACACTTATTTACGTGAGGATTG-TTCTCCCTTGGTTTTTGGATGAACT
66 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
* * * * * * *
2259 TCCGAAA-TAGGCAAACTTTTACGAGTTCATTTACAACTTCGGTTCCTTAACGTATTCAAGATGA
131 TCC-AAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACGA
* ** * * *
2323 TCCACTCCTTCGAGCAATTTTTCGAACATTCCATTTTCGGAAAATAGCATCATTTGGTATAAAAA
195 TCCATTCCTTCGAGCAATTTTT-GAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAATA
* * * * * * * * * *
2388 GTTTGTCATTTTGTAAACAACTTTTTGTGTTTGAATTAAAAGAAGTTTTTTACATGGGAATTGTT
259 GTTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAAT-AAA-AACTTATTTACGTGAGAATTG-T
* * *
2453 TCTCTCTTGGTTCTTGGACAAACTTCTGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCG
321 T-TCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* * *
2518 GTTCCTTAAAGTATTCAAGATGATCCATTTCTTCAAGCAATTTTT
385 GTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * * * * * *
2563 TGATCATTCCATGCTCGAGAAATCGCAACATTCGATCTAAATTGTTTGACATTTTGTAAACAAGT
1 CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAGT
* *
2628 TTTGGTCTTTGAGTTAAAAACTTATTTACGTGAGAATTGCTTCTCTCTTGGTTCTTGGACGAAC-
66 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
* * *
2692 T------TT-T---A----T--GAGTTCTTTCATAACTTT-GGTTCCTTAAAGCATTCAAAACGA
131 TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGACGA
* ** * *
2740 TCCATTCATTCGAGCAATTTTCCAAACATTCCATGCTCGGGATATCGCATCATTTGGTCTAAATA
195 TCCATTCCTTCGAGCAATTTT-TGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAATA
* * * * * *
2805 GTTTTTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAATCTTATTTACCTGAGCAA-TGTTT
259 GTTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAATAAAAACTTATTTACGTGAG-AATTGTTT
* *
2869 CTCTCCTAGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
323 CTCT--TGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
*** * ** *
2934 TTTGATAACA-TATTCAAAACGATCCGCTCCTTTGAGCAATTTTT
386 TTCCTTAA-AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
** * * * *
2978 CGAACATTCCATGCTCGAAAAATCGCGTTATTTGGA-CTAAATAGTTTGTAATTTTGTAAA-AAA
1 CGAACATTCCATGCTCGGGAAATCGCATCATTT-GATCTAAATAGTTTGTCATTTTGTAAACAAG
* * *
3041 TTTTGTTGC-ATGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTTGGACGAA
65 TTTTGGT-CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA
* * * * * * * * *
3105 CTTTCGAACTTTTCAAACTATTACTAATTCTTTCATAACTTCGGTTCCTTAAAGTATTAAAGACG
129 CTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACG
** * * *
3170 ATCCATTCCTTTTAGCAAATTTTTGAACATTCCATTCTCGGAAAATAGCAGCATTTGGTCTAAAT
194 ATCCATTCCTTCGAGC-AATTTTTGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* * ** * * * * *
3235 AGTTCTTCTTTTTGGGAACAAGTTTTTGTCTTT-GAATAAACAACATATTTATGTGAGAATTGTT
258 AGTTTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAATAAA-AACTTATTTACGTGAGAATTGTT
* * *
3299 TCTCTTGGTTCTTGGACGAACTTTCGAACTCGTTAAACTTTTACGAGTTCTTTTATAACTTCGGT
322 TCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGT
* * * *
3364 TCCTTACATTATTCTAGACGATCCATTCCAT-GAAGCAA-TTTT
387 TCCTTAAAGTATTCAAGACGATCCATTCCTTCG-AGCAATTTTT
* * ** * * * *
3406 CTAAACATTACATGCTCAAGAAATGGCATCATTTAATATAAATAG--TGTCATTTTGTAAAAAAA
1 C-GAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGT-AAACAA
* * * * * * *
3469 CTTTTGGTCTTTGGATTAAACAC-TATTTACATGAGAATTATTTCTCTCTTGGTTCTTTGATGAA
64 GTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA
* * * * ** ** * *
3533 TTTTCGAACTTGTCAAACTTTCATTAGTTC-TTTATAACTTT-AATTTCTTAGAGTATTCAAGAC
129 CTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGAC
** * *
3596 GATCCATTCCTTCGAGCAATTTTCCAATCATTCCATGCTCGGTATATCGCATCATTTGGTCTAAA
193 GATCCATTCCTTCGAGCAATTTTTGAA-CATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAA
* ** * * *
3661 TTGTTTGACATTTTGTAAACAGGTTTT-GTTCTTTGAAATAAAAACTTATTTACGTGAGAATCGT
257 TAGTTTTTCATTTTGTAAACAAGTTTTGGTT-TTTAAAATAAAAACTTATTTACGTGAGAATTGT
* *
3725 TACTCTCTTGGTTCTT-G--G-A--T--G-A---G-----GTTTTACGAGTTCTTTCATAA-TTC
321 T--TCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
* * ** * *
3772 GGTTCCTTAAAGTAGTAAAGTTGATCCATTCGTCCGAGCAATTTTT
384 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * * * * * * *
3818 CGAACATTCCGA-GCTCGTGAGATTGCGTCATTTGGTCTAAGTAGTTTTTCATTTTGTAAACAAC
1 CGAACATTCC-ATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAG
* * * * * * * *
3882 TTTTGGTCTTTGAGTTACAAACTTATTTATGTGAGAATTATTTGTCTTTTGGTTAC-GGGATGAA
65 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT-CTTGGACGAA
* * *
3946 CTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTT-AGTTCCATAAAGTATTCAAGAC
129 CTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAA-TTTCGGTTCCTTAAAGTATTCAAGAC
** * * * **
4010 GATCCACACCTTCTAGCATTTTTTCGAACAGTT-CGTGCTCAGG-AAATCGTGTCATTTGGTCTA
193 GATCCATTCCTTCGAGCAATTTTT-GAACA-TTCCATGCTC-GGAAAATCGCATCATTTGGTCTA
* * * * *
4073 AATAGTTTGTAATTTTGTAAA-ATAGTTTT-GTTATTTGAATTAAAAACTTATTTACGAGAGAAT
255 AATAGTTTTTCATTTTGTAAACA-AGTTTTGGTT-TTTAAAATAAAAACTTATTTACGTGAGAAT
* * * * *
4136 TGTTTCTCTATTTTTGTTCTTGGCCGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTCACA
318 TGTTTCTC----TTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * * *
4201 AGTTTGGTTCCTTAAAGTATTCAAAACTACCCATTCCTTCGAGCAA--CTT
379 ACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
* * * *
4250 ------TT---T--TCGGGAAATAGCAACATTTGATCAAAATAGTTCT-TCATTTTG-GAACAAG
1 CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTT-TGTCATTTTGTAAACAAG
*
4302 TTTTGGTCTTTGAATCAAAAACTTATTT-CGTGAGAATTG-TT-TCTCTTGGTTCTTGGACGAAC
65 TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA-
** * * *
4364 CTT-CAAACTTGTCAAACTTTTACGAGTTCTTCAATAACTTCGGTTCCTTACAGTATTCAAGATG
129 CTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACG
* * * * * * *
4428 ATCCATTCCTTCAAGCAATTTTCTAAACATTACATGCTCGGGAAATGGCATCATTTTGTATAAAT
194 ATCCATTCCTTCGAGCAATTTT-TGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
4493 AGT
258 AGT
4496 GCGTCATTAT
Statistics
Matches: 3320, Mismatches: 601, Indels: 303
0.79 0.14 0.07
Matches are distributed among these distances:
411 62 0.02
412 86 0.03
413 232 0.07
414 194 0.06
415 174 0.05
416 34 0.01
417 352 0.11
418 8 0.00
419 11 0.00
420 33 0.01
421 36 0.01
422 3 0.00
423 2 0.00
424 3 0.00
425 3 0.00
426 21 0.01
427 592 0.18
428 443 0.13
429 345 0.10
430 84 0.03
431 139 0.04
432 110 0.03
433 284 0.09
434 68 0.02
435 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (429 bp):
CGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAAGT
TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGGTTCCTTAAAGTATTCAAGACGAT
CCATTCCTTCGAGCAATTTTTGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAATAGT
TTTTCATTTTGTAAACAAGTTTTGGTTTTTAAAATAAAAACTTATTTACGTGAGAATTGTTTCTC
TTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCT
TAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT
Found at i:1580 original size:199 final size:197
Alignment explanation
Indices: 1221--4144 Score: 1573
Period size: 215 Copynumber: 13.9 Consensus size: 197
1211 TTGTCAAAAG
* * * * * * *
1221 TTTATGAGATCTTTTATAACTTCGGTTCCTTAAAGTAATCAAGACAATCCATTCCTTCAAGCAAT
1 TTTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAAT
* * * * * *
1286 TTTTTGATCATTCCATGCTCGGGAAATCGCATCATTCGATCTAAATTGTTTGACATTTTGTAAAC
66 TTTTCGAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
* * *
1351 AAGTTTTGTTCTTTGAAATAAAAACTTATTTACGTGAGAATTGTTTCTCTCATGGTTCTTGGACG
130 AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACG
1416 AACT
194 AACT
* * * * * *
1420 TTTACGAGTTCTTCCATAACTTCAGTTCCTTAAAGTCTTCAAGACGATTCATTTATTAGAG-AAT
1 TTTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAAT
* * * * * *
1484 TTTTCCAAACATTTCATGCTCGAGATATCGCATCATTTGGTCTAAATAATTTTTCATTTGGTAAA
66 TTTT-CGAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * * *
1549 CAACTTTTGGACTTTGAATTAAAATCTTATTTACATGAGAATTGTTTGTCT-TGGTTCTTGGACG
129 CAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTGGTTCTT-G--G
1613 AACTTCCAAACTTGTCCAACT
191 ---------AC--G---AACT
* * *
1634 TTTACGAGTTCTTCTATAACTTCGATTCCATAAAGTATTCAAGACGATCCATTAATTCGAGCAA-
1 TTTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAAT
* * * *
1698 TTTTCTAAACGTTCCATGCTCAGGAAATTGTATCATTTGGTCTAAATTA-TTTGTCATTTTGTAA
66 TTTTC-GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAA-TAGTTTGTCATTTTGTAA
* * *
1762 ACAAGTTTTGGTCTTTGCATTAAAAACTTA-TTCCGTGAGAATTGTTTCTCTCTCGGTTCTTGGA
128 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT-GGTTCTTGGA
1826 CGAACT
192 CGAACT
* * * * * *
1832 TCCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTTGGTTCCTTAAACTGTTCAAGACGAT
1 T------TT-AC-GA--GTT-C---TTC---TATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * * * *
1897 CCATTCCATT-AAGCAATTTTT-GAACATTCTATTCTCTGGAAATCGCATCACTTAGTCTAAATA
49 CCATT-CATTCGAGCAATTTTTCGAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATA
* * * **
1960 GTATT-TCATTTTGTAAACAAGTTTTGCTCTTTAAAACAAAAACTTATTTACGTGAGAATTGTTT
112 GT-TTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
*
2024 CTCT-TGGCTCTTGGATGAACTTCTGAACTTTTCAAAT
176 CTCTCTGGTTCTT-G--G-A---C-GAA-----C---T
* * * * * *
2061 TGTTACGAATTCTTTTATAACTT-GGATACTTACAGTATTCAAGACGATCCATTCCTTCGAGCAA
1 T-TTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAA
* *
2125 TTTTTTGAACATTCCATGCTCCGGAAATCGCATCATTTGCTCTAAATAGTTTGTCATTTTGTAAA
65 TTTTTCGAACATTCCATGCT-CGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * * * * *
2190 CAACTTTTGGTCTTAGAATTAAACACTTATTTACGTGAGGATTG-TTCTCCCTTGGTTTTTGGAT
129 CAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGAC
2254 GAACT
193 GAACT
* * * * * *
2259 TCCGAAATAGGCAAACTTTTACGAGTTCATTTACAACTTCGGTTCCTTAACGTATTCAAGATGAT
1 T-----TTA--C-GA--GTT-C---TTC---TATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * ** * * *
2324 CCACTCCTTCGAGCAATTTTTCGAACATTCCATTTTCGGAAAATAGCATCATTTGGTATAAAAAG
49 CCATTCATTCGAGCAATTTTTCGAACATTCCATGCTCGG-AAATCGCATCATTTGGTCTAAATAG
* * * * * *
2389 TTTGTCATTTTGTAAACAACTTTTTGTGTTTGAATTAAAAGAAGTTTTTTACATGGGAATTGTTT
113 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTTT
2454 CTCTCTTGGTTCTTGGACAAACTTCTGAACTTGTCAAAAT
176 CTCTC-TGGTTCTTGG----A---C-GAA-----C----T
* * *
2494 TTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTTC-TTCAAGCAA
1 TTTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA-TTCATTCGAGCAA
* * * * * * *
2558 TTTTTTGATCATTCCATGCTCGAGAAATCGCAACATTCGATCTAAATTGTTTGACATTTTGTAAA
65 TTTTTCGAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * *
2623 CAAGTTTTGGTCTTTGAGTTAAAAACTTATTTACGTGAGAATTGCTTCTCTCTTGGTTCTTGGAC
129 CAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGAC
2688 GAACT
193 GAACT
* * * *
2693 TTTATGAGTTCTT-TCATAACTTTGGTTCCTTAAAGCATTCAAAACGATCCATTCATTCGAGCAA
1 TTTACGAGTTCTTCT-ATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAA
* * * *
2757 TTTTCCAAACATTCCATGCTCGGGATATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGTAAA
65 TTTTTCGAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * *
2822 CAACTTTTGGTCTTTGAATTAAAATCTTATTTACCTGAGCAA-TGTTTCTCTCCTAGTTCTTGGA
129 CAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG-AATTGTTTCTCT-CTGGTTCTTGGA
2886 CGAACT
192 CGAACT
* * *** *
2892 TTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTTGATAACA-TATTCAAAACGA
1 TT--TAC--G----A--GTT-C---TTC---TATAACTTCGGTTCCTTAA-AGTATTCAAGACGA
** * * * * * *
2956 TCCGCTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGAAAAATCGCGTTATTTGGACTAAATA
48 TCCATTCATTCGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTAAATA
* * * *
3021 GTTTGTAATTTTGTAAA-AAATTTTGTTGC-ATGAATTAAAAACTTATTTACGTGAGAATTGTTT
112 GTTTGTCATTTTGTAAACAACTTTTGGT-CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
*
3084 CTCTCTTAGTTCTTGGACGAACTTTCGAACT
176 CTCTC-TGGTTCTT-G--G-A----CGAACT
* * *
3115 TTTCAAACTA-TTACTAATTCTTTCATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCATTCC
1 TTT---ACGAGTT-C---TTC--T-ATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCA
** * * *
3179 TTTTAGCAAATTTTT-GAACATTCCATTCTCGGAAAATAGCAGCATTTGGTCTAAATAGTTCT-T
56 TTCGAGC-AATTTTTCGAACATTCCATGCTCGG-AAATCGCATCATTTGGTCTAAATAGTT-TGT
* ** * * * *
3242 CTTTTTGGGAACAAGTTTTTGTCTTTGAA-TAAACAACATATTTATGTGAGAATTGTTTCTCT-T
118 CATTTTGTAAACAACTTTTGGTCTTTGAATTAAA-AACTTATTTACGTGAGAATTGTTTCTCTCT
3305 GGTTCTTGGACGAACT
182 GGTTCTTGGACGAACT
* * * * *
3321 TTCGAACTCGTTAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTACATTATTCTAGACGAT
1 TT--TA--CG----A--GTT-C---TTC---TATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * * * ** *
3386 CCATTCCA-T-GAAGCAA-TTTTCTAAACATTACATGCTCAAGAAATGGCATCATTTAATATAAA
49 CCATT-CATTCG-AGCAATTTTTC-GAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTAAA
* * * * *
3448 TAG--TGTCATTTTGTAAAAAAACTTTTGGTCTTTGGATTAAACAC-TATTTACATGAGAATTAT
110 TAGTTTGTCATTTTGT-AAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
3510 TTCTCTCTTGGTTCTTTGATGAATTTTCGAACT
174 TTCTCTC-TGGTTC-TTG--G-A----CGAACT
* * * *** * * *
3543 TGTCAAACTTTCA-TTAGTTCTTTATAACTTTAATTTCTTAGAGTATTCAAGACGATCCATTCCT
1 T-T--TAC---GAGTT-CTTC--TATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCAT
* * * *
3607 TCGAGCAA-TTTTCCAATCATTCCATGCTCGGTATATCGCATCATTTGGTCTAAATTGTTTGACA
57 TCGAGCAATTTTTCGAA-CATTCCATGCTCGG-AAATCGCATCATTTGGTCTAAATAGTTTGTCA
** * * * *
3671 TTTTGTAAACAGGTTTTGTTCTTTGAAATAAAAACTTATTTACGTGAGAATCGTTACTCTCTTGG
120 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TGG
* **
3736 TTCTTGGATGAGGT
184 TTCTTGGACGAACT
* * ** * *
3750 TTTACGAGTTCTT-TCATAA-TTCGGTTCCTTAAAGTAGTAAAGTTGATCCATTCGTCCGAGCAA
1 TTTACGAGTTCTTCT-ATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAA
* * * * *
3813 TTTTTCGAACATTCCGA-GCTCGTGAGATTGCGTCATTTGGTCTAAGTAGTTTTTCATTTTGTAA
65 TTTTTCGAACATTCC-ATGCTCG-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * * * * *
3877 ACAACTTTTGGTCTTTGAGTTACAAACTTATTTATGTGAGAATTATTTGTCTTTTGGTTACGGGA
128 ACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC-TCTGGTT-C---T
*
3942 TGAACTTCCGAACT
188 TGGA----CGAACT
* ** ** * ** *
3956 TGTCAAAC-TTTTACGAGTTCTTTTATAACTTTAGTTCCATAAAGTATTCAAGACGATCCACACC
1 T-T--TACGAGTT-C---TTC---TATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCA
* * * ** *
4020 TTCTAGCATTTTTTCGAACAGTT-CGTGCTCAGGAAATCGTGTCATTTGGTCTAAATAGTTTGTA
56 TTCGAGCAATTTTTCGAACA-TTCCATGCTC-GGAAATCGCATCATTTGGTCTAAATAGTTTGTC
* * * *
4084 ATTTTGTAAA-ATAGTTTTGTTATTTGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCT
119 ATTTTGTAAACA-ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
4145 ATTTTTGTTC
Statistics
Matches: 2114, Mismatches: 384, Indels: 438
0.72 0.13 0.15
Matches are distributed among these distances:
197 8 0.00
198 143 0.07
199 319 0.15
200 5 0.00
201 6 0.00
202 7 0.00
203 4 0.00
204 5 0.00
205 3 0.00
206 17 0.01
207 9 0.00
208 8 0.00
209 9 0.00
210 3 0.00
211 11 0.01
212 86 0.04
213 219 0.10
214 353 0.17
215 375 0.18
216 310 0.15
217 28 0.01
218 129 0.06
219 5 0.00
220 4 0.00
221 6 0.00
222 9 0.00
223 13 0.01
224 5 0.00
225 2 0.00
226 4 0.00
227 1 0.00
228 1 0.00
229 2 0.00
230 2 0.00
231 1 0.00
235 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (197 bp):
TTTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTCGAGCAAT
TTTTCGAACATTCCATGCTCGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTGGTTCTTGGACGAA
CT
Found at i:3145 original size:215 final size:215
Alignment explanation
Indices: 2689--4252 Score: 1342
Period size: 216 Copynumber: 7.3 Consensus size: 215
2679 TTCTTGGACG
* * * * *
2689 AACTTTTATGAGTTCTTTCATAACTTTGGTTCCTTAAAGCATTCAAAACGATCCATTCATTCGAG
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAAACGATCCATTCCTTTGAG
* * ** * * *
2754 CAATTTTCCAAACATTCCATGCTCGGGATATCGCATCATTTGGTCTAAATAGTTTTTCATTTTGT
66 CAATTTTTCGAACATTCCATGCTCGAAAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTTTGT
* * * * * *
2819 AAACAACTTTTGGTCTTTGAATTAAAATCTTATTTACCTGAGCAA-TGTTTCTCTCCTAGTTCTT
131 AAA-AAATTTTGTTCTTTGAATTAAAAACTTATTTACGTGAG-AATTGTTTCTCTCTTGGTTCTT
2883 GGACGAACTTTCGAACTTGTCA
194 GGACGAACTTTCGAACTTGTCA
* *** **
2905 AACTTTTACGAGTTCTTTTATAACTTCGGTTTGATAACA-TATTCAAAACGATCCGCTCCTTTGA
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAA-AGTATTCAAAACGATCCATTCCTTTGA
* * *
2969 GCAATTTTTCGAACATTCCATGCTCGAAAAATCGCGTTATTTGGACTAAATAGTTTGTAATTTTG
65 GCAATTTTTCGAACATTCCATGCTCGAAAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTTTG
* *
3034 TAAAAAATTTTGTTGC-ATGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTAGTTCTT
130 TAAAAAATTTTGTT-CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT
*
3098 GGACGAACTTTCGAACTTTTCA
194 GGACGAACTTTCGAACTTGTCA
* * * *
3120 AACTATTACTAATTCTTTCATAACTTCGGTTCCTTAAAGTATT-AAAGACGATCCATTCCTTTTA
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAA-ACGATCCATTCCTTTGA
* * * *
3184 GCAAATTTTT-GAACATTCCATTCTCGGAAAATAGCAG-CATTTGGTCTAAATAGTTCT-TCTTT
65 GC-AATTTTTCGAACATTCCATGCTCGAAAAATCGC-GTCATTTGGTCTAAATAGTT-TGTCATT
* * * * *
3246 TTGGGAACAAGTTTT-TGTCTTTGAA-TAAACAACATATTTATGTGAGAATTG-TT-TCTCTTGG
127 TT-GTAAAAAATTTTGT-TCTTTGAATTAAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* *
3307 TTCTTGGACGAACTTTCGAACTCGTTA
189 TTCTTGGACGAACTTTCGAACTTGTCA
* * * * * *
3334 AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTACATTATTCTAGACGATCCATTCC-ATGAA
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAAACGATCCATTCCTTTG-A
* * * * ** *
3398 GCAA-TTTTCTAAACATTACATGCTC-AAGAAATGGCATCATTTAATATAAATAG--TGTCATTT
65 GCAATTTTTC-GAACATTCCATGCTCGAA-AAATCGCGTCATTTGGTCTAAATAGTTTGTCATTT
* * * * *
3459 TGTAAAAAAACTTTTGGTCTTTGGATTAAACAC-TATTTACATGAGAATTATTTCTCTCTTGGTT
128 TGT-AAAAAA-TTTTGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
* * *
3523 CTTTGATGAATTTTCGAACTTGTCA
191 CTTGGACGAACTTTCGAACTTGTCA
* ** *** * * * *
3548 AACTTTCATTAGTTCTTT-ATAACTTTAATTTCTTAGAGTATTCAAGACGATCCATTCCTTCGAG
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAAACGATCCATTCCTTTGAG
* ** * * * *
3612 CAA-TTTTCCAATCATTCCATGCTCGGTATATCGCATCATTTGGTCTAAATTGTTTGACATTTTG
66 CAATTTTTCGAA-CATTCCATGCTCGAAAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTTTG
** * * *
3676 TAAACAGGTTTTGTTCTTTGAAATAAAAACTTATTTACGTGAGAATCGTTACTCTCTTGGTTCTT
130 TAAA-AAATTTTGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT
3741 -G--G-A---T-G-A---G---
194 GGACGAACTTTCGAACTTGTCA
* * ** * **
3748 --GTTTTACGAGTTCTTTCATAA-TTCGGTTCCTTAAAGTAGT-AAAGTTGATCCATTCGTCCGA
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAA-ACGATCCATTCCTTTGA
** * * * *
3809 GCAATTTTTCGAACATTCCGA-GCTCGTGAGATTGCGTCATTTGGTCTAAGTAGTTTTTCATTTT
65 GCAATTTTTCGAACATTCC-ATGCTCGAAAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTTT
* * * * * * * *
3873 GTAAACAACTTTTGGTCTTTGAGTTACAAACTTATTTATGTGAGAATTATTTGTCTTTTGGTTAC
129 GTAAA-AAATTTTGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT-C
* * *
3938 -GGGATGAACTTCCGAACTTGTCA
192 TTGGACGAACTTTCGAACTTGTCA
* ** * * **
3961 AACTTTTACGAGTTCTTTTATAACTTTAGTTCCATAAAGTATTCAAGACGATCCACACCTTCT-A
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAAACGATCCATTCCTT-TGA
* * * * *
4025 GCATTTTTTCGAACAGTT-CGTGCTC-AGGAAATCGTGTCATTTGGTCTAAATAGTTTGTAATTT
65 GCAATTTTTCGAACA-TTCCATGCTCGA-AAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTT
* * * * *
4088 TGTAAAATAGTTTTGTTATTTGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCTATTTTTGT
128 TGTAAAA-AATTTTGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC--TCTTGGT
*
4153 TCTTGGCCGAACTTTCGAACTTGTCA
190 TCTTGGACGAACTTTCGAACTTGTCA
* * * * * *
4179 AACTTTTACGAGTTCTTTCACAAGTTTGGTTCCTTAAAGTATTCAAAACTACCCATTCCTTCGAG
1 AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAAACGATCCATTCCTTTGAG
4244 CAACTTTTT
66 CAA-TTTTT
4253 TCGGGAAATA
Statistics
Matches: 1072, Mismatches: 210, Indels: 129
0.76 0.15 0.09
Matches are distributed among these distances:
197 2 0.00
198 133 0.12
199 14 0.01
201 1 0.00
202 1 0.00
203 1 0.00
206 2 0.00
207 2 0.00
208 1 0.00
210 1 0.00
211 3 0.00
212 31 0.03
213 92 0.09
214 192 0.18
215 233 0.22
216 271 0.25
217 6 0.01
218 81 0.08
219 5 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (215 bp):
AACTTTTACGAGTTCTTTCATAACTTCGGTTCCTTAAAGTATTCAAAACGATCCATTCCTTTGAG
CAATTTTTCGAACATTCCATGCTCGAAAAATCGCGTCATTTGGTCTAAATAGTTTGTCATTTTGT
AAAAAATTTTGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
ACGAACTTTCGAACTTGTCA
Found at i:4087 original size:21 final size:21
Alignment explanation
Indices: 4063--4109 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4053 AAATCGTGTC
*
4063 ATTTGGTCTAAATAG-TTTGTA
1 ATTTGGT-AAAATAGTTTTGTA
* *
4084 ATTTTGTAAAATAGTTTTGTT
1 ATTTGGTAAAATAGTTTTGTA
4105 ATTTG
1 ATTTG
4110 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (21 bp):
ATTTGGTAAAATAGTTTTGTA
Done.